Query 007213
Match_columns 612
No_of_seqs 564 out of 3636
Neff 7.3
Searched_HMMs 46136
Date Thu Mar 28 20:29:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007213.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007213hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10139 serine endoprotease; 100.0 2.8E-57 6E-62 495.4 43.6 390 111-583 42-450 (455)
2 TIGR02037 degP_htrA_DO peripla 100.0 2.2E-55 4.9E-60 480.2 45.3 363 147-583 56-424 (428)
3 PRK10942 serine endoprotease; 100.0 4E-54 8.7E-59 472.7 40.7 353 148-583 110-468 (473)
4 TIGR02038 protease_degS peripl 100.0 2E-46 4.2E-51 398.7 35.7 297 110-433 46-349 (351)
5 PRK10898 serine endoprotease; 100.0 4.3E-46 9.4E-51 395.8 35.6 298 110-434 46-351 (353)
6 KOG1421 Predicted signaling-as 100.0 5.1E-38 1.1E-42 336.1 28.3 383 113-576 53-457 (955)
7 KOG1320 Serine protease [Postt 100.0 8.1E-39 1.8E-43 341.3 15.5 416 117-605 55-473 (473)
8 COG0265 DegQ Trypsin-like seri 100.0 2.5E-35 5.4E-40 314.1 29.3 301 110-433 34-341 (347)
9 KOG1320 Serine protease [Postt 99.9 4.9E-23 1.1E-27 220.6 20.5 303 114-431 130-467 (473)
10 KOG1421 Predicted signaling-as 99.9 4.8E-20 1E-24 198.8 30.5 354 149-588 550-930 (955)
11 PRK10779 zinc metallopeptidase 99.7 8.6E-17 1.9E-21 177.0 12.4 153 355-582 128-281 (449)
12 PF13365 Trypsin_2: Trypsin-li 99.6 2.1E-14 4.6E-19 128.2 13.9 108 151-289 1-120 (120)
13 TIGR00054 RIP metalloprotease 99.6 7.4E-15 1.6E-19 160.3 10.7 135 353-582 128-263 (420)
14 PF00089 Trypsin: Trypsin; In 99.4 2.2E-12 4.8E-17 126.9 15.3 183 133-315 6-220 (220)
15 PF13180 PDZ_2: PDZ domain; PD 99.4 6.9E-13 1.5E-17 111.6 8.2 81 328-430 1-82 (82)
16 cd00190 Tryp_SPc Trypsin-like 99.3 5.6E-11 1.2E-15 117.7 17.1 148 147-294 23-208 (232)
17 cd00987 PDZ_serine_protease PD 99.2 6.3E-11 1.4E-15 100.8 9.2 88 328-427 1-89 (90)
18 smart00020 Tryp_SPc Trypsin-li 99.2 2.2E-10 4.7E-15 113.8 14.4 147 148-294 25-208 (229)
19 cd00986 PDZ_LON_protease PDZ d 99.1 7E-10 1.5E-14 92.5 8.9 72 352-433 7-78 (79)
20 cd00991 PDZ_archaeal_metallopr 99.0 8.6E-10 1.9E-14 92.1 8.6 68 352-429 9-77 (79)
21 cd00990 PDZ_glycyl_aminopeptid 99.0 2.5E-09 5.5E-14 89.1 10.0 77 328-431 1-78 (80)
22 TIGR01713 typeII_sec_gspC gene 99.0 1.3E-09 2.9E-14 111.2 8.8 100 309-430 159-259 (259)
23 cd00989 PDZ_metalloprotease PD 98.8 1.8E-08 3.8E-13 83.6 7.7 66 353-429 12-78 (79)
24 TIGR02037 degP_htrA_DO peripla 98.8 1.7E-08 3.7E-13 111.0 9.3 90 327-427 337-427 (428)
25 cd00988 PDZ_CTP_protease PDZ d 98.7 4.4E-08 9.6E-13 82.4 8.4 68 352-430 12-83 (85)
26 COG3591 V8-like Glu-specific e 98.7 3.3E-07 7.2E-12 92.1 14.4 182 123-319 38-250 (251)
27 cd00987 PDZ_serine_protease PD 98.6 2E-07 4.3E-12 79.1 9.8 63 521-583 23-86 (90)
28 PF13180 PDZ_2: PDZ domain; PD 98.6 6.1E-08 1.3E-12 81.4 6.6 63 521-583 13-76 (82)
29 cd00991 PDZ_archaeal_metallopr 98.6 2.3E-07 5E-12 77.4 7.7 63 521-583 9-72 (79)
30 PF12812 PDZ_1: PDZ-like domai 98.5 2.8E-07 6E-12 76.7 7.5 74 446-570 5-78 (78)
31 cd00136 PDZ PDZ domain, also c 98.5 2.7E-07 5.8E-12 74.7 6.0 54 353-417 13-69 (70)
32 KOG3209 WW domain-containing p 98.4 1.7E-06 3.8E-11 95.4 12.1 158 352-577 673-835 (984)
33 cd00986 PDZ_LON_protease PDZ d 98.3 1.7E-06 3.6E-11 72.1 7.6 62 521-583 7-69 (79)
34 cd00989 PDZ_metalloprotease PD 98.3 1.5E-06 3.2E-11 72.0 6.9 60 523-582 13-72 (79)
35 PRK10139 serine endoprotease; 98.3 2.3E-06 5.1E-11 94.5 9.9 62 521-582 289-351 (455)
36 TIGR00054 RIP metalloprotease 98.3 1.1E-06 2.4E-11 96.3 7.3 69 353-432 203-272 (420)
37 smart00228 PDZ Domain present 98.3 2.9E-06 6.4E-11 70.7 8.0 59 353-421 26-85 (85)
38 KOG3627 Trypsin [Amino acid tr 98.3 4.3E-05 9.2E-10 77.7 17.5 167 128-295 13-229 (256)
39 TIGR03279 cyano_FeS_chp putati 98.3 1.2E-06 2.6E-11 94.4 6.1 61 357-431 2-64 (433)
40 KOG3209 WW domain-containing p 98.2 5.1E-06 1.1E-10 91.8 9.8 53 357-419 782-836 (984)
41 cd00988 PDZ_CTP_protease PDZ d 98.2 3E-06 6.4E-11 71.2 6.3 61 521-581 12-75 (85)
42 PRK10779 zinc metallopeptidase 98.2 2.9E-06 6.3E-11 93.9 8.0 68 354-432 222-290 (449)
43 TIGR00225 prc C-terminal pepti 98.2 3.8E-06 8.2E-11 89.5 8.5 72 353-433 62-134 (334)
44 TIGR02038 protease_degS peripl 98.2 6.1E-06 1.3E-10 88.5 9.5 63 521-583 277-340 (351)
45 cd00136 PDZ PDZ domain, also c 98.1 4.3E-06 9.3E-11 67.5 5.9 55 522-576 13-69 (70)
46 PRK10942 serine endoprotease; 98.1 8.8E-06 1.9E-10 90.5 9.8 62 521-582 310-372 (473)
47 PRK10898 serine endoprotease; 98.1 1.6E-05 3.5E-10 85.2 9.8 63 521-583 278-341 (353)
48 PLN00049 carboxyl-terminal pro 98.0 1.6E-05 3.6E-10 86.3 9.7 69 353-430 102-171 (389)
49 PF00595 PDZ: PDZ domain (Also 98.0 1.2E-05 2.5E-10 67.2 6.5 72 327-418 9-81 (81)
50 cd00990 PDZ_glycyl_aminopeptid 98.0 1.2E-05 2.6E-10 66.8 6.0 60 521-582 11-70 (80)
51 PF14685 Tricorn_PDZ: Tricorn 98.0 4.6E-05 9.9E-10 64.8 9.3 75 328-427 1-87 (88)
52 TIGR02860 spore_IV_B stage IV 98.0 1.9E-05 4.1E-10 84.8 8.0 68 352-430 104-180 (402)
53 PF00863 Peptidase_C4: Peptida 97.9 0.0009 2E-08 67.0 18.6 144 158-317 40-195 (235)
54 cd00992 PDZ_signaling PDZ doma 97.9 2.3E-05 5E-10 65.1 5.8 51 328-389 12-65 (82)
55 TIGR01713 typeII_sec_gspC gene 97.9 2.6E-05 5.6E-10 79.9 6.9 63 521-583 190-253 (259)
56 KOG3580 Tight junction protein 97.8 0.00021 4.5E-09 78.0 12.7 63 513-575 420-485 (1027)
57 cd00992 PDZ_signaling PDZ doma 97.7 7.4E-05 1.6E-09 62.0 6.5 54 522-576 26-81 (82)
58 PF00595 PDZ: PDZ domain (Also 97.7 5.9E-05 1.3E-09 62.9 5.5 54 522-576 25-80 (81)
59 KOG3580 Tight junction protein 97.7 0.00013 2.7E-09 79.6 9.1 61 352-422 39-99 (1027)
60 COG0793 Prc Periplasmic protea 97.6 0.00016 3.5E-09 78.8 8.9 83 327-431 99-182 (406)
61 PRK09681 putative type II secr 97.6 7.7E-05 1.7E-09 76.3 5.5 67 353-430 204-275 (276)
62 KOG3129 26S proteasome regulat 97.5 0.00021 4.5E-09 69.1 6.3 73 354-434 140-213 (231)
63 smart00228 PDZ Domain present 97.4 0.00026 5.7E-09 58.8 5.5 58 522-580 26-85 (85)
64 COG3480 SdrC Predicted secrete 97.4 0.00032 6.9E-09 72.0 6.7 72 352-433 129-201 (342)
65 TIGR02860 spore_IV_B stage IV 97.4 0.00039 8.4E-09 74.9 7.4 62 521-582 104-173 (402)
66 PF05579 Peptidase_S32: Equine 97.3 0.0034 7.4E-08 63.1 13.1 113 150-293 113-228 (297)
67 TIGR00225 prc C-terminal pepti 97.3 0.00026 5.6E-09 75.4 5.6 60 521-580 61-122 (334)
68 COG3975 Predicted protease wit 97.3 0.00045 9.8E-09 75.3 6.9 84 330-433 439-525 (558)
69 PLN00049 carboxyl-terminal pro 97.2 0.00052 1.1E-08 74.7 6.7 60 522-581 102-163 (389)
70 PRK11186 carboxy-terminal prot 97.2 0.0013 2.8E-08 75.7 9.9 71 353-429 255-332 (667)
71 TIGR03279 cyano_FeS_chp putati 97.0 0.00064 1.4E-08 73.7 5.0 54 526-582 2-56 (433)
72 KOG3834 Golgi reassembly stack 97.0 0.0033 7.1E-08 67.0 9.8 146 352-576 14-164 (462)
73 COG3031 PulC Type II secretory 97.0 0.00066 1.4E-08 66.9 4.2 66 354-429 208-274 (275)
74 PF03761 DUF316: Domain of unk 97.0 0.017 3.7E-07 59.8 15.0 109 194-313 159-273 (282)
75 PF04495 GRASP55_65: GRASP55/6 96.9 0.0018 3.9E-08 60.0 6.3 86 327-431 25-114 (138)
76 PF00548 Peptidase_C3: 3C cyst 96.9 0.015 3.3E-07 55.9 12.3 139 147-293 23-170 (172)
77 PF12812 PDZ_1: PDZ-like domai 96.9 0.0016 3.4E-08 54.3 4.7 58 328-389 9-67 (78)
78 KOG3605 Beta amyloid precursor 96.8 0.0016 3.4E-08 72.1 5.4 62 524-598 758-821 (829)
79 COG5640 Secreted trypsin-like 96.8 0.013 2.8E-07 61.4 11.6 59 149-207 61-135 (413)
80 COG0265 DegQ Trypsin-like seri 96.4 0.0069 1.5E-07 64.8 7.3 63 521-583 269-332 (347)
81 PF14685 Tricorn_PDZ: Tricorn 96.3 0.008 1.7E-07 51.2 5.6 60 521-580 11-80 (88)
82 PRK09681 putative type II secr 96.3 0.0067 1.5E-07 62.3 5.7 49 535-583 220-269 (276)
83 KOG3553 Tax interaction protei 96.3 0.0034 7.4E-08 53.6 2.9 34 352-385 58-92 (124)
84 PF08192 Peptidase_S64: Peptid 95.9 0.077 1.7E-06 59.9 12.3 117 195-318 542-688 (695)
85 PF10459 Peptidase_S46: Peptid 95.9 0.0091 2E-07 69.1 5.0 56 263-318 623-686 (698)
86 COG0793 Prc Periplasmic protea 95.8 0.016 3.5E-07 63.3 6.5 58 522-579 112-171 (406)
87 PF04495 GRASP55_65: GRASP55/6 95.3 0.026 5.7E-07 52.3 4.9 56 521-576 42-98 (138)
88 PRK11186 carboxy-terminal prot 95.0 0.033 7.2E-07 64.3 5.8 57 522-578 255-319 (667)
89 KOG3553 Tax interaction protei 95.0 0.02 4.3E-07 49.1 2.8 48 518-565 55-104 (124)
90 PF09342 DUF1986: Domain of un 94.7 0.4 8.8E-06 48.1 11.6 99 135-234 12-131 (267)
91 PF02122 Peptidase_S39: Peptid 94.4 0.031 6.7E-07 55.1 3.1 135 158-311 41-184 (203)
92 COG3480 SdrC Predicted secrete 94.4 0.086 1.9E-06 54.6 6.3 57 521-578 129-186 (342)
93 PF00947 Pico_P2A: Picornaviru 94.4 0.18 4E-06 45.4 7.6 107 189-308 13-119 (127)
94 KOG3532 Predicted protein kina 94.2 0.11 2.4E-06 58.3 7.0 56 521-576 397-452 (1051)
95 KOG3550 Receptor targeting pro 93.3 0.18 3.8E-06 46.6 5.5 67 521-589 114-183 (207)
96 PF00949 Peptidase_S7: Peptida 93.2 0.096 2.1E-06 48.0 3.8 30 265-294 89-118 (132)
97 KOG3605 Beta amyloid precursor 93.1 0.13 2.9E-06 57.5 5.4 104 273-387 680-791 (829)
98 KOG3129 26S proteasome regulat 93.1 0.17 3.6E-06 49.4 5.3 62 522-583 139-203 (231)
99 KOG3550 Receptor targeting pro 92.0 0.19 4.2E-06 46.3 4.1 36 352-387 114-151 (207)
100 KOG3552 FERM domain protein FR 91.8 0.2 4.3E-06 58.2 4.7 55 522-578 75-131 (1298)
101 KOG3532 Predicted protein kina 91.6 0.18 4E-06 56.6 4.1 38 353-390 398-436 (1051)
102 KOG3552 FERM domain protein FR 90.5 0.28 6.1E-06 57.0 4.3 57 353-419 75-131 (1298)
103 COG0750 Predicted membrane-ass 88.3 0.8 1.7E-05 49.3 5.8 57 357-424 133-194 (375)
104 PF00944 Peptidase_S3: Alphavi 88.3 0.7 1.5E-05 42.1 4.3 29 266-294 99-127 (158)
