Query 004068
Match_columns 775
No_of_seqs 456 out of 3261
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 16:59:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004068.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004068hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1421 Predicted signaling-as 100.0 2E-117 5E-122 973.9 50.2 594 19-767 358-953 (955)
2 PRK10139 serine endoprotease; 100.0 8.8E-52 1.9E-56 468.0 49.1 389 286-741 44-454 (455)
3 TIGR02037 degP_htrA_DO peripla 100.0 1.7E-51 3.6E-56 465.2 47.3 396 287-740 6-427 (428)
4 KOG1421 Predicted signaling-as 100.0 8.3E-52 1.8E-56 456.3 37.8 445 286-773 56-504 (955)
5 PRK10942 serine endoprotease; 100.0 1.5E-50 3.3E-55 460.0 47.5 360 315-741 110-472 (473)
6 TIGR02038 protease_degS peripl 100.0 1.9E-40 4.2E-45 365.2 37.6 300 285-640 48-349 (351)
7 PRK10898 serine endoprotease; 100.0 2.6E-39 5.6E-44 356.1 37.4 302 285-641 48-351 (353)
8 COG0265 DegQ Trypsin-like seri 100.0 1.7E-29 3.6E-34 278.6 30.9 297 285-639 36-340 (347)
9 PF12812 PDZ_1: PDZ-like domai 100.0 5.1E-31 1.1E-35 227.0 8.2 77 35-111 1-78 (78)
10 KOG1320 Serine protease [Postt 99.8 6.9E-19 1.5E-23 195.7 22.8 316 287-638 133-467 (473)
11 KOG1320 Serine protease [Postt 99.8 5.6E-18 1.2E-22 188.4 16.9 369 313-744 84-467 (473)
12 PRK10779 zinc metallopeptidase 99.8 2.7E-17 6E-22 187.4 19.5 156 570-744 130-289 (449)
13 TIGR00054 RIP metalloprotease 99.6 4.4E-15 9.5E-20 167.9 18.3 142 568-745 130-272 (420)
14 PF13180 PDZ_2: PDZ domain; PD 99.3 5.1E-11 1.1E-15 104.0 11.5 69 674-743 14-82 (82)
15 PF12812 PDZ_1: PDZ-like domai 99.2 1.4E-10 3E-15 100.3 9.0 76 643-722 2-78 (78)
16 PF13365 Trypsin_2: Trypsin-li 99.1 4E-10 8.8E-15 103.9 11.2 55 318-376 1-65 (120)
17 PF13180 PDZ_2: PDZ domain; PD 99.1 7.9E-10 1.7E-14 96.5 10.8 68 566-637 14-82 (82)
18 cd00987 PDZ_serine_protease PD 99.1 1.2E-09 2.6E-14 96.3 11.9 88 651-740 2-89 (90)
19 cd00991 PDZ_archaeal_metallopr 99.0 3.6E-09 7.8E-14 91.8 11.0 68 674-742 10-77 (79)
20 cd00986 PDZ_LON_protease PDZ d 98.9 1.6E-08 3.5E-13 87.5 10.9 69 674-744 8-76 (79)
21 cd00989 PDZ_metalloprotease PD 98.9 2.2E-08 4.7E-13 86.2 11.4 66 675-742 13-78 (79)
22 cd00987 PDZ_serine_protease PD 98.8 3.7E-08 8E-13 86.8 11.6 87 531-634 2-89 (90)
23 PRK10139 serine endoprotease; 98.8 2.8E-08 6.1E-13 113.6 13.4 95 649-745 266-360 (455)
24 cd00986 PDZ_LON_protease PDZ d 98.8 3E-08 6.6E-13 85.8 10.4 71 566-640 8-78 (79)
25 TIGR02038 protease_degS peripl 98.8 3.9E-08 8.4E-13 109.1 12.9 94 650-745 255-348 (351)
26 cd00991 PDZ_archaeal_metallopr 98.8 5.8E-08 1.2E-12 84.3 10.3 68 565-636 9-77 (79)
27 PRK10942 serine endoprotease; 98.7 6.6E-08 1.4E-12 111.2 13.3 94 650-745 288-381 (473)
28 PRK10898 serine endoprotease; 98.7 7.5E-08 1.6E-12 106.8 13.1 94 650-745 256-349 (353)
29 cd00988 PDZ_CTP_protease PDZ d 98.7 7.4E-08 1.6E-12 84.1 9.8 69 674-744 13-84 (85)
30 TIGR02037 degP_htrA_DO peripla 98.7 7.5E-08 1.6E-12 109.7 12.6 94 649-744 233-326 (428)
31 cd00990 PDZ_glycyl_aminopeptid 98.7 1.1E-07 2.3E-12 82.2 10.3 66 675-744 13-78 (80)
32 KOG3580 Tight junction protein 98.7 8.2E-08 1.8E-12 107.1 10.3 56 674-729 429-486 (1027)
33 TIGR01713 typeII_sec_gspC gene 98.5 3.8E-07 8.1E-12 96.8 10.6 68 674-742 191-258 (259)
34 KOG3209 WW domain-containing p 98.5 3.6E-07 7.8E-12 104.1 10.7 148 566-730 674-835 (984)
35 cd00989 PDZ_metalloprotease PD 98.5 8.1E-07 1.8E-11 76.4 9.6 63 569-636 15-78 (79)
36 cd00136 PDZ PDZ domain, also c 98.5 5.9E-07 1.3E-11 75.4 8.1 54 675-729 14-69 (70)
37 TIGR01713 typeII_sec_gspC gene 98.5 1.5E-06 3.2E-11 92.3 12.7 100 499-637 159-259 (259)
38 KOG3209 WW domain-containing p 98.4 6.9E-07 1.5E-11 101.9 10.1 152 570-728 782-977 (984)
39 PRK10779 zinc metallopeptidase 98.3 1.1E-06 2.3E-11 100.9 8.8 72 676-748 128-199 (449)
40 cd00990 PDZ_glycyl_aminopeptid 98.3 2.8E-06 6.1E-11 73.3 8.9 65 567-638 13-78 (80)
41 cd00988 PDZ_CTP_protease PDZ d 98.3 3.4E-06 7.3E-11 73.6 9.3 66 566-636 13-82 (85)
42 PLN00049 carboxyl-terminal pro 98.2 9.3E-06 2E-10 91.5 11.5 76 675-752 103-180 (389)
43 TIGR03279 cyano_FeS_chp putati 98.2 4.3E-06 9.4E-11 93.6 8.2 73 678-756 2-74 (433)
44 PF00595 PDZ: PDZ domain (Also 98.1 6.2E-06 1.3E-10 71.6 7.3 53 674-728 25-79 (81)
45 smart00228 PDZ Domain present 98.1 8.4E-06 1.8E-10 70.5 8.1 59 674-733 26-84 (85)
46 cd00992 PDZ_signaling PDZ doma 98.1 9.3E-06 2E-10 70.1 8.3 53 674-728 26-80 (82)
47 TIGR00225 prc C-terminal pepti 98.1 1.2E-05 2.5E-10 88.9 10.7 79 675-755 63-145 (334)
48 TIGR02860 spore_IV_B stage IV 98.1 2.4E-05 5.2E-10 87.2 12.4 69 674-744 105-181 (402)
49 PF04495 GRASP55_65: GRASP55/6 98.1 4E-05 8.7E-10 73.7 11.4 73 674-747 43-117 (138)
50 TIGR00054 RIP metalloprotease 98.0 1.7E-05 3.7E-10 90.2 9.9 68 567-639 204-272 (420)
51 cd00136 PDZ PDZ domain, also c 98.0 2.3E-05 5.1E-10 65.6 7.3 53 567-624 14-69 (70)
52 COG0265 DegQ Trypsin-like seri 97.9 5E-05 1.1E-09 84.2 11.4 75 673-749 269-343 (347)
53 PF00089 Trypsin: Trypsin; In 97.9 0.00052 1.1E-08 69.4 17.4 168 315-505 24-220 (220)
54 TIGR03279 cyano_FeS_chp putati 97.8 4.1E-05 8.9E-10 85.9 8.6 62 570-639 2-65 (433)
55 COG0793 Prc Periplasmic protea 97.8 5.3E-05 1.1E-09 85.6 9.4 78 675-754 113-194 (406)
56 smart00228 PDZ Domain present 97.8 0.0001 2.2E-09 63.7 7.9 59 566-628 26-85 (85)
57 TIGR02860 spore_IV_B stage IV 97.7 0.00025 5.4E-09 79.2 11.9 58 576-638 123-181 (402)
58 KOG3580 Tight junction protein 97.7 0.00028 6.1E-09 79.6 11.6 66 675-743 220-288 (1027)
59 PF00595 PDZ: PDZ domain (Also 97.6 0.00016 3.5E-09 62.7 7.1 56 566-625 25-81 (81)
60 TIGR00225 prc C-terminal pepti 97.6 0.00015 3.2E-09 80.2 8.4 68 567-639 63-133 (334)
61 PLN00049 carboxyl-terminal pro 97.6 0.00028 6E-09 79.7 9.8 65 567-636 103-170 (389)
62 KOG3553 Tax interaction protei 97.6 0.00022 4.8E-09 63.3 6.9 60 674-735 59-118 (124)
63 KOG3834 Golgi reassembly stack 97.5 0.0013 2.8E-08 72.6 14.0 163 565-747 14-183 (462)
64 cd00992 PDZ_signaling PDZ doma 97.5 0.00032 6.9E-09 60.4 7.4 43 566-608 26-71 (82)
65 PRK11186 carboxy-terminal prot 97.5 0.00037 8E-09 83.0 9.4 70 675-746 256-336 (667)
66 KOG3605 Beta amyloid precursor 97.4 0.00029 6.2E-09 80.6 7.5 120 570-718 677-802 (829)
67 PRK09681 putative type II secr 97.4 0.00059 1.3E-08 72.6 9.1 62 680-742 210-274 (276)
68 cd00190 Tryp_SPc Trypsin-like 97.4 0.0019 4.2E-08 65.7 12.7 92 314-413 23-132 (232)
69 KOG3129 26S proteasome regulat 97.2 0.0011 2.5E-08 66.6 7.5 69 675-745 140-211 (231)
70 PF14685 Tricorn_PDZ: Tricorn 97.2 0.0027 5.7E-08 56.4 9.0 64 566-634 12-87 (88)
71 PRK09681 putative type II secr 97.1 0.0012 2.7E-08 70.3 7.9 62 572-637 210-275 (276)
72 COG3480 SdrC Predicted secrete 97.1 0.0015 3.3E-08 69.8 8.2 69 674-743 130-198 (342)
73 KOG3129 26S proteasome regulat 97.1 0.0018 4E-08 65.2 8.3 83 565-655 138-221 (231)
74 smart00020 Tryp_SPc Trypsin-li 97.0 0.012 2.6E-07 60.1 14.3 93 314-414 24-133 (229)
75 PF14685 Tricorn_PDZ: Tricorn 96.8 0.0066 1.4E-07 53.9 8.4 66 675-741 13-88 (88)
76 PF00863 Peptidase_C4: Peptida 96.8 0.03 6.5E-07 58.5 14.2 174 291-507 16-195 (235)
77 COG3480 SdrC Predicted secrete 96.7 0.0053 1.2E-07 65.7 8.3 71 566-640 130-201 (342)
78 COG0793 Prc Periplasmic protea 96.7 0.0048 1E-07 69.9 8.2 67 566-635 112-181 (406)
79 COG3031 PulC Type II secretory 96.6 0.0039 8.4E-08 64.1 6.4 66 567-636 208-274 (275)
80 COG3975 Predicted protease wit 96.1 0.0093 2E-07 67.8 6.5 70 674-754 462-531 (558)
81 PF04495 GRASP55_65: GRASP55/6 95.9 0.024 5.3E-07 54.7 7.5 69 565-638 42-114 (138)
82 PRK11186 carboxy-terminal prot 95.6 0.032 6.8E-07 66.9 8.3 65 567-636 256-332 (667)
83 COG3975 Predicted protease wit 95.1 0.052 1.1E-06 62.0 7.3 89 529-640 436-525 (558)
84 COG3591 V8-like Glu-specific e 94.9 0.54 1.2E-05 49.7 13.9 145 316-478 64-225 (251)
85 KOG3542 cAMP-regulated guanine 94.5 0.035 7.5E-07 64.2 4.2 55 673-728 561-615 (1283)
86 KOG3532 Predicted protein kina 94.4 0.083 1.8E-06 61.4 6.9 47 565-611 397-444 (1051)
87 COG3031 PulC Type II secretory 94.4 0.1 2.2E-06 54.0 6.8 59 683-742 216-274 (275)
88 KOG3553 Tax interaction protei 93.5 0.076 1.7E-06 47.6 3.4 35 566-600 59-94 (124)
89 KOG3550 Receptor targeting pro 93.4 0.19 4.1E-06 48.3 6.2 52 675-728 116-170 (207)
90 KOG3571 Dishevelled 3 and rela 93.2 0.29 6.4E-06 55.4 8.3 72 649-728 260-335 (626)
91 KOG3532 Predicted protein kina 92.8 0.22 4.8E-06 58.0 6.7 55 673-728 397-451 (1051)
92 KOG3552 FERM domain protein FR 92.6 0.15 3.3E-06 61.2 5.1 55 674-731 75-131 (1298)
93 PF10459 Peptidase_S46: Peptid 92.4 0.31 6.8E-06 58.8 7.8 43 368-414 200-253 (698)
94 KOG3552 FERM domain protein FR 92.0 0.18 3.8E-06 60.7 4.8 54 568-627 77-132 (1298)
95 KOG3606 Cell polarity protein 91.3 0.35 7.5E-06 50.8 5.5 54 675-728 195-251 (358)
96 KOG3550 Receptor targeting pro 90.9 0.43 9.3E-06 46.0 5.3 56 566-625 115-172 (207)
97 COG0750 Predicted membrane-ass 90.8 0.96 2.1E-05 50.6 9.1 58 677-736 132-193 (375)
98 KOG1892 Actin filament-binding 90.8 0.22 4.7E-06 59.9 4.0 77 545-629 943-1021(1629)
99 PF00548 Peptidase_C3: 3C cyst 89.9 6 0.00013 39.6 12.9 154 287-476 7-170 (172)
100 KOG0609 Calcium/calmodulin-dep 89.0 0.72 1.6E-05 53.1 6.1 74 675-750 147-226 (542)
101 PF11874 DUF3394: Domain of un 88.7 1.8 3.9E-05 43.7 8.0 82 601-701 63-149 (183)
102 KOG0606 Microtubule-associated 88.4 0.6 1.3E-05 57.8 5.3 51 677-729 661-713 (1205)
103 KOG3605 Beta amyloid precursor 86.3 1.4 3E-05 51.6 6.4 73 675-747 674-749 (829)
104 COG0750 Predicted membrane-ass 85.6 2.9 6.3E-05 46.7 8.6 58 570-632 133-195 (375)
105 PF08192 Peptidase_S64: Peptid 84.8 7.3 0.00016 46.3 11.3 124 365-508 540-688 (695)
106 KOG3834 Golgi reassembly stack 84.2 2.6 5.6E-05 47.4 7.0 92 675-768 16-117 (462)
107 KOG3551 Syntrophins (type beta 83.2 1 2.2E-05 49.8 3.3 52 675-728 111-165 (506)
108 KOG2921 Intramembrane metallop 82.3 1.8 3.8E-05 48.1 4.7 47 672-718 218-265 (484)
109 KOG3651 Protein kinase C, alph 80.3 3.5 7.5E-05 44.2 5.9 53 567-625 31-87 (429)
110 KOG3542 cAMP-regulated guanine 80.1 2 4.3E-05 50.4 4.4 56 566-626 562-618 (1283)
111 KOG3549 Syntrophins (type gamm 79.0 1.6 3.5E-05 47.5 3.0 69 675-745 81-152 (505)
112 KOG3606 Cell polarity protein 77.9 4.7 0.0001 42.7 6.0 55 566-626 194-252 (358)
113 KOG3651 Protein kinase C, alph 77.7 2.2 4.7E-05 45.7 3.5 52 675-728 31-85 (429)
114 PF10459 Peptidase_S46: Peptid 75.4 3.3 7.2E-05 50.2 4.7 67 444-510 621-688 (698)
115 KOG1892 Actin filament-binding 72.4 5.1 0.00011 49.0 5.0 54 674-729 960-1016(1629)
116 KOG2921 Intramembrane metallop 70.2 4.8 0.0001 44.8 4.0 45 565-609 219-265 (484)
117 KOG3571 Dishevelled 3 and rela 69.0 5.4 0.00012 45.7 4.1 58 539-601 255-314 (626)
118 KOG0609 Calcium/calmodulin-dep 68.7 6.4 0.00014 45.6 4.7 53 568-626 148-204 (542)
119 KOG3551 Syntrophins (type beta 65.6 4.1 8.8E-05 45.2 2.3 56 568-627 112-171 (506)
120 KOG3938 RGS-GAIP interacting p 63.4 19 0.00041 38.3 6.5 56 676-731 151-209 (334)
121 COG5233 GRH1 Peripheral Golgi 62.6 1E+02 0.0022 33.8 11.9 67 682-749 195-265 (417)
122 PF00949 Peptidase_S7: Peptida 55.4 12 0.00025 36.0 3.2 27 449-475 89-116 (132)
123 KOG0606 Microtubule-associated 54.4 16 0.00035 45.9 4.9 33 569-601 661-694 (1205)
124 KOG3549 Syntrophins (type gamm 53.1 19 0.00042 39.5 4.7 52 568-625 82-137 (505)
125 COG0298 HypC Hydrogenase matur 39.8 58 0.0013 28.5 4.7 48 356-411 4-52 (82)
126 cd01735 LSm12_N LSm12 belongs 36.4 89 0.0019 26.0 5.1 32 345-377 8-39 (61)
127 PF05579 Peptidase_S32: Equine 34.8 74 0.0016 34.2 5.5 53 316-376 112-164 (297)
128 PF03761 DUF316: Domain of unk 33.5 3.8E+02 0.0083 28.4 11.1 90 366-475 159-253 (282)
129 KOG1738 Membrane-associated gu 32.4 46 0.001 39.5 3.9 43 676-719 227-270 (638)
130 PF02122 Peptidase_S39: Peptid 31.4 23 0.00049 36.6 1.1 133 318-476 30-166 (203)
131 cd00600 Sm_like The eukaryotic 31.2 1E+02 0.0022 24.9 4.8 31 344-375 7-37 (63)
132 cd01732 LSm5 The eukaryotic Sm 28.1 1.1E+02 0.0024 26.5 4.6 30 344-374 14-43 (76)
133 KOG1738 Membrane-associated gu 28.0 60 0.0013 38.6 3.9 42 569-611 228-271 (638)
134 PF15057 DUF4537: Domain of un 27.5 4.4E+02 0.0096 24.9 9.0 72 351-425 9-80 (124)
135 cd01726 LSm6 The eukaryotic Sm 27.5 1.1E+02 0.0023 25.6 4.4 31 344-375 11-41 (67)
136 cd01717 Sm_B The eukaryotic Sm 26.5 1.1E+02 0.0024 26.4 4.5 30 344-374 11-40 (79)
137 cd08537 SAM_PNT-ESE-1-like Ste 26.3 19 0.00041 31.3 -0.4 34 31-65 31-64 (78)
138 PRK14440 acylphosphatase; Prov 26.1 66 0.0014 28.7 3.0 59 44-115 13-71 (90)
139 PF00944 Peptidase_S3: Alphavi 25.8 86 0.0019 30.2 3.8 25 455-479 104-129 (158)
140 cd06168 LSm9 The eukaryotic Sm 25.6 1.4E+02 0.0029 25.8 4.7 31 344-375 11-41 (75)
141 cd01730 LSm3 The eukaryotic Sm 25.5 1.1E+02 0.0023 26.8 4.2 29 344-373 12-40 (82)
142 cd01719 Sm_G The eukaryotic Sm 25.3 1.4E+02 0.0031 25.4 4.8 57 344-409 11-67 (72)
143 cd01722 Sm_F The eukaryotic Sm 24.6 1.3E+02 0.0028 25.2 4.3 31 344-375 12-42 (68)
144 cd01729 LSm7 The eukaryotic Sm 24.2 1.4E+02 0.0031 26.0 4.7 30 344-374 13-42 (81)
145 PRK00737 small nuclear ribonuc 23.7 1.5E+02 0.0032 25.2 4.6 31 344-375 15-45 (72)
146 cd01728 LSm1 The eukaryotic Sm 23.6 1.6E+02 0.0035 25.3 4.8 61 344-410 13-73 (74)
147 cd01731 archaeal_Sm1 The archa 23.5 1.5E+02 0.0033 24.7 4.6 31 344-375 11-41 (68)
148 PF09342 DUF1986: Domain of un 22.9 9.6E+02 0.021 25.7 11.2 90 314-412 26-131 (267)
149 PF01455 HupF_HypC: HupF/HypC 22.5 1.9E+02 0.0042 24.4 5.0 44 356-408 4-47 (68)
150 KOG4371 Membrane-associated pr 21.5 1.3E+02 0.0029 37.9 5.2 117 583-709 1187-1306(1332)
151 KOG3938 RGS-GAIP interacting p 21.4 81 0.0017 33.7 3.0 53 569-625 152-208 (334)
152 PF01423 LSM: LSM domain ; In 21.2 1.9E+02 0.0041 23.7 4.7 32 344-376 9-40 (67)
153 cd01720 Sm_D2 The eukaryotic S 20.8 1.7E+02 0.0036 26.1 4.4 31 344-375 15-45 (87)
No 1
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=100.00 E-value=2.2e-117 Score=973.87 Aligned_cols=594 Identities=34% Similarity=0.536 Sum_probs=541.6
Q ss_pred ecCCeeEEEEEeccccccCCceeEEecCeeeecCCHHHHhhcccccCeEEEeCCCcccccCCCCcceEEEccCCccCCCH
Q 004068 19 AEPNTSSLVFQVQDLHSITPDYFLEVSGAVIHPLSYQQARNFRFPCGLVYVAEPGYMLFRAGVPRHAIIKKFAGEEISRL 98 (775)
Q Consensus 19 ~~~~~~~~~~~v~dlh~itp~~f~~v~g~~~h~lsyq~ar~~~~~~~gv~v~~~g~~~~~~~~~~~~ii~~~~~~~~~~l 98 (775)
..|.+++++|+|||||+|||+||||||||+|||||||+||+|++||+||||++||++|...+-.++|||++|||||||||
T Consensus 358 Rggqelel~vtvqdlh~itp~R~levcGav~hdlsyq~ar~y~lP~~GvyVa~~~gsf~~~~~~y~~ii~~vanK~tPdL 437 (955)
T KOG1421|consen 358 RGGQELELTVTVQDLHGITPDRFLEVCGAVFHDLSYQLARLYALPVEGVYVASPGGSFRHRGPRYGQIIDSVANKPTPDL 437 (955)
T ss_pred eCCEEEEEEEEeccccCCCCceEEEEcceEecCCCHHHHhhcccccCcEEEccCCCCccccCCcceEEEEeecCCcCCCH
Confidence 56789999999999999999999999999999999999999999999999999995554444434999999999999999
Q ss_pred HHHHHHHhcCCCCceeeEEEeeeccccccceEEEEEccCCCCCCCeeEEecCCCCCCccCCCCcccCCCCCCCCCCCCcc
Q 004068 99 EDLISVLSKLSRGARVPIEYSSYTDRHRRKSVLVTIDRHEWYAPPQIYTRNDSSGLWSANPAILSEVLMPSSGINGGVQG 178 (775)
Q Consensus 99 ~~fi~v~~~~~~~~rv~~~y~~~~d~h~~~~~~~~idr~~w~~~~~~~~rnd~tg~w~~~~~~~p~~~~~~~~~~~~~~~ 178 (775)
|+||+|||+||||+||+++|+|++|+|++++.+|+||| |||.+|++|+|||+|||||++++.+|.|+
T Consensus 438 daFidvlk~L~dg~rV~vry~hl~dkh~p~v~~v~iDr-Hwy~p~~~~trndetglWdrk~L~~pqPa------------ 504 (955)
T KOG1421|consen 438 DAFIDVLKELPDGARVPVRYHHLTDKHSPRVTTVTIDR-HWYWPFREYTRNDETGLWDRKNLKDPQPA------------ 504 (955)
T ss_pred HHHHHHHHhccCCCeeeEEEEEecCCCCceEEEEEEec-cccccceeeeeCCCcccccccccCCCCcc------------
Confidence 99999999999999999999999999999999999999 99999999999999999999999999986
Q ss_pred ccccccccccccceeccccccCccccccccccchhhcccccccccccCCccccccccceeecccccCccccCCCCCCCCc
Q 004068 179 VASQTVSICGELVHMEHMHQRNNQELTDGVTSMETACEHASAESISRGESDNGRKKRRVEENISADGVVADCSPHESGDA 258 (775)
Q Consensus 179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 258 (775)
.+.+|.+.+..+
T Consensus 505 --~~~kP~s~~ip~------------------------------------------------------------------ 516 (955)
T KOG1421|consen 505 --ISIKPASVSIPS------------------------------------------------------------------ 516 (955)
T ss_pred --cccCCccccCCC------------------------------------------------------------------
Confidence 456666554220
Q ss_pred cccccccccccCCCCcCCCCccCCChhhhhhhhcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecce
Q 004068 259 RLEDSSTMENAGSRDYFGAPAATTNASFAESVIEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNT 338 (775)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~ 338 (775)
+ .+.++..+++..|+|.|.+.+| ..+||..+....|||+|++ .++||++++|.+
T Consensus 517 -i---------------------~~~~~~~~~i~~~~~~v~~~~~--~~l~g~s~~i~kgt~~i~d--~~~g~~vvsr~~ 570 (955)
T KOG1421|consen 517 -I---------------------GVNNFPSADISNCLVDVEPMMP--VNLDGVSSDIYKGTALIMD--TSKGLGVVSRSV 570 (955)
T ss_pred -c---------------------CcCCcchhHHhhhhhhheecee--eccccchhhhhcCceEEEE--ccCCceeEeccc
Confidence 1 1113345678899999999999 5999999888999999999 579999999999
Q ss_pred eccCCceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCee
Q 004068 339 VAISASDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATS 418 (775)
Q Consensus 339 V~~~~~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~ 418 (775)
|+.+++|++|++++ +..++|.+.|+||.+|+|++||||++.- .++|.+.. +++||++.+.|+..+.+..+
T Consensus 571 vp~d~~d~~vt~~d-S~~i~a~~~fL~~t~n~a~~kydp~~~~--------~~kl~~~~-v~~gD~~~f~g~~~~~r~lt 640 (955)
T KOG1421|consen 571 VPSDAKDQRVTEAD-SDGIPANVSFLHPTENVASFKYDPALEV--------QLKLTDTT-VLRGDECTFEGFTEDLRALT 640 (955)
T ss_pred CCchhhceEEeecc-cccccceeeEecCccceeEeccChhHhh--------hhccceee-EecCCceeEecccccchhhc
Confidence 99999999999998 9999999999999999999999998653 27887776 99999999999999999999
Q ss_pred EEEEEeCCccccccCCCCcccccccceEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccc
Q 004068 419 RKSIVTNPCAALNISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIP 497 (775)
Q Consensus 419 ~~g~VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIP 497 (775)
+++.|+++. .+.++++..||||++|+++|.++++++.+| +|.|.|.||+|+|+|..+.++. .++++..|.+|+.
T Consensus 641 aktsv~dvs-~~~~ps~~~pr~r~~n~e~Is~~~nlsT~c~sg~ltdddg~vvalwl~~~ge~----~~~kd~~y~~gl~ 715 (955)
T KOG1421|consen 641 AKTSVTDVS-VVIIPSSVMPRFRATNLEVISFMDNLSTSCLSGRLTDDDGEVVALWLSVVGED----VGGKDYTYKYGLS 715 (955)
T ss_pred ccceeeeeE-EEEecCCCCcceeecceEEEEEeccccccccceEEECCCCeEEEEEeeeeccc----cCCceeEEEeccc
Confidence 999999875 566778889999999999999999999999 9999999999999999999884 4468888999999
Q ss_pred cchhhhHHHHHHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCC
Q 004068 498 IYTISRVLDKIISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGS 577 (775)
Q Consensus 498 i~~i~~vl~~l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gS 577 (775)
+.+++++|++|+.|.+ +..+++|++|..++..+||.+|+|.||+-+.+.....++|+++|..|.+..
T Consensus 716 ~~~~l~vl~rlk~g~~-------------~rp~i~~vef~~i~laqar~lglp~e~imk~e~es~~~~ql~~ishv~~~~ 782 (955)
T KOG1421|consen 716 MSYILPVLERLKLGPS-------------ARPTIAGVEFSHITLAQARTLGLPSEFIMKSEEESTIPRQLYVISHVRPLL 782 (955)
T ss_pred hHHHHHHHHHHhcCCC-------------CCceeeccceeeEEeehhhccCCCHHHHhhhhhcCCCcceEEEEEeeccCc
Confidence 9999999999999943 334699999999999999999999999999999999999999999998865
Q ss_pred hHhhhccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCcceeeeeeeeeec
Q 004068 578 KAENMLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTTRVINWCGCIVQ 657 (775)
Q Consensus 578 pA~~aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~r~v~~~G~~lq 657 (775)
+- -|..||+||++|||.|+.++||.. + ..++++|+|+|.++++++++-... +++|++.|.|+++|
T Consensus 783 ~k--il~~gdiilsvngk~itr~~dl~d-~----------~eid~~ilrdg~~~~ikipt~p~~--et~r~vi~~gailq 847 (955)
T KOG1421|consen 783 HK--ILGVGDIILSVNGKMITRLSDLHD-F----------EEIDAVILRDGIEMEIKIPTYPEY--ETSRAVIWMGAILQ 847 (955)
T ss_pred cc--ccccccEEEEecCeEEeeehhhhh-h----------hhhheeeeecCcEEEEEecccccc--ccceEEEEEecccc
Confidence 43 399999999999999999999996 3 248899999999999999988665 79999999999999
Q ss_pred CChhhHhh-hCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeE
Q 004068 658 DPHPAVRA-LGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKP 736 (775)
Q Consensus 658 ~p~~~vrq-l~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~ 736 (775)
.||+++++ ...+|+ ||||+.+..||||.| +|++..||++|||..++++++|..+++++++++||+++.++|||.|
T Consensus 848 ~ph~av~~q~edlp~---gvyvt~rg~gspalq-~l~aa~fitavng~~t~~lddf~~~~~~ipdnsyv~v~~mtfd~vp 923 (955)
T KOG1421|consen 848 PPHSAVFEQVEDLPE---GVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTLDDFYHMLLEIPDNSYVQVKQMTFDGVP 923 (955)
T ss_pred CchHHHHHHHhccCC---ceEEeecccCChhHh-hcchheeEEEecccccCcHHHHHHHHhhCCCCceEEEEEeccCCCc
Confidence 99999998 588998 999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCCCCceeEEecCCCCCcEEEEe
Q 004068 737 RVLTLKQDLHYWPTWELIFDPDTALWRRKSV 767 (775)
Q Consensus 737 ~~ltlk~d~~y~pt~e~~~~~~~~~W~~~~~ 767 (775)
..+++|+|+|||||.+|.+|..+. |+..+.