105 PF05580 Peptidase_S55: SpoIVB 88.2 0.28 6E-06 48.4 1.9 41 267-310 174-214 (218)
106 KOG3542 cAMP-regulated guanine 87.9 0.28 6E-06 55.1 1.9 39 350-388 559-598 (1283)
107 KOG2921 Intramembrane metallop 87.9 0.66 1.4E-05 49.4 4.5 47 521-567 219-266 (484)
108 COG3031 PulC Type II secretory 87.4 0.8 1.7E-05 45.7 4.5 52 531-582 216-268 (275)
109 KOG1892 Actin filament-binding 87.4 0.63 1.4E-05 54.4 4.3 60 352-421 959-1020(1629)
110 KOG3542 cAMP-regulated guanine 87.0 0.6 1.3E-05 52.6 3.8 59 518-578 558-618 (1283)
111 COG3975 Predicted protease wit 86.7 0.49 1.1E-05 52.3 2.9 32 521-552 461-492 (558)
112 KOG2921 Intramembrane metallop 86.5 0.45 9.7E-06 50.6 2.4 38 352-389 219-258 (484)
113 PF02907 Peptidase_S29: Hepati 85.6 0.79 1.7E-05 41.8 3.1 40 271-311 106-146 (148)
114 PF10459 Peptidase_S46: Peptid 84.2 0.51 1.1E-05 55.0 1.7 21 150-170 48-69 (698)
115 KOG3651 Protein kinase C, alph 82.4 2.1 4.5E-05 44.1 4.9 55 354-418 31-87 (429)
116 COG0750 Predicted membrane-ass 82.1 2.5 5.4E-05 45.5 5.9 58 525-582 132-193 (375)
117 KOG3549 Syntrophins (type gamm 82.0 2.3 5.1E-05 44.5 5.3 53 523-576 81-136 (505)
118 KOG3651 Protein kinase C, alph 81.6 2.8 6.2E-05 43.1 5.6 55 521-576 29-86 (429)
119 KOG3571 Dishevelled 3 and rela 81.3 1.7 3.8E-05 47.7 4.2 37 352-388 276-314 (626)
120 KOG3606 Cell polarity protein 77.3 2.2 4.8E-05 43.3 3.3 56 330-387 173-230 (358)
121 KOG0609 Calcium/calmodulin-dep 76.4 3.9 8.3E-05 45.5 5.1 54 523-577 147-203 (542)
122 KOG0606 Microtubule-associated 74.1 2.9 6.3E-05 50.3 3.6 35 355-389 660-695 (1205)
123 PF03510 Peptidase_C24: 2C end 73.1 23 0.0005 31.2 8.1 53 153-219 3-55 (105)
124 KOG0609 Calcium/calmodulin-dep 72.0 6.3 0.00014 43.9 5.4 56 354-419 147-204 (542)
125 PF02395 Peptidase_S6: Immunog 70.4 15 0.00033 43.5 8.4 160 151-318 67-266 (769)
126 KOG3606 Cell polarity protein 69.8 11 0.00023 38.6 6.0 55 521-576 193-250 (358)
127 KOG3938 RGS-GAIP interacting p 69.4 13 0.00028 37.9 6.4 37 540-576 168-207 (334)
128 PF01732 DUF31: Putative pepti 68.8 3.5 7.7E-05 44.6 2.7 25 268-292 350-374 (374)
129 KOG1924 RhoA GTPase effector D 67.5 22 0.00047 41.5 8.4 11 556-566 1042-1052(1102)
130 KOG3549 Syntrophins (type gamm 66.0 6.7 0.00014 41.3 3.8 55 354-418 81-137 (505)
131 PF05416 Peptidase_C37: Southa 63.6 23 0.0005 38.5 7.3 135 149-295 379-528 (535)
132 KOG3551 Syntrophins (type beta 59.5 5.1 0.00011 42.7 1.6 36 354-389 111-148 (506)
133 KOG3551 Syntrophins (type beta 57.7 9.8 0.00021 40.7 3.3 53 523-576 111-166 (506)
134 KOG3938 RGS-GAIP interacting p 56.5 8.1 0.00018 39.3 2.4 56 355-418 151-208 (334)
135 KOG1924 RhoA GTPase effector D 55.9 62 0.0013 38.0 9.4 11 12-22 502-512 (1102)
136 KOG1892 Actin filament-binding 43.7 39 0.00084 40.4 5.4 57 521-578 959-1018(1629)
137 KOG3571 Dishevelled 3 and rela 39.5 48 0.001 36.9 5.2 57 521-577 276-337 (626)
138 PF11874 DUF3394: Domain of un 39.1 72 0.0016 31.0 5.8 29 521-549 121-149 (183)
139 PF12381 Peptidase_C3G: Tungro 34.2 52 0.0011 32.7 4.0 54 263-319 170-229 (231)
140 KOG0606 Microtubule-associated 33.6 65 0.0014 39.4 5.4 50 525-575 661-712 (1205)
141 cd01720 Sm_D2 The eukaryotic S 32.3 85 0.0018 26.7 4.6 36 167-203 10-45 (87)
142 TIGR03000 plancto_dom_1 Planct 32.1 1.2E+02 0.0027 25.0 5.2 50 373-431 11-64 (75)
143 KOG3834 Golgi reassembly stack 31.6 80 0.0017 34.6 5.2 57 521-578 14-72 (462)
144 COG0298 HypC Hydrogenase matur 30.9 1.2E+02 0.0026 25.4 4.9 48 185-234 5-53 (82)
145 PF11874 DUF3394: Domain of un 30.8 62 0.0013 31.5 3.9 29 352-380 121-150 (183)
146 cd00600 Sm_like The eukaryotic 29.7 1.4E+02 0.003 23.0 5.2 32 172-204 7-38 (63)
147 PF00571 CBS: CBS domain CBS d 28.2 54 0.0012 24.3 2.5 20 273-292 29-48 (57)
148 cd01735 LSm12_N LSm12 belongs 27.6 2E+02 0.0043 22.8 5.6 34 171-205 6-39 (61)
149 cd01726 LSm6 The eukaryotic Sm 27.0 1.4E+02 0.003 23.8 4.8 32 172-204 11-42 (67)
150 KOG1738 Membrane-associated gu 26.7 34 0.00073 39.1 1.5 35 355-389 227-263 (638)
151 KOG4371 Membrane-associated pr 26.6 97 0.0021 37.6 5.2 170 328-581 1158-1331(1332)
152 cd01731 archaeal_Sm1 The archa 25.5 1.6E+02 0.0036 23.3 5.0 32 172-204 11-42 (68)
153 cd01722 Sm_F The eukaryotic Sm 25.5 1.4E+02 0.0031 23.8 4.6 31 172-203 12-42 (68)
154 PRK00737 small nuclear ribonuc 25.0 1.7E+02 0.0036 23.7 5.0 32 172-204 15-46 (72)
155 cd01730 LSm3 The eukaryotic Sm 22.3 1.5E+02 0.0033 24.6 4.4 31 172-203 12-42 (82)
156 PF09465 LBR_tudor: Lamin-B re 22.3 3.4E+02 0.0074 21.1 5.7 38 169-206 7-44 (55)
157 smart00384 AT_hook DNA binding 21.8 62 0.0013 21.1 1.4 15 5-19 1-15 (26)
158 cd01721 Sm_D3 The eukaryotic S 20.8 2.3E+02 0.0049 22.8 4.9 33 171-204 10-42 (70)
159 cd01717 Sm_B The eukaryotic Sm 20.8 2E+02 0.0044 23.6 4.8 31 172-203 11-41 (79)
160 cd01732 LSm5 The eukaryotic Sm 20.8 1.9E+02 0.0042 23.8 4.6 31 172-203 14-44 (76)
161 KOG4407 Predicted Rho GTPase-a 20.8 82 0.0018 39.2 3.2 46 524-569 145-192 (1973)
162 cd01729 LSm7 The eukaryotic Sm 20.1 2.3E+02 0.0049 23.6 4.9 31 172-203 13-43 (81)
163 cd01719 Sm_G The eukaryotic Sm 20.1 2.4E+02 0.0052 22.9 5.0 31 172-203 11-41 (72)
No 1
>PRK10139 serine endoprotease; Provisional
Probab=100.00 E-value=2.8e-57 Score=495.43 Aligned_cols=390 Identities=22% Similarity=0.311 Sum_probs=315.7
Q ss_pred chhHHhhhcccCCCcEEEEeeeeCCC---C----------CCcccccCCcceEEEEEEEe--CCEEEecccccCCCCeEE
Q 007213 111 VEPGVARVVPAMDAVVKVFCVHTEPN---F----------SLPWQRKRQYSSSSSGFAIG--GRRVLTNAHSVEHYTQVK 175 (612)
Q Consensus 111 ~~~~~~~v~~~~~SVV~I~~~~~~~~---~----------~~p~~~~~~~~~~GSGfiI~--~g~ILT~aHvV~~~~~i~ 175 (612)
+.+.++++.| |||.|........ + ..||+......+.||||||+ +||||||+|||.++..+.
T Consensus 42 ~~~~~~~~~p---avV~i~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~GSG~ii~~~~g~IlTn~HVv~~a~~i~ 118 (455)
T PRK10139 42 LAPMLEKVLP---AVVSVRVEGTASQGQKIPEEFKKFFGDDLPDQPAQPFEGLGSGVIIDAAKGYVLTNNHVINQAQKIS 118 (455)
T ss_pred HHHHHHHhCC---cEEEEEEEEeecccccCchhHHHhccccCCccccccccceEEEEEEECCCCEEEeChHHhCCCCEEE
Confidence 5556666666 9999987653221 0 12333333456799999997 599999999999999999
Q ss_pred EEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCC--CCCCeEEEEEeCCCCCceeEEEEEEeceeeec
Q 007213 176 LKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELP--ALQDAVTVVGYPIGGDTISVTSGVVSRIEILS 253 (612)
Q Consensus 176 V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~--~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~ 253 (612)
|++. |++.++|++++.|+.+||||||++... .+++++|+++. .+|++|+++|||+|+.. +++.|+|+++.+..
T Consensus 119 V~~~-dg~~~~a~vvg~D~~~DlAvlkv~~~~---~l~~~~lg~s~~~~~G~~V~aiG~P~g~~~-tvt~GivS~~~r~~ 193 (455)
T PRK10139 119 IQLN-DGREFDAKLIGSDDQSDIALLQIQNPS---KLTQIAIADSDKLRVGDFAVAVGNPFGLGQ-TATSGIISALGRSG 193 (455)
T ss_pred EEEC-CCCEEEEEEEEEcCCCCEEEEEecCCC---CCceeEecCccccCCCCEEEEEecCCCCCC-ceEEEEEccccccc
Confidence 9994 999999999999999999999998543 68899999855 56999999999999765 89999999987653
Q ss_pred ccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC-ccceeecccChhhHHHHHHHHHHcCcccCCCcCCe
Q 007213 254 YVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE-DVENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGV 332 (612)
Q Consensus 254 ~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~-~~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi 332 (612)
... .....+||+|+++++|||||||||.+|+||||+++.+..+ +..+++|+||++.+++++++|+++|++. |+|||+
T Consensus 194 ~~~-~~~~~~iqtda~in~GnSGGpl~n~~G~vIGi~~~~~~~~~~~~gigfaIP~~~~~~v~~~l~~~g~v~-r~~LGv 271 (455)
T PRK10139 194 LNL-EGLENFIQTDASINRGNSGGALLNLNGELIGINTAILAPGGGSVGIGFAIPSNMARTLAQQLIDFGEIK-RGLLGI 271 (455)
T ss_pred cCC-CCcceEEEECCccCCCCCcceEECCCCeEEEEEEEEEcCCCCccceEEEEEhHHHHHHHHHHhhcCccc-ccceeE
Confidence 221 1234689999999999999999999999999999877543 4578999999999999999999999998 999999
Q ss_pred EEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCC
Q 007213 333 EWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGD 411 (612)
Q Consensus 333 ~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~ 411 (612)
.++.+ +++.++.+|++. ..|++|..|.++|||++ |||+||+|++|||++|.+|.++. ..+.....|+
T Consensus 272 ~~~~l-~~~~~~~lgl~~-~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~----------~~l~~~~~g~ 339 (455)
T PRK10139 272 KGTEM-SADIAKAFNLDV-QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAELR----------SRIATTEPGT 339 (455)
T ss_pred EEEEC-CHHHHHhcCCCC-CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCHHHHH----------HHHHhcCCCC
Confidence 99999 899999999975 67999999999999999 99999999999999999999853 6666667899
Q ss_pred EEEEEEEECCEEEEEEEEeccCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCccccccccc
Q 007213 412 SAAVKVLRDSKILNFNITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNC 491 (612)
Q Consensus 412 ~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 491 (612)
++.++|+|+|+.+++++++........... ...| .+.|+.+.+..
T Consensus 340 ~v~l~V~R~G~~~~l~v~~~~~~~~~~~~~-~~~~---~~~g~~l~~~~------------------------------- 384 (455)
T PRK10139 340 KVKLGLLRNGKPLEVEVTLDTSTSSSASAE-MITP---ALQGATLSDGQ------------------------------- 384 (455)
T ss_pred EEEEEEEECCEEEEEEEEECCCCCcccccc-cccc---cccccEecccc-------------------------------
Confidence 999999999999999998754322111000 0000 01222221100
Q ss_pred chhhhhhhccCCccccccchhhhhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCe
Q 007213 492 QMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEF 571 (612)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~ 571 (612)
......+++|.+|.+++++..+|+++||+|++|||++|.+|++|.+++++.+ +.
T Consensus 385 -------------------------~~~~~~Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~l~~~~-~~ 438 (455)
T PRK10139 385 -------------------------LKDGTKGIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSIAEMRKVLAAKP-AI 438 (455)
T ss_pred -------------------------cccCCCceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhCC-Ce
Confidence 0000357999999999999999999999999999999999999999999865 78
Q ss_pred EEEEEeCCeEEE
Q 007213 572 LKFDLEYDQVVV 583 (612)
Q Consensus 572 ~~l~~~r~~~~~ 583 (612)
+.|++.|+++.+
T Consensus 439 v~l~v~R~g~~~ 450 (455)
T PRK10139 439 IALQIVRGNESI 450 (455)
T ss_pred EEEEEEECCEEE
Confidence 899999998754
No 2
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=100.00 E-value=2.2e-55 Score=480.21 Aligned_cols=363 Identities=22% Similarity=0.317 Sum_probs=315.1
Q ss_pred cceEEEEEEEe-CCEEEecccccCCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCC--CC
Q 007213 147 YSSSSSGFAIG-GRRVLTNAHSVEHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELP--AL 223 (612)
Q Consensus 147 ~~~~GSGfiI~-~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~--~~ 223 (612)
..+.||||+|+ +||||||+|||.++..+.|++. +++.++|++++.|+.+||||||++... .++++.|+++. .+
T Consensus 56 ~~~~GSGfii~~~G~IlTn~Hvv~~~~~i~V~~~-~~~~~~a~vv~~d~~~DlAllkv~~~~---~~~~~~l~~~~~~~~ 131 (428)
T TIGR02037 56 VRGLGSGVIISADGYILTNNHVVDGADEITVTLS-DGREFKAKLVGKDPRTDIAVLKIDAKK---NLPVIKLGDSDKLRV 131 (428)
T ss_pred ccceeeEEEECCCCEEEEcHHHcCCCCeEEEEeC-CCCEEEEEEEEecCCCCEEEEEecCCC---CceEEEccCCCCCCC
Confidence 45789999998 7899999999999999999995 999999999999999999999998752 68999998743 67
Q ss_pred CCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC-cccee
Q 007213 224 QDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE-DVENI 302 (612)
Q Consensus 224 G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~-~~~~~ 302 (612)
|++|+++|||.+... +++.|+|++..+.... ...+..++++|+++++|||||||+|.+|+||||+++.+... +..++
T Consensus 132 G~~v~aiG~p~g~~~-~~t~G~vs~~~~~~~~-~~~~~~~i~tda~i~~GnSGGpl~n~~G~viGI~~~~~~~~g~~~g~ 209 (428)
T TIGR02037 132 GDWVLAIGNPFGLGQ-TVTSGIVSALGRSGLG-IGDYENFIQTDAAINPGNSGGPLVNLRGEVIGINTAIYSPSGGNVGI 209 (428)
T ss_pred CCEEEEEECCCcCCC-cEEEEEEEecccCccC-CCCccceEEECCCCCCCCCCCceECCCCeEEEEEeEEEcCCCCccce
Confidence 999999999999765 8999999998765321 12233579999999999999999999999999998876543 35689
Q ss_pred ecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECC
Q 007213 303 GYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDG 381 (612)
Q Consensus 303 ~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG 381 (612)
+|+||++.+++++++|++++++. |+|||+.++.+ +++.++.+|++. ..|++|.+|.++|||++ |||+||+|++|||
T Consensus 210 ~faiP~~~~~~~~~~l~~~g~~~-~~~lGi~~~~~-~~~~~~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng 286 (428)
T TIGR02037 210 GFAIPSNMAKNVVDQLIEGGKVQ-RGWLGVTIQEV-TSDLAKSLGLEK-QRGALVAQVLPGSPAEKAGLKAGDVILSVNG 286 (428)
T ss_pred EEEEEhHHHHHHHHHHHhcCcCc-CCcCceEeecC-CHHHHHHcCCCC-CCceEEEEccCCCChHHcCCCCCCEEEEECC
Confidence 99999999999999999999998 99999999999 899999999986 67999999999999999 9999999999999
Q ss_pred EEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEeccCccccCCCCCCCCCCceeeccEEEeecCc
Q 007213 382 IDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLY 461 (612)
Q Consensus 382 ~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~ 461 (612)
++|.+|.++ ...+.....|++++++|.|+|+.+++++++...+... .++...+.|+.+++++
T Consensus 287 ~~i~~~~~~----------~~~l~~~~~g~~v~l~v~R~g~~~~~~v~l~~~~~~~-------~~~~~~~lGi~~~~l~- 348 (428)
T TIGR02037 287 KPISSFADL----------RRAIGTLKPGKKVTLGILRKGKEKTITVTLGASPEEQ-------ASSSNPFLGLTVANLS- 348 (428)
T ss_pred EEcCCHHHH----------HHHHHhcCCCCEEEEEEEECCEEEEEEEEECcCCCcc-------ccccccccceEEecCC-
Confidence 999999884 3667777789999999999999999999987654221 1234457899999988
Q ss_pred hhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhhhhcccCCCCceEEEeeeccccccccccc
Q 007213 462 LISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPWFCKVLVADINIGYEEI 541 (612)
Q Consensus 462 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~ 541 (612)
+.++..+++... ..+++|.+|.+++++..+|++
T Consensus 349 ------------~~~~~~~~l~~~-----------------------------------~~Gv~V~~V~~~SpA~~aGL~ 381 (428)
T TIGR02037 349 ------------PEIRKELRLKGD-----------------------------------VKGVVVTKVVSGSPAARAGLQ 381 (428)
T ss_pred ------------HHHHHHcCCCcC-----------------------------------cCceEEEEeCCCCHHHHcCCC
Confidence 777766665311 367999999999999999999
Q ss_pred ccceeEeeCCeecCCHHHHHHHHHhC-CCCeEEEEEeCCeEEE
Q 007213 542 VNTQVLAFNGNPVKNLKSLANMVENC-DDEFLKFDLEYDQVVV 583 (612)
Q Consensus 542 ~gd~I~~vng~~v~~~~~l~~~l~~~-~~~~~~l~~~r~~~~~ 583 (612)
.||+|++|||++|.++++|.+++++. +++.++|++.|+++..
T Consensus 382 ~GDvI~~Ing~~V~s~~d~~~~l~~~~~g~~v~l~v~R~g~~~ 424 (428)
T TIGR02037 382 PGDVILSVNQQPVSSVAELRKVLDRAKKGGRVALLILRGGATI 424 (428)
T ss_pred CCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 99999999999999999999999985 5778999999998754
No 3
>PRK10942 serine endoprotease; Provisional
Probab=100.00 E-value=4e-54 Score=472.66 Aligned_cols=353 Identities=24% Similarity=0.314 Sum_probs=297.3
Q ss_pred ceEEEEEEEe--CCEEEecccccCCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCC--CC
Q 007213 148 SSSSSGFAIG--GRRVLTNAHSVEHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELP--AL 223 (612)
Q Consensus 148 ~~~GSGfiI~--~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~--~~ 223 (612)
.+.||||||+ +||||||+|||.++..+.|++. |++.++|++++.|+.+||||||++... .++++.|+++. ++
T Consensus 110 ~~~GSG~ii~~~~G~IlTn~HVv~~a~~i~V~~~-dg~~~~a~vv~~D~~~DlAvlki~~~~---~l~~~~lg~s~~l~~ 185 (473)
T PRK10942 110 MALGSGVIIDADKGYVVTNNHVVDNATKIKVQLS-DGRKFDAKVVGKDPRSDIALIQLQNPK---NLTAIKMADSDALRV 185 (473)
T ss_pred cceEEEEEEECCCCEEEeChhhcCCCCEEEEEEC-CCCEEEEEEEEecCCCCEEEEEecCCC---CCceeEecCccccCC
Confidence 4689999998 4899999999999999999995 999999999999999999999997543 68899999754 66
Q ss_pred CCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC-cccee
Q 007213 224 QDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE-DVENI 302 (612)
Q Consensus 224 G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~-~~~~~ 302 (612)
|++|+++|+|+++.. +++.|+|++..+..... ..+..+||+|+++++|||||||+|.+|+||||+++.+..+ +..++
T Consensus 186 G~~V~aiG~P~g~~~-tvt~GiVs~~~r~~~~~-~~~~~~iqtda~i~~GnSGGpL~n~~GeviGI~t~~~~~~g~~~g~ 263 (473)
T PRK10942 186 GDYTVAIGNPYGLGE-TVTSGIVSALGRSGLNV-ENYENFIQTDAAINRGNSGGALVNLNGELIGINTAILAPDGGNIGI 263 (473)
T ss_pred CCEEEEEcCCCCCCc-ceeEEEEEEeecccCCc-ccccceEEeccccCCCCCcCccCCCCCeEEEEEEEEEcCCCCcccE
Confidence 999999999999766 89999999987653221 1234679999999999999999999999999999877543 34679
Q ss_pred ecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECC
Q 007213 303 GYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDG 381 (612)
Q Consensus 303 ~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG 381 (612)
+|+||++.+++++++|.++|++. |+|||+.++.+ ++++++.++++. ..|++|..|.++|||++ |||+||+|++|||
T Consensus 264 gfaIP~~~~~~v~~~l~~~g~v~-rg~lGv~~~~l-~~~~a~~~~l~~-~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG 340 (473)
T PRK10942 264 GFAIPSNMVKNLTSQMVEYGQVK-RGELGIMGTEL-NSELAKAMKVDA-QRGAFVSQVLPNSSAAKAGIKAGDVITSLNG 340 (473)
T ss_pred EEEEEHHHHHHHHHHHHhccccc-cceeeeEeeec-CHHHHHhcCCCC-CCceEEEEECCCChHHHcCCCCCCEEEEECC
Confidence 99999999999999999999998 99999999999 899999999986 67999999999999999 9999999999999
Q ss_pred EEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEeccCccccCCCCCCCCCCceeeccEEEeecCc
Q 007213 382 IDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLY 461 (612)
Q Consensus 382 ~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~ 461 (612)
++|.+|.++. ..+.....|+++.++|+|+|+.+++.+++......... +...+.|+....++
T Consensus 341 ~~V~s~~dl~----------~~l~~~~~g~~v~l~v~R~G~~~~v~v~l~~~~~~~~~-------~~~~~lGl~g~~l~- 402 (473)
T PRK10942 341 KPISSFAALR----------AQVGTMPVGSKLTLGLLRDGKPVNVNVELQQSSQNQVD-------SSNIFNGIEGAELS- 402 (473)
T ss_pred EECCCHHHHH----------HHHHhcCCCCEEEEEEEECCeEEEEEEEeCcCcccccc-------cccccccceeeecc-
Confidence 9999998853 66777778999999999999999999988653211000 10112333222222
Q ss_pred hhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhhhhcccCCCCceEEEeeeccccccccccc
Q 007213 462 LISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPWFCKVLVADINIGYEEI 541 (612)
Q Consensus 462 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~ 541 (612)
+. ....+++|.+|.+++++..+|++
T Consensus 403 ------------~~-------------------------------------------~~~~gvvV~~V~~~S~A~~aGL~ 427 (473)
T PRK10942 403 ------------NK-------------------------------------------GGDKGVVVDNVKPGTPAAQIGLK 427 (473)
T ss_pred ------------cc-------------------------------------------cCCCCeEEEEeCCCChHHHcCCC
Confidence 00 00246999999999999999999
Q ss_pred ccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEEE
Q 007213 542 VNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 542 ~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~~ 583 (612)
+||+|++|||++|.++++|.+++++.+ +.+.|++.|+++.+
T Consensus 428 ~GDvIv~VNg~~V~s~~dl~~~l~~~~-~~v~l~V~R~g~~~ 468 (473)
T PRK10942 428 KGDVIIGANQQPVKNIAELRKILDSKP-SVLALNIQRGDSSI 468 (473)
T ss_pred CCCEEEEECCEEcCCHHHHHHHHHhCC-CeEEEEEEECCEEE
Confidence 999999999999999999999999854 78999999987654
No 4
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=100.00 E-value=2e-46 Score=398.66 Aligned_cols=297 Identities=25% Similarity=0.395 Sum_probs=251.8
Q ss_pred CchhHHhhhcccCCCcEEEEeeeeCCCCCCcccccCCcceEEEEEEEe-CCEEEecccccCCCCeEEEEEcCCCcEEEEE
Q 007213 110 DVEPGVARVVPAMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFAIG-GRRVLTNAHSVEHYTQVKLKKRGSDTKYLAT 188 (612)
Q Consensus 110 ~~~~~~~~v~~~~~SVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~ 188 (612)
++.+.++++.+ |||.|.......+. +. .....+.||||+|+ +||||||+|||.++..+.|++. +|+.++|+
T Consensus 46 ~~~~~~~~~~p---sVV~I~~~~~~~~~---~~-~~~~~~~GSG~vi~~~G~IlTn~HVV~~~~~i~V~~~-dg~~~~a~ 117 (351)
T TIGR02038 46 SFNKAVRRAAP---AVVNIYNRSISQNS---LN-QLSIQGLGSGVIMSKEGYILTNYHVIKKADQIVVALQ-DGRKFEAE 117 (351)
T ss_pred hHHHHHHhcCC---cEEEEEeEeccccc---cc-cccccceEEEEEEeCCeEEEecccEeCCCCEEEEEEC-CCCEEEEE
Confidence 34455555555 99999986544321 11 22345689999998 7899999999999999999994 89999999
Q ss_pred EEEeccCCCeEEEEeccccccCCeeeeEcCCC--CCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEE
Q 007213 189 VLAIGTECDIAMLTVEDDEFWEGVLPVEFGEL--PALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQI 266 (612)
Q Consensus 189 vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~--~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~ 266 (612)
++++|+.+||||||++.. .+++++++++ .++|++|+++|||.+... +++.|+|+.+.+.... ...+..+||+
T Consensus 118 vv~~d~~~DlAvlkv~~~----~~~~~~l~~s~~~~~G~~V~aiG~P~~~~~-s~t~GiIs~~~r~~~~-~~~~~~~iqt 191 (351)
T TIGR02038 118 LVGSDPLTDLAVLKIEGD----NLPTIPVNLDRPPHVGDVVLAIGNPYNLGQ-TITQGIISATGRNGLS-SVGRQNFIQT 191 (351)
T ss_pred EEEecCCCCEEEEEecCC----CCceEeccCcCccCCCCEEEEEeCCCCCCC-cEEEEEEEeccCcccC-CCCcceEEEE
Confidence 999999999999999876 4678888764 477999999999998765 8999999998765432 2233468999
Q ss_pred ccCCCCCCCCCeEecCCCeEEEEEecccCCC---ccceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhH
Q 007213 267 DAAINSGNSGGPAFNDKGKCVGIAFQSLKHE---DVENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLR 343 (612)
Q Consensus 267 da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~---~~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~ 343 (612)
|+++++|||||||+|.+|+||||+++.+... ...+++|+||++.+++++++|+++|++. |+|||+.++.+ ++..+
T Consensus 192 da~i~~GnSGGpl~n~~G~vIGI~~~~~~~~~~~~~~g~~faIP~~~~~~vl~~l~~~g~~~-r~~lGv~~~~~-~~~~~ 269 (351)
T TIGR02038 192 DAAINAGNSGGALINTNGELVGINTASFQKGGDEGGEGINFAIPIKLAHKIMGKIIRDGRVI-RGYIGVSGEDI-NSVVA 269 (351)
T ss_pred CCccCCCCCcceEECCCCeEEEEEeeeecccCCCCccceEEEecHHHHHHHHHHHhhcCccc-ceEeeeEEEEC-CHHHH
Confidence 9999999999999999999999998765422 2368899999999999999999999998 89999999998 88889
Q ss_pred HhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCE
Q 007213 344 VAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSK 422 (612)
Q Consensus 344 ~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~ 422 (612)
+.+|++. ..|++|..|.++|||++ ||++||+|++|||++|.+|.++ ...+.....|+++.++|+|+|+
T Consensus 270 ~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~dl----------~~~l~~~~~g~~v~l~v~R~g~ 338 (351)
T TIGR02038 270 QGLGLPD-LRGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEEL----------MDRIAETRPGSKVMVTVLRQGK 338 (351)
T ss_pred HhcCCCc-cccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHHH----------HHHHHhcCCCCEEEEEEEECCE
Confidence 9999976 57999999999999999 9999999999999999999885 3667666789999999999999
Q ss_pred EEEEEEEeccC
Q 007213 423 ILNFNITLATH 433 (612)
Q Consensus 423 ~~~~~v~l~~~ 433 (612)
.+++.+++..+
T Consensus 339 ~~~~~v~l~~~ 349 (351)
T TIGR02038 339 QLELPVTIDEK 349 (351)
T ss_pred EEEEEEEecCC
Confidence 99999988754
No 5
>PRK10898 serine endoprotease; Provisional
Probab=100.00 E-value=4.3e-46 Score=395.84 Aligned_cols=298 Identities=22% Similarity=0.360 Sum_probs=250.8
Q ss_pred CchhHHhhhcccCCCcEEEEeeeeCCCCCCcccccCCcceEEEEEEEe-CCEEEecccccCCCCeEEEEEcCCCcEEEEE
Q 007213 110 DVEPGVARVVPAMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFAIG-GRRVLTNAHSVEHYTQVKLKKRGSDTKYLAT 188 (612)
Q Consensus 110 ~~~~~~~~v~~~~~SVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~ 188 (612)
.+.+.++++.+ |||.|......... .......+.||||+|+ +||||||+|||.++..+.|++. +|+.++|+
T Consensus 46 ~~~~~~~~~~p---svV~v~~~~~~~~~----~~~~~~~~~GSGfvi~~~G~IlTn~HVv~~a~~i~V~~~-dg~~~~a~ 117 (353)
T PRK10898 46 SYNQAVRRAAP---AVVNVYNRSLNSTS----HNQLEIRTLGSGVIMDQRGYILTNKHVINDADQIIVALQ-DGRVFEAL 117 (353)
T ss_pred hHHHHHHHhCC---cEEEEEeEeccccC----cccccccceeeEEEEeCCeEEEecccEeCCCCEEEEEeC-CCCEEEEE
Confidence 35556666666 99999987643321 1223345789999998 7999999999999999999995 89999999
Q ss_pred EEEeccCCCeEEEEeccccccCCeeeeEcCCC--CCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEE
Q 007213 189 VLAIGTECDIAMLTVEDDEFWEGVLPVEFGEL--PALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQI 266 (612)
Q Consensus 189 vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~--~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~ 266 (612)
++++|+.+||||||++.. .+++++|+++ ...|+.|+++|||.+... +++.|+|++..+..... .....+||+
T Consensus 118 vv~~d~~~DlAvl~v~~~----~l~~~~l~~~~~~~~G~~V~aiG~P~g~~~-~~t~Giis~~~r~~~~~-~~~~~~iqt 191 (353)
T PRK10898 118 LVGSDSLTDLAVLKINAT----NLPVIPINPKRVPHIGDVVLAIGNPYNLGQ-TITQGIISATGRIGLSP-TGRQNFLQT 191 (353)
T ss_pred EEEEcCCCCEEEEEEcCC----CCCeeeccCcCcCCCCCEEEEEeCCCCcCC-CcceeEEEeccccccCC-ccccceEEe
Confidence 999999999999999875 4678888764 467999999999998765 89999999887653221 122368999
Q ss_pred ccCCCCCCCCCeEecCCCeEEEEEecccCCCc----cceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhh
Q 007213 267 DAAINSGNSGGPAFNDKGKCVGIAFQSLKHED----VENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDL 342 (612)
Q Consensus 267 da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~----~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~ 342 (612)
|+++++|||||||+|.+|+||||+++.+...+ ..+++|+||++.+++++++|+++|++. ++|||+..+.+ ++..