T Consensus 924 ~~~s~k~n~hyfpt~~l~rd~~~~-wi~kev 953 (955)
T KOG1421|consen 924 SIVSVKPNPHYFPTCILERDSNGR-WITKEV 953 (955)
T ss_pred eEEEeccCCccCceeEEEecccCc-eeeeec
Confidence 999999999999999999998655 976653
No 2
>PRK10139 serine endoprotease; Provisional
Probab=100.00 E-value=8.8e-52 Score=468.01 Aligned_cols=389 Identities=19% Similarity=0.270 Sum_probs=309.2
Q ss_pred hhhhhhcCcEEEEEEeecCcc----------ccCC-c-----cccceeEEEEEEEecCCceEEEEecceeccCCceEEEE
Q 004068 286 FAESVIEPTLVMFEVHVPPSC----------MIDG-V-----HSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLS 349 (775)
Q Consensus 286 ~~~~~l~~SvV~V~~~~~~~~----------~~Dg-~-----~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt 349 (775)
.+++++.||||.|.+...... .+.. . ....+.||||||+ +++||||||+| |+.++..|.|+
T Consensus 44 ~~~~~~~pavV~i~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~GSG~ii~--~~~g~IlTn~H-Vv~~a~~i~V~ 120 (455)
T PRK10139 44 PMLEKVLPAVVSVRVEGTASQGQKIPEEFKKFFGDDLPDQPAQPFEGLGSGVIID--AAKGYVLTNNH-VINQAQKISIQ 120 (455)
T ss_pred HHHHHhCCcEEEEEEEEeecccccCchhHHHhccccCCccccccccceEEEEEEE--CCCCEEEeChH-HhCCCCEEEEE
Confidence 489999999999987532100 0110 0 1224689999999 34799999965 56788899999
Q ss_pred EcCCCeEEeEEEEEEeCCCcEEEEEeC-CCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCcc
Q 004068 350 FAAFPIEIPGEVVFLHPVHNFALIAYD-PSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCA 428 (775)
Q Consensus 350 ~~d~~~~~~A~Vv~~dp~~DlAILk~d-~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~ 428 (775)
+.| +.+++|++++.|+.+||||||++ +..+++ ++|+++..+++||.|++||+|+++..+++.|+||....
T Consensus 121 ~~d-g~~~~a~vvg~D~~~DlAvlkv~~~~~l~~--------~~lg~s~~~~~G~~V~aiG~P~g~~~tvt~GivS~~~r 191 (455)
T PRK10139 121 LND-GREFDAKLIGSDDQSDIALLQIQNPSKLTQ--------IAIADSDKLRVGDFAVAVGNPFGLGQTATSGIISALGR 191 (455)
T ss_pred ECC-CCEEEEEEEEEcCCCCEEEEEecCCCCCce--------eEecCccccCCCCEEEEEecCCCCCCceEEEEEccccc
Confidence 998 99999999999999999999997 445554 89999988999999999999999999999999997532
Q ss_pred ccccCCCCcccccccceEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHH
Q 004068 429 ALNISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDK 507 (775)
Q Consensus 429 ~~~~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~ 507 (775)
. ......| .++||+|+++++|| ||||+|.+|+||||+++..... ....+.+ ||||++.+++++++
T Consensus 192 ~----~~~~~~~----~~~iqtda~in~GnSGGpl~n~~G~vIGi~~~~~~~~----~~~~gig--faIP~~~~~~v~~~ 257 (455)
T PRK10139 192 S----GLNLEGL----ENFIQTDASINRGNSGGALLNLNGELIGINTAILAPG----GGSVGIG--FAIPSNMARTLAQQ 257 (455)
T ss_pred c----ccCCCCc----ceEEEECCccCCCCCcceEECCCCeEEEEEEEEEcCC----CCccceE--EEEEhHHHHHHHHH
Confidence 1 1111122 37999999999998 9999999999999998654431 1134555 59999999999999
Q ss_pred HHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCC
Q 004068 508 IISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQG 586 (775)
Q Consensus 508 l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~G 586 (775)
|+++|+ +.|+ |||+.+++++...++.+|++.. .+++|..|.++|||+++ ||+|
T Consensus 258 l~~~g~--------v~r~-----~LGv~~~~l~~~~~~~lgl~~~-------------~Gv~V~~V~~~SpA~~AGL~~G 311 (455)
T PRK10139 258 LIDFGE--------IKRG-----LLGIKGTEMSADIAKAFNLDVQ-------------RGAFVSEVLPNSGSAKAGVKAG 311 (455)
T ss_pred HhhcCc--------cccc-----ceeEEEEECCHHHHHhcCCCCC-------------CceEEEEECCCChHHHCCCCCC
Confidence 998874 5566 9999999999888888888642 46679999999999986 9999
Q ss_pred CEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCccee---eeeeeeeecCChhhH
Q 004068 587 DMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTTRV---INWCGCIVQDPHPAV 663 (775)
Q Consensus 587 DiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~r~---v~~~G~~lq~p~~~v 663 (775)
|+|++|||++|.+|.++...+.... .++++.++|.|+|+++++.+++........... ..+.|+.++..
T Consensus 312 DvIl~InG~~V~s~~dl~~~l~~~~----~g~~v~l~V~R~G~~~~l~v~~~~~~~~~~~~~~~~~~~~g~~l~~~---- 383 (455)
T PRK10139 312 DIITSLNGKPLNSFAELRSRIATTE----PGTKVKLGLLRNGKPLEVEVTLDTSTSSSASAEMITPALQGATLSDG---- 383 (455)
T ss_pred CEEEEECCEECCCHHHHHHHHHhcC----CCCEEEEEEEECCEEEEEEEEECCCCCcccccccccccccccEeccc----
Confidence 9999999999999999999886544 267899999999999999998754332111111 12345544431
Q ss_pred hhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEE
Q 004068 664 RALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTL 741 (775)
Q Consensus 664 rql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltl 741 (775)
+ ++....|++|..|.++|||+++||++||+|++|||+++.+|++|.+.+++. ++.+.|+ +.|+|+.+.+.+
T Consensus 384 -~---~~~~~~Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~l~~~--~~~v~l~-v~R~g~~~~~~~ 454 (455)
T PRK10139 384 -Q---LKDGTKGIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSIAEMRKVLAAK--PAIIALQ-IVRGNESIYLLL 454 (455)
T ss_pred -c---cccCCCceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhC--CCeEEEE-EEECCEEEEEEe
Confidence 1 111124899999999999999999999999999999999999999999983 3688888 789999888876
No 3
>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=1.7e-51 Score=465.21 Aligned_cols=396 Identities=23% Similarity=0.327 Sum_probs=327.3
Q ss_pred hhhhhcCcEEEEEEeecCcc-------------ccCC----c------cccceeEEEEEEEecCCceEEEEecceeccCC
Q 004068 287 AESVIEPTLVMFEVHVPPSC-------------MIDG----V------HSQHFFGTGVIIYHSQSMGLVVVDKNTVAISA 343 (775)
Q Consensus 287 ~~~~l~~SvV~V~~~~~~~~-------------~~Dg----~------~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~ 343 (775)
+++++.||||.|.+...... .+.. . ....+.||||||+ ++||||||+| |..++
T Consensus 6 ~~~~~~p~vv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GSGfii~---~~G~IlTn~H-vv~~~ 81 (428)
T TIGR02037 6 LVEKVAPAVVNISVEGTVKRRNRPPALPPFFRQFFGDDMPNFPRQQRERKVRGLGSGVIIS---ADGYILTNNH-VVDGA 81 (428)
T ss_pred HHHHhCCceEEEEEEEEecccCCCcccchhHHHhhcccccCcccccccccccceeeEEEEC---CCCEEEEcHH-HcCCC
Confidence 78999999999987542100 0110 0 1234689999999 4699999965 66788
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeCCC-CCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYDPS-SLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSI 422 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d~~-~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~ 422 (775)
+++.|++++ +..++|++++.|+.+||||||++.. .++ +++|+++..+++||+|+++|||++...+.+.|+
T Consensus 82 ~~i~V~~~~-~~~~~a~vv~~d~~~DlAllkv~~~~~~~--------~~~l~~~~~~~~G~~v~aiG~p~g~~~~~t~G~ 152 (428)
T TIGR02037 82 DEITVTLSD-GREFKAKLVGKDPRTDIAVLKIDAKKNLP--------VIKLGDSDKLRVGDWVLAIGNPFGLGQTVTSGI 152 (428)
T ss_pred CeEEEEeCC-CCEEEEEEEEecCCCCEEEEEecCCCCce--------EEEccCCCCCCCCCEEEEEECCCcCCCcEEEEE
Confidence 999999998 9999999999999999999999864 444 499999888999999999999999999999999
Q ss_pred EeCCccccccCCCCcccccccceEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchh
Q 004068 423 VTNPCAALNISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTI 501 (775)
Q Consensus 423 VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i 501 (775)
|+...... . ....| ..+|++|+++++++ ||||+|.+|+|||||++..... ....++.||||++.+
T Consensus 153 vs~~~~~~-~---~~~~~----~~~i~tda~i~~GnSGGpl~n~~G~viGI~~~~~~~~------g~~~g~~faiP~~~~ 218 (428)
T TIGR02037 153 VSALGRSG-L---GIGDY----ENFIQTDAAINPGNSGGPLVNLRGEVIGINTAIYSPS------GGNVGIGFAIPSNMA 218 (428)
T ss_pred EEecccCc-c---CCCCc----cceEEECCCCCCCCCCCceECCCCeEEEEEeEEEcCC------CCccceEEEEEhHHH
Confidence 99753221 1 11234 36899999999997 9999999999999998654320 112344569999999
Q ss_pred hhHHHHHHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhh
Q 004068 502 SRVLDKIISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAEN 581 (775)
Q Consensus 502 ~~vl~~l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~ 581 (775)
++++++|+++++ +.|+ |||+.++.++...++.+|++.. .+++|..|.++|||++
T Consensus 219 ~~~~~~l~~~g~--------~~~~-----~lGi~~~~~~~~~~~~lgl~~~-------------~Gv~V~~V~~~spA~~ 272 (428)
T TIGR02037 219 KNVVDQLIEGGK--------VQRG-----WLGVTIQEVTSDLAKSLGLEKQ-------------RGALVAQVLPGSPAEK 272 (428)
T ss_pred HHHHHHHHhcCc--------CcCC-----cCceEeecCCHHHHHHcCCCCC-------------CceEEEEccCCCChHH
Confidence 999999999864 4556 9999999999999999998753 4567999999999998
Q ss_pred h-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCcceeeeeeeeeecCCh
Q 004068 582 M-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTTRVINWCGCIVQDPH 660 (775)
Q Consensus 582 a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~r~v~~~G~~lq~p~ 660 (775)
+ |+.||+|++|||++|.++.++..++.... .++++.++|.|+|+.+++++++...+.....+...|+|+.++.++
T Consensus 273 aGL~~GDvI~~Vng~~i~~~~~~~~~l~~~~----~g~~v~l~v~R~g~~~~~~v~l~~~~~~~~~~~~~~lGi~~~~l~ 348 (428)
T TIGR02037 273 AGLKAGDVILSVNGKPISSFADLRRAIGTLK----PGKKVTLGILRKGKEKTITVTLGASPEEQASSSNPFLGLTVANLS 348 (428)
T ss_pred cCCCCCCEEEEECCEEcCCHHHHHHHHHhcC----CCCEEEEEEEECCEEEEEEEEECcCCCccccccccccceEEecCC
Confidence 5 99999999999999999999999886554 378899999999999999998876654334455678999999999
Q ss_pred hhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEE
Q 004068 661 PAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLT 740 (775)
Q Consensus 661 ~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~lt 740 (775)
...++...++....|++|+.|.++|||+++||++||+|++|||++|.++++|.+++++.+.++.++|+ +.|+|+...+.
T Consensus 349 ~~~~~~~~l~~~~~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~~d~~~~l~~~~~g~~v~l~-v~R~g~~~~~~ 427 (428)
T TIGR02037 349 PEIRKELRLKGDVKGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAELRKVLDRAKKGGRVALL-ILRGGATIFVT 427 (428)
T ss_pred HHHHHHcCCCcCcCceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEE-EEECCEEEEEE
Confidence 88877544554335999999999999999999999999999999999999999999987778999999 78999987664
No 4
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=100.00 E-value=8.3e-52 Score=456.26 Aligned_cols=445 Identities=29% Similarity=0.412 Sum_probs=394.4
Q ss_pred hhhhhhcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEEEEEEe
Q 004068 286 FAESVIEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGEVVFLH 365 (775)
Q Consensus 286 ~~~~~l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~Vv~~d 365 (775)
..++++.+|+|.|++... ..+|.-......|+|||+| +..||||||||+|..+.-.-.+.|.+ -.+++--.++.|
T Consensus 56 ~~ia~VvksvVsI~~S~v--~~fdtesag~~~atgfvvd--~~~gyiLtnrhvv~pgP~va~avf~n-~ee~ei~pvyrD 130 (955)
T KOG1421|consen 56 NTIANVVKSVVSIRFSAV--RAFDTESAGESEATGFVVD--KKLGYILTNRHVVAPGPFVASAVFDN-HEEIEIYPVYRD 130 (955)
T ss_pred hhhhhhcccEEEEEehhe--eecccccccccceeEEEEe--cccceEEEeccccCCCCceeEEEecc-cccCCcccccCC
Confidence 488999999999998777 4778888899999999999 57999999999999999999999998 788888899999
Q ss_pred CCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccce
Q 004068 366 PVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNM 445 (775)
Q Consensus 366 p~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~ 445 (775)
|.||+.+++|||+.+.. ..++.+.|.++- -+.|-++..+|+..+.-++.-.|.++.++ .+.++...-.|.-+|.
T Consensus 131 pVhdfGf~r~dps~ir~---s~vt~i~lap~~-akvgseirvvgNDagEklsIlagflSrld--r~apdyg~~~yndfnT 204 (955)
T KOG1421|consen 131 PVHDFGFFRYDPSTIRF---SIVTEICLAPEL-AKVGSEIRVVGNDAGEKLSILAGFLSRLD--RNAPDYGEDTYNDFNT 204 (955)
T ss_pred chhhcceeecChhhcce---eeeeccccCccc-cccCCceEEecCCccceEEeehhhhhhcc--CCCccccccccccccc
Confidence 99999999999998764 677778888876 79999999999987777766677777543 2233333334555888
Q ss_pred EEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCcccccccc
Q 004068 446 EVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSLLINGVKR 524 (775)
Q Consensus 446 e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~~~~~v~r 524 (775)
.++|.-+.-++|+ |.|++|-+|..|+++...... .+..| ++|++.+++.|.-++++.+ ++|
T Consensus 205 fy~QaasstsggssgspVv~i~gyAVAl~agg~~s--------sas~f--fLpLdrV~RaL~clq~n~P--------ItR 266 (955)
T KOG1421|consen 205 FYIQAASSTSGGSSGSPVVDIPGYAVALNAGGSIS--------SASDF--FLPLDRVVRALRCLQNNTP--------ITR 266 (955)
T ss_pred eeeeehhcCCCCCCCCceecccceEEeeecCCccc--------ccccc--eeeccchhhhhhhhhcCCC--------ccc
Confidence 9999998888777 999999999999998744332 34455 6999999999999998875 455
Q ss_pred CCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhhccCCCEEEEECCEEeCChhhHH
Q 004068 525 PMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENMLEQGDMMLAINKQPVTCFHDIE 604 (775)
Q Consensus 525 ~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~aLq~GDiILsVNGk~V~s~~dl~ 604 (775)
+ +|.++|..-..+++|.+||+.||++.+..++|.+++.++|..|.+++||++.|++||++++||+.-+.++..+.
T Consensus 267 G-----tLqvefl~k~~de~rrlGL~sE~eqv~r~k~P~~tgmLvV~~vL~~gpa~k~Le~GDillavN~t~l~df~~l~ 341 (955)
T KOG1421|consen 267 G-----TLQVEFLHKLFDECRRLGLSSEWEQVVRTKFPERTGMLVVETVLPEGPAEKKLEPGDILLAVNSTCLNDFEALE 341 (955)
T ss_pred c-----eEEEEEehhhhHHHHhcCCcHHHHHHHHhcCcccceeEEEEEeccCCchhhccCCCcEEEEEcceehHHHHHHH
Confidence 6 99999999999999999999999999999999999999999999999999999999999999987777777666
Q ss_pred HHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCcceeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCC
Q 004068 605 NACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTTRVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHG 684 (775)
Q Consensus 605 ~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~G 684 (775)
..+ +.+ .|+.+.++|.|+|++.++++..++..+..+.|++.|||+.+|.|+++++.++.+|. .|+||++.. |
T Consensus 342 ~iL---Deg--vgk~l~LtI~Rggqelel~vtvqdlh~itp~R~levcGav~hdlsyq~ar~y~lP~--~GvyVa~~~-g 413 (955)
T KOG1421|consen 342 QIL---DEG--VGKNLELTIQRGGQELELTVTVQDLHGITPDRFLEVCGAVFHDLSYQLARLYALPV--EGVYVASPG-G 413 (955)
T ss_pred HHH---hhc--cCceEEEEEEeCCEEEEEEEEeccccCCCCceEEEEcceEecCCCHHHHhhccccc--CcEEEccCC-C
Confidence 666 332 47899999999999999999999999999999999999999999999999999987 399999999 9
Q ss_pred CHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeC--CeEEEEEEEeCCC-CCCceeEEecCCCCC
Q 004068 685 SPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLN--GKPRVLTLKQDLH-YWPTWELIFDPDTAL 761 (775)
Q Consensus 685 SPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rd--g~~~~ltlk~d~~-y~pt~e~~~~~~~~~ 761 (775)
|+++.++++ +-||.+||+++++|+++|+++++++++|++|.++++..+ +++++++++.|.| |||+|+++||++|+.
T Consensus 414 sf~~~~~~y-~~ii~~vanK~tPdLdaFidvlk~L~dg~rV~vry~hl~dkh~p~v~~v~iDrHwy~p~~~~trndetgl 492 (955)
T KOG1421|consen 414 SFRHRGPRY-GQIIDSVANKPTPDLDAFIDVLKELPDGARVPVRYHHLTDKHSPRVTTVTIDRHWYWPFREYTRNDETGL 492 (955)
T ss_pred CccccCCcc-eEEEEeecCCcCCCHHHHHHHHHhccCCCeeeEEEEEecCCCCceEEEEEEeccccccceeeeeCCCccc
Confidence 999999999 999999999999999999999999999999999988887 7899999999999 999999999999999
Q ss_pred cEEEEecccCCC
Q 004068 762 WRRKSVKALNSS 773 (775)
Q Consensus 762 W~~~~~~~~~~~ 773 (775)
|++...+.+||.
T Consensus 493 Wdrk~L~~pqPa 504 (955)
T KOG1421|consen 493 WDRKNLKDPQPA 504 (955)
T ss_pred ccccccCCCCcc
Confidence 999999999986
No 5
>PRK10942 serine endoprotease; Provisional
Probab=100.00 E-value=1.5e-50 Score=459.97 Aligned_cols=360 Identities=19% Similarity=0.275 Sum_probs=293.7
Q ss_pred ceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeC-CCCCCcccccceeeeee
Q 004068 315 HFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYD-PSSLGVAGASVVRAAEL 393 (775)
Q Consensus 315 ~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d-~~~l~~~~~~~v~~~~l 393 (775)
.+.||||||+ +++||||||+| |+.++++|.|+|+| +++++|+|++.|+.+||||||++ +..+++ ++|
T Consensus 110 ~~~GSG~ii~--~~~G~IlTn~H-Vv~~a~~i~V~~~d-g~~~~a~vv~~D~~~DlAvlki~~~~~l~~--------~~l 177 (473)
T PRK10942 110 MALGSGVIID--ADKGYVVTNNH-VVDNATKIKVQLSD-GRKFDAKVVGKDPRSDIALIQLQNPKNLTA--------IKM 177 (473)
T ss_pred cceEEEEEEE--CCCCEEEeChh-hcCCCCEEEEEECC-CCEEEEEEEEecCCCCEEEEEecCCCCCce--------eEe
Confidence 3579999999 34799999965 56788999999998 99999999999999999999995 445554 899
Q ss_pred CCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccceEEEEEeeccCCCC-CceEEccCceEEEE
Q 004068 394 LPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAI 472 (775)
Q Consensus 394 g~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI 472 (775)
+++..+++||+|++||+|+++..+++.|+||..... ....++| ..+||+|+++++|+ ||||+|.+|+||||
T Consensus 178 g~s~~l~~G~~V~aiG~P~g~~~tvt~GiVs~~~r~----~~~~~~~----~~~iqtda~i~~GnSGGpL~n~~GeviGI 249 (473)
T PRK10942 178 ADSDALRVGDYTVAIGNPYGLGETVTSGIVSALGRS----GLNVENY----ENFIQTDAAINRGNSGGALVNLNGELIGI 249 (473)
T ss_pred cCccccCCCCEEEEEcCCCCCCcceeEEEEEEeecc----cCCcccc----cceEEeccccCCCCCcCccCCCCCeEEEE
Confidence 999889999999999999999999999999965311 1122345 37899999999997 99999999999999
Q ss_pred eeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhhhcCCChh
Q 004068 473 WGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKARSFGLSDD 552 (775)
Q Consensus 473 ~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~ 552 (775)
|+++.... + ...+ +.||||++.+++++++|+++++ +.|+ |||+.+++++...++.+|++..
T Consensus 250 ~t~~~~~~--g--~~~g--~gfaIP~~~~~~v~~~l~~~g~--------v~rg-----~lGv~~~~l~~~~a~~~~l~~~ 310 (473)
T PRK10942 250 NTAILAPD--G--GNIG--IGFAIPSNMVKNLTSQMVEYGQ--------VKRG-----ELGIMGTELNSELAKAMKVDAQ 310 (473)
T ss_pred EEEEEcCC--C--Cccc--EEEEEEHHHHHHHHHHHHhccc--------cccc-----eeeeEeeecCHHHHHhcCCCCC
Confidence 99765431 1 1234 4459999999999999998864 5666 9999999999888888888743
Q ss_pred HHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEE
Q 004068 553 WVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREI 631 (775)
Q Consensus 553 wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~ 631 (775)
++++|..|.++|||+++ |+.||+|++|||++|.+|+++..++.... .++++.++|.|+|+.+
T Consensus 311 -------------~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~~~----~g~~v~l~v~R~G~~~ 373 (473)
T PRK10942 311 -------------RGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFAALRAQVGTMP----VGSKLTLGLLRDGKPV 373 (473)
T ss_pred -------------CceEEEEECCCChHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhcC----CCCEEEEEEEECCeEE
Confidence 56679999999999986 99999999999999999999999886554 3788999999999999
Q ss_pred EEEEEecccCCCCcceeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHH
Q 004068 632 ELQVGTDVRDGNGTTRVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEA 711 (775)
Q Consensus 632 ~l~V~l~~~~~~~t~r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~ 711 (775)
.+.+++.............++|+.....+.. ....|++|.+|.++|||+++||++||+|++|||++|.++++
T Consensus 374 ~v~v~l~~~~~~~~~~~~~~lGl~g~~l~~~--------~~~~gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s~~d 445 (473)
T PRK10942 374 NVNVELQQSSQNQVDSSNIFNGIEGAELSNK--------GGDKGVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKNIAE 445 (473)
T ss_pred EEEEEeCcCcccccccccccccceeeecccc--------cCCCCeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHH
Confidence 9998876542211112222345433322210 01138999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCEEEEEEEEeCCeEEEEEE
Q 004068 712 FVNVTKEIEHGEFVRVRTVHLNGKPRVLTL 741 (775)
Q Consensus 712 f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltl 741 (775)
|.+++++ . ++.+.|+ +.|+|..+.+.+
T Consensus 446 l~~~l~~-~-~~~v~l~-V~R~g~~~~v~~ 472 (473)
T PRK10942 446 LRKILDS-K-PSVLALN-IQRGDSSIYLLM 472 (473)
T ss_pred HHHHHHh-C-CCeEEEE-EEECCEEEEEEe
Confidence 9999998 3 3688888 789999888765
No 6
>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=1.9e-40 Score=365.16 Aligned_cols=300 Identities=19% Similarity=0.224 Sum_probs=242.7
Q ss_pred hhhhhhhcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEEEEEE
Q 004068 285 SFAESVIEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGEVVFL 364 (775)
Q Consensus 285 ~~~~~~l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~Vv~~ 364 (775)
..+++++.||+|.|....... .........+.||||||+ ++||||||+|+| .++..+.|+|+| +..++|++++.
T Consensus 48 ~~~~~~~~psVV~I~~~~~~~-~~~~~~~~~~~GSG~vi~---~~G~IlTn~HVV-~~~~~i~V~~~d-g~~~~a~vv~~ 121 (351)
T TIGR02038 48 NKAVRRAAPAVVNIYNRSISQ-NSLNQLSIQGLGSGVIMS---KEGYILTNYHVI-KKADQIVVALQD-GRKFEAELVGS 121 (351)
T ss_pred HHHHHhcCCcEEEEEeEeccc-cccccccccceEEEEEEe---CCeEEEecccEe-CCCCEEEEEECC-CCEEEEEEEEe
Confidence 348899999999998755421 111112335679999999 689999997655 677889999998 99999999999
Q ss_pred eCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccc
Q 004068 365 HPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMN 444 (775)
Q Consensus 365 dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n 444 (775)
|+.+||||||++...+++ ++|+++..+++||.|+++|+|+++..+.+.|+||....... . +.. .
T Consensus 122 d~~~DlAvlkv~~~~~~~--------~~l~~s~~~~~G~~V~aiG~P~~~~~s~t~GiIs~~~r~~~--~---~~~---~ 185 (351)
T TIGR02038 122 DPLTDLAVLKIEGDNLPT--------IPVNLDRPPHVGDVVLAIGNPYNLGQTITQGIISATGRNGL--S---SVG---R 185 (351)
T ss_pred cCCCCEEEEEecCCCCce--------EeccCcCccCCCCEEEEEeCCCCCCCcEEEEEEEeccCccc--C---CCC---c
Confidence 999999999998766654 78888878999999999999999999999999997532111 1 111 1
Q ss_pred eEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCccccccc
Q 004068 445 MEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSLLINGVK 523 (775)
Q Consensus 445 ~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~~~~~v~ 523 (775)
.++||+|++++++| ||||+|.+|+||||+++..... ......++.||||++.+++++++|+++++ +.
T Consensus 186 ~~~iqtda~i~~GnSGGpl~n~~G~vIGI~~~~~~~~----~~~~~~g~~faIP~~~~~~vl~~l~~~g~--------~~ 253 (351)
T TIGR02038 186 QNFIQTDAAINAGNSGGALINTNGELVGINTASFQKG----GDEGGEGINFAIPIKLAHKIMGKIIRDGR--------VI 253 (351)
T ss_pred ceEEEECCccCCCCCcceEECCCCeEEEEEeeeeccc----CCCCccceEEEecHHHHHHHHHHHhhcCc--------cc
Confidence 47999999999997 9999999999999998543321 11122334569999999999999998864 44
Q ss_pred cCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhh
Q 004068 524 RPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHD 602 (775)
Q Consensus 524 r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~d 602 (775)
|+ |||+.++++....++.+|++.. ++++|..|.++|||+++ |++||+|++|||++|.++.+
T Consensus 254 r~-----~lGv~~~~~~~~~~~~lgl~~~-------------~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~d 315 (351)
T TIGR02038 254 RG-----YIGVSGEDINSVVAQGLGLPDL-------------RGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEE 315 (351)
T ss_pred ce-----EeeeEEEECCHHHHHhcCCCcc-------------ccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHH
Confidence 55 9999999998888888888742 46779999999999985 99999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEeccc
Q 004068 603 IENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVR 640 (775)
Q Consensus 603 l~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~ 640 (775)
+..++.... .++++.++|.|+|+.+++.+.+.+.
T Consensus 316 l~~~l~~~~----~g~~v~l~v~R~g~~~~~~v~l~~~ 349 (351)
T TIGR02038 316 LMDRIAETR----PGSKVMVTVLRQGKQLELPVTIDEK 349 (351)
T ss_pred HHHHHHhcC----CCCEEEEEEEECCEEEEEEEEecCC
Confidence 999886544 3788999999999999998887643
No 7
>PRK10898 serine endoprotease; Provisional
Probab=100.00 E-value=2.6e-39 Score=356.13 Aligned_cols=302 Identities=16% Similarity=0.231 Sum_probs=240.4
Q ss_pred hhhhhhhcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEEEEEE
Q 004068 285 SFAESVIEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGEVVFL 364 (775)
Q Consensus 285 ~~~~~~l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~Vv~~ 364 (775)
...++++.||+|.|...... +...........||||||+ ++||||||+|+| .++.++.|++.| +..++|++++.
T Consensus 48 ~~~~~~~~psvV~v~~~~~~-~~~~~~~~~~~~GSGfvi~---~~G~IlTn~HVv-~~a~~i~V~~~d-g~~~~a~vv~~ 121 (353)
T PRK10898 48 NQAVRRAAPAVVNVYNRSLN-STSHNQLEIRTLGSGVIMD---QRGYILTNKHVI-NDADQIIVALQD-GRVFEALLVGS 121 (353)
T ss_pred HHHHHHhCCcEEEEEeEecc-ccCcccccccceeeEEEEe---CCeEEEecccEe-CCCCEEEEEeCC-CCEEEEEEEEE
Confidence 34889999999999886652 1111122334789999999 689999997654 678899999998 99999999999
Q ss_pred eCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccc
Q 004068 365 HPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMN 444 (775)
Q Consensus 365 dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n 444 (775)
|+.+||||||++...+++ ++|+++..+++||.|+++|+|+++..+.+.|+|+..... ..... .+
T Consensus 122 d~~~DlAvl~v~~~~l~~--------~~l~~~~~~~~G~~V~aiG~P~g~~~~~t~Giis~~~r~-~~~~~---~~---- 185 (353)
T PRK10898 122 DSLTDLAVLKINATNLPV--------IPINPKRVPHIGDVVLAIGNPYNLGQTITQGIISATGRI-GLSPT---GR---- 185 (353)
T ss_pred cCCCCEEEEEEcCCCCCe--------eeccCcCcCCCCCEEEEEeCCCCcCCCcceeEEEecccc-ccCCc---cc----
Confidence 999999999998876664 889888889999999999999999899999999965321 11111 11
Q ss_pred eEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCccccccc
Q 004068 445 MEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSLLINGVK 523 (775)
Q Consensus 445 ~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~~~~~v~ 523 (775)
.++||+|+++++|+ ||||+|.+|+||||+++...... ++....+. .||||++.+++++++|+++|+ +.