T Consensus 192 da~i~~GnSGGPl~n~~G~vvGI~~~~~~~~~~~~~~~g~~faIP~~~~~~~~~~l~~~G~~~-~~~lGi~~~~~-~~~~ 269 (353)
T PRK10898 192 DASINHGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPTQLATKIMDKLIRDGRVI-RGYIGIGGREI-APLH 269 (353)
T ss_pred ccccCCCCCcceEECCCCeEEEEEEEEecccCCCCcccceEEEEchHHHHHHHHHHhhcCccc-ccccceEEEEC-CHHH
Confidence 99999999999999999999999998765322 257999999999999999999999998 89999999988 7777
Q ss_pred HHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECC
Q 007213 343 RVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDS 421 (612)
Q Consensus 343 ~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G 421 (612)
+..++++. ..|++|.+|.++|||++ ||++||+|++|||++|.+|.++ ...+.....|+++.++|+|+|
T Consensus 270 ~~~~~~~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~l----------~~~l~~~~~g~~v~l~v~R~g 338 (353)
T PRK10898 270 AQGGGIDQ-LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALET----------MDQVAEIRPGSVIPVVVMRDD 338 (353)
T ss_pred HHhcCCCC-CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHHH----------HHHHHhcCCCCEEEEEEEECC
Confidence 77778765 57999999999999999 9999999999999999999884 366666678999999999999
Q ss_pred EEEEEEEEeccCc
Q 007213 422 KILNFNITLATHR 434 (612)
Q Consensus 422 ~~~~~~v~l~~~~ 434 (612)
+.+++.+++..++
T Consensus 339 ~~~~~~v~l~~~p 351 (353)
T PRK10898 339 KQLTLQVTIQEYP 351 (353)
T ss_pred EEEEEEEEeccCC
Confidence 9999999987653
No 6
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=100.00 E-value=5.1e-38 Score=336.13 Aligned_cols=383 Identities=15% Similarity=0.224 Sum_probs=316.0
Q ss_pred hHHhhhcccCCCcEEEEeeeeCCCCCCcccccCCcceEEEEEEEe--CCEEEecccccCCCCeEEEEEcCCCcEEEEEEE
Q 007213 113 PGVARVVPAMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFAIG--GRRVLTNAHSVEHYTQVKLKKRGSDTKYLATVL 190 (612)
Q Consensus 113 ~~~~~v~~~~~SVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~--~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~vv 190 (612)
.+...++...+|||.|.+..... |+......+.+|||+++ .||||||+|+|.....+--..+.+.++.+...+
T Consensus 53 ~w~~~ia~VvksvVsI~~S~v~~-----fdtesag~~~atgfvvd~~~gyiLtnrhvv~pgP~va~avf~n~ee~ei~pv 127 (955)
T KOG1421|consen 53 DWRNTIANVVKSVVSIRFSAVRA-----FDTESAGESEATGFVVDKKLGYILTNRHVVAPGPFVASAVFDNHEEIEIYPV 127 (955)
T ss_pred hhhhhhhhhcccEEEEEehheee-----cccccccccceeEEEEecccceEEEeccccCCCCceeEEEecccccCCcccc
Confidence 34444444455999999987433 45555677899999998 699999999999776654333358888888999
Q ss_pred EeccCCCeEEEEeccccc-cCCeeeeEcCC-CCCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCc-----eeeeE
Q 007213 191 AIGTECDIAMLTVEDDEF-WEGVLPVEFGE-LPALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGS-----TELLG 263 (612)
Q Consensus 191 ~~d~~~DLAlLkv~~~~~-~~~l~pl~l~~-~~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~-----~~~~~ 263 (612)
+.|+.||+.+++.++... ...+..++++. ..++|.++.++|+..+ +..++..|.++++++....++. +...+
T Consensus 128 yrDpVhdfGf~r~dps~ir~s~vt~i~lap~~akvgseirvvgNDag-EklsIlagflSrldr~apdyg~~~yndfnTfy 206 (955)
T KOG1421|consen 128 YRDPVHDFGFFRYDPSTIRFSIVTEICLAPELAKVGSEIRVVGNDAG-EKLSILAGFLSRLDRNAPDYGEDTYNDFNTFY 206 (955)
T ss_pred cCCchhhcceeecChhhcceeeeeccccCccccccCCceEEecCCcc-ceEEeehhhhhhccCCCcccccccccccccee
Confidence 999999999999998643 23456666663 5688999999999988 5669999999999887554432 33457
Q ss_pred EEEccCCCCCCCCCeEecCCCeEEEEEecccCCCccceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhH
Q 007213 264 LQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLR 343 (612)
Q Consensus 264 i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~ 343 (612)
+|..+....|.||+||++.+|..|.++..+. ...+.+|++|++.+.+.|..++++..++ |+.|.++|-.. ..+.+
T Consensus 207 ~QaasstsggssgspVv~i~gyAVAl~agg~---~ssas~ffLpLdrV~RaL~clq~n~PIt-RGtLqvefl~k-~~de~ 281 (955)
T KOG1421|consen 207 IQAASSTSGGSSGSPVVDIPGYAVALNAGGS---ISSASDFFLPLDRVVRALRCLQNNTPIT-RGTLQVEFLHK-LFDEC 281 (955)
T ss_pred eeehhcCCCCCCCCceecccceEEeeecCCc---ccccccceeeccchhhhhhhhhcCCCcc-cceEEEEEehh-hhHHH
Confidence 8999999999999999999999999998854 4566789999999999999999888888 99999999988 89999
Q ss_pred HhhhcccC-----------CCccEE-EEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCC
Q 007213 344 VAMSMKAD-----------QKGVRI-RRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGD 411 (612)
Q Consensus 344 ~~lgl~~~-----------~~G~~V-~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~ 411 (612)
+++||+.+ .+|++| ..|.++|||++.|++||++++||+.-+.++.++ .+. .....|+
T Consensus 282 rrlGL~sE~eqv~r~k~P~~tgmLvV~~vL~~gpa~k~Le~GDillavN~t~l~df~~l----------~~i-LDegvgk 350 (955)
T KOG1421|consen 282 RRLGLSSEWEQVVRTKFPERTGMLVVETVLPEGPAEKKLEPGDILLAVNSTCLNDFEAL----------EQI-LDEGVGK 350 (955)
T ss_pred HhcCCcHHHHHHHHhcCcccceeEEEEEeccCCchhhccCCCcEEEEEcceehHHHHHH----------HHH-HhhccCc
Confidence 99999754 567665 679999999999999999999999999888764 244 4455999
Q ss_pred EEEEEEEECCEEEEEEEEeccCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCccccccccc
Q 007213 412 SAAVKVLRDSKILNFNITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNC 491 (612)
Q Consensus 412 ~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 491 (612)
.+.|+|+|+|+..+++++++..+...|. +|+.++|.+|++++ +++++.|.+.
T Consensus 351 ~l~LtI~Rggqelel~vtvqdlh~itp~-------R~levcGav~hdls-------------yq~ar~y~lP-------- 402 (955)
T KOG1421|consen 351 NLELTIQRGGQELELTVTVQDLHGITPD-------RFLEVCGAVFHDLS-------------YQLARLYALP-------- 402 (955)
T ss_pred eEEEEEEeCCEEEEEEEEeccccCCCCc-------eEEEEcceEecCCC-------------HHHHhhcccc--------
Confidence 9999999999999999999998877665 78889999999999 8888666654
Q ss_pred chhhhhhhccCCccccccchhhhhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCC-
Q 007213 492 QMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDE- 570 (612)
Q Consensus 492 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~- 570 (612)
.+|++|++.. ++.+.+++.. +.+|.+||++++.++++|++++++.+++
T Consensus 403 -----------------------------~~GvyVa~~~-gsf~~~~~~y-~~ii~~vanK~tPdLdaFidvlk~L~dg~ 451 (955)
T KOG1421|consen 403 -----------------------------VEGVYVASPG-GSFRHRGPRY-GQIIDSVANKPTPDLDAFIDVLKELPDGA 451 (955)
T ss_pred -----------------------------cCcEEEccCC-CCccccCCcc-eEEEEeecCCcCCCHHHHHHHHHhccCCC
Confidence 5689999987 7888888876 8999999999999999999999986654
Q ss_pred eEEEEE
Q 007213 571 FLKFDL 576 (612)
Q Consensus 571 ~~~l~~ 576 (612)
.+.+..
T Consensus 452 rV~vry 457 (955)
T KOG1421|consen 452 RVPVRY 457 (955)
T ss_pred eeeEEE
Confidence 555543
No 7
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.1e-39 Score=341.34 Aligned_cols=416 Identities=43% Similarity=0.614 Sum_probs=369.3
Q ss_pred hhcccCCCcEEEEeeeeCCCCCCcccccCCcceEEEEEEEeCCEEEecccccC---CCCeEEEEEcCCCcEEEEEEEEec
Q 007213 117 RVVPAMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFAIGGRRVLTNAHSVE---HYTQVKLKKRGSDTKYLATVLAIG 193 (612)
Q Consensus 117 ~v~~~~~SVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~~g~ILT~aHvV~---~~~~i~V~~~~~g~~~~a~vv~~d 193 (612)
.+..+..|++.+....+.+.+..||+..++..+.|+||.+....++||+|++. +...+.|..++.-+.|.|++...-
T Consensus 55 ~~~~~~~s~~~v~~~~~~~~~~~pw~~~~q~~~~~s~f~i~~~~lltn~~~v~~~~~~~~v~v~~~gs~~k~~~~v~~~~ 134 (473)
T KOG1320|consen 55 VVDLALQSVVKVFSVSTEPSSVLPWQRTRQFSSGGSGFAIYGKKLLTNAHVVAPNNDHKFVTVKKHGSPRKYKAFVAAVF 134 (473)
T ss_pred CccccccceeEEEeecccccccCcceeeehhcccccchhhcccceeecCccccccccccccccccCCCchhhhhhHHHhh
Confidence 34455569999999999999999999998889999999999999999999999 667777776667778899999999
Q ss_pred cCCCeEEEEeccccccCCeeeeEcCCCCCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCC
Q 007213 194 TECDIAMLTVEDDEFWEGVLPVEFGELPALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSG 273 (612)
Q Consensus 194 ~~~DLAlLkv~~~~~~~~l~pl~l~~~~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G 273 (612)
.++|+|+|.++..+||..+.|+++++.+...+.++++| | +..++|.|.|++.....+..+......+|+++++++|
T Consensus 135 ~~cd~Avv~Ie~~~f~~~~~~~e~~~ip~l~~S~~Vv~---g-d~i~VTnghV~~~~~~~y~~~~~~l~~vqi~aa~~~~ 210 (473)
T KOG1320|consen 135 EECDLAVVYIESEEFWKGMNPFELGDIPSLNGSGFVVG---G-DGIIVTNGHVVRVEPRIYAHSSTVLLRVQIDAAIGPG 210 (473)
T ss_pred hcccceEEEEeeccccCCCcccccCCCcccCccEEEEc---C-CcEEEEeeEEEEEEeccccCCCcceeeEEEEEeecCC
Confidence 99999999999999998999999999999999999999 4 4559999999999988887777777789999999999
Q ss_pred CCCCeEecCCCeEEEEEecccCCCccceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhHHhhhcccCCC
Q 007213 274 NSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLRVAMSMKADQK 353 (612)
Q Consensus 274 ~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~~~lgl~~~~~ 353 (612)
+||+|.+..-+++.|+++..+... .++++.||.-.+.+|.......+.+.+++++++..+.+++...++.+.|..+ +
T Consensus 211 ~s~ep~i~g~d~~~gvA~l~ik~~--~~i~~~i~~~~~~~~~~G~~~~a~~~~f~~~nt~t~g~vs~~~R~~~~lg~~-~ 287 (473)
T KOG1320|consen 211 NSGEPVIVGVDKVAGVAFLKIKTP--ENILYVIPLGVSSHFRTGVEVSAIGNGFGLLNTLTQGMVSGQLRKSFKLGLE-T 287 (473)
T ss_pred ccCCCeEEccccccceEEEEEecC--CcccceeecceeeeecccceeeccccCceeeeeeeecccccccccccccCcc-c
Confidence 999999987799999999977422 2789999999999999888888888889999999999988999999999886 8
Q ss_pred ccEEEEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEeccC
Q 007213 354 GVRIRRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLATH 433 (612)
Q Consensus 354 G~~V~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~~ 433 (612)
|+.+.++.+.+.|.+-++.||.|+++||..|. +.++..+|+.|..++....+++++.+.|.|.| ++.+.+...
T Consensus 288 g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~Ig----Vn~~~~~ri~~~~~iSf~~p~d~vl~~v~r~~---e~~~~lr~~ 360 (473)
T KOG1320|consen 288 GVLISKINQTDAAINPGNSGGPLLNLDGEVIG----VNTRKVTRIGFSHGISFKIPIDTVLVIVLRLG---EFQISLRPV 360 (473)
T ss_pred ceeeeeecccchhhhcccCCCcEEEecCcEee----eeeeeeEEeeccccceeccCchHhhhhhhhhh---hhceeeccc
Confidence 99999999999888899999999999999998 66778889999999999999999999999998 677777777
Q ss_pred ccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhh
Q 007213 434 RRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVF 513 (612)
Q Consensus 434 ~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 (612)
..+.|.+++...|.|++++||+|.+++ + +++. . +
T Consensus 361 ~~~~p~~~~~g~~s~~i~~g~vf~~~~----~--------~~~~-----~--------------------~--------- 394 (473)
T KOG1320|consen 361 KPLVPVHQYIGLPSYYIFAGLVFVPLT----K--------SYIF-----P--------------------S--------- 394 (473)
T ss_pred cCcccccccCCceeEEEecceEEeecC----C--------Cccc-----c--------------------c---------
Confidence 788889999999999999999999988 1 1111 0 0
Q ss_pred hhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEEEEechhhHHHH
Q 007213 514 LLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVVVLRTKTSKAAT 593 (612)
Q Consensus 514 ~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~~l~~~~~~~~~ 593 (612)
...++|++++|+++++|.+|+++.||+|.+|||++|+|+.|+.++++.|..+ +...+|+++..|.++
T Consensus 395 -----~~~q~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~~~l~~~i~~~~~~--------~~v~vl~~~~~e~~t 461 (473)
T KOG1320|consen 395 -----GVVQLVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNLKHLYELIEECSTE--------DKVAVLDRRSAEDAT 461 (473)
T ss_pred -----cceeEEEEEEeccCCCcccccccCCCEEEEECCEEeechHHHHHHHHhcCcC--------ceEEEEEecCcccee
Confidence 0136799999999999999999999999999999999999999999998766 677899999999999
Q ss_pred HHHHHHcCCCcC
Q 007213 594 LDILATHCIPSA 605 (612)
Q Consensus 594 ~~i~~~~~i~~~ 605 (612)
..|+++|+||++
T Consensus 462 l~Il~~~~~p~~ 473 (473)
T KOG1320|consen 462 LEILPEHKIPSA 473 (473)
T ss_pred EEecccccCCCC
Confidence 999999999985
No 8
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.5e-35 Score=314.05 Aligned_cols=301 Identities=26% Similarity=0.394 Sum_probs=250.5
Q ss_pred CchhHHhhhcccCCCcEEEEeeeeCCCCC-CcccccCC-cceEEEEEEEe-CCEEEecccccCCCCeEEEEEcCCCcEEE
Q 007213 110 DVEPGVARVVPAMDAVVKVFCVHTEPNFS-LPWQRKRQ-YSSSSSGFAIG-GRRVLTNAHSVEHYTQVKLKKRGSDTKYL 186 (612)
Q Consensus 110 ~~~~~~~~v~~~~~SVV~I~~~~~~~~~~-~p~~~~~~-~~~~GSGfiI~-~g~ILT~aHvV~~~~~i~V~~~~~g~~~~ 186 (612)
.....++++.+ +||.|.......... ++-..... ..+.||||+++ +|||+||.|+|.++..+.|.+ .+|+.++
T Consensus 34 ~~~~~~~~~~~---~vV~~~~~~~~~~~~~~~~~~~~~~~~~~gSg~i~~~~g~ivTn~hVi~~a~~i~v~l-~dg~~~~ 109 (347)
T COG0265 34 SFATAVEKVAP---AVVSIATGLTAKLRSFFPSDPPLRSAEGLGSGFIISSDGYIVTNNHVIAGAEEITVTL-ADGREVP 109 (347)
T ss_pred CHHHHHHhcCC---cEEEEEeeeeecchhcccCCcccccccccccEEEEcCCeEEEecceecCCcceEEEEe-CCCCEEE
Confidence 34445555555 999999876444200 01000011 14789999999 999999999999999999999 5999999
Q ss_pred EEEEEeccCCCeEEEEeccccccCCeeeeEcCCCC--CCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEE
Q 007213 187 ATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELP--ALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGL 264 (612)
Q Consensus 187 a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~--~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i 264 (612)
+++++.|+..|||+||++... .++.+.++++. .+|+++.++|+|++... +++.|+|+...+...........+|
T Consensus 110 a~~vg~d~~~dlavlki~~~~---~~~~~~~~~s~~l~vg~~v~aiGnp~g~~~-tvt~Givs~~~r~~v~~~~~~~~~I 185 (347)
T COG0265 110 AKLVGKDPISDLAVLKIDGAG---GLPVIALGDSDKLRVGDVVVAIGNPFGLGQ-TVTSGIVSALGRTGVGSAGGYVNFI 185 (347)
T ss_pred EEEEecCCccCEEEEEeccCC---CCceeeccCCCCcccCCEEEEecCCCCccc-ceeccEEeccccccccCcccccchh
Confidence 999999999999999999864 26777888755 56899999999999665 9999999999886222212255789
Q ss_pred EEccCCCCCCCCCeEecCCCeEEEEEecccCCCc-cceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhH
Q 007213 265 QIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHED-VENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLR 343 (612)
Q Consensus 265 ~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~-~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~ 343 (612)
|+|+++++||||||++|.+|++|||++..+...+ ..+++|+||++.+..++.++...|++. ++++|+.+..+ +.+.+
T Consensus 186 qtdAain~gnsGgpl~n~~g~~iGint~~~~~~~~~~gigfaiP~~~~~~v~~~l~~~G~v~-~~~lgv~~~~~-~~~~~ 263 (347)
T COG0265 186 QTDAAINPGNSGGPLVNIDGEVVGINTAIIAPSGGSSGIGFAIPVNLVAPVLDELISKGKVV-RGYLGVIGEPL-TADIA 263 (347)
T ss_pred hcccccCCCCCCCceEcCCCcEEEEEEEEecCCCCcceeEEEecHHHHHHHHHHHHHcCCcc-ccccceEEEEc-ccccc
Confidence 9999999999999999999999999999876543 456999999999999999999988887 99999999988 66666
Q ss_pred HhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCE
Q 007213 344 VAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSK 422 (612)
Q Consensus 344 ~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~ 422 (612)
+|++. ..|++|..|.+++||++ |++.||+|+++||+++.+..++ ...+.....|+.+.+++.|+|+
T Consensus 264 --~g~~~-~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~l----------~~~v~~~~~g~~v~~~~~r~g~ 330 (347)
T COG0265 264 --LGLPV-AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDL----------VAAVASNRPGDEVALKLLRGGK 330 (347)
T ss_pred --cCCCC-CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHHH----------HHHHhccCCCCEEEEEEEECCE
Confidence 88774 77999999999999999 9999999999999999998874 3667777799999999999999
Q ss_pred EEEEEEEeccC
Q 007213 423 ILNFNITLATH 433 (612)
Q Consensus 423 ~~~~~v~l~~~ 433 (612)
.+++.+++..+
T Consensus 331 ~~~~~v~l~~~ 341 (347)
T COG0265 331 ERELAVTLGDR 341 (347)
T ss_pred EEEEEEEecCc
Confidence 99999999863
No 9
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=4.9e-23 Score=220.56 Aligned_cols=303 Identities=21% Similarity=0.222 Sum_probs=225.2
Q ss_pred HHhhhcccCCCcEEEEeeeeCCCCCCcccccCCcceEEEEEEEe-CCEEEecccccCCCC-----------eEEEEEc-C
Q 007213 114 GVARVVPAMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFAIG-GRRVLTNAHSVEHYT-----------QVKLKKR-G 180 (612)
Q Consensus 114 ~~~~v~~~~~SVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~g~ILT~aHvV~~~~-----------~i~V~~~-~ 180 (612)
......+...+||.|....--. ...|+....-....||||||+ +|+++||+||+.... .+.+... +
T Consensus 130 v~~~~~~cd~Avv~Ie~~~f~~-~~~~~e~~~ip~l~~S~~Vv~gd~i~VTnghV~~~~~~~y~~~~~~l~~vqi~aa~~ 208 (473)
T KOG1320|consen 130 VAAVFEECDLAVVYIESEEFWK-GMNPFELGDIPSLNGSGFVVGGDGIIVTNGHVVRVEPRIYAHSSTVLLRVQIDAAIG 208 (473)
T ss_pred HHHhhhcccceEEEEeeccccC-CCcccccCCCcccCccEEEEcCCcEEEEeeEEEEEEeccccCCCcceeeEEEEEeec
Confidence 4445566667899888643111 122455555667789999998 999999999997432 2555553 2
Q ss_pred CCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCC--CCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCC-
Q 007213 181 SDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELP--ALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHG- 257 (612)
Q Consensus 181 ~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~--~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~- 257 (612)
.+..+++.+...|+..|+|+++++..+ .-..+++++-+. ..|+++.++|.|+++.+ +.+.|+++...+..+..+
T Consensus 209 ~~~s~ep~i~g~d~~~gvA~l~ik~~~--~i~~~i~~~~~~~~~~G~~~~a~~~~f~~~n-t~t~g~vs~~~R~~~~lg~ 285 (473)
T KOG1320|consen 209 PGNSGEPVIVGVDKVAGVAFLKIKTPE--NILYVIPLGVSSHFRTGVEVSAIGNGFGLLN-TLTQGMVSGQLRKSFKLGL 285 (473)
T ss_pred CCccCCCeEEccccccceEEEEEecCC--cccceeecceeeeecccceeeccccCceeee-eeeecccccccccccccCc
Confidence 358899999999999999999997553 135667776544 55999999999999877 899999999887755422
Q ss_pred ---ceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC-ccceeecccChhhHHHHHHHHHHcC---ccc-----
Q 007213 258 ---STELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE-DVENIGYVIPTPVIMHFIQDYEKNG---AYT----- 325 (612)
Q Consensus 258 ---~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~-~~~~~~~aIPi~~i~~~l~~l~~~g---~v~----- 325 (612)
....+++|+|++++.|+||||++|.+|++||++++...+. -..+++|++|.+.++.++.+..+.. +..
T Consensus 286 ~~g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~IgVn~~~~~ri~~~~~iSf~~p~d~vl~~v~r~~e~~~~lr~~~~~~p 365 (473)
T KOG1320|consen 286 ETGVLISKINQTDAAINPGNSGGPLLNLDGEVIGVNTRKVTRIGFSHGISFKIPIDTVLVIVLRLGEFQISLRPVKPLVP 365 (473)
T ss_pred ccceeeeeecccchhhhcccCCCcEEEecCcEeeeeeeeeEEeeccccceeccCchHhhhhhhhhhhhceeeccccCccc
Confidence 2345789999999999999999999999999998855321 1357899999999999888773322 111
Q ss_pred CCCcCCeEEeeecChhh-----HHhhhccc-CCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccc
Q 007213 326 GFPLLGVEWQKMENPDL-----RVAMSMKA-DQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERI 398 (612)
Q Consensus 326 ~~~~lGi~~~~~~~~~~-----~~~lgl~~-~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~ 398 (612)
.+.|+|+....+ ...+ .+.+-.+. ...++++..|.|++++.. ++++||+|++|||++|.+..++.
T Consensus 366 ~~~~~g~~s~~i-~~g~vf~~~~~~~~~~~~~~q~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~~~l~------- 437 (473)
T KOG1320|consen 366 VHQYIGLPSYYI-FAGLVFVPLTKSYIFPSGVVQLVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNLKHLY------- 437 (473)
T ss_pred ccccCCceeEEE-ecceEEeecCCCccccccceeEEEEEEeccCCCcccccccCCCEEEEECCEEeechHHHH-------
Confidence 134666655444 2111 11122221 124889999999999999 99999999999999999999864
Q ss_pred hHHHHhhccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 399 GFSYLVSQKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 399 ~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
.++.....++++.+...|+.+..++.+...
T Consensus 438 ---~~i~~~~~~~~v~vl~~~~~e~~tl~Il~~ 467 (473)
T KOG1320|consen 438 ---ELIEECSTEDKVAVLDRRSAEDATLEILPE 467 (473)
T ss_pred ---HHHHhcCcCceEEEEEecCccceeEEeccc
Confidence 888888888899998889888888887655
No 10
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=99.88 E-value=4.8e-20 Score=198.80 Aligned_cols=354 Identities=13% Similarity=0.132 Sum_probs=263.6
Q ss_pred eEEEEEEEe--CCEEEecccccC-CCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCC-CCCC
Q 007213 149 SSSSGFAIG--GRRVLTNAHSVE-HYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGEL-PALQ 224 (612)
Q Consensus 149 ~~GSGfiI~--~g~ILT~aHvV~-~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~-~~~G 224 (612)
..|||.|++ +|++++.+.+|. ++....|++ .+...++|.+.+.++..++|.+|+++.. ...++|.+. -..|
T Consensus 550 ~kgt~~i~d~~~g~~vvsr~~vp~d~~d~~vt~-~dS~~i~a~~~fL~~t~n~a~~kydp~~----~~~~kl~~~~v~~g 624 (955)
T KOG1421|consen 550 YKGTALIMDTSKGLGVVSRSVVPSDAKDQRVTE-ADSDGIPANVSFLHPTENVASFKYDPAL----EVQLKLTDTTVLRG 624 (955)
T ss_pred hcCceEEEEccCCceeEecccCCchhhceEEee-cccccccceeeEecCccceeEeccChhH----hhhhccceeeEecC
Confidence 469999998 899999999998 677889998 4788899999999999999999999863 345556543 3459
Q ss_pred CeEEEEEeCCCCCceeE--EEEEEeceeeecccCC---ceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC-c
Q 007213 225 DAVTVVGYPIGGDTISV--TSGVVSRIEILSYVHG---STELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE-D 298 (612)
Q Consensus 225 ~~V~aiG~p~g~~~~sv--~~GiIs~~~~~~~~~~---~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~-~ 298 (612)
+++...|+.......+. +..-++.......... ...++.|.+++.+.-++-.|-+.|.+|+|+|++...+... +
T Consensus 625 D~~~f~g~~~~~r~ltaktsv~dvs~~~~ps~~~pr~r~~n~e~Is~~~nlsT~c~sg~ltdddg~vvalwl~~~ge~~~ 704 (955)
T KOG1421|consen 625 DECTFEGFTEDLRALTAKTSVTDVSVVIIPSSVMPRFRATNLEVISFMDNLSTSCLSGRLTDDDGEVVALWLSVVGEDVG 704 (955)
T ss_pred CceeEecccccchhhcccceeeeeEEEEecCCCCcceeecceEEEEEeccccccccceEEECCCCeEEEEEeeeeccccC
Confidence 99999999876542111 1112222211111112 2335678887777776667789999999999998766432 1
Q ss_pred --cceeecccChhhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhHHhhhcccC------------CCccEEEEecCCC
Q 007213 299 --VENIGYVIPTPVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLRVAMSMKAD------------QKGVRIRRVDPTA 364 (612)
Q Consensus 299 --~~~~~~aIPi~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~~~lgl~~~------------~~G~~V~~V~p~s 364 (612)
...+-|.+.+..++..|+.|+.++... .-.+|++|..+ +...++.+|++.+ .+-.+|.+|.+..