T Consensus 186 ~~~iqtda~i~~GnSGGPl~n~~G~vvGI~~~~~~~~~-~~~~~~g~--~faIP~~~~~~~~~~l~~~G~--------~~ 254 (353)
T PRK10898 186 QNFLQTDASINHGNSGGALVNSLGELMGINTLSFDKSN-DGETPEGI--GFAIPTQLATKIMDKLIRDGR--------VI 254 (353)
T ss_pred cceEEeccccCCCCCcceEECCCCeEEEEEEEEecccC-CCCcccce--EEEEchHHHHHHHHHHhhcCc--------cc
Confidence 37899999999997 99999999999999986543310 00112344 459999999999999988764 45
Q ss_pred cCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhh
Q 004068 524 RPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHD 602 (775)
Q Consensus 524 r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~d 602 (775)
|+ |||+..+.+....+..++++. .++++|..|.++|||+++ |+.||+|++|||++|.++.+
T Consensus 255 ~~-----~lGi~~~~~~~~~~~~~~~~~-------------~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~ 316 (353)
T PRK10898 255 RG-----YIGIGGREIAPLHAQGGGIDQ-------------LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALE 316 (353)
T ss_pred cc-----ccceEEEECCHHHHHhcCCCC-------------CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHH
Confidence 56 999999887665555555432 267789999999999996 99999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccC
Q 004068 603 IENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRD 641 (775)
Q Consensus 603 l~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~ 641 (775)
+...+.... .++++.++|.|+|+.+++.+++.+.+
T Consensus 317 l~~~l~~~~----~g~~v~l~v~R~g~~~~~~v~l~~~p 351 (353)
T PRK10898 317 TMDQVAEIR----PGSVIPVVVMRDDKQLTLQVTIQEYP 351 (353)
T ss_pred HHHHHHhcC----CCCEEEEEEEECCEEEEEEEEeccCC
Confidence 988886544 37889999999999999998876543
No 8
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=1.7e-29 Score=278.63 Aligned_cols=297 Identities=27% Similarity=0.371 Sum_probs=240.4
Q ss_pred hhhhhhhcCcEEEEEEeecCcc--ccCCc---cccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeE
Q 004068 285 SFAESVIEPTLVMFEVHVPPSC--MIDGV---HSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPG 359 (775)
Q Consensus 285 ~~~~~~l~~SvV~V~~~~~~~~--~~Dg~---~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A 359 (775)
...++++.|++|.+........ .+... ......||||+++ ..|||+||.|++ .++..+.+++.| ++.++|
T Consensus 36 ~~~~~~~~~~vV~~~~~~~~~~~~~~~~~~~~~~~~~~gSg~i~~---~~g~ivTn~hVi-~~a~~i~v~l~d-g~~~~a 110 (347)
T COG0265 36 ATAVEKVAPAVVSIATGLTAKLRSFFPSDPPLRSAEGLGSGFIIS---SDGYIVTNNHVI-AGAEEITVTLAD-GREVPA 110 (347)
T ss_pred HHHHHhcCCcEEEEEeeeeecchhcccCCcccccccccccEEEEc---CCeEEEecceec-CCcceEEEEeCC-CCEEEE
Confidence 3488899999999988654210 00110 0115889999999 799999996655 559999999987 999999
Q ss_pred EEEEEeCCCcEEEEEeCCCC-CCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcc
Q 004068 360 EVVFLHPVHNFALIAYDPSS-LGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCP 438 (775)
Q Consensus 360 ~Vv~~dp~~DlAILk~d~~~-l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~p 438 (775)
++++.|+.+|+|+||++... ++. +.|+++..++.||.++++|+|+++..+++.|+|+..... ..... .
T Consensus 111 ~~vg~d~~~dlavlki~~~~~~~~--------~~~~~s~~l~vg~~v~aiGnp~g~~~tvt~Givs~~~r~-~v~~~--~ 179 (347)
T COG0265 111 KLVGKDPISDLAVLKIDGAGGLPV--------IALGDSDKLRVGDVVVAIGNPFGLGQTVTSGIVSALGRT-GVGSA--G 179 (347)
T ss_pred EEEecCCccCEEEEEeccCCCCce--------eeccCCCCcccCCEEEEecCCCCcccceeccEEeccccc-cccCc--c
Confidence 99999999999999998754 554 799999999999999999999999999999999976432 11111 1
Q ss_pred cccccceEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCc
Q 004068 439 RYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSL 517 (775)
Q Consensus 439 ryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~ 517 (775)
. ...+||+|+++++++ ||||+|.+|+++||++...... + ...+++| |||++.+.+++.++...++
T Consensus 180 ~----~~~~IqtdAain~gnsGgpl~n~~g~~iGint~~~~~~--~--~~~gigf--aiP~~~~~~v~~~l~~~G~---- 245 (347)
T COG0265 180 G----YVNFIQTDAAINPGNSGGPLVNIDGEVVGINTAIIAPS--G--GSSGIGF--AIPVNLVAPVLDELISKGK---- 245 (347)
T ss_pred c----ccchhhcccccCCCCCCCceEcCCCcEEEEEEEEecCC--C--CcceeEE--EecHHHHHHHHHHHHHcCC----
Confidence 1 358999999999998 9999999999999998655441 1 1345665 8999999999999998543
Q ss_pred cccccccCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEE
Q 004068 518 LINGVKRPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQP 596 (775)
Q Consensus 518 ~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~ 596 (775)
+.|+ ++|+.+.++....+ +|++.. .+.+|..|.+++||+++ ++.||+|+++||++
T Consensus 246 ----v~~~-----~lgv~~~~~~~~~~--~g~~~~-------------~G~~V~~v~~~spa~~agi~~Gdii~~vng~~ 301 (347)
T COG0265 246 ----VVRG-----YLGVIGEPLTADIA--LGLPVA-------------AGAVVLGVLPGSPAAKAGIKAGDIITAVNGKP 301 (347)
T ss_pred ----cccc-----ccceEEEEcccccc--cCCCCC-------------CceEEEecCCCChHHHcCCCCCCEEEEECCEE
Confidence 5556 89999988877666 665532 45679999999999996 99999999999999
Q ss_pred eCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecc
Q 004068 597 VTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDV 639 (775)
Q Consensus 597 V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~ 639 (775)
+.+..++...+.... .++.+.+++.|+|+++++.+.+.+
T Consensus 302 v~~~~~l~~~v~~~~----~g~~v~~~~~r~g~~~~~~v~l~~ 340 (347)
T COG0265 302 VASLSDLVAAVASNR----PGDEVALKLLRGGKERELAVTLGD 340 (347)
T ss_pred ccCHHHHHHHHhccC----CCCEEEEEEEECCEEEEEEEEecC
Confidence 999999999986555 378999999999999999999876
No 9
>PF12812 PDZ_1: PDZ-like domain
Probab=99.97 E-value=5.1e-31 Score=227.03 Aligned_cols=77 Identities=45% Similarity=0.699 Sum_probs=75.7
Q ss_pred ccCCceeEEecCeeeecCCHHHHhhcccccCeEEEeCCCcccccCC-CCcceEEEccCCccCCCHHHHHHHHhcCCCC
Q 004068 35 SITPDYFLEVSGAVIHPLSYQQARNFRFPCGLVYVAEPGYMLFRAG-VPRHAIIKKFAGEEISRLEDLISVLSKLSRG 111 (775)
Q Consensus 35 ~itp~~f~~v~g~~~h~lsyq~ar~~~~~~~gv~v~~~g~~~~~~~-~~~~~ii~~~~~~~~~~l~~fi~v~~~~~~~ 111 (775)
+|||+|||+||||+||+|||||||+|+++|+|||||.+||||.+++ ++++|||++||||||||||+|++|||+|||+
T Consensus 1 ~itp~r~v~~~Ga~f~~Ls~q~aR~~~~~~~gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~f~~vvk~ipd~ 78 (78)
T PF12812_consen 1 AITPSRFVEVCGAVFHDLSYQQARQYGIPVGGVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDLDDFIKVVKKIPDN 78 (78)
T ss_pred CccCCEEEEEcCeecccCCHHHHHHhCCCCCEEEEEecCCChhhhCCCCCCeEEEeECCcCCcCHHHHHHHHHhCCCC
Confidence 6999999999999999999999999999999999999999999998 9999999999999999999999999999996
No 10
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=6.9e-19 Score=195.66 Aligned_cols=316 Identities=16% Similarity=0.158 Sum_probs=221.0
Q ss_pred hhhhhcCcEEEEEE--eecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCc----------eEEEEEcCCC
Q 004068 287 AESVIEPTLVMFEV--HVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISAS----------DVMLSFAAFP 354 (775)
Q Consensus 287 ~~~~l~~SvV~V~~--~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~----------~I~Vt~~d~~ 354 (775)
..++...++|.|+. .-....++.+.......|||+||+ .+|+++||.|++..... .|.|+.++ +
T Consensus 133 ~~~~cd~Avv~Ie~~~f~~~~~~~e~~~ip~l~~S~~Vv~---gd~i~VTnghV~~~~~~~y~~~~~~l~~vqi~aa~-~ 208 (473)
T KOG1320|consen 133 VFEECDLAVVYIESEEFWKGMNPFELGDIPSLNGSGFVVG---GDGIIVTNGHVVRVEPRIYAHSSTVLLRVQIDAAI-G 208 (473)
T ss_pred hhhcccceEEEEeeccccCCCcccccCCCcccCccEEEEc---CCcEEEEeeEEEEEEeccccCCCcceeeEEEEEee-c
Confidence 45566788888885 222112356666777899999999 79999999887654332 48888886 5
Q ss_pred --eEEeEEEEEEeCCCcEEEEEeCCC-CCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccc
Q 004068 355 --IEIPGEVVFLHPVHNFALIAYDPS-SLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALN 431 (775)
Q Consensus 355 --~~~~A~Vv~~dp~~DlAILk~d~~-~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~ 431 (775)
...++.+++.|+..|+|+++++.. .+ ...++++-+..++.|+++.++|+|+++..+.+.|++++..+...
T Consensus 209 ~~~s~ep~i~g~d~~~gvA~l~ik~~~~i-------~~~i~~~~~~~~~~G~~~~a~~~~f~~~nt~t~g~vs~~~R~~~ 281 (473)
T KOG1320|consen 209 PGNSGEPVIVGVDKVAGVAFLKIKTPENI-------LYVIPLGVSSHFRTGVEVSAIGNGFGLLNTLTQGMVSGQLRKSF 281 (473)
T ss_pred CCccCCCeEEccccccceEEEEEecCCcc-------cceeecceeeeecccceeeccccCceeeeeeeeccccccccccc
Confidence 899999999999999999999533 21 22377777777999999999999999999999999986431111
Q ss_pred cCCCCcccccccceEEEEEeeccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHc
Q 004068 432 ISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIIS 510 (775)
Q Consensus 432 ~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~ 510 (775)
.-. .+..-...+++|+|++++.++ ||||+|.+|++||+++.....-.+ ....+ |++|.+.++.++.+..+
T Consensus 282 --~lg-~~~g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~IgVn~~~~~ri~~----~~~iS--f~~p~d~vl~~v~r~~e 352 (473)
T KOG1320|consen 282 --KLG-LETGVLISKINQTDAAINPGNSGGPLLNLDGEVIGVNTRKVTRIGF----SHGIS--FKIPIDTVLVIVLRLGE 352 (473)
T ss_pred --ccC-cccceeeeeecccchhhhcccCCCcEEEecCcEeeeeeeeeEEeec----cccce--eccCchHhhhhhhhhhh
Confidence 101 112234568999999999998 999999999999988754332000 23444 58999999998888743
Q ss_pred CCCCCCccccccccCCCcceEEEEEEEEcChhhhh-hcCCChhHHhhhhhcCC-CccceEEEEEEcCCChHhhh-ccCCC
Q 004068 511 GASGPSLLINGVKRPMPLVRILEVELYPTLLSKAR-SFGLSDDWVQALVKKDP-VRRQVLRVKGCLAGSKAENM-LEQGD 587 (775)
Q Consensus 511 g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar-~lGls~~wi~~v~~~~~-~~~q~l~V~~V~~gSpA~~a-Lq~GD 587 (775)
....-+ .+++..|.-+|+|.....+.....- -++.+. .++ ...|+.++..|.+++++..+ +++||
T Consensus 353 ~~~~lr----~~~~~~p~~~~~g~~s~~i~~g~vf~~~~~~~--------~~~~~~~q~v~is~Vlp~~~~~~~~~~~g~ 420 (473)
T KOG1320|consen 353 FQISLR----PVKPLVPVHQYIGLPSYYIFAGLVFVPLTKSY--------IFPSGVVQLVLVSQVLPGSINGGYGLKPGD 420 (473)
T ss_pred hceeec----cccCcccccccCCceeEEEecceEEeecCCCc--------cccccceeEEEEEEeccCCCcccccccCCC
Confidence 211000 0111122233555544433221110 011111 111 22378889999999999986 99999
Q ss_pred EEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEec
Q 004068 588 MMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTD 638 (775)
Q Consensus 588 iILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~ 638 (775)
+|++|||++|.+..++..++.... +++++.+...|+.+..++.+...
T Consensus 421 ~V~~vng~~V~n~~~l~~~i~~~~----~~~~v~vl~~~~~e~~tl~Il~~ 467 (473)
T KOG1320|consen 421 QVVKVNGKPVKNLKHLYELIEECS----TEDKVAVLDRRSAEDATLEILPE 467 (473)
T ss_pred EEEEECCEEeechHHHHHHHHhcC----cCceEEEEEecCccceeEEeccc
Confidence 999999999999999999996654 24678888888888888877654
No 11
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.77 E-value=5.6e-18 Score=188.44 Aligned_cols=369 Identities=15% Similarity=0.106 Sum_probs=251.9
Q ss_pred ccceeEEEEEEEecCCceEEEEecceeccCCceEEEEE--cCCCeEEeEEEEEEeCCCcEEEEEeCCCCCCcccccceee
Q 004068 313 SQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSF--AAFPIEIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRA 390 (775)
Q Consensus 313 ~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~--~d~~~~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~ 390 (775)
.....|+||.+. ...++||+|.+........+++ ....+.+.|++...=..+|+|+|-++...++ ....+
T Consensus 84 q~~~~~s~f~i~----~~~lltn~~~v~~~~~~~~v~v~~~gs~~k~~~~v~~~~~~cd~Avv~Ie~~~f~----~~~~~ 155 (473)
T KOG1320|consen 84 QFSSGGSGFAIY----GKKLLTNAHVVAPNNDHKFVTVKKHGSPRKYKAFVAAVFEECDLAVVYIESEEFW----KGMNP 155 (473)
T ss_pred hhcccccchhhc----ccceeecCccccccccccccccccCCCchhhhhhHHHhhhcccceEEEEeecccc----CCCcc
Confidence 455679999999 6689999988875444444444 2225788999999989999999999987775 45567
Q ss_pred eeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccceEEEEEeeccCCCC-CceEEccCceE
Q 004068 391 AELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNMEVIELDTDFGSTF-SGVLTDEHGRV 469 (775)
Q Consensus 391 ~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~~-GGpL~d~~G~V 469 (775)
.++++.+ .-.+.++++| +....+++|.|+.+...... +.+..+-.||+|++.++++ |||.+...+++
T Consensus 156 ~e~~~ip--~l~~S~~Vv~---gd~i~VTnghV~~~~~~~y~-------~~~~~l~~vqi~aa~~~~~s~ep~i~g~d~~ 223 (473)
T KOG1320|consen 156 FELGDIP--SLNGSGFVVG---GDGIIVTNGHVVRVEPRIYA-------HSSTVLLRVQIDAAIGPGNSGEPVIVGVDKV 223 (473)
T ss_pred cccCCCc--ccCccEEEEc---CCcEEEEeeEEEEEEecccc-------CCCcceeeEEEEEeecCCccCCCeEEccccc
Confidence 8888877 6778999999 77889999999975322111 1124567899999999987 99999999999
Q ss_pred EEEeeeecccccccCCCCCCceeeeccccchhhhHHHHHHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhh-hcC
Q 004068 470 QAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDKIISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKAR-SFG 548 (775)
Q Consensus 470 vGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar-~lG 548 (775)
.|+.+-.... ...+.| .||...+..+.......+. .-.+..++...+.+...+.| .+.
T Consensus 224 ~gvA~l~ik~-------~~~i~~--~i~~~~~~~~~~G~~~~a~------------~~~f~~~nt~t~g~vs~~~R~~~~ 282 (473)
T KOG1320|consen 224 AGVAFLKIKT-------PENILY--VIPLGVSSHFRTGVEVSAI------------GNGFGLLNTLTQGMVSGQLRKSFK 282 (473)
T ss_pred cceEEEEEec-------CCcccc--eeecceeeeecccceeecc------------ccCceeeeeeeecccccccccccc
Confidence 9997644322 123455 4776666655444333221 11233555555544333332 233
Q ss_pred CChhHHhhhhhcCCCccceEEEEEEcCCChHhhhccCCCEEEEECCEEeCC----hh--hHHHHHHhcCCCCCCCCeEEE
Q 004068 549 LSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENMLEQGDMMLAINKQPVTC----FH--DIENACQALDKDGEDNGKLDI 622 (775)
Q Consensus 549 ls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~aLq~GDiILsVNGk~V~s----~~--dl~~~l~~~~~~~~~g~~v~l 622 (775)
+..+ .+..+.++.+.+.|-+.++.||.||++||..|.- .+ .+...+.... .++++.+
T Consensus 283 lg~~-------------~g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~IgVn~~~~~ri~~~~~iSf~~----p~d~vl~ 345 (473)
T KOG1320|consen 283 LGLE-------------TGVLISKINQTDAAINPGNSGGPLLNLDGEVIGVNTRKVTRIGFSHGISFKI----PIDTVLV 345 (473)
T ss_pred cCcc-------------cceeeeeecccchhhhcccCCCcEEEecCcEeeeeeeeeEEeeccccceecc----CchHhhh
Confidence 3332 2334889998888888899999999999999841 11 0111111111 2577888
Q ss_pred EEEecCeEEEEEEEeccc-----CCCCcceeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCE
Q 004068 623 TIFRQGREIELQVGTDVR-----DGNGTTRVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQW 697 (775)
Q Consensus 623 ~V~R~Gk~~~l~V~l~~~-----~~~~t~r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~ 697 (775)
.|.|.+ +..+....... ......-+..+.|+.++.+.....-... ..++|++++|.+|+||..|++++||.
T Consensus 346 ~v~r~~-e~~~~lr~~~~~~p~~~~~g~~s~~i~~g~vf~~~~~~~~~~~~---~~q~v~is~Vlp~~~~~~~~~~~g~~ 421 (473)
T KOG1320|consen 346 IVLRLG-EFQISLRPVKPLVPVHQYIGLPSYYIFAGLVFVPLTKSYIFPSG---VVQLVLVSQVLPGSINGGYGLKPGDQ 421 (473)
T ss_pred hhhhhh-hhceeeccccCcccccccCCceeEEEecceEEeecCCCcccccc---ceeEEEEEEeccCCCcccccccCCCE
Confidence 888987 33333332222 1123445678888888776532211111 12489999999999999999999999
Q ss_pred EEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeC
Q 004068 698 IVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQD 744 (775)
Q Consensus 698 I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d 744 (775)
|++|||++|.++.++.+.++...+++.+.++ ..|..+..++++.+.
T Consensus 422 V~~vng~~V~n~~~l~~~i~~~~~~~~v~vl-~~~~~e~~tl~Il~~ 467 (473)
T KOG1320|consen 422 VVKVNGKPVKNLKHLYELIEECSTEDKVAVL-DRRSAEDATLEILPE 467 (473)
T ss_pred EEEECCEEeechHHHHHHHHhcCcCceEEEE-EecCccceeEEeccc
Confidence 9999999999999999999997767778777 567777777777654
No 12
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.75 E-value=2.7e-17 Score=187.38 Aligned_cols=156 Identities=19% Similarity=0.220 Sum_probs=126.0
Q ss_pred EEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCC---c
Q 004068 570 VKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNG---T 645 (775)
Q Consensus 570 V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~---t 645 (775)
|..|.++|||+++ ||+||+|++|||++|.+|+++...+....+ ++++.++|.|+|+.+++++++...+... .
T Consensus 130 V~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~~~l~~~v~~~~~----g~~v~v~v~R~gk~~~~~v~l~~~~~~~~~~~ 205 (449)
T PRK10779 130 VGEIAPNSIAAQAQIAPGTELKAVDGIETPDWDAVRLALVSKIG----DESTTITVAPFGSDQRRDKTLDLRHWAFEPDK 205 (449)
T ss_pred ccccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhhcc----CCceEEEEEeCCccceEEEEecccccccCccc
Confidence 8999999999996 999999999999999999999988865543 6789999999999988888875432110 0
Q ss_pred ceeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEE
Q 004068 646 TRVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFV 725 (775)
Q Consensus 646 ~r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V 725 (775)
.......|+....+ ..+++|+.|.++|||+++||++||.|++|||+++.+|+++.+.++. .+++.+
T Consensus 206 ~~~~~~lGl~~~~~-------------~~~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~~dl~~~l~~-~~~~~v 271 (449)
T PRK10779 206 QDPVSSLGIRPRGP-------------QIEPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVRD-NPGKPL 271 (449)
T ss_pred cchhhcccccccCC-------------CcCcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHh-CCCCEE
Confidence 01111223211111 1257999999999999999999999999999999999999999988 567889
Q ss_pred EEEEEEeCCeEEEEEEEeC
Q 004068 726 RVRTVHLNGKPRVLTLKQD 744 (775)
Q Consensus 726 ~L~~V~Rdg~~~~ltlk~d 744 (775)
.++ +.|+|+..+++++++
T Consensus 272 ~l~-v~R~g~~~~~~v~~~ 289 (449)
T PRK10779 272 ALE-IERQGSPLSLTLTPD 289 (449)
T ss_pred EEE-EEECCEEEEEEEEee
Confidence 998 789999999988875
No 13
>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=99.64 E-value=4.4e-15 Score=167.88 Aligned_cols=142 Identities=22% Similarity=0.341 Sum_probs=118.5
Q ss_pred EEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCcc
Q 004068 568 LRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTT 646 (775)
Q Consensus 568 l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~ 646 (775)
.+|.+|.++|||+++ |++||+|+++||+++.++.++...+.... +++.+++.|+++...+.+.+.
T Consensus 130 ~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~~dl~~~ia~~~------~~v~~~I~r~g~~~~l~v~l~-------- 195 (420)
T TIGR00054 130 PVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDVRQQIADIA------GEPMVEILAERENWTFEVMKE-------- 195 (420)
T ss_pred ceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhhc------ccceEEEEEecCceEeccccc--------
Confidence 348999999999996 99999999999999999999998875432 568899999888766544321
Q ss_pred eeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEE
Q 004068 647 RVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVR 726 (775)
Q Consensus 647 r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~ 726 (775)
+....| ..+++|..|.++|||+++||++||+|++|||+++.+|+++.+.+++ .+++.+.
T Consensus 196 -------~~~~~~-------------~~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~dl~~~l~~-~~~~~v~ 254 (420)
T TIGR00054 196 -------LIPRGP-------------KIEPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVKE-NPGKSMD 254 (420)
T ss_pred -------ceecCC-------------CcCcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHh-CCCCceE
Confidence 111111 1267999999999999999999999999999999999999999998 4578899
Q ss_pred EEEEEeCCeEEEEEEEeCC
Q 004068 727 VRTVHLNGKPRVLTLKQDL 745 (775)
Q Consensus 727 L~~V~Rdg~~~~ltlk~d~ 745 (775)
++ +.|+|+..+++++++.
T Consensus 255 l~-v~R~g~~~~~~v~~~~ 272 (420)
T TIGR00054 255 IK-VERNGETLSISLTPEA 272 (420)
T ss_pred EE-EEECCEEEEEEEEEcC
Confidence 98 7899999999999864
No 14
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=99.26 E-value=5.1e-11 Score=104.03 Aligned_cols=69 Identities=29% Similarity=0.377 Sum_probs=64.1
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEe
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQ 743 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~ 743 (775)
.|++|.+|.++|||+++||++||.|++|||+++.++.+|.+.+...+.|+.++|+ +.|+|+...++++.
T Consensus 14 ~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~-v~R~g~~~~~~v~l 82 (82)
T PF13180_consen 14 GGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLT-VLRDGEELTVEVTL 82 (82)
T ss_dssp SSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEE-EEETTEEEEEEEE-
T ss_pred CeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEE-EEECCEEEEEEEEC
Confidence 4999999999999999999999999999999999999999999888899999999 79999999998873
No 15
>PF12812 PDZ_1: PDZ-like domain
Probab=99.16 E-value=1.4e-10 Score=100.34 Aligned_cols=76 Identities=30% Similarity=0.484 Sum_probs=66.7
Q ss_pred CCcceeeeeeeeeecC-ChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCC
Q 004068 643 NGTTRVINWCGCIVQD-PHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEH 721 (775)
Q Consensus 643 ~~t~r~v~~~G~~lq~-p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~ 721 (775)
.+++|++.|+|+.+++ +++.+|++. ++. ++++.++..|+++.++|+..|-+|++|||+||+|+++|+++++++||
T Consensus 2 itp~r~v~~~Ga~f~~Ls~q~aR~~~-~~~---~gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~f~~vvk~ipd 77 (78)
T PF12812_consen 2 ITPSRFVEVCGAVFHDLSYQQARQYG-IPV---GGVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDLDDFIKVVKKIPD 77 (78)
T ss_pred ccCCEEEEEcCeecccCCHHHHHHhC-CCC---CEEEEEecCCChhhhCCCCCCeEEEeECCcCCcCHHHHHHHHHhCCC
Confidence 3578999999999999 777777776 444 56666779999999999999999999999999999999999999987
Q ss_pred C
Q 004068 722 G 722 (775)
Q Consensus 722 g 722 (775)
+
T Consensus 78 ~ 78 (78)
T PF12812_consen 78 N 78 (78)
T ss_pred C
Confidence 5
No 16
>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=99.12 E-value=4e-10 Score=103.86 Aligned_cols=55 Identities=31% Similarity=0.512 Sum_probs=47.6
Q ss_pred EEEEEEEecCCceEEEEecceecc-------CCceEEEEEcCCCeEEe--EEEEEEeCC-CcEEEEEeC
Q 004068 318 GTGVIIYHSQSMGLVVVDKNTVAI-------SASDVMLSFAAFPIEIP--GEVVFLHPV-HNFALIAYD 376 (775)
Q Consensus 318 GSGvVId~~~~~GlVLTnr~~V~~-------~~~~I~Vt~~d~~~~~~--A~Vv~~dp~-~DlAILk~d 376 (775)
||||+|+ ++|+|||++|++.. ....+.+.+.+ +...+ |++++.|+. .|+|||+++
T Consensus 1 GTGf~i~---~~g~ilT~~Hvv~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~D~All~v~ 65 (120)
T PF13365_consen 1 GTGFLIG---PDGYILTAAHVVEDWNDGKQPDNSSVEVVFPD-GRRVPPVAEVVYFDPDDYDLALLKVD 65 (120)
T ss_dssp EEEEEEE---TTTEEEEEHHHHTCCTT--G-TCSEEEEEETT-SCEEETEEEEEEEETT-TTEEEEEES
T ss_pred CEEEEEc---CCceEEEchhheecccccccCCCCEEEEEecC-CCEEeeeEEEEEECCccccEEEEEEe
Confidence 8999999 56799999887764 45678888887 77788 999999999 999999998
No 17
>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=99.09 E-value=7.9e-10 Score=96.51 Aligned_cols=68 Identities=29% Similarity=0.469 Sum_probs=60.0
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEe
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGT 637 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l 637 (775)
.+++|..|.++|||+++ |+.||+|++|||++|+++.++...+.... .++++.++|.|+|+.++++|++
T Consensus 14 ~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~----~g~~v~l~v~R~g~~~~~~v~l 82 (82)
T PF13180_consen 14 GGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDLVNILSKGK----PGDTVTLTVLRDGEELTVEVTL 82 (82)
T ss_dssp SSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSS----TTSEEEEEEEETTEEEEEEEE-
T ss_pred CeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCC----CCCEEEEEEEECCEEEEEEEEC
Confidence 56779999999999996 99999999999999999999999986554 4899999999999999998874
No 18
>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=99.08 E-value=1.2e-09 Score=96.26 Aligned_cols=88 Identities=31% Similarity=0.404 Sum_probs=74.6
Q ss_pred eeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEE
Q 004068 651 WCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTV 730 (775)
Q Consensus 651 ~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V 730 (775)
|+|+.++.++...+....++ ...|++|..+.++|||+++||++||+|++|||+++.++.++.+.+.....++.+.+. +
T Consensus 2 ~~G~~~~~~~~~~~~~~~~~-~~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~-v 79 (90)
T cd00987 2 WLGVTVQDLTPDLAEELGLK-DTKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLT-V 79 (90)
T ss_pred ccceEEeECCHHHHHHcCCC-CCCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEE-E
Confidence 78999999887766632222 245999999999999999999999999999999999999999999886668899999 5
Q ss_pred EeCCeEEEEE
Q 004068 731 HLNGKPRVLT 740 (775)
Q Consensus 731 ~Rdg~~~~lt 740 (775)
.|+|+...++
T Consensus 80 ~r~g~~~~~~ 89 (90)
T cd00987 80 LRGGKELTVT 89 (90)
T ss_pred EECCEEEEee
Confidence 7999876654
No 19
>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=99.00 E-value=3.6e-09 Score=91.84 Aligned_cols=68 Identities=26% Similarity=0.268 Sum_probs=62.2
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLK 742 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk 742 (775)
.|++|..|.++|||+++||++||.|++|||+++.+|++|.+.+.....|+.+.+. +.|+|+...++++
T Consensus 10 ~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~-v~r~g~~~~~~~~ 77 (79)
T cd00991 10 AGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVT-VLPSTTKLTNVST 77 (79)
T ss_pred CcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEE-EEECCEEEEEEEE
Confidence 4999999999999999999999999999999999999999999986568899998 6799998887765
No 20
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.88 E-value=1.6e-08 Score=87.52 Aligned_cols=69 Identities=26% Similarity=0.398 Sum_probs=62.5
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeC
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQD 744 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d 744 (775)
.|++|..|.++|||++ ||++||.|++|||+++.+++++.+.+...+.|+.+.|. +.|+|+...+++++.