T Consensus 705 ~kd~~y~~gl~~~~~l~vl~rlk~g~~~r-p~i~~vef~~i-~laqar~lglp~e~imk~e~es~~~~ql~~ishv~~~~ 782 (955)
T KOG1421|consen 705 GKDYTYKYGLSMSYILPVLERLKLGPSAR-PTIAGVEFSHI-TLAQARTLGLPSEFIMKSEEESTIPRQLYVISHVRPLL 782 (955)
T ss_pred CceeEEEeccchHHHHHHHHHHhcCCCCC-ceeeccceeeE-EeehhhccCCCHHHHhhhhhcCCCcceEEEEEeeccCc
Confidence 223557899999999999999887765 45679999999 8888999999754 2234678887764
Q ss_pred cccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEeccCccccCCCCCCC
Q 007213 365 PESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLATHRRLIPSHNKGR 444 (612)
Q Consensus 365 pA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~ 444 (612)
+- -|..||+|+++||+-|+...|++ + +. .+.++|+|+|..+++.+++-... .
T Consensus 783 ~k--il~~gdiilsvngk~itr~~dl~----------d-~~------eid~~ilrdg~~~~ikipt~p~~---------e 834 (955)
T KOG1421|consen 783 HK--ILGVGDIILSVNGKMITRLSDLH----------D-FE------EIDAVILRDGIEMEIKIPTYPEY---------E 834 (955)
T ss_pred cc--ccccccEEEEecCeEEeeehhhh----------h-hh------hhheeeeecCcEEEEEecccccc---------c
Confidence 33 59999999999999999988853 2 22 47789999999999998876432 2
Q ss_pred CCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhhhhcccCCCCce
Q 007213 445 PPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFP 524 (612)
Q Consensus 445 ~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 524 (612)
..++.+|.|..+++.+ ..+..+. ..-.++|
T Consensus 835 t~r~vi~~gailq~ph-------------~av~~q~-------------------------------------edlp~gv 864 (955)
T KOG1421|consen 835 TSRAVIWMGAILQPPH-------------SAVFEQV-------------------------------------EDLPEGV 864 (955)
T ss_pred cceEEEEEeccccCch-------------HHHHHHH-------------------------------------hccCCce
Confidence 3378999999999887 4433222 1125789
Q ss_pred EEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCC-eEEEEE--eCCeEEEEechh
Q 007213 525 WFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDE-FLKFDL--EYDQVVVLRTKT 588 (612)
Q Consensus 525 ~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~-~~~l~~--~r~~~~~l~~~~ 588 (612)
+++....+++|.. ++.+-..|++|||..+.++++|..++...++. |+++.. .++-..++..|.
T Consensus 865 yvt~rg~gspalq-~l~aa~fitavng~~t~~lddf~~~~~~ipdnsyv~v~~mtfd~vp~~~s~k~ 930 (955)
T KOG1421|consen 865 YVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTLDDFYHMLLEIPDNSYVQVKQMTFDGVPSIVSVKP 930 (955)
T ss_pred EEeecccCChhHh-hcchheeEEEecccccCcHHHHHHHHhhCCCCceEEEEEeccCCCceEEEecc
Confidence 9999999999987 88888999999999999999999999997765 776654 244444454443
No 11
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.69 E-value=8.6e-17 Score=177.05 Aligned_cols=153 Identities=12% Similarity=0.158 Sum_probs=120.4
Q ss_pred cEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEeccC
Q 007213 355 VRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLATH 433 (612)
Q Consensus 355 ~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~~ 433 (612)
.+|.+|.++|||++ |||+||+|++|||++|.+|++++ ..+.....|++++++|.|+|+.+++++++...
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~~~l~----------~~v~~~~~g~~v~v~v~R~gk~~~~~v~l~~~ 197 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDWDAVR----------LALVSKIGDESTTITVAPFGSDQRRDKTLDLR 197 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHH----------HHHHhhccCCceEEEEEeCCccceEEEEeccc
Confidence 36899999999999 99999999999999999999854 56667778899999999999999988888643
Q ss_pred ccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhh
Q 007213 434 RRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVF 513 (612)
Q Consensus 434 ~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 513 (612)
+...... .... ..++++.++. +
T Consensus 198 ~~~~~~~---~~~~---~~~lGl~~~~-------------~--------------------------------------- 219 (449)
T PRK10779 198 HWAFEPD---KQDP---VSSLGIRPRG-------------P--------------------------------------- 219 (449)
T ss_pred ccccCcc---ccch---hhcccccccC-------------C---------------------------------------
Confidence 2211000 0000 0111111111 0
Q ss_pred hhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEE
Q 007213 514 LLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVV 582 (612)
Q Consensus 514 ~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~ 582 (612)
...++|.+|.+++++..+|+++||+|++|||++|++|+++.+.++..+++.+.+++.|+++.
T Consensus 220 -------~~~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~ 281 (449)
T PRK10779 220 -------QIEPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVRDNPGKPLALEIERQGSP 281 (449)
T ss_pred -------CcCcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhCCCCEEEEEEEECCEE
Confidence 22378999999999999999999999999999999999999999988888999999998765
No 12
>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=99.59 E-value=2.1e-14 Score=128.18 Aligned_cols=108 Identities=33% Similarity=0.488 Sum_probs=72.2
Q ss_pred EEEEEEe-CCEEEecccccC--------CCCeEEEEEcCCCcEEE--EEEEEeccC-CCeEEEEeccccccCCeeeeEcC
Q 007213 151 SSGFAIG-GRRVLTNAHSVE--------HYTQVKLKKRGSDTKYL--ATVLAIGTE-CDIAMLTVEDDEFWEGVLPVEFG 218 (612)
Q Consensus 151 GSGfiI~-~g~ILT~aHvV~--------~~~~i~V~~~~~g~~~~--a~vv~~d~~-~DLAlLkv~~~~~~~~l~pl~l~ 218 (612)
||||+|+ +|+||||+|||. ....+.+... ++..+. +++++.|+. +|||||+++..
T Consensus 1 GTGf~i~~~g~ilT~~Hvv~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~D~All~v~~~------------ 67 (120)
T PF13365_consen 1 GTGFLIGPDGYILTAAHVVEDWNDGKQPDNSSVEVVFP-DGRRVPPVAEVVYFDPDDYDLALLKVDPW------------ 67 (120)
T ss_dssp EEEEEEETTTEEEEEHHHHTCCTT--G-TCSEEEEEET-TSCEEETEEEEEEEETT-TTEEEEEESCE------------
T ss_pred CEEEEEcCCceEEEchhheecccccccCCCCEEEEEec-CCCEEeeeEEEEEECCccccEEEEEEecc------------
Confidence 8999999 459999999999 4567888885 677777 999999999 99999999810
Q ss_pred CCCCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEE
Q 007213 219 ELPALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGI 289 (612)
Q Consensus 219 ~~~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI 289 (612)
...+.. ....+.......... ......++ +++.+.+|+|||||||.+|+||||
T Consensus 68 ---------~~~~~~------~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~G~SGgpv~~~~G~vvGi 120 (120)
T PF13365_consen 68 ---------TGVGGG------VRVPGSTSGVSPTST--NDNRMLYI-TDADTRPGSSGGPVFDSDGRVVGI 120 (120)
T ss_dssp ---------EEEEEE------EEEEEEEEEEEEEEE--EETEEEEE-ESSS-STTTTTSEEEETTSEEEEE
T ss_pred ---------cceeee------eEeeeeccccccccC--cccceeEe-eecccCCCcEeHhEECCCCEEEeC
Confidence 000000 000000000000000 00111124 899999999999999999999997
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=99.57 E-value=7.4e-15 Score=160.27 Aligned_cols=135 Identities=16% Similarity=0.148 Sum_probs=111.5
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
.|.+|.+|.++|||++ |||+||+|++|||+++.++.++. ..+.... +++.+++.|+|+..++.+++.
T Consensus 128 ~g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~~dl~----------~~ia~~~--~~v~~~I~r~g~~~~l~v~l~ 195 (420)
T TIGR00054 128 VGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDVR----------QQIADIA--GEPMVEILAERENWTFEVMKE 195 (420)
T ss_pred CCceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHH----------HHHHhhc--ccceEEEEEecCceEeccccc
Confidence 4889999999999999 99999999999999999999864 4444444 578899999988765443321
Q ss_pred cCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccch
Q 007213 432 THRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNK 511 (612)
Q Consensus 432 ~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 511 (612)
+.+.. +
T Consensus 196 ------------------------~~~~~-------------~------------------------------------- 201 (420)
T TIGR00054 196 ------------------------LIPRG-------------P------------------------------------- 201 (420)
T ss_pred ------------------------ceecC-------------C-------------------------------------
Confidence 11111 0
Q ss_pred hhhhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEE
Q 007213 512 VFLLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVV 582 (612)
Q Consensus 512 ~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~ 582 (612)
..+++|.+|.+++++..+|+++||+|++|||++|++|+|+.+.+++.+++.+.+++.|+++.
T Consensus 202 ---------~~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~ 263 (420)
T TIGR00054 202 ---------KIEPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVKENPGKSMDIKVERNGET 263 (420)
T ss_pred ---------CcCcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCCCCceEEEEEECCEE
Confidence 23478999999999999999999999999999999999999999988888899999998765
No 14
>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=99.43 E-value=2.2e-12 Score=126.87 Aligned_cols=183 Identities=22% Similarity=0.294 Sum_probs=118.4
Q ss_pred eCCCCCCcccccCCc---ceEEEEEEEeCCEEEecccccCCCCeEEEEEcC------CC--cEEEEEEEEec----c---
Q 007213 133 TEPNFSLPWQRKRQY---SSSSSGFAIGGRRVLTNAHSVEHYTQVKLKKRG------SD--TKYLATVLAIG----T--- 194 (612)
Q Consensus 133 ~~~~~~~p~~~~~~~---~~~GSGfiI~~g~ILT~aHvV~~~~~i~V~~~~------~g--~~~~a~vv~~d----~--- 194 (612)
......+||...... ...|+|++|++.+|||+|||+.+...+.+.+.. ++ ..+..+-+..+ .
T Consensus 6 ~~~~~~~p~~v~i~~~~~~~~C~G~li~~~~vLTaahC~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~h~~~~~~~~ 85 (220)
T PF00089_consen 6 PASPGEFPWVVSIRYSNGRFFCTGTLISPRWVLTAAHCVDGASDIKVRLGTYSIRNSDGSEQTIKVSKIIIHPKYDPSTY 85 (220)
T ss_dssp ECGTTSSTTEEEEEETTTEEEEEEEEEETTEEEEEGGGHTSGGSEEEEESESBTTSTTTTSEEEEEEEEEEETTSBTTTT
T ss_pred ECCCCCCCeEEEEeeCCCCeeEeEEecccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 344455666643221 568999999999999999999996666665531 22 23444333332 2
Q ss_pred CCCeEEEEeccc-cccCCeeeeEcCCC---CCCCCeEEEEEeCCCCCce---eE---EEEEEeceeeecccCCceeeeEE
Q 007213 195 ECDIAMLTVEDD-EFWEGVLPVEFGEL---PALQDAVTVVGYPIGGDTI---SV---TSGVVSRIEILSYVHGSTELLGL 264 (612)
Q Consensus 195 ~~DLAlLkv~~~-~~~~~l~pl~l~~~---~~~G~~V~aiG~p~g~~~~---sv---~~GiIs~~~~~~~~~~~~~~~~i 264 (612)
.+|||||+++.+ .+.+.+.++.+... ...|+.+.++|++...... .+ ...+++...+............+
T Consensus 86 ~~DiAll~L~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~ 165 (220)
T PF00089_consen 86 DNDIALLKLDRPITFGDNIQPICLPSAGSDPNVGTSCIVVGWGRTSDNGYSSNLQSVTVPVVSRKTCRSSYNDNLTPNMI 165 (220)
T ss_dssp TTSEEEEEESSSSEHBSSBEESBBTSTTHTTTTTSEEEEEESSBSSTTSBTSBEEEEEEEEEEHHHHHHHTTTTSTTTEE
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 479999999887 34567889998872 2578999999998753221 23 33344443333321111112346
Q ss_pred EEcc----CCCCCCCCCeEecCCCeEEEEEecccCCCccceeecccChhhHHHHH
Q 007213 265 QIDA----AINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPTPVIMHFI 315 (612)
Q Consensus 265 ~~da----~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l 315 (612)
++.. ..+.|+|||||++.++.++||++...........+++.+++...+++
T Consensus 166 c~~~~~~~~~~~g~sG~pl~~~~~~lvGI~s~~~~c~~~~~~~v~~~v~~~~~WI 220 (220)
T PF00089_consen 166 CAGSSGSGDACQGDSGGPLICNNNYLVGIVSFGENCGSPNYPGVYTRVSSYLDWI 220 (220)
T ss_dssp EEETTSSSBGGTTTTTSEEEETTEEEEEEEEEESSSSBTTSEEEEEEGGGGHHHH
T ss_pred cccccccccccccccccccccceeeecceeeecCCCCCCCcCEEEEEHHHhhccC
Confidence 6655 78899999999988777999999874433333357778887766653
No 15
>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=99.41 E-value=6.9e-13 Score=111.61 Aligned_cols=81 Identities=32% Similarity=0.519 Sum_probs=69.2
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhc
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 406 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~ 406 (612)
||||+.+... +. ..|++|.+|.++|||++ ||++||+|++|||++|.++.++ ...+..