T Consensus 8 ~Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~-v~r~g~~~~~~v~l~ 76 (79)
T cd00986 8 HGVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLK-VKREEKELPEDLILK 76 (79)
T ss_pred cCEEEEEECCCCchhh-CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEE-EEECCEEEEEEEEEe
Confidence 4899999999999997 89999999999999999999999999876678899999 689999988888764
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=98.87 E-value=2.2e-08 Score=86.20 Aligned_cols=66 Identities=30% Similarity=0.418 Sum_probs=59.3
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEE
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLK 742 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk 742 (775)
.+.|..+.++|||+++||++||.|++|||+++.+++++.+.++.. .++.+.+. +.|+|+...++++
T Consensus 13 ~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~~-~~~~~~l~-v~r~~~~~~~~l~ 78 (79)
T cd00989 13 EPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQEN-PGKPLTLT-VERNGETITLTLT 78 (79)
T ss_pred CcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHHC-CCceEEEE-EEECCEEEEEEec
Confidence 468999999999999999999999999999999999999999884 47788998 6889988877775
No 22
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.83 E-value=3.7e-08 Score=86.75 Aligned_cols=87 Identities=30% Similarity=0.462 Sum_probs=69.8
Q ss_pred EEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHh
Q 004068 531 ILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQA 609 (775)
Q Consensus 531 ~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~ 609 (775)
|+|+.++.+.......++++. ..+++|..|.++|||+++ |++||+|++|||+++.++.++...+..
T Consensus 2 ~~G~~~~~~~~~~~~~~~~~~-------------~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~ 68 (90)
T cd00987 2 WLGVTVQDLTPDLAEELGLKD-------------TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVADLRRALAE 68 (90)
T ss_pred ccceEEeECCHHHHHHcCCCC-------------CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHHHHHHHHh
Confidence 789999988765444444332 256789999999999985 999999999999999999999988865
Q ss_pred cCCCCCCCCeEEEEEEecCeEEEEE
Q 004068 610 LDKDGEDNGKLDITIFRQGREIELQ 634 (775)
Q Consensus 610 ~~~~~~~g~~v~l~V~R~Gk~~~l~ 634 (775)
.. .++.+.+++.|+|+...+.
T Consensus 69 ~~----~~~~i~l~v~r~g~~~~~~ 89 (90)
T cd00987 69 LK----PGDKVTLTVLRGGKELTVT 89 (90)
T ss_pred cC----CCCEEEEEEEECCEEEEee
Confidence 43 2678999999999876654
No 23
>PRK10139 serine endoprotease; Provisional
Probab=98.82 E-value=2.8e-08 Score=113.65 Aligned_cols=95 Identities=20% Similarity=0.192 Sum_probs=81.8
Q ss_pred eeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEE
Q 004068 649 INWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 649 v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~ 728 (775)
..|+|+.++......++...++. ..|++|..|.++|||+++||++||.|++|||+++.+|++|.+.+.....|+.+.|+
T Consensus 266 r~~LGv~~~~l~~~~~~~lgl~~-~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~~~~g~~v~l~ 344 (455)
T PRK10139 266 RGLLGIKGTEMSADIAKAFNLDV-QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAELRSRIATTEPGTKVKLG 344 (455)
T ss_pred ccceeEEEEECCHHHHHhcCCCC-CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEE
Confidence 46899999988877776322332 35999999999999999999999999999999999999999999886778899999
Q ss_pred EEEeCCeEEEEEEEeCC
Q 004068 729 TVHLNGKPRVLTLKQDL 745 (775)
Q Consensus 729 ~V~Rdg~~~~ltlk~d~ 745 (775)
+.|+|+..+++++++.
T Consensus 345 -V~R~G~~~~l~v~~~~ 360 (455)
T PRK10139 345 -LLRNGKPLEVEVTLDT 360 (455)
T ss_pred -EEECCEEEEEEEEECC
Confidence 6899999999988754
No 24
>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=98.82 E-value=3e-08 Score=85.77 Aligned_cols=71 Identities=15% Similarity=0.277 Sum_probs=61.7
Q ss_pred ceEEEEEEcCCChHhhhccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEeccc
Q 004068 566 QVLRVKGCLAGSKAENMLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVR 640 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~ 640 (775)
.+++|..|.++|||+.+|++||+|++|||+++.+|+++..++.... .++.+.+++.|+|+.+++++++...
T Consensus 8 ~Gv~V~~V~~~s~A~~gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~----~~~~v~l~v~r~g~~~~~~v~l~~~ 78 (79)
T cd00986 8 HGVYVTSVVEGMPAAGKLKAGDHIIAVDGKPFKEAEELIDYIQSKK----EGDTVKLKVKREEKELPEDLILKTF 78 (79)
T ss_pred cCEEEEEECCCCchhhCCCCCCEEEEECCEECCCHHHHHHHHHhCC----CCCEEEEEEEECCEEEEEEEEEecc
Confidence 4567999999999988899999999999999999999998886433 2678999999999999999887653
No 25
>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=98.79 E-value=3.9e-08 Score=109.13 Aligned_cols=94 Identities=23% Similarity=0.259 Sum_probs=78.9
Q ss_pred eeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEE
Q 004068 650 NWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 650 ~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~ 729 (775)
.|+|+.++......++...++. ..|++|..|.++|||+++||++||.|++|||+++.++++|.+.++..+.|+.+.|+
T Consensus 255 ~~lGv~~~~~~~~~~~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~dl~~~l~~~~~g~~v~l~- 332 (351)
T TIGR02038 255 GYIGVSGEDINSVVAQGLGLPD-LRGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEELMDRIAETRPGSKVMVT- 332 (351)
T ss_pred eEeeeEEEECCHHHHHhcCCCc-cccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEE-
Confidence 4677777766555555323442 35999999999999999999999999999999999999999999987778999999
Q ss_pred EEeCCeEEEEEEEeCC
Q 004068 730 VHLNGKPRVLTLKQDL 745 (775)
Q Consensus 730 V~Rdg~~~~ltlk~d~ 745 (775)
+.|+|+...+++++.+
T Consensus 333 v~R~g~~~~~~v~l~~ 348 (351)
T TIGR02038 333 VLRQGKQLELPVTIDE 348 (351)
T ss_pred EEECCEEEEEEEEecC
Confidence 6899999999888764
No 26
>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=98.76 E-value=5.8e-08 Score=84.26 Aligned_cols=68 Identities=24% Similarity=0.382 Sum_probs=58.5
Q ss_pred cceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEE
Q 004068 565 RQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVG 636 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~ 636 (775)
.++++|.+|.++|||+++ |++||+|++|||+++.+|.++...+.... .++.+.+++.|+|+.+++++.
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~----~g~~v~l~v~r~g~~~~~~~~ 77 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALKPTK----PGEVITVTVLPSTTKLTNVST 77 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCC----CCCEEEEEEEECCEEEEEEEE
Confidence 356779999999999985 99999999999999999999998886443 267899999999998877654
No 27
>PRK10942 serine endoprotease; Provisional
Probab=98.75 E-value=6.6e-08 Score=111.18 Aligned_cols=94 Identities=16% Similarity=0.205 Sum_probs=80.2
Q ss_pred eeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEE
Q 004068 650 NWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 650 ~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~ 729 (775)
.|+|+.++......++...++. ..|++|..|.++|||+++||++||+|++|||+++.++++|.+.+.....|+.++|.
T Consensus 288 g~lGv~~~~l~~~~a~~~~l~~-~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~~~~g~~v~l~- 365 (473)
T PRK10942 288 GELGIMGTELNSELAKAMKVDA-QRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFAALRAQVGTMPVGSKLTLG- 365 (473)
T ss_pred ceeeeEeeecCHHHHHhcCCCC-CCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEE-
Confidence 4778888877776665333432 45999999999999999999999999999999999999999999987789999999
Q ss_pred EEeCCeEEEEEEEeCC
Q 004068 730 VHLNGKPRVLTLKQDL 745 (775)
Q Consensus 730 V~Rdg~~~~ltlk~d~ 745 (775)
+.|+|+.+.++++...
T Consensus 366 v~R~G~~~~v~v~l~~ 381 (473)
T PRK10942 366 LLRDGKPVNVNVELQQ 381 (473)
T ss_pred EEECCeEEEEEEEeCc
Confidence 6799999999888654
No 28
>PRK10898 serine endoprotease; Provisional
Probab=98.74 E-value=7.5e-08 Score=106.84 Aligned_cols=94 Identities=18% Similarity=0.208 Sum_probs=76.5
Q ss_pred eeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEE
Q 004068 650 NWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 650 ~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~ 729 (775)
.|+|+..+.......+...++. ..|++|..|.++|||+++||++||+|++|||+++.++++|.+.+...+.|+.+.|+
T Consensus 256 ~~lGi~~~~~~~~~~~~~~~~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~l~~~l~~~~~g~~v~l~- 333 (353)
T PRK10898 256 GYIGIGGREIAPLHAQGGGIDQ-LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALETMDQVAEIRPGSVIPVV- 333 (353)
T ss_pred cccceEEEECCHHHHHhcCCCC-CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEE-
Confidence 4677777665433333222221 25999999999999999999999999999999999999999999887789999999
Q ss_pred EEeCCeEEEEEEEeCC
Q 004068 730 VHLNGKPRVLTLKQDL 745 (775)
Q Consensus 730 V~Rdg~~~~ltlk~d~ 745 (775)
+.|+|+.+.+++++.+
T Consensus 334 v~R~g~~~~~~v~l~~ 349 (353)
T PRK10898 334 VMRDDKQLTLQVTIQE 349 (353)
T ss_pred EEECCEEEEEEEEecc
Confidence 6899999999888753
No 29
>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=98.72 E-value=7.4e-08 Score=84.13 Aligned_cols=69 Identities=30% Similarity=0.468 Sum_probs=61.4
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeC-CeEEEEEEEeC
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLN-GKPRVLTLKQD 744 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rd-g~~~~ltlk~d 744 (775)
.+++|..+.++|||+++||++||.|++|||+++.++ +++.+.++. ..++.+.|. +.|+ |+.+.+++++.
T Consensus 13 ~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~-~~~~~i~l~-v~r~~~~~~~~~~~~~ 84 (85)
T cd00988 13 GGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRG-KAGTKVRLT-LKRGDGEPREVTLTRL 84 (85)
T ss_pred CeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCEEEEE-EEcCCCCEEEEEEEEC
Confidence 378999999999999999999999999999999999 999998877 458889998 5777 88888888753
No 30
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=98.72 E-value=7.5e-08 Score=109.68 Aligned_cols=94 Identities=23% Similarity=0.352 Sum_probs=82.2
Q ss_pred eeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEE
Q 004068 649 INWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 649 v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~ 728 (775)
..|+|+.++......++...++. ..|++|..|.++|||+++||++||.|++|||+++.++.+|.+.+...+.|+.++|+
T Consensus 233 ~~~lGi~~~~~~~~~~~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~~~~~~~l~~~~~g~~v~l~ 311 (428)
T TIGR02037 233 RGWLGVTIQEVTSDLAKSLGLEK-QRGALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSFADLRRAIGTLKPGKKVTLG 311 (428)
T ss_pred CCcCceEeecCCHHHHHHcCCCC-CCceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEE
Confidence 57899999998877766333432 35999999999999999999999999999999999999999999987789999999
Q ss_pred EEEeCCeEEEEEEEeC
Q 004068 729 TVHLNGKPRVLTLKQD 744 (775)
Q Consensus 729 ~V~Rdg~~~~ltlk~d 744 (775)
+.|+|+...+++++.
T Consensus 312 -v~R~g~~~~~~v~l~ 326 (428)
T TIGR02037 312 -ILRKGKEKTITVTLG 326 (428)
T ss_pred -EEECCEEEEEEEEEC
Confidence 689999999888865
No 31
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.71 E-value=1.1e-07 Score=82.19 Aligned_cols=66 Identities=26% Similarity=0.224 Sum_probs=56.6
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeC
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQD 744 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d 744 (775)
+++|..|.++|||+++||++||.|++|||+++.++.++ ++....++.+.+. +.|+|+...+++++.
T Consensus 13 ~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~~---l~~~~~~~~v~l~-v~r~g~~~~~~v~~~ 78 (80)
T cd00990 13 LGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQDR---LKEYQAGDPVELT-VFRDDRLIEVPLTLA 78 (80)
T ss_pred cEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHHH---HHhcCCCCEEEEE-EEECCEEEEEEEEec
Confidence 79999999999999999999999999999999986554 4444457889998 689999988888764
No 32
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=98.67 E-value=8.2e-08 Score=107.13 Aligned_cols=56 Identities=30% Similarity=0.366 Sum_probs=52.0
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~ 729 (775)
-|++|+.|..||||++-||+.||.|+.||.++..++ ++.+..+-.+|+|..|+|..
T Consensus 429 VGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtila 486 (1027)
T KOG3580|consen 429 VGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILA 486 (1027)
T ss_pred eeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehh
Confidence 589999999999999999999999999999999998 78888888899999999864
No 33
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=98.54 E-value=3.8e-07 Score=96.85 Aligned_cols=68 Identities=16% Similarity=0.145 Sum_probs=63.9
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLK 742 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk 742 (775)
.|+.|..+.++|||+++||++||.|++|||+++.+++++.+++.+...++.++|. +.|+|++..+++.
T Consensus 191 ~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~~~~~~~l~~~~~~~~v~l~-V~R~G~~~~i~v~ 258 (259)
T TIGR01713 191 EGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDPEQAFQALQMLREETNLTLT-VERDGQREDIYVR 258 (259)
T ss_pred eEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCeEEEE-EEECCEEEEEEEE
Confidence 4999999999999999999999999999999999999999999998888899999 7899999888775
No 34
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.53 E-value=3.6e-07 Score=104.13 Aligned_cols=148 Identities=22% Similarity=0.315 Sum_probs=94.0
Q ss_pred ceEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhh--HHHHHHhcCCCCCCCCeEEEEEEecCeEEE-EEEEeccc
Q 004068 566 QVLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHD--IENACQALDKDGEDNGKLDITIFRQGREIE-LQVGTDVR 640 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~d--l~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~-l~V~l~~~ 640 (775)
+-++|..|.+.+.|+. + |++||.|+.|||.+|..-+. +..++.... .++.+.|+|.|.-..-. -.-+....
T Consensus 674 qpi~iG~Iv~lGaAe~DGRL~~gDElv~iDG~pV~GksH~~vv~Lm~~AA----rnghV~LtVRRkv~~~~~~rsp~~s~ 749 (984)
T KOG3209|consen 674 QPIYIGAIVPLGAAEEDGRLREGDELVCIDGIPVEGKSHSEVVDLMEAAA----RNGHVNLTVRRKVRTGPARRSPRNSA 749 (984)
T ss_pred CeeEEeeeeecccccccCcccCCCeEEEecCeeccCccHHHHHHHHHHHH----hcCceEEEEeeeeeeccccCCccccc
Confidence 5567889999999987 6 99999999999999976443 333333222 25679999987311000 00000000
Q ss_pred CCCCcceee------eeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HH
Q 004068 641 DGNGTTRVI------NWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EA 711 (775)
Q Consensus 641 ~~~~t~r~v------~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~ 711 (775)
....+-+++ .-+|+++-.-. .+- +.-|.++.+||||++.| |+.||+|++|||+.|-++ .+
T Consensus 750 ~~~~~yDV~lhR~ENeGFGFVi~sS~------~kp-----~sgiGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHad 818 (984)
T KOG3209|consen 750 APSGPYDVVLHRKENEGFGFVIMSSQ------NKP-----ESGIGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHAD 818 (984)
T ss_pred CCCCCeeeEEecccCCceeEEEEecc------cCC-----CCCccccccCChhHhhccccccceEEEecCeeeeccCchh
Confidence 000011111 11343332110 111 22388999999999987 899999999999999887 57
Q ss_pred HHHHHHhcCCCCEEEEEEE
Q 004068 712 FVNVTKEIEHGEFVRVRTV 730 (775)
Q Consensus 712 f~~~v~~i~~g~~V~L~~V 730 (775)
.++.|+. .|-.|+|+++
T Consensus 819 iv~LIKd--aGlsVtLtIi 835 (984)
T KOG3209|consen 819 IVSLIKD--AGLSVTLTII 835 (984)
T ss_pred HHHHHHh--cCceEEEEEc
Confidence 7888886 5888999853
No 35
>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=98.49 E-value=8.1e-07 Score=76.35 Aligned_cols=63 Identities=32% Similarity=0.471 Sum_probs=53.9
Q ss_pred EEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEE
Q 004068 569 RVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVG 636 (775)
Q Consensus 569 ~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~ 636 (775)
+|..|.++|+|+++ |++||+|++|||+++.++.++...+.... ++.+.+++.|+|+...+.+.
T Consensus 15 ~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~~~-----~~~~~l~v~r~~~~~~~~l~ 78 (79)
T cd00989 15 VIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQENP-----GKPLTLTVERNGETITLTLT 78 (79)
T ss_pred EEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHHCC-----CceEEEEEEECCEEEEEEec
Confidence 48999999999985 99999999999999999999998885432 56799999999987776653
No 36
>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=98.47 E-value=5.9e-07 Score=75.43 Aligned_cols=54 Identities=35% Similarity=0.433 Sum_probs=50.3
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEE
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~ 729 (775)
+++|..+.++|||+++||++||.|++|||+++.++ +++.+.++... |+.++|++
T Consensus 14 ~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~-g~~v~l~v 69 (70)
T cd00136 14 GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEV-GEKVTLTV 69 (70)
T ss_pred CEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCC-CCeEEEEE
Confidence 88999999999999999999999999999999999 99999999854 88898873
No 37
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=98.46 E-value=1.5e-06 Score=92.34 Aligned_cols=100 Identities=16% Similarity=0.151 Sum_probs=78.7
Q ss_pred chhhhHHHHHHcCCCCCCccccccccCCCcceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCCh
Q 004068 499 YTISRVLDKIISGASGPSLLINGVKRPMPLVRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSK 578 (775)
Q Consensus 499 ~~i~~vl~~l~~g~~~~~~~~~~v~r~~p~~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSp 578 (775)
..+++++++|.+.++ +.+. |+|+...... ....|++|..+.++++
T Consensus 159 ~~~~~v~~~l~~~g~--------~~~~-----~lgi~p~~~~----------------------g~~~G~~v~~v~~~s~ 203 (259)
T TIGR01713 159 VVSRRIIEELTKDPQ--------KMFD-----YIRLSPVMKN----------------------DKLEGYRLNPGKDPSL 203 (259)
T ss_pred hhHHHHHHHHHHCHH--------hhhh-----eEeEEEEEeC----------------------CceeEEEEEecCCCCH
Confidence 456778888887642 2233 8888753321 1236788999999999
Q ss_pred Hhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEe
Q 004068 579 AENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGT 637 (775)
Q Consensus 579 A~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l 637 (775)
|+++ ||+||+|++|||+++++++++..++..+.+ ++.+.++|.|+|+.+++.+.+
T Consensus 204 a~~aGLr~GDvIv~ING~~i~~~~~~~~~l~~~~~----~~~v~l~V~R~G~~~~i~v~~ 259 (259)
T TIGR01713 204 FYKSGLQDGDIAVALNGLDLRDPEQAFQALQMLRE----ETNLTLTVERDGQREDIYVRF 259 (259)
T ss_pred HHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCC----CCeEEEEEEECCEEEEEEEEC
Confidence 9995 999999999999999999999999876653 678999999999998887753
No 38
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.44 E-value=6.9e-07 Score=101.92 Aligned_cols=152 Identities=21% Similarity=0.289 Sum_probs=86.5
Q ss_pred EEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccC--C---
Q 004068 570 VKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRD--G--- 642 (775)
Q Consensus 570 V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~--~--- 642 (775)
|.+|.+||||+. + |+.||.|++|||+.|.+...-+.. ..++. .|-+++|+|.-..+.-....-+.... .
T Consensus 782 iGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv-~LIKd---aGlsVtLtIip~ee~~~~~~~~sa~~~s~~t~ 857 (984)
T KOG3209|consen 782 IGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIV-SLIKD---AGLSVTLTIIPPEEAGPPTSMTSAEKQSPFTQ 857 (984)
T ss_pred ccccccCChhHhhccccccceEEEecCeeeeccCchhHH-HHHHh---cCceEEEEEcChhccCCCCCCcchhhcCcccc
Confidence 567889999998 5 999999999999999987654432 22232 47788888864322111100000000 0
Q ss_pred ---------CCcce--e-------eeeeeeee------------cCChhhHhhhCC-C---CCCCCceEEEEEcCCCHHh
Q 004068 643 ---------NGTTR--V-------INWCGCIV------------QDPHPAVRALGF-L---PEEGHGVYVARWCHGSPVH 688 (775)
Q Consensus 643 ---------~~t~r--~-------v~~~G~~l------------q~p~~~vrql~~-l---ps~~~gV~Vs~V~~GSPA~ 688 (775)
....+ + ..+-|..+ -++.+..+.+++ + ....-++||-++..++||.
T Consensus 858 ~~~~~q~~glp~~~~s~~~~~pqpdt~~~~~~~~r~~qn~~~~~VelErG~kGFGFSiRGGreynM~LfVLRlAeDGPA~ 937 (984)
T KOG3209|consen 858 NGPYEQQYGLPGPRPSVYEEHPQPDTFQGLSINDRMSQNGDLYTVELERGAKGFGFSIRGGREYNMDLFVLRLAEDGPAI 937 (984)
T ss_pred cCCHhHccCCCCCCccccccCCCCccccceeccccccccCCeeEEEeeccccccceEeecccccccceEEEEeccCCCcc
Confidence 00000 0 00000000 000000000000 0 0012478999999999999
Q ss_pred HcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEE
Q 004068 689 RYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 689 ~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~ 728 (775)
+-| ++.||.|++|||++++++ +..+++|++ |....++
T Consensus 938 rdGrm~VGDqi~eINGesTkgmtH~rAIelIk~---gg~~vll 977 (984)
T KOG3209|consen 938 RDGRMRVGDQITEINGESTKGMTHDRAIELIKQ---GGRRVLL 977 (984)
T ss_pred ccCceeecceEEEecCcccCCCcHHHHHHHHHh---CCeEEEE
Confidence 988 899999999999999988 344555554 5544443
No 39
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.34 E-value=1.1e-06 Score=100.92 Aligned_cols=72 Identities=18% Similarity=0.129 Sum_probs=64.0
Q ss_pred eEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCCC
Q 004068 676 VYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHYW 748 (775)
Q Consensus 676 V~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y~ 748 (775)
.+|+.|.++|||++|||++||+|++|||+++++++++...+.....++.++++ +.|+|+..+++++....-|
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~~~l~~~v~~~~~g~~v~v~-v~R~gk~~~~~v~l~~~~~ 199 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDWDAVRLALVSKIGDESTTIT-VAPFGSDQRRDKTLDLRHW 199 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhhccCCceEEE-EEeCCccceEEEEeccccc
Confidence 37999999999999999999999999999999999999999887788899999 6899998888777754433
No 40
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.32 E-value=2.8e-06 Score=73.32 Aligned_cols=65 Identities=25% Similarity=0.344 Sum_probs=52.8
Q ss_pred eEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEec
Q 004068 567 VLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTD 638 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~ 638 (775)
++.|..|.++|+|+++ |++||+|++|||+++.+|.++... .. .++.+.+++.|+|+...+.+.+.
T Consensus 13 ~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~~l~~---~~----~~~~v~l~v~r~g~~~~~~v~~~ 78 (80)
T cd00990 13 LGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQDRLKE---YQ----AGDPVELTVFRDDRLIEVPLTLA 78 (80)
T ss_pred cEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHHHHHh---cC----CCCEEEEEEEECCEEEEEEEEec
Confidence 3569999999999985 999999999999999987654332 22 25789999999999888877653
No 41
>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=98.31 E-value=3.4e-06 Score=73.61 Aligned_cols=66 Identities=26% Similarity=0.431 Sum_probs=54.9
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCCh--hhHHHHHHhcCCCCCCCCeEEEEEEec-CeEEEEEEE
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCF--HDIENACQALDKDGEDNGKLDITIFRQ-GREIELQVG 636 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~--~dl~~~l~~~~~~~~~g~~v~l~V~R~-Gk~~~l~V~ 636 (775)
..++|..|.++|||+++ |++||+|++|||+++.+| .++..++... .++.+.+++.|+ |+..++.+.
T Consensus 13 ~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~-----~~~~i~l~v~r~~~~~~~~~~~ 82 (85)
T cd00988 13 GGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGK-----AGTKVRLTLKRGDGEPREVTLT 82 (85)
T ss_pred CeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCC-----CCCEEEEEEEcCCCCEEEEEEE
Confidence 34569999999999985 999999999999999999 8887776332 267899999998 888777765
No 42
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=98.18 E-value=9.3e-06 Score=91.47 Aligned_cols=76 Identities=21% Similarity=0.273 Sum_probs=64.2
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCCCCcee
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHYWPTWE 752 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y~pt~e 752 (775)
+++|..|.++|||+++||++||+|++|||+++.++ .++...++. +.|+.+.|+ +.|+|..+.++|+...-..|++.
T Consensus 103 g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g-~~g~~v~lt-v~r~g~~~~~~l~r~~v~~~~v~ 180 (389)
T PLN00049 103 GLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQG-PEGSSVELT-LRRGPETRLVTLTREKVSLNPVK 180 (389)
T ss_pred cEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhc-CCCCEEEEE-EEECCEEEEEEEEeeeEecccee
Confidence 78999999999999999999999999999999864 677777765 568899999 68999999888877655455544
No 43
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=98.16 E-value=4.3e-06 Score=93.59 Aligned_cols=73 Identities=22% Similarity=0.292 Sum_probs=59.4
Q ss_pred EEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCCCCceeEEec
Q 004068 678 VARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHYWPTWELIFD 756 (775)
Q Consensus 678 Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y~pt~e~~~~ 756 (775)
|..|.+||||+++||++||.|++|||+++.||.++...+. ++.+.+.+..|+|+.+.+++.+++ ..-|=+.|+
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~~~l~----~e~l~L~V~~rdGe~~~l~Ie~~~--dedlG~~f~ 74 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQFLCA----DEELELEVLDANGESHQIEIEKDL--DEDLGLEFT 74 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHhc----CCcEEEEEEcCCCeEEEEEEecCC--CCCCcEEec
Confidence 5678999999999999999999999999999999887774 366888844589999999988763 344444444
No 44
>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=98.15 E-value=6.2e-06 Score=71.58 Aligned_cols=53 Identities=32% Similarity=0.495 Sum_probs=46.3
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~ 728 (775)
.+++|+.+.++|||+++||++||.|++|||+++.++ ++..+.++.. +..++|+
T Consensus 25 ~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~--~~~v~L~ 79 (81)
T PF00595_consen 25 KGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSA--SNPVTLT 79 (81)
T ss_dssp EEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHS--TSEEEEE
T ss_pred CCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCC--CCcEEEE
Confidence 389999999999999999999999999999999976 6777778873 3478887
No 45
>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=98.15 E-value=8.4e-06 Score=70.50 Aligned_cols=59 Identities=29% Similarity=0.317 Sum_probs=46.5
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeC
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLN 733 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rd 733 (775)
.+++|..+.++|||+++||++||.|++|||+++.++.+..........+..++|. +.|+
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~~~~~~l~-i~r~ 84 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKAGGKVTLT-VLRG 84 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhCCCeEEEE-EEeC
Confidence 3899999999999999999999999999999999875544443322235578887 4554
No 46
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=98.14 E-value=9.3e-06 Score=70.09 Aligned_cols=53 Identities=32% Similarity=0.458 Sum_probs=47.1
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCC--CHHHHHHHHHhcCCCCEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTP--DLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~--dl~~f~~~v~~i~~g~~V~L~ 728 (775)
.+++|..+.++|||+++||++||.|++|||+++. +++++.+.++.. ...++|.
T Consensus 26 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~--~~~v~l~ 80 (82)
T cd00992 26 GGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNS--GDEVTLT 80 (82)
T ss_pred CCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhC--CCeEEEE
Confidence 3899999999999999999999999999999999 999999999973 2366665
No 47
>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=98.12 E-value=1.2e-05 Score=88.89 Aligned_cols=79 Identities=25% Similarity=0.357 Sum_probs=63.3
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeCCe--EEEEEEEeCCCCCCc
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLNGK--PRVLTLKQDLHYWPT 750 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rdg~--~~~ltlk~d~~y~pt 750 (775)
+++|..|.++|||+++||++||+|++|||+++.+| +++...++. ..|+.+.|+ +.|+|+ ...+++.....+.|+
T Consensus 63 ~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~-v~R~g~~~~~~v~l~~~~~~~~~ 140 (334)
T TIGR00225 63 EIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALIRG-KKGTKVSLE-ILRAGKSKPLTFTLKRDRIELQT 140 (334)
T ss_pred EEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHhccC-CCCCEEEEE-EEeCCCCceEEEEEEEEEeeccc
Confidence 78999999999999999999999999999999987 567677665 568899999 678875 445556666556676
Q ss_pred eeEEe
Q 004068 751 WELIF 755 (775)
Q Consensus 751 ~e~~~ 755 (775)
.+.+.
T Consensus 141 v~~~~ 145 (334)
T TIGR00225 141 VKASV 145 (334)
T ss_pred eEEEE
Confidence 66543
No 48
>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=98.09 E-value=2.4e-05 Score=87.17 Aligned_cols=69 Identities=23% Similarity=0.366 Sum_probs=59.9
Q ss_pred CceEEEEEc--------CCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeC
Q 004068 674 HGVYVARWC--------HGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQD 744 (775)
Q Consensus 674 ~gV~Vs~V~--------~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d 744 (775)
.||+|.... .+|||+++||++||.|++|||+++.++++|.+++++.. ++.+.|+ +.|+|+...++++|.
T Consensus 105 ~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~DL~~iL~~~~-g~~V~Lt-V~R~Ge~~tv~V~Pv 181 (402)
T TIGR02860 105 KGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDDLANLINKAG-GEKLTLT-IERGGKIIETVIKPV 181 (402)
T ss_pred CEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCC-CCeEEEE-EEECCEEEEEEEEEe
Confidence 388876542 36999999999999999999999999999999999864 8899999 689999999888753
No 49
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=98.05 E-value=4e-05 Score=73.73 Aligned_cols=73 Identities=18% Similarity=0.312 Sum_probs=54.3
Q ss_pred CceEEEEEcCCCHHhHcCCCC-CCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEe-CCeEEEEEEEeCCCC
Q 004068 674 HGVYVARWCHGSPVHRYGLYA-LQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHL-NGKPRVLTLKQDLHY 747 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~-GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~R-dg~~~~ltlk~d~~y 747 (775)
.+.-|..|.++|||++|||.+ .|+|+.+|+....+.++|.+.++. ..++.+.|.+.+. ....+.++|+|+.++
T Consensus 43 ~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~l~~~v~~-~~~~~l~L~Vyns~~~~vR~V~i~P~~~W 117 (138)
T PF04495_consen 43 EGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDDLFELVEA-NENKPLQLYVYNSKTDSVREVTITPSRNW 117 (138)
T ss_dssp CEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCHHHHHHHH-TTTS-EEEEEEETTTTCEEEEEE---TTS
T ss_pred ceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHHHHHHHHH-cCCCcEEEEEEECCCCeEEEEEEEcCCCC
Confidence 367799999999999999999 699999999999999999999999 5689999996554 345778888887643
No 50
>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=98.03 E-value=1.7e-05 Score=90.22 Aligned_cols=68 Identities=21% Similarity=0.358 Sum_probs=59.7
Q ss_pred eEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecc
Q 004068 567 VLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDV 639 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~ 639 (775)
+.+|..|.++|||+++ ||+||+|++|||++|.+|+|+...+.... ++++.+++.|+|+...+.+++..
T Consensus 204 g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~dl~~~l~~~~-----~~~v~l~v~R~g~~~~~~v~~~~ 272 (420)
T TIGR00054 204 EPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVKENP-----GKSMDIKVERNGETLSISLTPEA 272 (420)
T ss_pred CcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCC-----CCceEEEEEECCEEEEEEEEEcC
Confidence 4569999999999986 99999999999999999999999986532 57799999999999998888753
No 51
>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=97.98 E-value=2.3e-05 Score=65.64 Aligned_cols=53 Identities=28% Similarity=0.381 Sum_probs=44.1
Q ss_pred eEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCCh--hhHHHHHHhcCCCCCCCCeEEEEE
Q 004068 567 VLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCF--HDIENACQALDKDGEDNGKLDITI 624 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~--~dl~~~l~~~~~~~~~g~~v~l~V 624 (775)
+++|..|.++|||+.+ |++||+|++|||+++.+| .++..+++... ++.+++++
T Consensus 14 ~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~-----g~~v~l~v 69 (70)
T cd00136 14 GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEV-----GEKVTLTV 69 (70)
T ss_pred CEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCC-----CCeEEEEE
Confidence 5679999999999985 999999999999999999 88888875322 46677665
No 52
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=5e-05 Score=84.25 Aligned_cols=75 Identities=27% Similarity=0.342 Sum_probs=69.5
Q ss_pred CCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCCCC
Q 004068 673 GHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHYWP 749 (775)
Q Consensus 673 ~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y~p 749 (775)
..|++|..+.++|||+++|+++||.|+++||+++.+..++.+.+.....|+.+.++ +.|+|+...++++.... -|
T Consensus 269 ~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~l~~~v~~~~~g~~v~~~-~~r~g~~~~~~v~l~~~-~~ 343 (347)
T COG0265 269 AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDLVAAVASNRPGDEVALK-LLRGGKERELAVTLGDR-SP 343 (347)
T ss_pred CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHHHHHHHhccCCCCEEEEE-EEECCEEEEEEEEecCc-CC
Confidence 34899999999999999999999999999999999999999999998889999999 68999999999998775 44
No 53
>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=97.91 E-value=0.00052 Score=69.45 Aligned_cols=168 Identities=18% Similarity=0.174 Sum_probs=98.5
Q ss_pred ceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcC------CC--eEEeEEEEEEeC-------CCcEEEEEeCCC-
Q 004068 315 HFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAA------FP--IEIPGEVVFLHP-------VHNFALIAYDPS- 378 (775)
Q Consensus 315 ~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d------~~--~~~~A~Vv~~dp-------~~DlAILk~d~~- 378 (775)
...++|++|. .-+|||++|++.. ..++.+.+.. .+ ..+..+-+..|| ..|+|||+++..
T Consensus 24 ~~~C~G~li~----~~~vLTaahC~~~-~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~h~~~~~~~~~~DiAll~L~~~~ 98 (220)
T PF00089_consen 24 RFFCTGTLIS----PRWVLTAAHCVDG-ASDIKVRLGTYSIRNSDGSEQTIKVSKIIIHPKYDPSTYDNDIALLKLDRPI 98 (220)
T ss_dssp EEEEEEEEEE----TTEEEEEGGGHTS-GGSEEEEESESBTTSTTTTSEEEEEEEEEEETTSBTTTTTTSEEEEEESSSS
T ss_pred CeeEeEEecc----ccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 6789999999 5599999887765 4455554331 12 345555555654 369999999765
Q ss_pred CCCcccccceeeeeeCCC-CCCCCCCEEEEEEeCCCCCC----eeEEEEEeCCc---cccccCCCCcccccccceEEEEE
Q 004068 379 SLGVAGASVVRAAELLPE-PALRRGDSVYLVGLSRSLQA----TSRKSIVTNPC---AALNISSADCPRYRAMNMEVIEL 450 (775)
Q Consensus 379 ~l~~~~~~~v~~~~lg~s-~~l~~Gd~V~aiG~p~g~~~----~~~~g~VS~~~---~~~~~~~~~~pryra~n~e~I~~ 450 (775)
.+. ..+.++.+... ..++.|+.+.++|++..... ......+.-.. ........ .....+..
T Consensus 99 ~~~----~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~-------~~~~~~c~ 167 (220)
T PF00089_consen 99 TFG----DNIQPICLPSAGSDPNVGTSCIVVGWGRTSDNGYSSNLQSVTVPVVSRKTCRSSYNDN-------LTPNMICA 167 (220)
T ss_dssp EHB----SSBEESBBTSTTHTTTTTSEEEEEESSBSSTTSBTSBEEEEEEEEEEHHHHHHHTTTT-------STTTEEEE
T ss_pred ccc----cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-------cccccccc
Confidence 222 45667777763 33689999999999875322 22222222110 00100000 11234444
Q ss_pred ee----ccCCCC-CceEEccCceEEEEeeeecccccccCCCCCCceeeeccccchhhhHH
Q 004068 451 DT----DFGSTF-SGVLTDEHGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVL 505 (775)
Q Consensus 451 Da----~i~~~~-GGpL~d~~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl 505 (775)
.. ....+. ||||+..++.|+||.+....- ....... ...++..++++|
T Consensus 168 ~~~~~~~~~~g~sG~pl~~~~~~lvGI~s~~~~c-----~~~~~~~--v~~~v~~~~~WI 220 (220)
T PF00089_consen 168 GSSGSGDACQGDSGGPLICNNNYLVGIVSFGENC-----GSPNYPG--VYTRVSSYLDWI 220 (220)
T ss_dssp ETTSSSBGGTTTTTSEEEETTEEEEEEEEEESSS-----SBTTSEE--EEEEGGGGHHHH
T ss_pred cccccccccccccccccccceeeecceeeecCCC-----CCCCcCE--EEEEHHHhhccC
Confidence 43 344454 999999999999998744211 1111112 347777777764
No 54
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=97.85 E-value=4.1e-05 Score=85.90 Aligned_cols=62 Identities=24% Similarity=0.517 Sum_probs=53.2
Q ss_pred EEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEE-ecCeEEEEEEEecc
Q 004068 570 VKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIF-RQGREIELQVGTDV 639 (775)
Q Consensus 570 V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~-R~Gk~~~l~V~l~~ 639 (775)
|..|.++|+|+++ |++||+|++|||++|.+|.|+...+ .++.+.++|. |+|+..++.+....
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~~~l--------~~e~l~L~V~~rdGe~~~l~Ie~~~ 65 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQFLC--------ADEELELEVLDANGESHQIEIEKDL 65 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHh--------cCCcEEEEEEcCCCeEEEEEEecCC
Confidence 6788999999995 9999999999999999999988777 2466899997 89988888877543
No 55
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=97.84 E-value=5.3e-05 Score=85.61 Aligned_cols=78 Identities=24% Similarity=0.318 Sum_probs=66.3
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeC--CeEEEEEEEeCCCCCCc
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLN--GKPRVLTLKQDLHYWPT 750 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rd--g~~~~ltlk~d~~y~pt 750 (775)
++.|.+..+|+||+++||++||.|+.|||+++.+. ++.++.++. ++|+.|+|+ +.|. ++++.++++-+.-.=++
T Consensus 113 ~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~~~av~~irG-~~Gt~V~L~-i~r~~~~k~~~v~l~Re~i~l~~ 190 (406)
T COG0793 113 GVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRG-KPGTKVTLT-ILRAGGGKPFTVTLTREEIELED 190 (406)
T ss_pred CcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCHHHHHHHhCC-CCCCeEEEE-EEEcCCCceeEEEEEEEEEeccc
Confidence 78999999999999999999999999999999887 557777776 679999999 6775 67999999877766666
Q ss_pred eeEE
Q 004068 751 WELI 754 (775)
Q Consensus 751 ~e~~ 754 (775)
..++
T Consensus 191 v~~~ 194 (406)
T COG0793 191 VAAK 194 (406)
T ss_pred eeee
Confidence 6554
No 56
>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=97.76 E-value=0.0001 Score=63.65 Aligned_cols=59 Identities=27% Similarity=0.430 Sum_probs=47.7
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecC
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQG 628 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~G 628 (775)
.+++|..|.++|+|+.+ |++||+|++|||+.+.++.+......... .++.+.+++.|++
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~----~~~~~~l~i~r~~ 85 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKK----AGGKVTLTVLRGG 85 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHh----CCCeEEEEEEeCC
Confidence 45679999999999986 99999999999999999877666554333 2457899888864
No 57
>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=97.71 E-value=0.00025 Score=79.21 Aligned_cols=58 Identities=29% Similarity=0.396 Sum_probs=51.1
Q ss_pred CChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEec
Q 004068 576 GSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTD 638 (775)
Q Consensus 576 gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~ 638 (775)
+|||+++ ||.||+|++|||++|.+|+|+..++.... ++.+.++|.|+|+..++.+.+.
T Consensus 123 ~SPAa~AGLq~GDiIvsING~~V~s~~DL~~iL~~~~-----g~~V~LtV~R~Ge~~tv~V~Pv 181 (402)
T TIGR02860 123 HSPGEEAGIQIGDRILKINGEKIKNMDDLANLINKAG-----GEKLTLTIERGGKIIETVIKPV 181 (402)
T ss_pred CCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCC-----CCeEEEEEEECCEEEEEEEEEe
Confidence 5899986 99999999999999999999998886553 6789999999999988888754
No 58
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.68 E-value=0.00028 Score=79.65 Aligned_cols=66 Identities=15% Similarity=0.236 Sum_probs=50.7
Q ss_pred ceEEEEEcCCCHHhHc-CCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEe
Q 004068 675 GVYVARWCHGSPVHRY-GLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQ 743 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~a-GL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~ 743 (775)
.++|..+...+-|.+- +|+.||+|+.|||.-+.++ .+-.++|++. .| .+.|. |.||.+..-+.+..
T Consensus 220 qIFvKeit~~gLAardgnlqEGDiiLkINGtvteNmSLtDar~LIEkS-~G-KL~lv-VlRD~~qtLiNiP~ 288 (1027)
T KOG3580|consen 220 QIFVKEITRTGLAARDGNLQEGDIILKINGTVTENMSLTDARKLIEKS-RG-KLQLV-VLRDSQQTLINIPS 288 (1027)
T ss_pred hhhhhhhcccchhhccCCcccccEEEEECcEeeccccchhHHHHHHhc-cC-ceEEE-EEecCCceeeecCC
Confidence 5677777777777765 5999999999999998865 7888888873 34 47777 67888877776643
No 59
>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=97.62 E-value=0.00016 Score=62.68 Aligned_cols=56 Identities=27% Similarity=0.288 Sum_probs=42.8
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEE
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIF 625 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~ 625 (775)
.+++|..|.++|+|+++ |+.||+|++|||+.+.++...+....... .++.+.|+|.
T Consensus 25 ~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~----~~~~v~L~V~ 81 (81)
T PF00595_consen 25 KGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKS----ASNPVTLTVQ 81 (81)
T ss_dssp EEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHH----STSEEEEEEE
T ss_pred CCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHC----CCCcEEEEEC
Confidence 56779999999999996 99999999999999999855444322222 2347777763
No 60
>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=97.61 E-value=0.00015 Score=80.20 Aligned_cols=68 Identities=22% Similarity=0.354 Sum_probs=52.5
Q ss_pred eEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChh--hHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecc
Q 004068 567 VLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFH--DIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDV 639 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~--dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~ 639 (775)
.++|..|.++|||+++ |+.||+|++|||++|.+|+ ++...+.. . .+..+.+++.|+|+...+++.+..
T Consensus 63 ~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~----~g~~v~l~v~R~g~~~~~~v~l~~ 133 (334)
T TIGR00225 63 EIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALIRG-K----KGTKVSLEILRAGKSKPLTFTLKR 133 (334)
T ss_pred EEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHhccC-C----CCCEEEEEEEeCCCCceEEEEEEE
Confidence 4568999999999995 9999999999999999973 44444321 1 367899999999876666655543
No 61
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=97.56 E-value=0.00028 Score=79.65 Aligned_cols=65 Identities=18% Similarity=0.261 Sum_probs=51.7
Q ss_pred eEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCCh--hhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEE
Q 004068 567 VLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCF--HDIENACQALDKDGEDNGKLDITIFRQGREIELQVG 636 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~--~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~ 636 (775)
+++|..|.++|||+++ |+.||+|++|||++|.++ .++...+.. . .+..+.++|.|+|+..++++.
T Consensus 103 g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g-~----~g~~v~ltv~r~g~~~~~~l~ 170 (389)
T PLN00049 103 GLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQG-P----EGSSVELTLRRGPETRLVTLT 170 (389)
T ss_pred cEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhc-C----CCCEEEEEEEECCEEEEEEEE
Confidence 4669999999999995 999999999999999875 455545421 1 367899999999987776654
No 62
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.56 E-value=0.00022 Score=63.29 Aligned_cols=60 Identities=28% Similarity=0.385 Sum_probs=42.7
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCe
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGK 735 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~ 735 (775)
.|+||++|..||||+.|||+.+|.|+.|||-...-. ...++++.+.++.-+++. |.|.+.
T Consensus 59 ~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMv-THd~Avk~i~k~~vl~mL-VaR~~l 118 (124)
T KOG3553|consen 59 KGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMV-THDQAVKRITKEEVLRML-VARQSL 118 (124)
T ss_pred ccEEEEEeccCChhhhhcceecceEEEecCceeEEE-EhHHHHHHhhHhHHHHHH-HHhhcc
Confidence 499999999999999999999999999999775432 223333333335555555 445443
No 63
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.54 E-value=0.0013 Score=72.58 Aligned_cols=163 Identities=17% Similarity=0.129 Sum_probs=108.2
Q ss_pred cceEEEEEEcCCChHhhh-ccC-CCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCe--EEEEEEEeccc
Q 004068 565 RQVLRVKGCLAGSKAENM-LEQ-GDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGR--EIELQVGTDVR 640 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~a-Lq~-GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk--~~~l~V~l~~~ 640 (775)
..++.|-+|..+|+|.++ |++ =|-|++|||+.+..-.|...++.... -++|+++|..... ...+.|+....
T Consensus 14 teg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~Lk~llk~~-----sekVkltv~n~kt~~~R~v~I~ps~~ 88 (462)
T KOG3834|consen 14 TEGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDTLKALLKAN-----SEKVKLTVYNSKTQEVRIVEIVPSNN 88 (462)
T ss_pred ceeEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHHHHHHHHhc-----ccceEEEEEecccceeEEEEeccccc
Confidence 356678899999999985 554 68999999999987766655553222 2449999875322 22333333222
Q ss_pred CCCCcceeeeeeeeeecCChhhHhhhCCCCCCCCce-EEEEEcCCCHHhHcCCC-CCCEEEEECCeeCCCHHHHHHHHHh
Q 004068 641 DGNGTTRVINWCGCIVQDPHPAVRALGFLPEEGHGV-YVARWCHGSPVHRYGLY-ALQWIVEINGKRTPDLEAFVNVTKE 718 (775)
Q Consensus 641 ~~~~t~r~v~~~G~~lq~p~~~vrql~~lps~~~gV-~Vs~V~~GSPA~~aGL~-~GD~I~~VNG~pV~dl~~f~~~v~~ 718 (775)
.. . .++|+.++-=..+ .+. .-+ =|-+|.+.|||++|||+ -+|.|+-+-..-..+-+||...|+.
T Consensus 89 wg---g---qllGvsvrFcsf~------~A~--~~vwHvl~V~p~SPaalAgl~~~~DYivG~~~~~~~~~eDl~~lIes 154 (462)
T KOG3834|consen 89 WG---G---QLLGVSVRFCSFD------GAV--ESVWHVLSVEPNSPAALAGLRPYTDYIVGIWDAVMHEEEDLFTLIES 154 (462)
T ss_pred cc---c---cccceEEEeccCc------cch--hheeeeeecCCCCHHHhcccccccceEecchhhhccchHHHHHHHHh
Confidence 11 0 1344443221100 000 012 26688999999999998 6999999944455666888888888
Q ss_pred cCCCCEEEEEEEEeCC-eEEEEEEEeCCCC
Q 004068 719 IEHGEFVRVRTVHLNG-KPRVLTLKQDLHY 747 (775)
Q Consensus 719 i~~g~~V~L~~V~Rdg-~~~~ltlk~d~~y 747 (775)
+ .++.++|.+.+-|. ..+.+++++|.++
T Consensus 155 h-e~kpLklyVYN~D~d~~ReVti~pn~aw 183 (462)
T KOG3834|consen 155 H-EGKPLKLYVYNHDTDSCREVTITPNSAW 183 (462)
T ss_pred c-cCCCcceeEeecCCCccceEEeeccccc
Confidence 4 58999998766655 5789999999884
No 64
>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=97.51 E-value=0.00032 Score=60.41 Aligned_cols=43 Identities=23% Similarity=0.242 Sum_probs=38.4
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeC--ChhhHHHHHH
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVT--CFHDIENACQ 608 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~--s~~dl~~~l~ 608 (775)
.+++|..|.++|||+++ |++||+|++|||+++. ++.++...+.
T Consensus 26 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~ 71 (82)
T cd00992 26 GGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLK 71 (82)
T ss_pred CCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHH
Confidence 45679999999999996 9999999999999999 8888888774
No 65
>PRK11186 carboxy-terminal protease; Provisional
Probab=97.46 E-value=0.00037 Score=83.00 Aligned_cols=70 Identities=27% Similarity=0.348 Sum_probs=56.7
Q ss_pred ceEEEEEcCCCHHhHc-CCCCCCEEEEEC--CeeCCC-----HHHHHHHHHhcCCCCEEEEEEEEe---CCeEEEEEEEe
Q 004068 675 GVYVARWCHGSPVHRY-GLYALQWIVEIN--GKRTPD-----LEAFVNVTKEIEHGEFVRVRTVHL---NGKPRVLTLKQ 743 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~a-GL~~GD~I~~VN--G~pV~d-----l~~f~~~v~~i~~g~~V~L~~V~R---dg~~~~ltlk~ 743 (775)
+++|..+.+||||+++ ||++||+|++|| |+++.+ +++.++.++. +.|+.|+|+ +.| +++++.++|..
T Consensus 256 ~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~vv~lirG-~~Gt~V~Lt-V~r~~~~~~~~~vtl~R 333 (667)
T PRK11186 256 YTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALIKG-PKGSKVRLE-ILPAGKGTKTRIVTLTR 333 (667)
T ss_pred eEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHHHHHhcC-CCCCEEEEE-EEeCCCCCceEEEEEEe
Confidence 6889999999999998 999999999999 555443 4678888877 789999999 566 45788888876
Q ss_pred CCC
Q 004068 744 DLH 746 (775)
Q Consensus 744 d~~ 746 (775)
+.-
T Consensus 334 ~~i 336 (667)
T PRK11186 334 DKI 336 (667)
T ss_pred eee
Confidence 543
No 66
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=97.42 E-value=0.00029 Score=80.59 Aligned_cols=120 Identities=19% Similarity=0.281 Sum_probs=75.7
Q ss_pred EEEEcCCChHhh-h-ccCCCEEEEECCEEeCCh--hhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCc
Q 004068 570 VKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCF--HDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGT 645 (775)
Q Consensus 570 V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~--~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t 645 (775)
|.....++||++ + |..||.|.+|||...-.. .....+++..+ ....++|+|++=--..++.|.-.
T Consensus 677 iAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~K----nQT~VkltiV~cpPV~~V~I~RP------- 745 (829)
T KOG3605|consen 677 IANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLK----NQTAVKLNIVSCPPVTTVLIRRP------- 745 (829)
T ss_pred HHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhccc----ccceEEEEEecCCCceEEEeecc-------
Confidence 455667899998 5 999999999999776543 33444554333 23457777776333333322211
Q ss_pred ceeeeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCC-H-HHHHHHHHh
Q 004068 646 TRVINWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPD-L-EAFVNVTKE 718 (775)
Q Consensus 646 ~r~v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~d-l-~~f~~~v~~ 718 (775)
+...-+|+.+| .||++ +...|+-|++.|++.|-+|++|||+.|-- . +-.++++..
T Consensus 746 -d~kyQLGFSVQ----------------NGiIC-SLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~ 802 (829)
T KOG3605|consen 746 -DLRYQLGFSVQ----------------NGIIC-SLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSN 802 (829)
T ss_pred -cchhhccceee----------------CcEee-hhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHH
Confidence 01112333333 26655 56899999999999999999999998742 2 344444443
No 67
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=97.40 E-value=0.00059 Score=72.64 Aligned_cols=62 Identities=11% Similarity=0.194 Sum_probs=54.4
Q ss_pred EEcCCCH---HhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEE
Q 004068 680 RWCHGSP---VHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLK 742 (775)
Q Consensus 680 ~V~~GSP---A~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk 742 (775)
.+.||.. -.++||++||.+++|||.++.|.++..+++++++..+.++|. |.|||++..+.+.
T Consensus 210 rl~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~~~tei~lt-VeRdGq~~~i~i~ 274 (276)
T PRK09681 210 AVKPGADRSLFDASGFKEGDIAIALNQQDFTDPRAMIALMRQLPSMDSIQLT-VLRKGARHDISIA 274 (276)
T ss_pred EECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhccCCeEEEE-EEECCEEEEEEEE
Confidence 3446643 357999999999999999999999999999999999999999 8999999988764
No 68
>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=97.39 E-value=0.0019 Score=65.74 Aligned_cols=92 Identities=23% Similarity=0.274 Sum_probs=62.9
Q ss_pred cceeEEEEEEEecCCceEEEEecceeccC-CceEEEEEcC--------CCeEEeEEEEEEeC-------CCcEEEEEeCC
Q 004068 314 QHFFGTGVIIYHSQSMGLVVVDKNTVAIS-ASDVMLSFAA--------FPIEIPGEVVFLHP-------VHNFALIAYDP 377 (775)
Q Consensus 314 ~~~~GSGvVId~~~~~GlVLTnr~~V~~~-~~~I~Vt~~d--------~~~~~~A~Vv~~dp-------~~DlAILk~d~ 377 (775)
....++|.+|+ ..+|||.+|.+... ...+.|.+.. ....+..+-+..|| ..|+|||+++.
T Consensus 23 ~~~~C~GtlIs----~~~VLTaAhC~~~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~hp~y~~~~~~~DiAll~L~~ 98 (232)
T cd00190 23 GRHFCGGSLIS----PRWVLTAAHCVYSSAPSNYTVRLGSHDLSSNEGGGQVIKVKKVIVHPNYNPSTYDNDIALLKLKR 98 (232)
T ss_pred CcEEEEEEEee----CCEEEECHHhcCCCCCccEEEEeCcccccCCCCceEEEEEEEEEECCCCCCCCCcCCEEEEEECC
Confidence 34789999999 67999999987653 2345555431 12344555666775 47999999974
Q ss_pred C-CCCcccccceeeeeeCCCC-CCCCCCEEEEEEeCCC
Q 004068 378 S-SLGVAGASVVRAAELLPEP-ALRRGDSVYLVGLSRS 413 (775)
Q Consensus 378 ~-~l~~~~~~~v~~~~lg~s~-~l~~Gd~V~aiG~p~g 413 (775)
. ... ..+.++.|.... .+..|+.+.++|+...
T Consensus 99 ~~~~~----~~v~picl~~~~~~~~~~~~~~~~G~g~~ 132 (232)
T cd00190 99 PVTLS----DNVRPICLPSSGYNLPAGTTCTVSGWGRT 132 (232)
T ss_pred cccCC----CcccceECCCccccCCCCCEEEEEeCCcC
Confidence 3 222 346667776652 4788999999998654
No 69
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.0011 Score=66.64 Aligned_cols=69 Identities=23% Similarity=0.250 Sum_probs=55.8
Q ss_pred ceEEEEEcCCCHHhHcCCCCCCEEEEECCee---CCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCC
Q 004068 675 GVYVARWCHGSPVHRYGLYALQWIVEINGKR---TPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDL 745 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~p---V~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~ 745 (775)
-++|++|.++|||+.|||+.||.|+++.... ...+.....+++. ..++.+.++ +.|.|+...++|.|..
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 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQS-NEDQIVSVT-VIREGQKVVLSLTPKK 211 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHh-ccCcceeEE-EecCCCEEEEEeCccc
Confidence 4589999999999999999999999765544 4445566666666 568899999 7899999999998754
No 70
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=97.15 E-value=0.0027 Score=56.42 Aligned_cols=64 Identities=23% Similarity=0.247 Sum_probs=42.5
Q ss_pred ceEEEEEEcCC--------ChHhh-h--ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecC-eEEEE
Q 004068 566 QVLRVKGCLAG--------SKAEN-M--LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQG-REIEL 633 (775)
Q Consensus 566 q~l~V~~V~~g--------SpA~~-a--Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~G-k~~~l 633 (775)
.++.|.++.++ ||..+ + +++||+|++|||++++.-.++..++.... ++.+.|+|.+.+ +.+++
T Consensus 12 ~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~~~lL~~~a-----gk~V~Ltv~~~~~~~R~v 86 (88)
T PF14685_consen 12 GGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANPYRLLEGKA-----GKQVLLTVNRKPGGARTV 86 (88)
T ss_dssp TEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-HHHHHHTTT-----TSEEEEEEE-STT-EEEE
T ss_pred CEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCHHHHhcccC-----CCEEEEEEecCCCCceEE
Confidence 45668888764 67666 3 78999999999999999999998885443 788999999866 34444
Q ss_pred E
Q 004068 634 Q 634 (775)
Q Consensus 634 ~ 634 (775)
.
T Consensus 87 ~ 87 (88)
T PF14685_consen 87 V 87 (88)
T ss_dssp E
T ss_pred E
Confidence 3
No 71
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=97.13 E-value=0.0012 Score=70.28 Aligned_cols=62 Identities=18% Similarity=0.364 Sum_probs=50.9
Q ss_pred EEcCCChH---hh-hccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEe
Q 004068 572 GCLAGSKA---EN-MLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGT 637 (775)
Q Consensus 572 ~V~~gSpA---~~-aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l 637 (775)
++.|+... .+ +||+||++++|||..+++.++...+++.+. ....++|+|+|+|+.+++.+.+
T Consensus 210 rl~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~----~~tei~ltVeRdGq~~~i~i~l 275 (276)
T PRK09681 210 AVKPGADRSLFDASGFKEGDIAIALNQQDFTDPRAMIALMRQLP----SMDSIQLTVLRKGARHDISIAL 275 (276)
T ss_pred EECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhc----cCCeEEEEEEECCEEEEEEEEc
Confidence 34566433 34 499999999999999999999888887766 3678999999999999998765
No 72
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=97.11 E-value=0.0015 Score=69.77 Aligned_cols=69 Identities=22% Similarity=0.340 Sum_probs=59.7
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEe
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQ 743 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~ 743 (775)
.|||+..+..+|||.. -|++||.|++|||+++.+.++|.+.+++-..|+.|+|.+-+.++.+...+++.
T Consensus 130 ~gvyv~~v~~~~~~~g-kl~~gD~i~avdg~~f~s~~e~i~~v~~~k~Gd~VtI~~~r~~~~~~~~~~tl 198 (342)
T COG3480 130 AGVYVLSVIDNSPFKG-KLEAGDTIIAVDGEPFTSSDELIDYVSSKKPGDEVTIDYERHNETPEIVTITL 198 (342)
T ss_pred eeEEEEEccCCcchhc-eeccCCeEEeeCCeecCCHHHHHHHHhccCCCCeEEEEEEeccCCCceEEEEE
Confidence 5999999999999863 59999999999999999999999999998899999999533588877655443
No 73
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.0018 Score=65.18 Aligned_cols=83 Identities=22% Similarity=0.406 Sum_probs=63.7
Q ss_pred cceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCC
Q 004068 565 RQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGN 643 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~ 643 (775)
+.+.+|..|.++|||+.| |+.||.|+++....-.++..|...-...... .+..+.++|.|.|+.+.+.+.+..|.+
T Consensus 138 ~~Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~--e~~~v~v~v~R~g~~v~L~ltP~~W~G- 214 (231)
T KOG3129|consen 138 RPFAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSN--EDQIVSVTVIREGQKVVLSLTPKKWQG- 214 (231)
T ss_pred cceEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhc--cCcceeEEEecCCCEEEEEeCcccccC-
Confidence 457789999999999996 9999999999988877777655432221111 367799999999999999999888764
Q ss_pred Ccceeeeeeeee
Q 004068 644 GTTRVINWCGCI 655 (775)
Q Consensus 644 ~t~r~v~~~G~~ 655 (775)
...+||.
T Consensus 215 -----rGLLGC~ 221 (231)
T KOG3129|consen 215 -----RGLLGCN 221 (231)
T ss_pred -----Ccceeee
Confidence 2345665
No 74
>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=97.04 E-value=0.012 Score=60.09 Aligned_cols=93 Identities=22% Similarity=0.275 Sum_probs=64.4
Q ss_pred cceeEEEEEEEecCCceEEEEecceeccCC-ceEEEEEcCCC-------eEEeEEEEEEeC-------CCcEEEEEeCCC
Q 004068 314 QHFFGTGVIIYHSQSMGLVVVDKNTVAISA-SDVMLSFAAFP-------IEIPGEVVFLHP-------VHNFALIAYDPS 378 (775)
Q Consensus 314 ~~~~GSGvVId~~~~~GlVLTnr~~V~~~~-~~I~Vt~~d~~-------~~~~A~Vv~~dp-------~~DlAILk~d~~ 378 (775)
....++|.+|+ ..+|||.+|.+.... ..+.|.+.... ..+...-+..|| ..|+|||+++..