T Consensus 1 ~~lGv~~~~~-~~-----------~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~----------~~~l~~ 58 (82)
T PF13180_consen 1 GGLGVTVQNL-SD-----------TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDL----------VNILSK 58 (82)
T ss_dssp -E-SEEEEEC-SC-----------SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHH----------HHHHHC
T ss_pred CEECeEEEEc-cC-----------CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHH----------HHHHHh
Confidence 6899999887 21 35999999999999999 9999999999999999998874 477778
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEe
Q 007213 407 KYTGDSAAVKVLRDSKILNFNITL 430 (612)
Q Consensus 407 ~~~g~~v~l~V~R~G~~~~~~v~l 430 (612)
..+|++++|+|+|+|+.++++++|
T Consensus 59 ~~~g~~v~l~v~R~g~~~~~~v~l 82 (82)
T PF13180_consen 59 GKPGDTVTLTVLRDGEELTVEVTL 82 (82)
T ss_dssp SSTTSEEEEEEEETTEEEEEEEE-
T ss_pred CCCCCEEEEEEEECCEEEEEEEEC
Confidence 889999999999999999999875
No 16
>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=99.32 E-value=5.6e-11 Score=117.68 Aligned_cols=148 Identities=22% Similarity=0.214 Sum_probs=93.5
Q ss_pred cceEEEEEEEeCCEEEecccccCCC--CeEEEEEcCC--------CcEEEEEEEEec-------cCCCeEEEEecccc-c
Q 007213 147 YSSSSSGFAIGGRRVLTNAHSVEHY--TQVKLKKRGS--------DTKYLATVLAIG-------TECDIAMLTVEDDE-F 208 (612)
Q Consensus 147 ~~~~GSGfiI~~g~ILT~aHvV~~~--~~i~V~~~~~--------g~~~~a~vv~~d-------~~~DLAlLkv~~~~-~ 208 (612)
....|+|++|++.+|||+|||+.+. ..+.|.+... ...+..+-+..+ ..+|||||+++.+. +
T Consensus 23 ~~~~C~GtlIs~~~VLTaAhC~~~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~hp~y~~~~~~~DiAll~L~~~~~~ 102 (232)
T cd00190 23 GRHFCGGSLISPRWVLTAAHCVYSSAPSNYTVRLGSHDLSSNEGGGQVIKVKKVIVHPNYNPSTYDNDIALLKLKRPVTL 102 (232)
T ss_pred CcEEEEEEEeeCCEEEECHHhcCCCCCccEEEEeCcccccCCCCceEEEEEEEEEECCCCCCCCCcCCEEEEEECCcccC
Confidence 3468999999999999999999875 5666665311 122333333333 35799999998653 3
Q ss_pred cCCeeeeEcCCC---CCCCCeEEEEEeCCCCCc-------eeEEEEEEeceeeecccC--CceeeeEEEE-----ccCCC
Q 007213 209 WEGVLPVEFGEL---PALQDAVTVVGYPIGGDT-------ISVTSGVVSRIEILSYVH--GSTELLGLQI-----DAAIN 271 (612)
Q Consensus 209 ~~~l~pl~l~~~---~~~G~~V~aiG~p~g~~~-------~sv~~GiIs~~~~~~~~~--~~~~~~~i~~-----da~i~ 271 (612)
...+.|+.|... ...++.+.++||...... ......+++...|..... .......++. ....|
T Consensus 103 ~~~v~picl~~~~~~~~~~~~~~~~G~g~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~C~~~~~~~~~~c 182 (232)
T cd00190 103 SDNVRPICLPSSGYNLPAGTTCTVSGWGRTSEGGPLPDVLQEVNVPIVSNAECKRAYSYGGTITDNMLCAGGLEGGKDAC 182 (232)
T ss_pred CCcccceECCCccccCCCCCEEEEEeCCcCCCCCCCCceeeEEEeeeECHHHhhhhccCcccCCCceEeeCCCCCCCccc
Confidence 345889999865 344789999998764321 122233333333332211 0111123333 33577
Q ss_pred CCCCCCeEecCC---CeEEEEEeccc
Q 007213 272 SGNSGGPAFNDK---GKCVGIAFQSL 294 (612)
Q Consensus 272 ~G~SGGPlvn~~---G~VIGI~~~~~ 294 (612)
.|+|||||+... +.++||++...
T Consensus 183 ~gdsGgpl~~~~~~~~~lvGI~s~g~ 208 (232)
T cd00190 183 QGDSGGPLVCNDNGRGVLVGIVSWGS 208 (232)
T ss_pred cCCCCCcEEEEeCCEEEEEEEEehhh
Confidence 899999999774 78999998854
No 17
>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=99.20 E-value=6.3e-11 Score=100.80 Aligned_cols=88 Identities=34% Similarity=0.583 Sum_probs=74.2
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhc
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 406 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~ 406 (612)
+|+|+.++.+ ++.....++++. ..|++|.+|.++|||++ ||++||+|++|||++|.+|.++ ...+..
T Consensus 1 ~~~G~~~~~~-~~~~~~~~~~~~-~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~~----------~~~l~~ 68 (90)
T cd00987 1 PWLGVTVQDL-TPDLAEELGLKD-TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVADL----------RRALAE 68 (90)
T ss_pred CccceEEeEC-CHHHHHHcCCCC-CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHHH----------HHHHHh
Confidence 5899999999 677666666654 67999999999999998 9999999999999999999874 356666
Q ss_pred cCCCCEEEEEEEECCEEEEEE
Q 007213 407 KYTGDSAAVKVLRDSKILNFN 427 (612)
Q Consensus 407 ~~~g~~v~l~V~R~G~~~~~~ 427 (612)
...++.+.+++.|+|+..++.
T Consensus 69 ~~~~~~i~l~v~r~g~~~~~~ 89 (90)
T cd00987 69 LKPGDKVTLTVLRGGKELTVT 89 (90)
T ss_pred cCCCCEEEEEEEECCEEEEee
Confidence 556889999999999876654
No 18
>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=99.20 E-value=2.2e-10 Score=113.77 Aligned_cols=147 Identities=23% Similarity=0.252 Sum_probs=92.6
Q ss_pred ceEEEEEEEeCCEEEecccccCCC--CeEEEEEcCCC-------cEEEEEEEEe-------ccCCCeEEEEecccc-ccC
Q 007213 148 SSSSSGFAIGGRRVLTNAHSVEHY--TQVKLKKRGSD-------TKYLATVLAI-------GTECDIAMLTVEDDE-FWE 210 (612)
Q Consensus 148 ~~~GSGfiI~~g~ILT~aHvV~~~--~~i~V~~~~~g-------~~~~a~vv~~-------d~~~DLAlLkv~~~~-~~~ 210 (612)
...|+|++|++.+|||+|||+.+. ..+.|.+.... ..+...-+.. ...+|||||+++.+. +..
T Consensus 25 ~~~C~GtlIs~~~VLTaahC~~~~~~~~~~v~~g~~~~~~~~~~~~~~v~~~~~~p~~~~~~~~~DiAll~L~~~i~~~~ 104 (229)
T smart00020 25 RHFCGGSLISPRWVLTAAHCVYGSDPSNIRVRLGSHDLSSGEEGQVIKVSKVIIHPNYNPSTYDNDIALLKLKSPVTLSD 104 (229)
T ss_pred CcEEEEEEecCCEEEECHHHcCCCCCcceEEEeCcccCCCCCCceEEeeEEEEECCCCCCCCCcCCEEEEEECcccCCCC
Confidence 457999999999999999999975 36777774221 2333333332 245799999998752 334
Q ss_pred CeeeeEcCCC---CCCCCeEEEEEeCCCCC---c--ee---EEEEEEeceeeecccCC--ceeeeEEEE-----ccCCCC
Q 007213 211 GVLPVEFGEL---PALQDAVTVVGYPIGGD---T--IS---VTSGVVSRIEILSYVHG--STELLGLQI-----DAAINS 272 (612)
Q Consensus 211 ~l~pl~l~~~---~~~G~~V~aiG~p~g~~---~--~s---v~~GiIs~~~~~~~~~~--~~~~~~i~~-----da~i~~ 272 (612)
.+.|+.|... ...+..+.+.||+.... . .. ...-++....|...... ......++. ....+.
T Consensus 105 ~~~pi~l~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~C~~~~~~~~~~c~ 184 (229)
T smart00020 105 NVRPICLPSSNYNVPAGTTCTVSGWGRTSEGAGSLPDTLQEVNVPIVSNATCRRAYSGGGAITDNMLCAGGLEGGKDACQ 184 (229)
T ss_pred ceeeccCCCcccccCCCCEEEEEeCCCCCCCCCcCCCEeeEEEEEEeCHHHhhhhhccccccCCCcEeecCCCCCCcccC
Confidence 6889998764 34578999999876542 0 01 12222222222211111 011112333 345788
Q ss_pred CCCCCeEecCCC--eEEEEEeccc
Q 007213 273 GNSGGPAFNDKG--KCVGIAFQSL 294 (612)
Q Consensus 273 G~SGGPlvn~~G--~VIGI~~~~~ 294 (612)
|+|||||+...+ .++||++...
T Consensus 185 gdsG~pl~~~~~~~~l~Gi~s~g~ 208 (229)
T smart00020 185 GDSGGPLVCNDGRWVLVGIVSWGS 208 (229)
T ss_pred CCCCCeeEEECCCEEEEEEEEECC
Confidence 999999997643 8999998854
No 19
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.06 E-value=7e-10 Score=92.50 Aligned_cols=72 Identities=28% Similarity=0.370 Sum_probs=63.3
Q ss_pred CCccEEEEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 352 QKGVRIRRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
..|++|.+|.++|||++||++||+|++|||+++.+|.++ ...+.....|+.+.+++.|+|+.+++++++.
T Consensus 7 ~~Gv~V~~V~~~s~A~~gL~~GD~I~~Ing~~v~~~~~~----------~~~l~~~~~~~~v~l~v~r~g~~~~~~v~l~ 76 (79)
T cd00986 7 YHGVYVTSVVEGMPAAGKLKAGDHIIAVDGKPFKEAEEL----------IDYIQSKKEGDTVKLKVKREEKELPEDLILK 76 (79)
T ss_pred ecCEEEEEECCCCchhhCCCCCCEEEEECCEECCCHHHH----------HHHHHhCCCCCEEEEEEEECCEEEEEEEEEe
Confidence 458999999999999879999999999999999999884 3666655678899999999999999999987
Q ss_pred cC
Q 007213 432 TH 433 (612)
Q Consensus 432 ~~ 433 (612)
.+
T Consensus 77 ~~ 78 (79)
T cd00986 77 TF 78 (79)
T ss_pred cc
Confidence 54
No 20
>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=99.04 E-value=8.6e-10 Score=92.13 Aligned_cols=68 Identities=26% Similarity=0.284 Sum_probs=59.9
Q ss_pred CCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEE
Q 007213 352 QKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNIT 429 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~ 429 (612)
..|++|.+|.++|||++ ||++||+|++|||+++.+|.++ ...+.....|+.+.+++.|+|+..+++++
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~----------~~~l~~~~~g~~v~l~v~r~g~~~~~~~~ 77 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDF----------MEALKPTKPGEVITVTVLPSTTKLTNVST 77 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHH----------HHHHhcCCCCCEEEEEEEECCEEEEEEEE
Confidence 56999999999999998 9999999999999999999884 36666655688999999999998887765
No 21
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.00 E-value=2.5e-09 Score=89.07 Aligned_cols=77 Identities=22% Similarity=0.384 Sum_probs=63.5
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhc
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 406 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~ 406 (612)
||+|+.+..- ..|++|..|.++|||++ ||++||+|++|||+++.+|.+ ++..
T Consensus 1 ~~~G~~~~~~--------------~~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~-------------~l~~ 53 (80)
T cd00990 1 PYLGLTLDKE--------------EGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQD-------------RLKE 53 (80)
T ss_pred CcccEEEEcc--------------CCcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHH-------------HHHh
Confidence 5788877542 35799999999999999 999999999999999998544 3444
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEec
Q 007213 407 KYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 407 ~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
...++.+.+++.|+|+..++.+++.
T Consensus 54 ~~~~~~v~l~v~r~g~~~~~~v~~~ 78 (80)
T cd00990 54 YQAGDPVELTVFRDDRLIEVPLTLA 78 (80)
T ss_pred cCCCCEEEEEEEECCEEEEEEEEec
Confidence 4577889999999999988888764
No 22
>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=98.98 E-value=1.3e-09 Score=111.20 Aligned_cols=100 Identities=15% Similarity=0.191 Sum_probs=85.6
Q ss_pred hhHHHHHHHHHHcCcccCCCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCC
Q 007213 309 PVIMHFIQDYEKNGAYTGFPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIAND 387 (612)
Q Consensus 309 ~~i~~~l~~l~~~g~v~~~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~ 387 (612)
..++.+++++.+++++. ++|+|+..... + ....|++|..+.++++|++ |||+||+|++|||+++.++
T Consensus 159 ~~~~~v~~~l~~~g~~~-~~~lgi~p~~~-~----------g~~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~ 226 (259)
T TIGR01713 159 VVSRRIIEELTKDPQKM-FDYIRLSPVMK-N----------DKLEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP 226 (259)
T ss_pred hhHHHHHHHHHHCHHhh-hheEeEEEEEe-C----------CceeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH
Confidence 45778899999999888 89999987554 2 1246999999999999999 9999999999999999999
Q ss_pred CCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEe
Q 007213 388 GTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITL 430 (612)
Q Consensus 388 ~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l 430 (612)
.++ ..++.....++.++|+|+|+|+.+++.+.+
T Consensus 227 ~~~----------~~~l~~~~~~~~v~l~V~R~G~~~~i~v~~ 259 (259)
T TIGR01713 227 EQA----------FQALQMLREETNLTLTVERDGQREDIYVRF 259 (259)
T ss_pred HHH----------HHHHHhcCCCCeEEEEEEECCEEEEEEEEC
Confidence 885 367777778899999999999998888754
No 23
>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=98.79 E-value=1.8e-08 Score=83.62 Aligned_cols=66 Identities=24% Similarity=0.346 Sum_probs=55.0
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEE
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNIT 429 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~ 429 (612)
..++|..|.++|||++ ||++||+|++|||+++.+|.++. ..+... .++.+.+++.|+|+..++.+.
T Consensus 12 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~----------~~l~~~-~~~~~~l~v~r~~~~~~~~l~ 78 (79)
T cd00989 12 IEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLV----------DAVQEN-PGKPLTLTVERNGETITLTLT 78 (79)
T ss_pred cCcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHH----------HHHHHC-CCceEEEEEEECCEEEEEEec
Confidence 3588999999999998 99999999999999999998853 555443 477899999999987776653
No 24
>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=98.78 E-value=1.7e-08 Score=111.00 Aligned_cols=90 Identities=24% Similarity=0.476 Sum_probs=78.9
Q ss_pred CCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhh
Q 007213 327 FPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 405 (612)
Q Consensus 327 ~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~ 405 (612)
+.++|+.+..+ ++..++.++++....|++|.+|.++|||++ ||++||+|++|||++|.++.++ .+++.
T Consensus 337 ~~~lGi~~~~l-~~~~~~~~~l~~~~~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~~d~----------~~~l~ 405 (428)
T TIGR02037 337 NPFLGLTVANL-SPEIRKELRLKGDVKGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAEL----------RKVLD 405 (428)
T ss_pred ccccceEEecC-CHHHHHHcCCCcCcCceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHH----------HHHHH
Confidence 46899999998 888888899986557999999999999999 9999999999999999999884 47777
Q ss_pred ccCCCCEEEEEEEECCEEEEEE
Q 007213 406 QKYTGDSAAVKVLRDSKILNFN 427 (612)
Q Consensus 406 ~~~~g~~v~l~V~R~G~~~~~~ 427 (612)
....|+.+.|+|.|+|+...+.
T Consensus 406 ~~~~g~~v~l~v~R~g~~~~~~ 427 (428)
T TIGR02037 406 RAKKGGRVALLILRGGATIFVT 427 (428)
T ss_pred hcCCCCEEEEEEEECCEEEEEE
Confidence 6667899999999999876653
No 25
>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=98.73 E-value=4.4e-08 Score=82.45 Aligned_cols=68 Identities=24% Similarity=0.347 Sum_probs=56.4
Q ss_pred CCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCC--CCCccccCccchHHHHhhccCCCCEEEEEEEEC-CEEEEEE
Q 007213 352 QKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIAND--GTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRD-SKILNFN 427 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~--~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~-G~~~~~~ 427 (612)
..+++|..|.++|||++ ||++||+|++|||+++.+| .++ ...+.. ..|+.+.+++.|+ |+..+++
T Consensus 12 ~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~----------~~~l~~-~~~~~i~l~v~r~~~~~~~~~ 80 (85)
T cd00988 12 DGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDV----------VKLLRG-KAGTKVRLTLKRGDGEPREVT 80 (85)
T ss_pred CCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHH----------HHHhcC-CCCCEEEEEEEcCCCCEEEEE
Confidence 45899999999999999 9999999999999999998 663 244433 4688999999998 8887777
Q ss_pred EEe
Q 007213 428 ITL 430 (612)
Q Consensus 428 v~l 430 (612)
+..