T Consensus 24 ~~~~C~GtlIs----~~~VLTaahC~~~~~~~~~~v~~g~~~~~~~~~~~~~~v~~~~~~p~~~~~~~~~DiAll~L~~~ 99 (229)
T smart00020 24 GRHFCGGSLIS----PRWVLTAAHCVYGSDPSNIRVRLGSHDLSSGEEGQVIKVSKVIIHPNYNPSTYDNDIALLKLKSP 99 (229)
T ss_pred CCcEEEEEEec----CCEEEECHHHcCCCCCcceEEEeCcccCCCCCCceEEeeEEEEECCCCCCCCCcCCEEEEEECcc
Confidence 35779999999 779999999876543 46667765322 344555556554 479999999754
Q ss_pred -CCCcccccceeeeeeCCC-CCCCCCCEEEEEEeCCCC
Q 004068 379 -SLGVAGASVVRAAELLPE-PALRRGDSVYLVGLSRSL 414 (775)
Q Consensus 379 -~l~~~~~~~v~~~~lg~s-~~l~~Gd~V~aiG~p~g~ 414 (775)
.+. ..+.++.|... ..+..|+.+.+.|+....
T Consensus 100 i~~~----~~~~pi~l~~~~~~~~~~~~~~~~g~g~~~ 133 (229)
T smart00020 100 VTLS----DNVRPICLPSSNYNVPAGTTCTVSGWGRTS 133 (229)
T ss_pred cCCC----CceeeccCCCcccccCCCCEEEEEeCCCCC
Confidence 222 24666777653 236789999999987654
No 75
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=96.80 E-value=0.0066 Score=53.91 Aligned_cols=66 Identities=23% Similarity=0.325 Sum_probs=44.7
Q ss_pred ceEEEEEcCC--------CHHhHcCC--CCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEE
Q 004068 675 GVYVARWCHG--------SPVHRYGL--YALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTL 741 (775)
Q Consensus 675 gV~Vs~V~~G--------SPA~~aGL--~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltl 741 (775)
+..|..+.+| ||-.+.|+ ++||.|++|||+++..-.++...+.. ..|+.|.|++-..++..+.+.+
T Consensus 13 ~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~~~lL~~-~agk~V~Ltv~~~~~~~R~v~V 88 (88)
T PF14685_consen 13 GYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANPYRLLEG-KAGKQVLLTVNRKPGGARTVVV 88 (88)
T ss_dssp EEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-HHHHHHT-TTTSEEEEEEE-STT-EEEEEE
T ss_pred EEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCHHHHhcc-cCCCEEEEEEecCCCCceEEEC
Confidence 4456677665 78888886 59999999999999998899999998 6799999994333445665543
No 76
>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=96.75 E-value=0.03 Score=58.52 Aligned_cols=174 Identities=10% Similarity=0.089 Sum_probs=85.1
Q ss_pred hcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEE---E--EEEe
Q 004068 291 IEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGE---V--VFLH 365 (775)
Q Consensus 291 l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~---V--v~~d 365 (775)
+...++.+.-... | ....-.|+... .+|+||+|....+.+.+.|...- |. +... - +.-=
T Consensus 16 Ia~~ic~l~n~s~------~---~~~~l~gigyG-----~~iItn~HLf~~nng~L~i~s~h-G~-f~v~nt~~lkv~~i 79 (235)
T PF00863_consen 16 IASNICRLTNESD------G---GTRSLYGIGYG-----SYIITNAHLFKRNNGELTIKSQH-GE-FTVPNTTQLKVHPI 79 (235)
T ss_dssp HHTTEEEEEEEET------T---EEEEEEEEEET-----TEEEEEGGGGSSTTCEEEEEETT-EE-EEECEGGGSEEEE-
T ss_pred hhheEEEEEEEeC------C---CeEEEEEEeEC-----CEEEEChhhhccCCCeEEEEeCc-eE-EEcCCccccceEEe
Confidence 5567888765333 2 22344555555 48999988877777777777763 33 2221 1 2233
Q ss_pred CCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccce
Q 004068 366 PVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNM 445 (775)
Q Consensus 366 p~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~ 445 (775)
+..|+.|+|... .+|+ --+-++|.. .+.||.|..||..+.... ....||+. +...+....-.+ .
T Consensus 80 ~~~DiviirmPk-DfpP----f~~kl~FR~---P~~~e~v~mVg~~fq~k~--~~s~vSes--S~i~p~~~~~fW----k 143 (235)
T PF00863_consen 80 EGRDIVIIRMPK-DFPP----FPQKLKFRA---PKEGERVCMVGSNFQEKS--ISSTVSES--SWIYPEENSHFW----K 143 (235)
T ss_dssp TCSSEEEEE--T-TS--------S---B-------TT-EEEEEEEECSSCC--CEEEEEEE--EEEEEETTTTEE----E
T ss_pred CCccEEEEeCCc-ccCC----cchhhhccC---CCCCCEEEEEEEEEEcCC--eeEEECCc--eEEeecCCCCee----E
Confidence 567999999865 3432 112245532 589999999998754432 12344432 111111111112 2
Q ss_pred EEEEEeeccCCCCCceEEcc-CceEEEEeeeecccccccCCCCCCceeeeccccchhhhHHHH
Q 004068 446 EVIELDTDFGSTFSGVLTDE-HGRVQAIWGSFSTQVKFGCSSSEDHQFVRGIPIYTISRVLDK 507 (775)
Q Consensus 446 e~I~~Da~i~~~~GGpL~d~-~G~VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~~i~~vl~~ 507 (775)
..|.+. .+.||+||++. ||.+|||++..... ...+|.-++|-+.+..+++.
T Consensus 144 HwIsTk---~G~CG~PlVs~~Dg~IVGiHsl~~~~--------~~~N~F~~f~~~f~~~~l~~ 195 (235)
T PF00863_consen 144 HWISTK---DGDCGLPLVSTKDGKIVGIHSLTSNT--------SSRNYFTPFPDDFEEFYLEN 195 (235)
T ss_dssp E-C------TT-TT-EEEETTT--EEEEEEEEETT--------TSSEEEEE--TTHHHHHCC-
T ss_pred EEecCC---CCccCCcEEEcCCCcEEEEEcCccCC--------CCeEEEEcCCHHHHHHHhcc
Confidence 344443 23479999985 59999999854433 34556656766655555444
No 77
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=96.70 E-value=0.0053 Score=65.69 Aligned_cols=71 Identities=15% Similarity=0.193 Sum_probs=60.2
Q ss_pred ceEEEEEEcCCChHhhhccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEe-cCeEEEEEEEeccc
Q 004068 566 QVLRVKGCLAGSKAENMLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFR-QGREIELQVGTDVR 640 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R-~Gk~~~l~V~l~~~ 640 (775)
.|+++..+..++|+...|+.||.|++|||+++++.+++...+...++ |+++++++.| ++++...++++...
T Consensus 130 ~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~s~~e~i~~v~~~k~----Gd~VtI~~~r~~~~~~~~~~tl~~~ 201 (342)
T COG3480 130 AGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFTSSDELIDYVSSKKP----GDEVTIDYERHNETPEIVTITLIKN 201 (342)
T ss_pred eeEEEEEccCCcchhceeccCCeEEeeCCeecCCHHHHHHHHhccCC----CCeEEEEEEeccCCCceEEEEEEee
Confidence 34557788889999888999999999999999999999999976663 8999999997 78777777776655
No 78
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=96.66 E-value=0.0048 Score=69.91 Aligned_cols=67 Identities=21% Similarity=0.390 Sum_probs=50.2
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecC--eEEEEEE
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQG--REIELQV 635 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~G--k~~~l~V 635 (775)
..+.|.++.+++||+++ |++||+|++|||+++....- ..++..+... .|..++|+|.|.+ +...+++
T Consensus 112 ~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~-~~av~~irG~--~Gt~V~L~i~r~~~~k~~~v~l 181 (406)
T COG0793 112 GGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSL-DEAVKLIRGK--PGTKVTLTILRAGGGKPFTVTL 181 (406)
T ss_pred CCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCH-HHHHHHhCCC--CCCeEEEEEEEcCCCceeEEEE
Confidence 45568899999999996 99999999999999998843 4444333322 4788999999974 4444443
No 79
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=96.63 E-value=0.0039 Score=64.09 Aligned_cols=66 Identities=27% Similarity=0.334 Sum_probs=53.4
Q ss_pred eEEEEEEcCCChHhh-hccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEE
Q 004068 567 VLRVKGCLAGSKAEN-MLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVG 636 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~-aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~ 636 (775)
|+.+.-..+++.-++ +||.||+.+++|+..+++.+++..+++.+. .-..++++|.|+|+..++.|.
T Consensus 208 Gyr~~pgkd~slF~~sglq~GDIavaiNnldltdp~~m~~llq~l~----~m~s~qlTv~R~G~rhdInV~ 274 (275)
T COG3031 208 GYRFEPGKDGSLFYKSGLQRGDIAVAINNLDLTDPEDMFRLLQMLR----NMPSLQLTVIRRGKRHDINVR 274 (275)
T ss_pred EEEecCCCCcchhhhhcCCCcceEEEecCcccCCHHHHHHHHHhhh----cCcceEEEEEecCccceeeec
Confidence 333444445566666 599999999999999999999999988776 357799999999999988764
No 80
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=96.15 E-value=0.0093 Score=67.83 Aligned_cols=70 Identities=24% Similarity=0.258 Sum_probs=53.9
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCCCCceeE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHYWPTWEL 753 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y~pt~e~ 753 (775)
.+..|+.|.+||||++|||.+||.|++|||. .. .+.....|..+.+. +.+.|..+.+.++..-. ||.++
T Consensus 462 g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~-s~-------~l~~~~~~d~i~v~-~~~~~~L~e~~v~~~~~--~~~~~ 530 (558)
T COG3975 462 GHEKITFVFPGGPAYKAGLSPGDKIVAINGI-SD-------QLDRYKVNDKIQVH-VFREGRLREFLVKLGGD--PTAQY 530 (558)
T ss_pred CeeEEEecCCCChhHhccCCCccEEEEEcCc-cc-------cccccccccceEEE-EccCCceEEeecccCCC--ccceE
Confidence 3678999999999999999999999999999 22 22344567889988 67788887777776655 34444
Q ss_pred E
Q 004068 754 I 754 (775)
Q Consensus 754 ~ 754 (775)
+
T Consensus 531 ~ 531 (558)
T COG3975 531 I 531 (558)
T ss_pred E
Confidence 3
No 81
>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=95.95 E-value=0.024 Score=54.66 Aligned_cols=69 Identities=17% Similarity=0.191 Sum_probs=49.2
Q ss_pred cceEEEEEEcCCChHhhh-ccC-CCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEe--cCeEEEEEEEec
Q 004068 565 RQVLRVKGCLAGSKAENM-LEQ-GDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFR--QGREIELQVGTD 638 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~a-Lq~-GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R--~Gk~~~l~V~l~ 638 (775)
..++.|.+|.++|||+++ |++ .|.|+.+|+..+.+.++|...++... +..+.|.|.+ .....++++.+.
T Consensus 42 ~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~l~~~v~~~~-----~~~l~L~Vyns~~~~vR~V~i~P~ 114 (138)
T PF04495_consen 42 EEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDDLFELVEANE-----NKPLQLYVYNSKTDSVREVTITPS 114 (138)
T ss_dssp CCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCHHHHHHHHTT-----TS-EEEEEEETTTTCEEEEEE---
T ss_pred cceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHHHHHHHHHcC-----CCcEEEEEEECCCCeEEEEEEEcC
Confidence 357789999999999986 998 69999999999999999999887654 6789999975 344556666655
No 82
>PRK11186 carboxy-terminal protease; Provisional
Probab=95.61 E-value=0.032 Score=66.89 Aligned_cols=65 Identities=15% Similarity=0.306 Sum_probs=45.6
Q ss_pred eEEEEEEcCCChHhhh--ccCCCEEEEEC--CEEeC---Ch--hhHHHHHHhcCCCCCCCCeEEEEEEec---CeEEEEE
Q 004068 567 VLRVKGCLAGSKAENM--LEQGDMMLAIN--KQPVT---CF--HDIENACQALDKDGEDNGKLDITIFRQ---GREIELQ 634 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~a--Lq~GDiILsVN--Gk~V~---s~--~dl~~~l~~~~~~~~~g~~v~l~V~R~---Gk~~~l~ 634 (775)
.++|..|.+||||+++ |++||+|++|| |+++. .| +++..++ ... .|.++.|+|.|. ++..+++
T Consensus 256 ~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~vv~li---rG~--~Gt~V~LtV~r~~~~~~~~~vt 330 (667)
T PRK11186 256 YTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALI---KGP--KGSKVRLEILPAGKGTKTRIVT 330 (667)
T ss_pred eEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHHHHHh---cCC--CCCEEEEEEEeCCCCCceEEEE
Confidence 4568899999999983 99999999999 55543 33 2444444 221 478899999983 4555555
Q ss_pred EE
Q 004068 635 VG 636 (775)
Q Consensus 635 V~ 636 (775)
+.
T Consensus 331 l~ 332 (667)
T PRK11186 331 LT 332 (667)
T ss_pred EE
Confidence 54
No 83
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=95.06 E-value=0.052 Score=61.95 Aligned_cols=89 Identities=22% Similarity=0.284 Sum_probs=61.3
Q ss_pred ceEEEEEEEEcChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHH
Q 004068 529 VRILEVELYPTLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENAC 607 (775)
Q Consensus 529 ~~~Lgve~~~i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l 607 (775)
+...|+.+.+.... +..+|+.-. +.....+|..|.++|||+++ |.+||.|++|||. -. .+
T Consensus 436 l~~~gL~~~~~~~~-~~~LGl~v~----------~~~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~-s~-------~l 496 (558)
T COG3975 436 LERFGLTFTPKPRE-AYYLGLKVK----------SEGGHEKITFVFPGGPAYKAGLSPGDKIVAINGI-SD-------QL 496 (558)
T ss_pred hhhcceEEEecCCC-CcccceEec----------ccCCeeEEEecCCCChhHhccCCCccEEEEEcCc-cc-------cc
Confidence 33456666665433 345665532 11234458999999999996 9999999999998 11 11
Q ss_pred HhcCCCCCCCCeEEEEEEecCeEEEEEEEeccc
Q 004068 608 QALDKDGEDNGKLDITIFRQGREIELQVGTDVR 640 (775)
Q Consensus 608 ~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~ 640 (775)
...+ .++.+++.+.|.|..+++.+.+...
T Consensus 497 ~~~~----~~d~i~v~~~~~~~L~e~~v~~~~~ 525 (558)
T COG3975 497 DRYK----VNDKIQVHVFREGRLREFLVKLGGD 525 (558)
T ss_pred cccc----cccceEEEEccCCceEEeecccCCC
Confidence 1122 3688999999999999988877654
No 84
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=94.90 E-value=0.54 Score=49.73 Aligned_cols=145 Identities=11% Similarity=0.013 Sum_probs=78.7
Q ss_pred eeEEEEEEEecCCceEEEEecceeccCC-c--eEEEEEcC----CCe---EEeEEEEEEeC----CCcEEEEEeCCCCCC
Q 004068 316 FFGTGVIIYHSQSMGLVVVDKNTVAISA-S--DVMLSFAA----FPI---EIPGEVVFLHP----VHNFALIAYDPSSLG 381 (775)
Q Consensus 316 ~~GSGvVId~~~~~GlVLTnr~~V~~~~-~--~I~Vt~~d----~~~---~~~A~Vv~~dp----~~DlAILk~d~~~l~ 381 (775)
...++++|. .-+|||+.|++-... + ++.+ +.. ++. .+.....+..+ ..|.+...+.+..+.
T Consensus 64 ~~~~~~lI~----pntvLTa~Hc~~s~~~G~~~~~~-~p~g~~~~~~~~~~~~~~~~~~~~g~~~~~d~~~~~v~~~~~~ 138 (251)
T COG3591 64 LCTAATLIG----PNTVLTAGHCIYSPDYGEDDIAA-APPGVNSDGGPFYGITKIEIRVYPGELYKEDGASYDVGEAALE 138 (251)
T ss_pred ceeeEEEEc----CceEEEeeeEEecCCCChhhhhh-cCCcccCCCCCCCceeeEEEEecCCceeccCCceeeccHHHhc
Confidence 344669999 679999988765332 1 1221 210 011 22222222222 356666666543332
Q ss_pred --cccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccceEEEEEeeccCCCC-
Q 004068 382 --VAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNMEVIELDTDFGSTF- 458 (775)
Q Consensus 382 --~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~~- 458 (775)
...........+......+.+|.+-.+|||.+.....+.-.=++. +.. .+..+++-|+..-+|+
T Consensus 139 ~g~~~~~~~~~~~~~~~~~~~~~d~i~v~GYP~dk~~~~~~~e~t~~---v~~----------~~~~~l~y~~dT~pG~S 205 (251)
T COG3591 139 SGINIGDVVNYLKRNTASEAKANDRITVIGYPGDKPNIGTMWESTGK---VNS----------IKGNKLFYDADTLPGSS 205 (251)
T ss_pred cCCCccccccccccccccccccCceeEEEeccCCCCcceeEeeecce---eEE----------EecceEEEEecccCCCC
Confidence 000111222233344457999999999999776643332211211 110 1123566666666665
Q ss_pred CceEEccCceEEEEeeeecc
Q 004068 459 SGVLTDEHGRVQAIWGSFST 478 (775)
Q Consensus 459 GGpL~d~~G~VvGI~~~~~~ 478 (775)
|-|+++.+.+|+|++....+
T Consensus 206 GSpv~~~~~~vigv~~~g~~ 225 (251)
T COG3591 206 GSPVLISKDEVIGVHYNGPG 225 (251)
T ss_pred CCceEecCceEEEEEecCCC
Confidence 99999999999999986554
No 85
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=94.52 E-value=0.035 Score=64.15 Aligned_cols=55 Identities=24% Similarity=0.398 Sum_probs=44.0
Q ss_pred CCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEE
Q 004068 673 GHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 673 ~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~ 728 (775)
+.|+||.+|.|||-|++.||+.||.|++|||+...++ .+.++..-...+..+.|.
T Consensus 561 GfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfeni-s~~KA~eiLrnnthLtlt 615 (1283)
T KOG3542|consen 561 GFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENI-SAKKAEEILRNNTHLTLT 615 (1283)
T ss_pred cceeEEeeecCCchHHHhhhhhhhhhhhccccchhhh-hHHHHHHHhcCCceEEEE
Confidence 3589999999999999999999999999999999987 444554443445555554
No 86
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=94.43 E-value=0.083 Score=61.36 Aligned_cols=47 Identities=21% Similarity=0.319 Sum_probs=42.1
Q ss_pred cceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcC
Q 004068 565 RQVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALD 611 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~ 611 (775)
.|.+.|..|.++++|.++ |++||++++|||.||++.++....++...
T Consensus 397 ~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~~~~~~s~~ 444 (1051)
T KOG3532|consen 397 NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQATRFLQSTT 444 (1051)
T ss_pred ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHHHHHHHhcc
Confidence 466778999999999996 99999999999999999999999886554
No 87
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=94.40 E-value=0.1 Score=54.02 Aligned_cols=59 Identities=20% Similarity=0.226 Sum_probs=52.7
Q ss_pred CCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEE
Q 004068 683 HGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLK 742 (775)
Q Consensus 683 ~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk 742 (775)
.++.-+..||++||..+++|+....+.++..++++.++.-+.+.++ +.|+|++.-+.+.
T Consensus 216 d~slF~~sglq~GDIavaiNnldltdp~~m~~llq~l~~m~s~qlT-v~R~G~rhdInV~ 274 (275)
T COG3031 216 DGSLFYKSGLQRGDIAVAINNLDLTDPEDMFRLLQMLRNMPSLQLT-VIRRGKRHDINVR 274 (275)
T ss_pred CcchhhhhcCCCcceEEEecCcccCCHHHHHHHHHhhhcCcceEEE-EEecCccceeeec
Confidence 4566778999999999999999999999999999999878899999 7899998877653
No 88
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=93.45 E-value=0.076 Score=47.57 Aligned_cols=35 Identities=29% Similarity=0.242 Sum_probs=30.9
Q ss_pred ceEEEEEEcCCChHhhh-ccCCCEEEEECCEEeCCh
Q 004068 566 QVLRVKGCLAGSKAENM-LEQGDMMLAINKQPVTCF 600 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~ 600 (775)
.+++|.+|..||||+.+ |+.+|.|+.+||-..+-.
T Consensus 59 ~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMv 94 (124)
T KOG3553|consen 59 KGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMV 94 (124)
T ss_pred ccEEEEEeccCChhhhhcceecceEEEecCceeEEE
Confidence 57789999999999986 999999999999776644
No 89
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=93.42 E-value=0.19 Score=48.32 Aligned_cols=52 Identities=23% Similarity=0.286 Sum_probs=41.6
Q ss_pred ceEEEEEcCCCHHhHc-CCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEE
Q 004068 675 GVYVARWCHGSPVHRY-GLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~a-GL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~ 728 (775)
.+||+.+.||+-|++- ||+.||.+++|||+.|..- +-.++.++.. -..|+|.
T Consensus 116 piyisriipggvadrhgglkrgdqllsvngvsvege~hekavellkaa--~gsvklv 170 (207)
T KOG3550|consen 116 PIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEHHEKAVELLKAA--VGSVKLV 170 (207)
T ss_pred ceEEEeecCCccccccCcccccceeEeecceeecchhhHHHHHHHHHh--cCcEEEE
Confidence 6799999999999985 6999999999999999754 4556666662 3457766
No 90
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=93.23 E-value=0.29 Score=55.41 Aligned_cols=72 Identities=18% Similarity=0.306 Sum_probs=52.2
Q ss_pred eeeeeeeecCChhhHhhhCCCCCCCCceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhc-CCCCE
Q 004068 649 INWCGCIVQDPHPAVRALGFLPEEGHGVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEI-EHGEF 724 (775)
Q Consensus 649 v~~~G~~lq~p~~~vrql~~lps~~~gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i-~~g~~ 724 (775)
+.|+|+.+..-+. .-...|+||.++.+|++-+.-| +.+||.|+.||.....++ ++.+++++++ ....+
T Consensus 260 vnfLGiSivgqsn--------~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gP 331 (626)
T KOG3571|consen 260 VNFLGISIVGQSN--------ARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGP 331 (626)
T ss_pred cccceeEeecccC--------cCCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCC
Confidence 5678877643220 0112389999999999877666 899999999999999887 6777887775 22334
Q ss_pred EEEE
Q 004068 725 VRVR 728 (775)
Q Consensus 725 V~L~ 728 (775)
++|.
T Consensus 332 i~lt 335 (626)
T KOG3571|consen 332 IKLT 335 (626)
T ss_pred eEEE
Confidence 6666
No 91
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=92.83 E-value=0.22 Score=58.04 Aligned_cols=55 Identities=13% Similarity=0.077 Sum_probs=47.5
Q ss_pred CCceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCEEEEE
Q 004068 673 GHGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 673 ~~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~V~L~ 728 (775)
.+-|-|-.|.+++||.++.+++||++++|||+||.+..+..++++... ++-..|+
T Consensus 397 ~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~~~~~~s~~-~~~~~l~ 451 (1051)
T KOG3532|consen 397 NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQATRFLQSTT-GDLTVLV 451 (1051)
T ss_pred ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHHHHHHHhcc-cceEEEE
Confidence 346779999999999999999999999999999999999999999854 5544443
No 92
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=92.57 E-value=0.15 Score=61.20 Aligned_cols=55 Identities=20% Similarity=0.236 Sum_probs=45.7
Q ss_pred CceEEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVH 731 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~ 731 (775)
+-|+|..|.+|+|+. ..|++||.|+.|||.||++. +..+++|+.. ...|.|+++.
T Consensus 75 rPviVr~VT~GGps~-GKL~PGDQIl~vN~Epv~daprervIdlvRac--e~sv~ltV~q 131 (1298)
T KOG3552|consen 75 RPVIVRFVTEGGPSI-GKLQPGDQILAVNGEPVKDAPRERVIDLVRAC--ESSVNLTVCQ 131 (1298)
T ss_pred CceEEEEecCCCCcc-ccccCCCeEEEecCcccccccHHHHHHHHHHH--hhhcceEEec
Confidence 578999999999997 46999999999999999875 8888999884 3556666544
No 93
>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=92.45 E-value=0.31 Score=58.81 Aligned_cols=43 Identities=14% Similarity=0.240 Sum_probs=31.6
Q ss_pred CcEEEEEe--CCC---------CCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCC
Q 004068 368 HNFALIAY--DPS---------SLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSL 414 (775)
Q Consensus 368 ~DlAILk~--d~~---------~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~ 414 (775)
-|++++|+ ++. .+|. .|-.-++++... ++.||.|+++|||..-
T Consensus 200 gDfs~fRvY~~~dg~PA~Ys~dnvP~---~p~~~l~is~~G-~keGD~vmv~GyPG~T 253 (698)
T PF10459_consen 200 GDFSFFRVYADKDGKPADYSKDNVPY---KPKHFLKISLKG-VKEGDFVMVAGYPGRT 253 (698)
T ss_pred CceEEEEEEeCCCCCccccCcCCCCC---CCccccccCCCC-CCCCCeEEEccCCCcc
Confidence 39999999 422 3442 444557887776 9999999999999653
No 94
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=92.02 E-value=0.18 Score=60.66 Aligned_cols=54 Identities=22% Similarity=0.359 Sum_probs=43.0
Q ss_pred EEEEEEcCCChHhhhccCCCEEEEECCEEeCC--hhhHHHHHHhcCCCCCCCCeEEEEEEec
Q 004068 568 LRVKGCLAGSKAENMLEQGDMMLAINKQPVTC--FHDIENACQALDKDGEDNGKLDITIFRQ 627 (775)
Q Consensus 568 l~V~~V~~gSpA~~aLq~GDiILsVNGk~V~s--~~dl~~~l~~~~~~~~~g~~v~l~V~R~ 627 (775)
++|+.|.+|+|+...|++||.||+|||++|.. |+.+..+++.. .+.|.++|.+-
T Consensus 77 viVr~VT~GGps~GKL~PGDQIl~vN~Epv~daprervIdlvRac------e~sv~ltV~qP 132 (1298)
T KOG3552|consen 77 VIVRFVTEGGPSIGKLQPGDQILAVNGEPVKDAPRERVIDLVRAC------ESSVNLTVCQP 132 (1298)
T ss_pred eEEEEecCCCCccccccCCCeEEEecCcccccccHHHHHHHHHHH------hhhcceEEecc
Confidence 45899999999998899999999999999986 45555555433 36688888873
No 95
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=91.28 E-value=0.35 Score=50.85 Aligned_cols=54 Identities=20% Similarity=0.408 Sum_probs=46.3
Q ss_pred ceEEEEEcCCCHHhHcCC-CCCCEEEEECCeeC--CCHHHHHHHHHhcCCCCEEEEE
Q 004068 675 GVYVARWCHGSPVHRYGL-YALQWIVEINGKRT--PDLEAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL-~~GD~I~~VNG~pV--~dl~~f~~~v~~i~~g~~V~L~ 728 (775)
|++|++..+|+-|+.-|| ..+|.|++|||.+| +++++..+++-....|-.|+++
T Consensus 195 GIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvANshNLIiTVk 251 (358)
T KOG3606|consen 195 GIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVANSHNLIITVK 251 (358)
T ss_pred ceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhcccceEEEec
Confidence 999999999999999996 67999999999998 6899999998875555555554
No 96
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=90.93 E-value=0.43 Score=45.96 Aligned_cols=56 Identities=23% Similarity=0.372 Sum_probs=39.0
Q ss_pred ceEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEE
Q 004068 566 QVLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIF 625 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~ 625 (775)
.-++|+++.||+.|+. + |+.||.+++|||..|..-. -+.++..++.. -++++++|.
T Consensus 115 spiyisriipggvadrhgglkrgdqllsvngvsvege~-hekavellkaa---~gsvklvvr 172 (207)
T KOG3550|consen 115 SPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEH-HEKAVELLKAA---VGSVKLVVR 172 (207)
T ss_pred CceEEEeecCCccccccCcccccceeEeecceeecchh-hHHHHHHHHHh---cCcEEEEEe
Confidence 3467999999999997 4 9999999999999997643 23333333321 245666653
No 97
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=90.84 E-value=0.96 Score=50.58 Aligned_cols=58 Identities=17% Similarity=0.252 Sum_probs=48.4
Q ss_pred EEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCHHHHHHHHHhcCCCCE---EEEEEEEe-CCeE
Q 004068 677 YVARWCHGSPVHRYGLYALQWIVEINGKRTPDLEAFVNVTKEIEHGEF---VRVRTVHL-NGKP 736 (775)
Q Consensus 677 ~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl~~f~~~v~~i~~g~~---V~L~~V~R-dg~~ 736 (775)
++..+..+|+|.++|+++||.|+++|++++.++++..+.+.... +.. +.+. +.| ++..
T Consensus 132 ~~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~i~-~~~~~~~~ 193 (375)
T COG0750 132 VVGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLVAAA-GDVFNLLTIL-VIRLDGEA 193 (375)
T ss_pred eeeecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHHHHHHhcc-CCcccceEEE-EEecccee
Confidence 34478899999999999999999999999999999999888743 444 6777 456 7776
No 98
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=90.83 E-value=0.22 Score=59.95 Aligned_cols=77 Identities=22% Similarity=0.304 Sum_probs=54.8
Q ss_pred hhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEE
Q 004068 545 RSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDI 622 (775)
Q Consensus 545 r~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l 622 (775)
..|||+-- .++...++.-|++|..|.+|++|+. + |+.||.+|+|||+..-...+-+.+-.... +|..+.|
T Consensus 943 nGmGLSIV----AAkGaGq~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmtr----tg~vV~l 1014 (1629)
T KOG1892|consen 943 NGMGLSIV----AAKGAGQRKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMTR----TGNVVHL 1014 (1629)
T ss_pred CCceEEEE----eeccCCccccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHhc----cCCeEEE
Confidence 45666632 1234456677889999999999997 6 99999999999998876655444332223 4777888
Q ss_pred EEEecCe
Q 004068 623 TIFRQGR 629 (775)
Q Consensus 623 ~V~R~Gk 629 (775)
.|...|.
T Consensus 1015 eVaKqgA 1021 (1629)
T KOG1892|consen 1015 EVAKQGA 1021 (1629)
T ss_pred ehhhhhh
Confidence 8876554
No 99
>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=89.85 E-value=6 Score=39.62 Aligned_cols=154 Identities=16% Similarity=0.169 Sum_probs=82.1
Q ss_pred hhhhhcCcEEEEEEeecCccccCCccccceeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEE--eEEEEEE
Q 004068 287 AESVIEPTLVMFEVHVPPSCMIDGVHSQHFFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEI--PGEVVFL 364 (775)
Q Consensus 287 ~~~~l~~SvV~V~~~~~~~~~~Dg~~~~~~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~--~A~Vv~~ 364 (775)
+.+.+++-++.|++ . .+...++++-|. +.+.|.++| .. ....+.+. +..+ ...+...
T Consensus 7 ~~~~~~~N~~~v~~--~---------~g~~t~l~~gi~----~~~~lvp~H--~~--~~~~i~i~--g~~~~~~d~~~lv 65 (172)
T PF00548_consen 7 ERSLIKKNVVPVTT--G---------KGEFTMLALGIY----DRYFLVPTH--EE--PEDTIYID--GVEYKVDDSVVLV 65 (172)
T ss_dssp HHHHHHHHEEEEEE--T---------TEEEEEEEEEEE----BTEEEEEGG--GG--GCSEEEET--TEEEEEEEEEEEE
T ss_pred HHHHHhccEEEEEe--C---------CceEEEecceEe----eeEEEEECc--CC--CcEEEEEC--CEEEEeeeeEEEe
Confidence 34455666777755 2 566888988898 567778877 22 22335554 4444 3344456
Q ss_pred eCC---CcEEEEEeCCC-CCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccc
Q 004068 365 HPV---HNFALIAYDPS-SLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRY 440 (775)
Q Consensus 365 dp~---~DlAILk~d~~-~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pry 440 (775)
+.. .|+++++++.. .+ .+++. -|.+.. -...+.+.++=.+.........+.|+.-. .++......+
T Consensus 66 ~~~~~~~Dl~~v~l~~~~kf-----rDIrk-~~~~~~-~~~~~~~l~v~~~~~~~~~~~v~~v~~~~-~i~~~g~~~~-- 135 (172)
T PF00548_consen 66 DRDGVDTDLTLVKLPRNPKF-----RDIRK-FFPESI-PEYPECVLLVNSTKFPRMIVEVGFVTNFG-FINLSGTTTP-- 135 (172)
T ss_dssp ETTSSEEEEEEEEEESSS-B-------GGG-GSBSSG-GTEEEEEEEEESSSSTCEEEEEEEEEEEE-EEEETTEEEE--
T ss_pred cCCCcceeEEEEEccCCccc-----Cchhh-hhcccc-ccCCCcEEEEECCCCccEEEEEEEEeecC-ccccCCCEee--
Confidence 655 49999999542 22 22211 111211 24556666665544444444555555322 2222111111
Q ss_pred cccceEEEEEeec-cCCCCCceEEcc---CceEEEEeeee
Q 004068 441 RAMNMEVIELDTD-FGSTFSGVLTDE---HGRVQAIWGSF 476 (775)
Q Consensus 441 ra~n~e~I~~Da~-i~~~~GGpL~d~---~G~VvGI~~~~ 476 (775)
..+.=+++ ..+.|||+|+.. .++++||+.+.
T Consensus 136 -----~~~~Y~~~t~~G~CG~~l~~~~~~~~~i~GiHvaG 170 (172)
T PF00548_consen 136 -----RSLKYKAPTKPGMCGSPLVSRIGGQGKIIGIHVAG 170 (172)
T ss_dssp -----EEEEEESEEETTGTTEEEEESCGGTTEEEEEEEEE
T ss_pred -----EEEEEccCCCCCccCCeEEEeeccCccEEEEEecc
Confidence 23333443 345589999863 57999998763
No 100
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=88.97 E-value=0.72 Score=53.05 Aligned_cols=74 Identities=23% Similarity=0.315 Sum_probs=58.7
Q ss_pred ceEEEEEcCCCHHhHcCC-CCCCEEEEECCeeCCC--HHHHHHHHHhcCCCCEEEEEEEEeC---CeEEEEEEEeCCCCC
Q 004068 675 GVYVARWCHGSPVHRYGL-YALQWIVEINGKRTPD--LEAFVNVTKEIEHGEFVRVRTVHLN---GKPRVLTLKQDLHYW 748 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL-~~GD~I~~VNG~pV~d--l~~f~~~v~~i~~g~~V~L~~V~Rd---g~~~~ltlk~d~~y~ 748 (775)
.++|..+..|+.|++-|+ +.||.|.+|||..+.+ ++++.+.++... ..++++++--- .+...+-++.-.+|+
T Consensus 147 ~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~--G~itfkiiP~~~~~~~~~~~~vra~FdYd 224 (542)
T KOG0609|consen 147 KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR--GSITFKIIPSYRPPPQQQVVFVRALFDYD 224 (542)
T ss_pred ccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC--CcEEEEEcccccCCCceeeeeehhhcCcC
Confidence 479999999999999985 8899999999999965 589999999854 55888855321 333457788888898
Q ss_pred Cc
Q 004068 749 PT 750 (775)
Q Consensus 749 pt 750 (775)
|.
T Consensus 225 P~ 226 (542)
T KOG0609|consen 225 PK 226 (542)
T ss_pred cc
Confidence 84
No 101
>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=88.69 E-value=1.8 Score=43.71 Aligned_cols=82 Identities=20% Similarity=0.291 Sum_probs=52.2
Q ss_pred hhHHHHHHhcCCCCCCCCeEEEEEEe---cCeEEE--EEEEecccCCCCcceeeeeeeeeecCChhhHhhhCCCCCCCCc
Q 004068 601 HDIENACQALDKDGEDNGKLDITIFR---QGREIE--LQVGTDVRDGNGTTRVINWCGCIVQDPHPAVRALGFLPEEGHG 675 (775)
Q Consensus 601 ~dl~~~l~~~~~~~~~g~~v~l~V~R---~Gk~~~--l~V~l~~~~~~~t~r~v~~~G~~lq~p~~~vrql~~lps~~~g 675 (775)
.++...+...+ .|+.+.++|.+ .|+..+ +.+++.+.. ....| ..-+|+.+.. .+..
T Consensus 63 ~~~~~~~~~~~----~g~~lrl~V~G~~~~G~~~~k~v~lpl~~~~-~g~eR-L~~~GL~l~~-------------e~~~ 123 (183)
T PF11874_consen 63 SELVQVAEQLP----PGSSLRLRVEGPDFEGDPVTKTVLLPLGDGA-DGEER-LEAAGLTLME-------------EGGK 123 (183)
T ss_pred HHHHHHHhcCC----CCCEEEEEEEccCCCCCceEEEEEEEcCCCC-CHHHH-HHhCCCEEEe-------------eCCE
Confidence 34555554444 47889999986 455444 444444332 11122 2233555443 2236
Q ss_pred eEEEEEcCCCHHhHcCCCCCCEEEEE
Q 004068 676 VYVARWCHGSPVHRYGLYALQWIVEI 701 (775)
Q Consensus 676 V~Vs~V~~GSPA~~aGL~~GD~I~~V 701 (775)
+.|..+..||||+++|+.-+..|++|
T Consensus 124 ~~Vd~v~fgS~A~~~g~d~d~~I~~v 149 (183)
T PF11874_consen 124 VIVDEVEFGSPAEKAGIDFDWEITEV 149 (183)
T ss_pred EEEEecCCCCHHHHcCCCCCcEEEEE
Confidence 89999999999999999999988876
No 102
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=88.43 E-value=0.6 Score=57.76 Aligned_cols=51 Identities=29% Similarity=0.378 Sum_probs=42.0
Q ss_pred EEEEEcCCCHHhHcCCCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEE
Q 004068 677 YVARWCHGSPVHRYGLYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 677 ~Vs~V~~GSPA~~aGL~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~ 729 (775)
.|..|..||||..+||+++|.|++|||.++..+ .++.+.+-+ .|..+.+++
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll~--~gn~v~~~t 713 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLLK--SGNKVTLRT 713 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHHh--cCCeeEEEe
Confidence 688999999999999999999999999999876 355555543 477788774
No 103
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=86.34 E-value=1.4 Score=51.56 Aligned_cols=73 Identities=29% Similarity=0.396 Sum_probs=54.9
Q ss_pred ceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCCCC
Q 004068 675 GVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDLHY 747 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~~y 747 (775)
-|+|....+++||++.| |-.||.|++|||...--| ..-..+|+..+.-+.|+|.+|.--=+.-++-.+|+..|
T Consensus 674 TVViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~cpPV~~V~I~RPd~ky 749 (829)
T KOG3605|consen 674 TVVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSCPPVTTVLIRRPDLRY 749 (829)
T ss_pred HHHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecCCCceEEEeecccchh
Confidence 46788899999999988 899999999999886544 56677777766567899987765444444444555554
No 104
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=85.58 E-value=2.9 Score=46.69 Aligned_cols=58 Identities=24% Similarity=0.341 Sum_probs=46.5
Q ss_pred EEEEcCCChHhhh-ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCe---EEEEEEe-cCeEEE
Q 004068 570 VKGCLAGSKAENM-LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGK---LDITIFR-QGREIE 632 (775)
Q Consensus 570 V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~---v~l~V~R-~Gk~~~ 632 (775)
+..+..+|+++.+ ++.||.++++|++++.+|+++...+.... +.. +.+.+.| ++....
T Consensus 133 ~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~~~~-----~~~~~~~~i~~~~~~~~~~~ 195 (375)
T COG0750 133 VGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLVAAA-----GDVFNLLTILVIRLDGEAHA 195 (375)
T ss_pred eeecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHHHHHHhcc-----CCcccceEEEEEeccceeee
Confidence 4468889999986 99999999999999999999988875443 333 7888888 666643
No 105
>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=84.81 E-value=7.3 Score=46.30 Aligned_cols=124 Identities=18% Similarity=0.168 Sum_probs=70.5
Q ss_pred eCCCcEEEEEeCCCC-----CCcccc--cceeeeeeCCC------CCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccc
Q 004068 365 HPVHNFALIAYDPSS-----LGVAGA--SVVRAAELLPE------PALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALN 431 (775)
Q Consensus 365 dp~~DlAILk~d~~~-----l~~~~~--~~v~~~~lg~s------~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~ 431 (775)
....|+|||++++.. ++.... ..=..+.+.+. ..++.|..|+=+|...++ +.|+|.++. +.
T Consensus 540 ~~LsD~AIIkV~~~~~~~N~LGddi~f~~~dP~l~f~NlyV~~~~~~~~~G~~VfK~GrTTgy----T~G~lNg~k--lv 613 (695)
T PF08192_consen 540 KRLSDWAIIKVNKERKCQNYLGDDIQFNEPDPTLMFQNLYVREVVSNLVPGMEVFKVGRTTGY----TTGILNGIK--LV 613 (695)
T ss_pred ccccceEEEEeCCCceecCCCCccccccCCCccccccccchhhhhhccCCCCeEEEecccCCc----cceEecceE--EE
Confidence 455799999998764 221000 01112333321 246789999999988664 477787763 22
Q ss_pred cC-CCCcccccccceEEEEEe---eccCCCC--CceEEccCce------EEEEeeeecccccccCCCCCCceeeeccccc
Q 004068 432 IS-SADCPRYRAMNMEVIELD---TDFGSTF--SGVLTDEHGR------VQAIWGSFSTQVKFGCSSSEDHQFVRGIPIY 499 (775)
Q Consensus 432 ~~-~~~~pryra~n~e~I~~D---a~i~~~~--GGpL~d~~G~------VvGI~~~~~~~~~~~~~~~~~~~f~~aIPi~ 499 (775)
.. +..+.. .+++... ..+..++ |..+++.-+. |+||..+|-++ -.+|.+-.|+.
T Consensus 614 yw~dG~i~s-----~efvV~s~~~~~Fa~~GDSGS~VLtk~~d~~~gLgvvGMlhsydge---------~kqfglftPi~ 679 (695)
T PF08192_consen 614 YWADGKIQS-----SEFVVSSDNNPAFASGGDSGSWVLTKLEDNNKGLGVVGMLHSYDGE---------QKQFGLFTPIN 679 (695)
T ss_pred EecCCCeEE-----EEEEEecCCCccccCCCCcccEEEecccccccCceeeEEeeecCCc---------cceeeccCcHH
Confidence 22 111111 2443333 2344444 5555575444 99999888776 34565567887
Q ss_pred hhhhHHHHH
Q 004068 500 TISRVLDKI 508 (775)
Q Consensus 500 ~i~~vl~~l 508 (775)
.|+.-|+++
T Consensus 680 ~il~rl~~v 688 (695)
T PF08192_consen 680 EILDRLEEV 688 (695)
T ss_pred HHHHHHHHh
Confidence 777655543
No 106
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.18 E-value=2.6 Score=47.35 Aligned_cols=92 Identities=23% Similarity=0.338 Sum_probs=61.0
Q ss_pred ceEEEEEcCCCHHhHcCCCC-CCEEEEECCeeCC-CHHHHHHHHHhcCCCCEEEEEEEEeCCe-EEEEEEEeCCCCC---
Q 004068 675 GVYVARWCHGSPVHRYGLYA-LQWIVEINGKRTP-DLEAFVNVTKEIEHGEFVRVRTVHLNGK-PRVLTLKQDLHYW--- 748 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aGL~~-GD~I~~VNG~pV~-dl~~f~~~v~~i~~g~~V~L~~V~Rdg~-~~~ltlk~d~~y~--- 748 (775)
|--|-+|..+|||+++||.+ -|+|++|||.... +-+.|...++.. ..+ |+|++++-..+ .+.++|++...+-
T Consensus 16 g~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~Lk~llk~~-sek-Vkltv~n~kt~~~R~v~I~ps~~wggql 93 (462)
T KOG3834|consen 16 GYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDTLKALLKAN-SEK-VKLTVYNSKTQEVRIVEIVPSNNWGGQL 93 (462)
T ss_pred eEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHHHHHHHHhc-ccc-eEEEEEecccceeEEEEecccccccccc
Confidence 44588999999999999976 7899999999997 445566666663 334 99987665443 4556666554332
Q ss_pred CceeEEecC----CCCCcEEEEec
Q 004068 749 PTWELIFDP----DTALWRRKSVK 768 (775)
Q Consensus 749 pt~e~~~~~----~~~~W~~~~~~ 768 (775)
=-+-++|.. .-.-|.-..+.
T Consensus 94 lGvsvrFcsf~~A~~~vwHvl~V~ 117 (462)
T KOG3834|consen 94 LGVSVRFCSFDGAVESVWHVLSVE 117 (462)
T ss_pred cceEEEeccCccchhheeeeeecC
Confidence 234455542 23467655543
No 107
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=83.20 E-value=1 Score=49.75 Aligned_cols=52 Identities=21% Similarity=0.346 Sum_probs=44.4
Q ss_pred ceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEE
Q 004068 675 GVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~ 728 (775)
.++|+.+.+|-.|+|.+ |..||.|++|||....+. |+.+++++. .|+.|.+.
T Consensus 111 PIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLKr--aGkeV~le 165 (506)
T KOG3551|consen 111 PILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALKR--AGKEVLLE 165 (506)
T ss_pred ceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHHh--hCceeeee
Confidence 45899999999999987 899999999999998765 788888886 57877766
No 108
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=82.25 E-value=1.8 Score=48.08 Aligned_cols=47 Identities=21% Similarity=0.275 Sum_probs=41.9
Q ss_pred CCCceEEEEEcCCCHHhHc-CCCCCCEEEEECCeeCCCHHHHHHHHHh
Q 004068 672 EGHGVYVARWCHGSPVHRY-GLYALQWIVEINGKRTPDLEAFVNVTKE 718 (775)
Q Consensus 672 ~~~gV~Vs~V~~GSPA~~a-GL~~GD~I~~VNG~pV~dl~~f~~~v~~ 718 (775)
.+.||.|++|...||+-.. ||.+||.|+++||-||.+.+|+.+-++.
T Consensus 218 ~g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~dW~ecl~t 265 (484)
T KOG2921|consen 218 HGEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSDWLECLAT 265 (484)
T ss_pred cCceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHHHHHHHHh
Confidence 3569999999999998643 8999999999999999999999998877
No 109
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=80.29 E-value=3.5 Score=44.21 Aligned_cols=53 Identities=17% Similarity=0.171 Sum_probs=38.9
Q ss_pred eEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhhH--HHHHHhcCCCCCCCCeEEEEEE
Q 004068 567 VLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHDI--ENACQALDKDGEDNGKLDITIF 625 (775)
Q Consensus 567 ~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~dl--~~~l~~~~~~~~~g~~v~l~V~ 625 (775)
-++|..|..++||++ + ++.||.|++|||..|+.-.-+ ..+++.. -+.+.+.+.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~------~~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVS------LNEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHh------ccceEEEeh
Confidence 355788899999998 6 999999999999999875544 4455432 244666663
No 110
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=80.12 E-value=2 Score=50.39 Aligned_cols=56 Identities=29% Similarity=0.345 Sum_probs=40.0
Q ss_pred ceEEEEEEcCCChHhh-hccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEe
Q 004068 566 QVLRVKGCLAGSKAEN-MLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFR 626 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~-aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R 626 (775)
-+++|.+|.|+|.|+. +|+.||.|+.|||+...+.. +..+...+.. +..+.++|..
T Consensus 562 fgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis-~~KA~eiLrn----nthLtltvKt 618 (1283)
T KOG3542|consen 562 FGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENIS-AKKAEEILRN----NTHLTLTVKT 618 (1283)
T ss_pred ceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhh-HHHHHHHhcC----CceEEEEEec
Confidence 3456999999999987 59999999999999988774 3333333331 3446666543
No 111
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=78.96 E-value=1.6 Score=47.48 Aligned_cols=69 Identities=23% Similarity=0.350 Sum_probs=54.2
Q ss_pred ceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEEeCCeEEEEEEEeCC
Q 004068 675 GVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVHLNGKPRVLTLKQDL 745 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~Rdg~~~~ltlk~d~ 745 (775)
.|+|+.+.++-.|++-| |..||-|+.|||..|..- ++.+.++++ .|+.|+|++-..-..|-++.+..+.
T Consensus 81 PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLRN--AGdeVtlTV~~lr~ApaFLklpL~~ 152 (505)
T KOG3549|consen 81 PVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILRN--AGDEVTLTVKHLRAAPAFLKLPLTK 152 (505)
T ss_pred cEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHHh--cCCEEEEEeHhhhcCcHHhcCccCC
Confidence 46899999999999988 589999999999998754 789999996 6899999843334445555555554
No 112
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=77.95 E-value=4.7 Score=42.66 Aligned_cols=55 Identities=22% Similarity=0.220 Sum_probs=42.5
Q ss_pred ceEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeC--ChhhHHHHHHhcCCCCCCCCeEEEEEEe
Q 004068 566 QVLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVT--CFHDIENACQALDKDGEDNGKLDITIFR 626 (775)
Q Consensus 566 q~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~--s~~dl~~~l~~~~~~~~~g~~v~l~V~R 626 (775)
.++.|.+..+|+.|+. + |-..|.||+|||.+|. +.+++..|+-.. ...+-++|.-
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN------shNLIiTVkP 252 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN------SHNLIITVKP 252 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc------ccceEEEecc
Confidence 5667999999999998 5 9999999999999995 567777776432 2346666653
No 113
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=77.71 E-value=2.2 Score=45.71 Aligned_cols=52 Identities=15% Similarity=0.214 Sum_probs=41.9
Q ss_pred ceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEE
Q 004068 675 GVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVR 728 (775)
Q Consensus 675 gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~ 728 (775)
=+||.+|..++||.+-| ++.||.|++|||..|+.- -+..+.++.. -..|+|.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~--~~eV~Ih 85 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVS--LNEVKIH 85 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHh--ccceEEE
Confidence 67999999999999987 899999999999999753 5666667663 3456665
No 114
>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=75.38 E-value=3.3 Score=50.22 Aligned_cols=67 Identities=10% Similarity=0.057 Sum_probs=37.4
Q ss_pred ceEEEEEeeccCCCCCceEEccCceEEEEeeeecccccccCCC-CCCceeeeccccchhhhHHHHHHc
Q 004068 444 NMEVIELDTDFGSTFSGVLTDEHGRVQAIWGSFSTQVKFGCSS-SEDHQFVRGIPIYTISRVLDKIIS 510 (775)
Q Consensus 444 n~e~I~~Da~i~~~~GGpL~d~~G~VvGI~~~~~~~~~~~~~~-~~~~~f~~aIPi~~i~~vl~~l~~ 510 (775)
.+.++.+.-.++++||.|++|.+|++||+++-..-+...|+-. .....-+.++.+..|+.+|+++-.
T Consensus 621 pv~FlstnDitGGNSGSPvlN~~GeLVGl~FDgn~Esl~~D~~fdp~~~R~I~VDiRyvL~~ldkv~g 688 (698)
T PF10459_consen 621 PVNFLSTNDITGGNSGSPVLNAKGELVGLAFDGNWESLSGDIAFDPELNRTIHVDIRYVLWALDKVYG 688 (698)
T ss_pred eeEEEeccCcCCCCCCCccCCCCceEEEEeecCchhhcccccccccccceeEEEEHHHHHHHHHHHhC
Confidence 3445554444444459999999999999986211110000000 111111234667788888887653
No 115
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=72.38 E-value=5.1 Score=48.98 Aligned_cols=54 Identities=20% Similarity=0.361 Sum_probs=42.6
Q ss_pred CceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEE
Q 004068 674 HGVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRT 729 (775)
Q Consensus 674 ~gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~ 729 (775)
-|+||.+|.+|+||+.-| |.+||.+++|||...-.+ +...+++-. -|..|.|.+
T Consensus 960 lGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmtr--tg~vV~leV 1016 (1629)
T KOG1892|consen 960 LGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMTR--TGNVVHLEV 1016 (1629)
T ss_pred cceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHhc--cCCeEEEeh
Confidence 599999999999999877 899999999999987655 333344443 477788873
No 116
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=70.22 E-value=4.8 Score=44.80 Aligned_cols=45 Identities=18% Similarity=0.137 Sum_probs=39.9
Q ss_pred cceEEEEEEcCCChHhh--hccCCCEEEEECCEEeCChhhHHHHHHh
Q 004068 565 RQVLRVKGCLAGSKAEN--MLEQGDMMLAINKQPVTCFHDIENACQA 609 (775)
Q Consensus 565 ~q~l~V~~V~~gSpA~~--aLq~GDiILsVNGk~V~s~~dl~~~l~~ 609 (775)
-+++.|.+|...||+-. +|++||+|.++||-+|++.+|..+.++.
T Consensus 219 g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~dW~ecl~t 265 (484)
T KOG2921|consen 219 GEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSDWLECLAT 265 (484)
T ss_pred CceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHHHHHHHHh
Confidence 46677999999999986 5999999999999999999999888865
No 117
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=68.96 E-value=5.4 Score=45.70 Aligned_cols=58 Identities=17% Similarity=0.211 Sum_probs=40.5
Q ss_pred cChhhhhhcCCChhHHhhhhhcCCCccceEEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChh
Q 004068 539 TLLSKARSFGLSDDWVQALVKKDPVRRQVLRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFH 601 (775)
Q Consensus 539 i~~~~ar~lGls~~wi~~v~~~~~~~~q~l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~ 601 (775)
+.+..--.||++-- -+.+.-.-.+++|..+.+++..+. + +++||+||.||.....++.
T Consensus 255 LnMe~vnfLGiSiv-----gqsn~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmS 314 (626)
T KOG3571|consen 255 LNMETVNFLGISIV-----GQSNARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMS 314 (626)
T ss_pred ecccccccceeEee-----cccCcCCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcC
Confidence 34444445666631 112222347888999999887665 6 9999999999998887764
No 118
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=68.72 E-value=6.4 Score=45.58 Aligned_cols=53 Identities=21% Similarity=0.325 Sum_probs=42.1
Q ss_pred EEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCC--hhhHHHHHHhcCCCCCCCCeEEEEEEe
Q 004068 568 LRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTC--FHDIENACQALDKDGEDNGKLDITIFR 626 (775)
Q Consensus 568 l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s--~~dl~~~l~~~~~~~~~g~~v~l~V~R 626 (775)
++|.++..|+.+.+ + |+.||.|+.|||..+.+ ..++..++... .+.++++|.-
T Consensus 148 ~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~------~G~itfkiiP 204 (542)
T KOG0609|consen 148 VVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNS------RGSITFKIIP 204 (542)
T ss_pred cEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhC------CCcEEEEEcc
Confidence 56899999998887 6 99999999999999986 46666676433 3668888864
No 119
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=65.58 E-value=4.1 Score=45.17 Aligned_cols=56 Identities=21% Similarity=0.372 Sum_probs=38.5
Q ss_pred EEEEEEcCCChHhh--hccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEE--Eec
Q 004068 568 LRVKGCLAGSKAEN--MLEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITI--FRQ 627 (775)
Q Consensus 568 l~V~~V~~gSpA~~--aLq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V--~R~ 627 (775)
++|+.+.+|-.|++ +|..||.||+|||....+... +.+++.++. .|+.+.+.| .|+
T Consensus 112 IlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtH-deAVqaLKr---aGkeV~levKy~RE 171 (506)
T KOG3551|consen 112 ILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATH-DEAVQALKR---AGKEVLLEVKYMRE 171 (506)
T ss_pred eehhHhccccccccccceeeccEEEEecchhhhhcch-HHHHHHHHh---hCceeeeeeeeehh
Confidence 45888889988888 399999999999998876543 334444443 356554444 454
No 120
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=63.36 E-value=19 Score=38.25 Aligned_cols=56 Identities=23% Similarity=0.345 Sum_probs=47.0
Q ss_pred eEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH--HHHHHHHHhcCCCCEEEEEEEE
Q 004068 676 VYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL--EAFVNVTKEIEHGEFVRVRTVH 731 (775)
Q Consensus 676 V~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl--~~f~~~v~~i~~g~~V~L~~V~ 731 (775)
.+|..+.+||--++.. +..||.|.+|||+.+--+ .+..+.+++++.|+.++|+++.
T Consensus 151 AFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrLie 209 (334)
T KOG3938|consen 151 AFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRLIE 209 (334)
T ss_pred eeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEeec
Confidence 3777888888777653 688999999999999877 5778889999999999999765
No 121
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=62.62 E-value=1e+02 Score=33.75 Aligned_cols=67 Identities=13% Similarity=0.061 Sum_probs=45.2
Q ss_pred cCCCHHhHcCCCC-CCEEE-EECCeeCCCHH-HHHHHHHhcCCCCEEEEEEEE-eCCeEEEEEEEeCCCCCC
Q 004068 682 CHGSPVHRYGLYA-LQWIV-EINGKRTPDLE-AFVNVTKEIEHGEFVRVRTVH-LNGKPRVLTLKQDLHYWP 749 (775)
Q Consensus 682 ~~GSPA~~aGL~~-GD~I~-~VNG~pV~dl~-~f~~~v~~i~~g~~V~L~~V~-Rdg~~~~ltlk~d~~y~p 749 (775)
.+++|++.|+|-| -|+|. .=+|++..--+ ++.++++ ++-+-+..|-+.+ -+...+.+|+.++.|.-|
T Consensus 195 I~d~p~a~a~l~PdEdyi~gs~dg~~~~~ge~~l~Dv~e-s~~n~pl~Ly~yn~i~d~~R~~T~~~~~h~g~ 265 (417)
T COG5233 195 IQDKPPAYALLSPDEDYIDGSSDGQPLEIGELDLEDVNE-SPVNLPLSLYYYNPIDDQERAKTERDGVHKGI 265 (417)
T ss_pred cCCCchhhcccCCcccccccCCCcccccchhhHHHHHhh-cccCCceEEEEEecccccccceeeccCccccC
Confidence 6888999999866 56666 67888885444 4444444 4667777766433 366778888877776644
No 122
>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=55.41 E-value=12 Score=36.04 Aligned_cols=27 Identities=19% Similarity=0.503 Sum_probs=17.8
Q ss_pred EEeeccCCCC-CceEEccCceEEEEeee
Q 004068 449 ELDTDFGSTF-SGVLTDEHGRVQAIWGS 475 (775)
Q Consensus 449 ~~Da~i~~~~-GGpL~d~~G~VvGI~~~ 475 (775)
..+..+.+|+ |-|++|.+|+|+||...
T Consensus 89 ~~~~d~~~GsSGSpi~n~~g~ivGlYg~ 116 (132)
T PF00949_consen 89 AIDLDFPKGSSGSPIFNQNGEIVGLYGN 116 (132)
T ss_dssp EE---S-TTGTT-EEEETTSCEEEEEEE
T ss_pred eeecccCCCCCCCceEcCCCcEEEEEcc
Confidence 3444456665 99999999999999753
No 123
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=54.41 E-value=16 Score=45.92 Aligned_cols=33 Identities=30% Similarity=0.418 Sum_probs=29.4
Q ss_pred EEEEEcCCChHhhh-ccCCCEEEEECCEEeCChh
Q 004068 569 RVKGCLAGSKAENM-LEQGDMMLAINKQPVTCFH 601 (775)
Q Consensus 569 ~V~~V~~gSpA~~a-Lq~GDiILsVNGk~V~s~~ 601 (775)
+|..|..+|||..+ |+.||.|+.+||+++....
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~ 694 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLV 694 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhh
Confidence 37889999999875 9999999999999998764
No 124
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=53.13 E-value=19 Score=39.49 Aligned_cols=52 Identities=19% Similarity=0.234 Sum_probs=38.7
Q ss_pred EEEEEEcCCChHhh-h-ccCCCEEEEECCEEeCCh--hhHHHHHHhcCCCCCCCCeEEEEEE
Q 004068 568 LRVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCF--HDIENACQALDKDGEDNGKLDITIF 625 (775)
Q Consensus 568 l~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~--~dl~~~l~~~~~~~~~g~~v~l~V~ 625 (775)
++|+.+..+-.|+. + |-.||-|+.|||.-|+.- +++..+++. .|+.+.++|.
T Consensus 82 vviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLRN------AGdeVtlTV~ 137 (505)
T KOG3549|consen 82 VVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILRN------AGDEVTLTVK 137 (505)
T ss_pred EEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHHh------cCCEEEEEeH
Confidence 34777877777776 5 999999999999999875 344444432 3788888885
No 125
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=39.83 E-value=58 Score=28.50 Aligned_cols=48 Identities=27% Similarity=0.498 Sum_probs=33.2
Q ss_pred EEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEE-EEeC
Q 004068 356 EIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYL-VGLS 411 (775)
Q Consensus 356 ~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~a-iG~p 411 (775)
-+|++|+..+...++|++.+-.- . ..+. +.|-++ .++.||.|++ +||-
T Consensus 4 aiPgqI~~I~~~~~~A~Vd~gGv--k----reV~-l~Lv~~-~v~~GdyVLVHvGfA 52 (82)
T COG0298 4 AIPGQIVEIDDNNHLAIVDVGGV--K----REVN-LDLVGE-EVKVGDYVLVHVGFA 52 (82)
T ss_pred ccccEEEEEeCCCceEEEEeccE--e----EEEE-eeeecC-ccccCCEEEEEeeEE
Confidence 37899999999988999988541 1 1111 333343 3799999987 6764
No 126
>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=36.43 E-value=89 Score=26.00 Aligned_cols=32 Identities=16% Similarity=0.162 Sum_probs=26.8
Q ss_pred eEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeCC
Q 004068 345 DVMLSFAAFPIEIPGEVVFLHPVHNFALIAYDP 377 (775)
Q Consensus 345 ~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d~ 377 (775)
.+.++.-. +.+++|+|+.+|+...+.|||-..
T Consensus 8 ~V~~kTc~-g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 8 QVSCRTCF-EQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred EEEEEecC-CceEEEEEEEecCCCcEEEEECcc
Confidence 45666665 899999999999999999998654
No 127
>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=34.82 E-value=74 Score=34.15 Aligned_cols=53 Identities=13% Similarity=0.089 Sum_probs=31.0
Q ss_pred eeEEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeC
Q 004068 316 FFGTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYD 376 (775)
Q Consensus 316 ~~GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d 376 (775)
..|||=+... +.+-.|+|..|++- ...-.|... +.... +-....-|||.-.++
T Consensus 112 s~Gsggvft~-~~~~vvvTAtHVlg--~~~a~v~~~--g~~~~---~tF~~~GDfA~~~~~ 164 (297)
T PF05579_consen 112 SVGSGGVFTI-GGNTVVVTATHVLG--GNTARVSGV--GTRRM---LTFKKNGDFAEADIT 164 (297)
T ss_dssp SEEEEEEEEC-TTEEEEEEEHHHCB--TTEEEEEET--TEEEE---EEEEEETTEEEEEET
T ss_pred cccccceEEE-CCeEEEEEEEEEcC--CCeEEEEec--ceEEE---EEEeccCcEEEEECC
Confidence 4455555542 26778888866543 344555555 34332 334455799999994
No 128
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=33.55 E-value=3.8e+02 Score=28.44 Aligned_cols=90 Identities=16% Similarity=0.092 Sum_probs=51.9
Q ss_pred CCCcEEEEEeCCCCCCcccccceeeeeeCCCC-CCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccc
Q 004068 366 PVHNFALIAYDPSSLGVAGASVVRAAELLPEP-ALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMN 444 (775)
Q Consensus 366 p~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~-~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n 444 (775)
...+++||.++.. .. ....++=|+++. .+..|+.+.+.|+........++..+..... .
T Consensus 159 ~~~~~mIlEl~~~-~~----~~~~~~Cl~~~~~~~~~~~~~~~yg~~~~~~~~~~~~~i~~~~~---------------~ 218 (282)
T PF03761_consen 159 RPYSPMILELEED-FS----KNVSPPCLADSSTNWEKGDEVDVYGFNSTGKLKHRKLKITNCTK---------------C 218 (282)
T ss_pred cccceEEEEEccc-cc----ccCCCEEeCCCccccccCceEEEeecCCCCeEEEEEEEEEEeec---------------c
Confidence 4468889988654 11 233446776654 3678999999999544445444544443210 0
Q ss_pred eEEEEEeeccCCCC-CceEE---ccCceEEEEeee
Q 004068 445 MEVIELDTDFGSTF-SGVLT---DEHGRVQAIWGS 475 (775)
Q Consensus 445 ~e~I~~Da~i~~~~-GGpL~---d~~G~VvGI~~~ 475 (775)
...+..+.....+. ||+|+ |..-.|||+...
T Consensus 219 ~~~~~~~~~~~~~d~Gg~lv~~~~gr~tlIGv~~~ 253 (282)
T PF03761_consen 219 AYSICTKQYSCKGDRGGPLVKNINGRWTLIGVGAS 253 (282)
T ss_pred ceeEecccccCCCCccCeEEEEECCCEEEEEEEcc
Confidence 12333333334444 88886 455678888653
No 129
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=32.42 E-value=46 Score=39.49 Aligned_cols=43 Identities=12% Similarity=0.117 Sum_probs=35.4
Q ss_pred eEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCHHHHHHHHHhc
Q 004068 676 VYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDLEAFVNVTKEI 719 (775)
Q Consensus 676 V~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl~~f~~~v~~i 719 (775)
.+++.+.++|||+.-+ +.+||.|+.||++.+-.| +|..+|+..
T Consensus 227 h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgw-qlk~vV~sL 270 (638)
T KOG1738|consen 227 HVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGW-QLKVVVSSL 270 (638)
T ss_pred eeccccccCChHHHhhcccCccceeeecccccccc-hhHhHHhhc
Confidence 4677888999999865 799999999999998887 566666654
No 130
>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=31.42 E-value=23 Score=36.60 Aligned_cols=133 Identities=13% Similarity=0.066 Sum_probs=47.3
Q ss_pred EEEEEEEecCCceEEEEecceeccCCceEEEEEcCCCeEEeE---EEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeC
Q 004068 318 GTGVIIYHSQSMGLVVVDKNTVAISASDVMLSFAAFPIEIPG---EVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELL 394 (775)
Q Consensus 318 GSGvVId~~~~~GlVLTnr~~V~~~~~~I~Vt~~d~~~~~~A---~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg 394 (775)
|.+..|..-...-..+|++| |......+...- + +..++- +.++.+...|++|++.++.-.. +-.++.+.|.
T Consensus 30 Gya~cv~l~~g~~~L~ta~H-v~~~~~~~~~~k-~-g~kipl~~f~~~~~~~~~D~~il~~P~n~~s---~Lg~k~~~~~ 103 (203)
T PF02122_consen 30 GYATCVRLFDGEDALLTARH-VWSRPSKVTSLK-T-GEKIPLAEFTDLLESRIADFVILRGPPNWES---KLGVKAAQLS 103 (203)
T ss_dssp ----EEEE----EEEEE-HH-HHTSSS---EEE-T-TEEEE--S-EEEEE-TTT-EEEEE--HHHHH---HHT-----B-
T ss_pred ccceEEECcCCccceecccc-cCCCccceeEcC-C-CCcccchhChhhhCCCccCEEEEecCcCHHH---HhCccccccc
Confidence 33444442123445668855 555555554433 3 555543 5677889999999999854221 1234445555
Q ss_pred CCCCCCCCCEEEEEEeCCCCCCeeEEEEEeCCccccccCCCCcccccccceEEEEEeeccCCC-CCceEEccCceEEEEe
Q 004068 395 PEPALRRGDSVYLVGLSRSLQATSRKSIVTNPCAALNISSADCPRYRAMNMEVIELDTDFGST-FSGVLTDEHGRVQAIW 473 (775)
Q Consensus 395 ~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~~~~~~~~~~~~~pryra~n~e~I~~Da~i~~~-~GGpL~d~~G~VvGI~ 473 (775)
...++..| --.-..........+.. .+.. .++ . ++.+-+...+| +|-|+++.. +|+|++
T Consensus 104 ~~~~~~~g-------~~~~y~~~~~~~~~~sa----~i~g----~~~---~-~~~vls~T~~G~SGtp~y~g~-~vvGvH 163 (203)
T PF02122_consen 104 QNSQLAKG-------PVSFYGFSSGEWPCSSA----KIPG----TEG---K-FASVLSNTSPGWSGTPYYSGK-NVVGVH 163 (203)
T ss_dssp ---SEEEE-------ESSTTSEEEEEEEEEE-----S--------ST---T-EEEE-----TT-TT-EEE-SS--EEEEE
T ss_pred chhhhCCC-------CeeeeeecCCCceeccC----cccc----ccC---c-CCceEcCCCCCCCCCCeEECC-CceEee
Confidence 44322222 11111111111222211 1111 111 1 33333333444 499999999 999999
Q ss_pred eee
Q 004068 474 GSF 476 (775)
Q Consensus 474 ~~~ 476 (775)
...
T Consensus 164 ~G~ 166 (203)
T PF02122_consen 164 TGS 166 (203)
T ss_dssp EEE
T ss_pred cCc
Confidence 865
No 131
>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=31.17 E-value=1e+02 Score=24.87 Aligned_cols=31 Identities=16% Similarity=0.144 Sum_probs=27.1
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ +..+.|++.+.|+..|+.+-..
T Consensus 7 ~~V~V~l~~-g~~~~G~L~~~D~~~Ni~L~~~ 37 (63)
T cd00600 7 KTVRVELKD-GRVLEGVLVAFDKYMNLVLDDV 37 (63)
T ss_pred CEEEEEECC-CcEEEEEEEEECCCCCEEECCE
Confidence 468899998 9999999999999999987655
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=28.13 E-value=1.1e+02 Score=26.46 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=26.3
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIA 374 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk 374 (775)
..+.|.+.+ ++.+.|++.++|...|+.+=.
T Consensus 14 ~~V~V~l~~-gr~~~G~L~g~D~~mNlvL~d 43 (76)
T cd01732 14 SRIWIVMKS-DKEFVGTLLGFDDYVNMVLED 43 (76)
T ss_pred CEEEEEECC-CeEEEEEEEEeccceEEEEcc
Confidence 568899998 999999999999999998643
No 133
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=28.04 E-value=60 Score=38.61 Aligned_cols=42 Identities=24% Similarity=0.330 Sum_probs=35.2
Q ss_pred EEEEEcCCChHhh-h-ccCCCEEEEECCEEeCChhhHHHHHHhcC
Q 004068 569 RVKGCLAGSKAEN-M-LEQGDMMLAINKQPVTCFHDIENACQALD 611 (775)
Q Consensus 569 ~V~~V~~gSpA~~-a-Lq~GDiILsVNGk~V~s~~dl~~~l~~~~ 611 (775)
+|..+.++|||.. . |.+||.|+.||++.+-.| ++..++..+.
T Consensus 228 ~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgw-qlk~vV~sL~ 271 (638)
T KOG1738|consen 228 VTSKIFEQSPADYRQKILDGDEVLQINEQTVVGW-QLKVVVSSLR 271 (638)
T ss_pred eccccccCChHHHhhcccCccceeeecccccccc-hhHhHHhhcc
Confidence 4678889999997 3 999999999999999999 5777776554
No 134
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=27.49 E-value=4.4e+02 Score=24.89 Aligned_cols=72 Identities=17% Similarity=0.037 Sum_probs=42.8
Q ss_pred cCCCeEEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEeCCCCCCeeEEEEEeC
Q 004068 351 AAFPIEIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGLSRSLQATSRKSIVTN 425 (775)
Q Consensus 351 ~d~~~~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~p~g~~~~~~~g~VS~ 425 (775)
..+|--++|+|...- ...-++++++...........+.+..-.-...|+.||.|++---+.+.. -..|+|..
T Consensus 9 ~~DG~YY~GtV~~~~-~~~~~lV~f~~~~~~~v~~~~iI~~~~~~~~~L~~GD~VLA~~~~~~~~--Y~Pg~V~~ 80 (124)
T PF15057_consen 9 EEDGFYYPGTVKKCV-SSGQFLVEFDDGDTQEVPISDIIALSDAMRHSLQVGDKVLAPWEPDDCR--YGPGTVIA 80 (124)
T ss_pred CCCCcEEeEEEEEcc-CCCEEEEEECCCCEEEeChHHeEEccCcccCcCCCCCEEEEecCcCCCE--EeCEEEEE
Confidence 334888899888765 7888999995443221111233222222234699999999994333333 44566663
No 135
>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=27.48 E-value=1.1e+02 Score=25.60 Aligned_cols=31 Identities=19% Similarity=0.251 Sum_probs=27.0
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ ++.+.|++.++|+..|+.+=..
T Consensus 11 ~~V~V~Lk~-g~~~~G~L~~~D~~mNlvL~~~ 41 (67)
T cd01726 11 RPVVVKLNS-GVDYRGILACLDGYMNIALEQT 41 (67)
T ss_pred CeEEEEECC-CCEEEEEEEEEccceeeEEeeE
Confidence 368899998 9999999999999999988554
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=26.49 E-value=1.1e+02 Score=26.35 Aligned_cols=30 Identities=10% Similarity=0.155 Sum_probs=26.1
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIA 374 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk 374 (775)
..+.|++.+ ++.+.|.+.++|...|+.+=.
T Consensus 11 ~~V~V~l~d-gR~~~G~L~~~D~~~NlVL~~ 40 (79)
T cd01717 11 YRLRVTLQD-GRQFVGQFLAFDKHMNLVLSD 40 (79)
T ss_pred CEEEEEECC-CcEEEEEEEEEcCccCEEcCC
Confidence 457899998 999999999999999998643
No 137
>cd08537 SAM_PNT-ESE-1-like Sterile alpha motif (SAM)/Pointed domain of ESE-1 like ETS transcriptional regulators. SAM Pointed domain of ESE-1-like (Epithelium-Specific ETS) subfamily of ETS transcriptional regulators is a putative protein-protein interaction domain. SAM Pointed domain of ESE-1 provides a potential docking site for signaling kinase Pak1 in humans. ESE-1 factors are involved in regulation of gene expression in different types of epithelial cells. ESE-1 is expressed in many different organs including intestine, stomach, pancreas, lungs, kidneys, and prostate. The DNA binding consensus motif for ESE-1 consists of a purine-rich GGA[AT] core sequence. The expression profile of these factors is altered in epithelial cancers if compared to normal tissues. Members of this subfamily are potential targets for cancer therapy.
Probab=26.26 E-value=19 Score=31.31 Aligned_cols=34 Identities=26% Similarity=0.246 Sum_probs=31.2
Q ss_pred ccccccCCceeEEecCeeeecCCHHHHhhcccccC
Q 004068 31 QDLHSITPDYFLEVSGAVIHPLSYQQARNFRFPCG 65 (775)
Q Consensus 31 ~dlh~itp~~f~~v~g~~~h~lsyq~ar~~~~~~~ 65 (775)
-||++|.++|| .+.|..+=.|+.++=|.++-|+|
T Consensus 31 ~dl~~v~f~~F-~MnG~~LC~l~~e~F~~~a~p~G 64 (78)
T cd08537 31 YDASSIDFSRC-DMDGATLCNCALDQMRLVFGPLG 64 (78)
T ss_pred CCcccCCHHHh-CCchHHHHccCHHHHHHHcCChH
Confidence 38999999999 89999999999999999998865
No 138
>PRK14440 acylphosphatase; Provisional
Probab=26.08 E-value=66 Score=28.66 Aligned_cols=59 Identities=19% Similarity=0.218 Sum_probs=41.1
Q ss_pred ecCeeeecCCHHHHhhcccccCeEEEeCCCcccccCCCCcceEEEccCCccCCCHHHHHHHHhcCCCCceee
Q 004068 44 VSGAVIHPLSYQQARNFRFPCGLVYVAEPGYMLFRAGVPRHAIIKKFAGEEISRLEDLISVLSKLSRGARVP 115 (775)
Q Consensus 44 v~g~~~h~lsyq~ar~~~~~~~gv~v~~~g~~~~~~~~~~~~ii~~~~~~~~~~l~~fi~v~~~~~~~~rv~ 115 (775)
|=|--|...-|++|+.+++- | ||.. .+.|.+---+.|.+ .++++|++-+++-|..++|.
T Consensus 13 VQGVGFR~~v~~~A~~~gl~--G-~V~N---------~~dG~Vei~~~G~~-~~v~~f~~~l~~gp~~a~V~ 71 (90)
T PRK14440 13 VQGVGFRKFVQIHAIRLGIK--G-YAKN---------LPDGSVEVVAEGYE-EALSKLLERIKQGPPAAEVE 71 (90)
T ss_pred EeccCchHHHHHHHHHcCCE--E-EEEE---------CCCCCEEEEEEcCH-HHHHHHHHHHhhCCCCcEEE
Confidence 33556889999999999864 3 3433 22343333345544 88999999999999888875
No 139
>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=25.81 E-value=86 Score=30.23 Aligned_cols=25 Identities=24% Similarity=0.114 Sum_probs=20.3
Q ss_pred CCCC-CceEEccCceEEEEeeeeccc
Q 004068 455 GSTF-SGVLTDEHGRVQAIWGSFSTQ 479 (775)
Q Consensus 455 ~~~~-GGpL~d~~G~VvGI~~~~~~~ 479 (775)
++|- |=|++|..|+||||.+...++
T Consensus 104 ~~GDSGRpi~DNsGrVVaIVLGG~ne 129 (158)
T PF00944_consen 104 KPGDSGRPIFDNSGRVVAIVLGGANE 129 (158)
T ss_dssp STTSTTEEEESTTSBEEEEEEEEEEE
T ss_pred CCCCCCCccCcCCCCEEEEEecCCCC
Confidence 4453 889999999999999876655
No 140
>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=25.56 E-value=1.4e+02 Score=25.82 Aligned_cols=31 Identities=10% Similarity=0.038 Sum_probs=26.6
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.| ++.+.|++.++|...|+.+=..
T Consensus 11 ~~v~V~l~d-gR~~~G~l~~~D~~~NivL~~~ 41 (75)
T cd06168 11 RTMRIHMTD-GRTLVGVFLCTDRDCNIILGSA 41 (75)
T ss_pred CeEEEEEcC-CeEEEEEEEEEcCCCcEEecCc
Confidence 368899998 9999999999999999976433
No 141
>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=25.54 E-value=1.1e+02 Score=26.78 Aligned_cols=29 Identities=17% Similarity=0.165 Sum_probs=25.9
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALI 373 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAIL 373 (775)
..|.|.+.+ ++.+.|++.++|...|+.+=
T Consensus 12 k~V~V~l~~-gr~~~G~L~~fD~~mNlvL~ 40 (82)
T cd01730 12 ERVYVKLRG-DRELRGRLHAYDQHLNMILG 40 (82)
T ss_pred CEEEEEECC-CCEEEEEEEEEccceEEecc
Confidence 468899998 99999999999999999863
No 142
>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=25.25 E-value=1.4e+02 Score=25.40 Aligned_cols=57 Identities=14% Similarity=0.163 Sum_probs=38.1
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVG 409 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG 409 (775)
..+.|.+.+ ++.+.|++.++|+..|+.+=...... . .-...+++. -+-+|+.|..|+
T Consensus 11 k~V~V~L~~-g~~~~G~L~~~D~~mNlvL~~~~E~~-~-----~~~~~~lg~--v~IRG~~I~~i~ 67 (72)
T cd01719 11 KKLSLKLNG-NRKVSGILRGFDPFMNLVLDDAVEVN-S-----GGEKNNIGM--VVIRGNSIVMLE 67 (72)
T ss_pred CeEEEEECC-CeEEEEEEEEEcccccEEeccEEEEc-c-----CCceeEece--EEECCCEEEEEE
Confidence 467889997 99999999999999999874431100 0 001134442 257788888776
No 143
>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=24.58 E-value=1.3e+02 Score=25.25 Aligned_cols=31 Identities=19% Similarity=0.261 Sum_probs=26.9
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ +..+.|+++..|...|+.+=..
T Consensus 12 ~~V~V~Lk~-g~~~~G~L~~~D~~mNi~L~~~ 42 (68)
T cd01722 12 KPVIVKLKW-GMEYKGTLVSVDSYMNLQLANT 42 (68)
T ss_pred CEEEEEECC-CcEEEEEEEEECCCEEEEEeeE
Confidence 368899998 9999999999999999988544
No 144
>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=24.17 E-value=1.4e+02 Score=26.04 Aligned_cols=30 Identities=17% Similarity=0.210 Sum_probs=26.2
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEE
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIA 374 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk 374 (775)
..+.|.+.+ ++.+.+++.++|...|+.+=.
T Consensus 13 k~V~V~l~~-gr~~~G~L~~~D~~mNlvL~~ 42 (81)
T cd01729 13 KKIRVKFQG-GREVTGILKGYDQLLNLVLDD 42 (81)
T ss_pred CeEEEEECC-CcEEEEEEEEEcCcccEEecC
Confidence 468899997 999999999999999997743
No 145
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=23.70 E-value=1.5e+02 Score=25.17 Aligned_cols=31 Identities=23% Similarity=0.158 Sum_probs=27.3
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ |+.+.|++.+.|+..|+.+=..
T Consensus 15 k~V~V~lk~-g~~~~G~L~~~D~~mNlvL~d~ 45 (72)
T PRK00737 15 SPVLVRLKG-GREFRGELQGYDIHMNLVLDNA 45 (72)
T ss_pred CEEEEEECC-CCEEEEEEEEEcccceeEEeeE
Confidence 458899998 9999999999999999988765
No 146
>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=23.57 E-value=1.6e+02 Score=25.32 Aligned_cols=61 Identities=15% Similarity=0.061 Sum_probs=38.9
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLVGL 410 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~aiG~ 410 (775)
..+.|.+.+ ++.+.|.+.++|+..|+.+=......... .......+|. -+-+|+.|..+|.
T Consensus 13 k~v~V~l~~-gr~~~G~L~~fD~~~NlvL~d~~E~~~~~---~~~~~~~lG~--~viRG~~V~~ig~ 73 (74)
T cd01728 13 KKVVVLLRD-GRKLIGILRSFDQFANLVLQDTVERIYVG---DKYGDIPRGI--FIIRGENVVLLGE 73 (74)
T ss_pred CEEEEEEcC-CeEEEEEEEEECCcccEEecceEEEEecC---CccceeEeeE--EEEECCEEEEEEc
Confidence 468899997 99999999999999999874431100000 0000122332 2578999988873
No 147
>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=23.46 E-value=1.5e+02 Score=24.66 Aligned_cols=31 Identities=16% Similarity=0.191 Sum_probs=27.6
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ ++.+.|++.++|+..|+.+-..
T Consensus 11 ~~V~V~l~~-g~~~~G~L~~~D~~mNlvL~~~ 41 (68)
T cd01731 11 KPVLVKLKG-GKEVRGRLKSYDQHMNLVLEDA 41 (68)
T ss_pred CEEEEEECC-CCEEEEEEEEECCcceEEEeeE
Confidence 468899998 9999999999999999988765
No 148
>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=22.89 E-value=9.6e+02 Score=25.73 Aligned_cols=90 Identities=17% Similarity=0.210 Sum_probs=55.3
Q ss_pred cceeEEEEEEEecCCceEEEEecceecc-CC--ceEEEEEcCCCeEEe---E---EEEEEe-----CCCcEEEEEeC-CC
Q 004068 314 QHFFGTGVIIYHSQSMGLVVVDKNTVAI-SA--SDVMLSFAAFPIEIP---G---EVVFLH-----PVHNFALIAYD-PS 378 (775)
Q Consensus 314 ~~~~GSGvVId~~~~~GlVLTnr~~V~~-~~--~~I~Vt~~d~~~~~~---A---~Vv~~d-----p~~DlAILk~d-~~ 378 (775)
+...++|++|| ..+||++...... +. ..+.+-+.. ++.+- + +|...| |..++++|.+. |.
T Consensus 26 G~~~CsgvLlD----~~WlLvsssCl~~I~L~~~YvsallG~-~Kt~~~v~Gp~EQI~rVD~~~~V~~S~v~LLHL~~~~ 100 (267)
T PF09342_consen 26 GRYWCSGVLLD----PHWLLVSSSCLRGISLSHHYVSALLGG-GKTYLSVDGPHEQISRVDCFKDVPESNVLLLHLEQPA 100 (267)
T ss_pred CeEEEEEEEec----cceEEEeccccCCcccccceEEEEecC-cceecccCCChheEEEeeeeeeccccceeeeeecCcc
Confidence 45899999999 6799998766654 22 344555543 33221 1 333333 77899999995 43
Q ss_pred CCCcccccceeeeeeCC-CCCCCCCCEEEEEEeCC
Q 004068 379 SLGVAGASVVRAAELLP-EPALRRGDSVYLVGLSR 412 (775)
Q Consensus 379 ~l~~~~~~~v~~~~lg~-s~~l~~Gd~V~aiG~p~ 412 (775)
.+. .-|.|+-+-+ +.....-+..++||...
T Consensus 101 ~fT----r~VlP~flp~~~~~~~~~~~CVAVg~d~ 131 (267)
T PF09342_consen 101 NFT----RYVLPTFLPETSNENESDDECVAVGHDD 131 (267)
T ss_pred cce----eeecccccccccCCCCCCCceEEEEccc
Confidence 443 3444454433 13355566999999876
No 149
>PF01455 HupF_HypC: HupF/HypC family; InterPro: IPR001109 The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesised as a precursor devoid of the metalloenzyme active site. This precursor then undergoes a complex post-translational maturation process that requires a number of accessory proteins. The hydrogenase expression/formation proteins (HupF/HypC) form a family of small proteins that are hydrogenase precursor-specific chaperones required for this maturation process []. They are believed to keep the hydrogenase precursor in a conformation accessible for metal incorporation [, ].; PDB: 3D3R_A 2Z1C_C 2OT2_A.
Probab=22.53 E-value=1.9e+02 Score=24.41 Aligned_cols=44 Identities=25% Similarity=0.375 Sum_probs=28.7
Q ss_pred EEeEEEEEEeCCCcEEEEEeCCCCCCcccccceeeeeeCCCCCCCCCCEEEEE
Q 004068 356 EIPGEVVFLHPVHNFALIAYDPSSLGVAGASVVRAAELLPEPALRRGDSVYLV 408 (775)
Q Consensus 356 ~~~A~Vv~~dp~~DlAILk~d~~~l~~~~~~~v~~~~lg~s~~l~~Gd~V~ai 408 (775)
-+|++|+..+...+.|++.+....- .+.+.=-+.+++||.|++-
T Consensus 4 ~iP~~Vv~v~~~~~~A~v~~~G~~~---------~V~~~lv~~v~~Gd~VLVH 47 (68)
T PF01455_consen 4 AIPGRVVEVDEDGGMAVVDFGGVRR---------EVSLALVPDVKVGDYVLVH 47 (68)
T ss_dssp CEEEEEEEEETTTTEEEEEETTEEE---------EEEGTTCTSB-TT-EEEEE
T ss_pred cccEEEEEEeCCCCEEEEEcCCcEE---------EEEEEEeCCCCCCCEEEEe
Confidence 3799999999889999999875211 1222222237999999863
No 150
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=21.48 E-value=1.3e+02 Score=37.88 Aligned_cols=117 Identities=14% Similarity=0.189 Sum_probs=61.3
Q ss_pred ccCCCEEEEECCEEeCChhhHHHHHHhcCCCCCCCCeEEEEEEecCeEEEEEEEecccCCCCcceeeeeeeeeecCChhh
Q 004068 583 LEQGDMMLAINKQPVTCFHDIENACQALDKDGEDNGKLDITIFRQGREIELQVGTDVRDGNGTTRVINWCGCIVQDPHPA 662 (775)
Q Consensus 583 Lq~GDiILsVNGk~V~s~~dl~~~l~~~~~~~~~g~~v~l~V~R~Gk~~~l~V~l~~~~~~~t~r~v~~~G~~lq~p~~~ 662 (775)
|..||.++.+||..+.--......- .+.. .++.+.+-|.|... .....+....... +... ..-+.+..|-..
T Consensus 1187 ~~~g~~l~~~n~i~~~~~~~~~~~~-~~~~---~~~~~~~~~~r~~~-~~~d~~~~s~~~~--~~~l-~~~~~~~~p~~~ 1258 (1332)
T KOG4371|consen 1187 IRVGDVLLYVNGIAVEGKVHQEVVA-MLRG---GGDRVVLGVQRPPP-AYSDQHHASSTSA--SAPL-ISVMLLKKPMAT 1258 (1332)
T ss_pred cchhhhhhhccceeeechhhHHHHH-HHhc---cCceEEEEeecCCc-ccccchhhhhhcc--cchh-hhheeeeccccc
Confidence 9999999999997776543332221 1121 36789999988532 2222222211100 0000 000111111100
Q ss_pred Hhh-h-CCCCCCCCceEEEEEcCCCHHhHcC-CCCCCEEEEECCeeCCCH
Q 004068 663 VRA-L-GFLPEEGHGVYVARWCHGSPVHRYG-LYALQWIVEINGKRTPDL 709 (775)
Q Consensus 663 vrq-l-~~lps~~~gV~Vs~V~~GSPA~~aG-L~~GD~I~~VNG~pV~dl 709 (775)
..- + ...++ .|+++..+..++.|.--| ++.||.+++.+|+++.-.
T Consensus 1259 ~~~~~~~~~~s--~~~~~~~~~~~~~a~~~~~~r~g~~~~~~~~~~~~~~ 1306 (1332)
T KOG4371|consen 1259 LGLSLAKRTMS--DGIFIRNIAQDSAASSEGTLRVGDRLVSLDGEPVDGF 1306 (1332)
T ss_pred ccccccccCcC--CceeeecccccccccccccccccceeeccCCccCCCC
Confidence 000 0 11122 377777777776665544 899999999999998643
No 151
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.38 E-value=81 Score=33.73 Aligned_cols=53 Identities=19% Similarity=0.232 Sum_probs=40.7
Q ss_pred EEEEEcCCChHhh--hccCCCEEEEECCEEeCChhhHHH--HHHhcCCCCCCCCeEEEEEE
Q 004068 569 RVKGCLAGSKAEN--MLEQGDMMLAINKQPVTCFHDIEN--ACQALDKDGEDNGKLDITIF 625 (775)
Q Consensus 569 ~V~~V~~gSpA~~--aLq~GDiILsVNGk~V~s~~dl~~--~l~~~~~~~~~g~~v~l~V~ 625 (775)
.|.++.++|.... +++.||.|-+|||+.|-.++..+. +|..++ .+++.++.+.
T Consensus 152 FIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~----rge~ftlrLi 208 (334)
T KOG3938|consen 152 FIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELP----RGETFTLRLI 208 (334)
T ss_pred eeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcc----cCCeeEEEee
Confidence 4889999998887 599999999999999999987765 444444 3566555554
No 152
>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=21.16 E-value=1.9e+02 Score=23.66 Aligned_cols=32 Identities=16% Similarity=0.165 Sum_probs=28.2
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEeC
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAYD 376 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~d 376 (775)
..+.|.+.+ +..+.|++...|...|+.+-...
T Consensus 9 ~~V~V~l~~-g~~~~G~L~~~D~~~Nl~L~~~~ 40 (67)
T PF01423_consen 9 KRVRVELKN-GRTYRGTLVSFDQFMNLVLSDVT 40 (67)
T ss_dssp SEEEEEETT-SEEEEEEEEEEETTEEEEEEEEE
T ss_pred cEEEEEEeC-CEEEEEEEEEeechheEEeeeEE
Confidence 468899998 99999999999999999887763
No 153
>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=20.81 E-value=1.7e+02 Score=26.11 Aligned_cols=31 Identities=16% Similarity=0.209 Sum_probs=27.2
Q ss_pred ceEEEEEcCCCeEEeEEEEEEeCCCcEEEEEe
Q 004068 344 SDVMLSFAAFPIEIPGEVVFLHPVHNFALIAY 375 (775)
Q Consensus 344 ~~I~Vt~~d~~~~~~A~Vv~~dp~~DlAILk~ 375 (775)
..+.|.+.+ +..+.|++.++|.+.|+.+=..
T Consensus 15 ~~V~V~lr~-~r~~~G~L~~fD~hmNlvL~d~ 45 (87)
T cd01720 15 TQVLINCRN-NKKLLGRVKAFDRHCNMVLENV 45 (87)
T ss_pred CEEEEEEcC-CCEEEEEEEEecCccEEEEcce
Confidence 578899998 9999999999999999987543
Done!