T Consensus 81 ~~~ 83 (85)
T cd00988 81 LTR 83 (85)
T ss_pred EEE
Confidence 653
No 26
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=98.68 E-value=3.3e-07 Score=92.10 Aligned_cols=182 Identities=22% Similarity=0.243 Sum_probs=103.0
Q ss_pred CCcEEEEeeeeCCCCCCcccc-----cCCcceEEEEEEEeCCEEEecccccCCCC----eEEEEEc---CCCc-EE--EE
Q 007213 123 DAVVKVFCVHTEPNFSLPWQR-----KRQYSSSSSGFAIGGRRVLTNAHSVEHYT----QVKLKKR---GSDT-KY--LA 187 (612)
Q Consensus 123 ~SVV~I~~~~~~~~~~~p~~~-----~~~~~~~GSGfiI~~g~ILT~aHvV~~~~----~i~V~~~---~~g~-~~--~a 187 (612)
..+.+|.... .+||.. ...+...|++|+|+++.|||++||+-... .+.+..+ +++. .+ ..
T Consensus 38 d~r~~V~dt~-----~~Py~av~~~~~~tG~~~~~~~lI~pntvLTa~Hc~~s~~~G~~~~~~~p~g~~~~~~~~~~~~~ 112 (251)
T COG3591 38 DDRTQVTDTT-----QFPYSAVVQFEAATGRLCTAATLIGPNTVLTAGHCIYSPDYGEDDIAAAPPGVNSDGGPFYGITK 112 (251)
T ss_pred CCeeecccCC-----CCCcceeEEeecCCCcceeeEEEEcCceEEEeeeEEecCCCChhhhhhcCCcccCCCCCCCceee
Confidence 3556666554 445542 12223345569999999999999997432 2222211 1111 11 11
Q ss_pred EEEEec-c---CCCeEEEEecccccc------CCee--eeEcCCCCCCCCeEEEEEeCCCCC---ceeEEEEEEeceeee
Q 007213 188 TVLAIG-T---ECDIAMLTVEDDEFW------EGVL--PVEFGELPALQDAVTVVGYPIGGD---TISVTSGVVSRIEIL 252 (612)
Q Consensus 188 ~vv~~d-~---~~DLAlLkv~~~~~~------~~l~--pl~l~~~~~~G~~V~aiG~p~g~~---~~sv~~GiIs~~~~~ 252 (612)
....+. . ..|.+...+....+. .... ...+....++++.+.++|||.+.. ......+.|..+..
T Consensus 113 ~~~~~~~g~~~~~d~~~~~v~~~~~~~g~~~~~~~~~~~~~~~~~~~~~d~i~v~GYP~dk~~~~~~~e~t~~v~~~~~- 191 (251)
T COG3591 113 IEIRVYPGELYKEDGASYDVGEAALESGINIGDVVNYLKRNTASEAKANDRITVIGYPGDKPNIGTMWESTGKVNSIKG- 191 (251)
T ss_pred EEEEecCCceeccCCceeeccHHHhccCCCccccccccccccccccccCceeEEEeccCCCCcceeEeeecceeEEEec-
Confidence 111112 2 345555555433221 1122 222333456788899999998755 22233444444322
Q ss_pred cccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCCccceeec-ccChhhHHHHHHHHH
Q 007213 253 SYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGY-VIPTPVIMHFIQDYE 319 (612)
Q Consensus 253 ~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~-aIPi~~i~~~l~~l~ 319 (612)
..++.++.+.+|+||+||++.+.+|||+++.+....+....++ +.-...++.+++++.
T Consensus 192 ---------~~l~y~~dT~pG~SGSpv~~~~~~vigv~~~g~~~~~~~~~n~~vr~t~~~~~~I~~~~ 250 (251)
T COG3591 192 ---------NKLFYDADTLPGSSGSPVLISKDEVIGVHYNGPGANGGSLANNAVRLTPEILNFIQQNI 250 (251)
T ss_pred ---------ceEEEEecccCCCCCCceEecCceEEEEEecCCCcccccccCcceEecHHHHHHHHHhh
Confidence 2477888899999999999998999999998654222233343 334466777777654
No 27
>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=98.64 E-value=2e-07 Score=79.12 Aligned_cols=63 Identities=14% Similarity=0.078 Sum_probs=56.4
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCC-CCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCD-DEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~-~~~~~l~~~r~~~~~ 583 (612)
..+++|.+|.+++++..+|++.||+|++|||+++.++.++.+++.... ++.+.+.+.|+++..
T Consensus 23 ~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~v~r~g~~~ 86 (90)
T cd00987 23 TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTVLRGGKEL 86 (90)
T ss_pred CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 457999999999999999999999999999999999999999998754 678999998887653
No 28
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=98.64 E-value=6.1e-08 Score=81.41 Aligned_cols=63 Identities=16% Similarity=0.137 Sum_probs=56.2
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHh-CCCCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVEN-CDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~-~~~~~~~l~~~r~~~~~ 583 (612)
..+++|.+|.++++|..+|+++||+|++|||++|.++.+|.+++.. .+++.++|++.|+++..
T Consensus 13 ~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R~g~~~ 76 (82)
T PF13180_consen 13 TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLRDGEEL 76 (82)
T ss_dssp SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEETTEEE
T ss_pred CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEECCEEE
Confidence 3579999999999999999999999999999999999999999964 67789999999987654
No 29
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.56 E-value=2.3e-07 Score=77.43 Aligned_cols=63 Identities=11% Similarity=0.137 Sum_probs=57.0
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhC-CCCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENC-DDEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~-~~~~~~l~~~r~~~~~ 583 (612)
..+++|.+|.+++++..+|+++||+|++|||+++.+|++|.+++... +++.+.+++.|+++..
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v~r~g~~~ 72 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPSTTKL 72 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEEEECCEEE
Confidence 56799999999999999999999999999999999999999999975 4778999999987654
No 30
>PF12812 PDZ_1: PDZ-like domain
Probab=98.53 E-value=2.8e-07 Score=76.67 Aligned_cols=74 Identities=14% Similarity=0.193 Sum_probs=61.2
Q ss_pred CCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCccccccchhhhhcccCCCCceE
Q 007213 446 PSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPW 525 (612)
Q Consensus 446 p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 525 (612)
.+|+.|+|..|++++ .+..++++.. ..+++
T Consensus 5 ~r~v~~~Ga~f~~Ls-------------~q~aR~~~~~-------------------------------------~~gv~ 34 (78)
T PF12812_consen 5 SRFVEVCGAVFHDLS-------------YQQARQYGIP-------------------------------------VGGVY 34 (78)
T ss_pred CEEEEEcCeecccCC-------------HHHHHHhCCC-------------------------------------CCEEE
Confidence 478999999999999 7777777765 34455
Q ss_pred EEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCC
Q 007213 526 FCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDE 570 (612)
Q Consensus 526 v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~ 570 (612)
+ ....++.+..+|+..|.+|++|||+|++|+++|.+++++.++.
T Consensus 35 v-~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~f~~vvk~ipd~ 78 (78)
T PF12812_consen 35 V-AVSGGSLAFAGGISKGFIITSVNGKPTPDLDDFIKVVKKIPDN 78 (78)
T ss_pred E-EecCCChhhhCCCCCCeEEEeECCcCCcCHHHHHHHHHhCCCC
Confidence 5 4467777777779999999999999999999999999998763
No 31
>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=98.48 E-value=2.7e-07 Score=74.65 Aligned_cols=54 Identities=30% Similarity=0.548 Sum_probs=45.3
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCC--CCCccccCccchHHHHhhccCCCCEEEEEE
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIAND--GTVPFRHGERIGFSYLVSQKYTGDSAAVKV 417 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~--~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V 417 (612)
.|++|..|.++|||+. ||++||+|++|||+++.+| .++ ..++.... |+.++|+|
T Consensus 13 ~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~----------~~~l~~~~-g~~v~l~v 69 (70)
T cd00136 13 GGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDV----------AELLKKEV-GEKVTLTV 69 (70)
T ss_pred CCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHH----------HHHHhhCC-CCeEEEEE
Confidence 3899999999999999 9999999999999999999 553 35555543 78888876
No 32
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.42 E-value=1.7e-06 Score=95.39 Aligned_cols=158 Identities=17% Similarity=0.233 Sum_probs=102.2
Q ss_pred CCccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEE
Q 007213 352 QKGVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNIT 429 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~ 429 (612)
.+-++|+.|.+.+.|++ | |++||.|+.|||.+|.....-. ...++........|.|+|.|.-..
T Consensus 673 ~qpi~iG~Iv~lGaAe~DGRL~~gDElv~iDG~pV~GksH~~--------vv~Lm~~AArnghV~LtVRRkv~~------ 738 (984)
T KOG3209|consen 673 GQPIYIGAIVPLGAAEEDGRLREGDELVCIDGIPVEGKSHSE--------VVDLMEAAARNGHVNLTVRRKVRT------ 738 (984)
T ss_pred CCeeEEeeeeecccccccCcccCCCeEEEecCeeccCccHHH--------HHHHHHHHHhcCceEEEEeeeeee------
Confidence 45689999999999998 4 9999999999999998765421 234555555566799999873110
Q ss_pred eccCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCcccccc
Q 007213 430 LATHRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLNCF 509 (612)
Q Consensus 430 l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 (612)
.. ....|.......+.|=+ + .+..+.+ -|
T Consensus 739 -~~-~~rsp~~s~~~~~~yDV----~-----------------------------------------lhR~ENe----GF 767 (984)
T KOG3209|consen 739 -GP-ARRSPRNSAAPSGPYDV----V-----------------------------------------LHRKENE----GF 767 (984)
T ss_pred -cc-ccCCcccccCCCCCeee----E-----------------------------------------EecccCC----ce
Confidence 00 11111111111111110 0 1111112 25
Q ss_pred chhhhhcccCCCCceEEEeeeccccccccc-ccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEe
Q 007213 510 NKVFLLSLSLTFSFPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLE 577 (612)
Q Consensus 510 ~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~ 577 (612)
.+|.+-|.+....+ |.+|.++++|.+-| |+.||.|++|||+.|-++ .+.+++|+. .+-.|+|++.
T Consensus 768 GFVi~sS~~kp~sg--iGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIKd-aGlsVtLtIi 835 (984)
T KOG3209|consen 768 GFVIMSSQNKPESG--IGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIKD-AGLSVTLTII 835 (984)
T ss_pred eEEEEecccCCCCC--ccccccCChhHhhccccccceEEEecCeeeeccCchhHHHHHHh-cCceEEEEEc
Confidence 55555555555555 78899999998877 889999999999999876 567788875 3567888773
No 33
>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=98.34 E-value=1.7e-06 Score=72.06 Aligned_cols=62 Identities=13% Similarity=0.303 Sum_probs=54.6
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHh-CCCCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVEN-CDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~-~~~~~~~l~~~r~~~~~ 583 (612)
..|++|.+|.+++++.. |+++||+|++|||+++.+|+++.+++.. .++..+.+++.|+++..
T Consensus 7 ~~Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~v~r~g~~~ 69 (79)
T cd00986 7 YHGVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKVKREEKEL 69 (79)
T ss_pred ecCEEEEEECCCCchhh-CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEEEEECCEEE
Confidence 45799999999999876 8999999999999999999999999986 55678999998887654
No 34
>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=98.32 E-value=1.5e-06 Score=72.00 Aligned_cols=60 Identities=18% Similarity=0.223 Sum_probs=54.5
Q ss_pred ceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEE
Q 007213 523 FPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVV 582 (612)
Q Consensus 523 ~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~ 582 (612)
.++|++|.+++++..+|+++||+|++|||+++.+++++.+++.+..++.+.+++.|+++.
T Consensus 13 ~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~~~~~~~~l~v~r~~~~ 72 (79)
T cd00989 13 EPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQENPGKPLTLTVERNGET 72 (79)
T ss_pred CcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHHCCCceEEEEEEECCEE
Confidence 488999999999999999999999999999999999999999987677889999888753
No 35
>PRK10139 serine endoprotease; Provisional
Probab=98.30 E-value=2.3e-06 Score=94.55 Aligned_cols=62 Identities=13% Similarity=0.118 Sum_probs=56.5
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHh-CCCCeEEEEEeCCeEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVEN-CDDEFLKFDLEYDQVV 582 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~-~~~~~~~l~~~r~~~~ 582 (612)
..+++|.+|.+++++..+|++.||+|++|||++|.+|++|.+.|.. .+++.+.+++.|+++.
T Consensus 289 ~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~~~~g~~v~l~V~R~G~~ 351 (455)
T PRK10139 289 QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAELRSRIATTEPGTKVKLGLLRNGKP 351 (455)
T ss_pred CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEECCEE
Confidence 4679999999999999999999999999999999999999999987 5677899999998764
No 36
>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=98.30 E-value=1.1e-06 Score=96.26 Aligned_cols=69 Identities=25% Similarity=0.323 Sum_probs=60.2
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
.|++|.+|.++|||++ |||+||+|++|||++|.+|+++. ..+.. ..++++.+++.|+|+..++++++.
T Consensus 203 ~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~dl~----------~~l~~-~~~~~v~l~v~R~g~~~~~~v~~~ 271 (420)
T TIGR00054 203 IEPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFV----------SAVKE-NPGKSMDIKVERNGETLSISLTPE 271 (420)
T ss_pred cCcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHHHH----------HHHHh-CCCCceEEEEEECCEEEEEEEEEc
Confidence 4789999999999999 99999999999999999999853 55544 467889999999999999888875
Q ss_pred c
Q 007213 432 T 432 (612)
Q Consensus 432 ~ 432 (612)
.
T Consensus 272 ~ 272 (420)
T TIGR00054 272 A 272 (420)
T ss_pred C
Confidence 3
No 37
>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=98.28 E-value=2.9e-06 Score=70.75 Aligned_cols=59 Identities=27% Similarity=0.402 Sum_probs=47.3
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECC
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDS 421 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G 421 (612)
.|++|..|.++|||++ ||++||+|++|||+++.++.+.. ........++.+.+++.|++
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~----------~~~~~~~~~~~~~l~i~r~~ 85 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLE----------AVDLLKKAGGKVTLTVLRGG 85 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHH----------HHHHHHhCCCeEEEEEEeCC
Confidence 5899999999999999 99999999999999999886632 22222224568899998864
No 38
>KOG3627 consensus Trypsin [Amino acid transport and metabolism]
Probab=98.26 E-value=4.3e-05 Score=77.69 Aligned_cols=167 Identities=22% Similarity=0.230 Sum_probs=98.5
Q ss_pred EEeeeeCCCCCCcccccCCc----ceEEEEEEEeCCEEEecccccCCCC--eEEEEEcC--------CC---cEE-EEEE
Q 007213 128 VFCVHTEPNFSLPWQRKRQY----SSSSSGFAIGGRRVLTNAHSVEHYT--QVKLKKRG--------SD---TKY-LATV 189 (612)
Q Consensus 128 I~~~~~~~~~~~p~~~~~~~----~~~GSGfiI~~g~ILT~aHvV~~~~--~i~V~~~~--------~g---~~~-~a~v 189 (612)
|..........+||+..... ...|.|.+|++.||||+|||+.+.. .+.|.+.. .+ ... -.++
T Consensus 13 i~~g~~~~~~~~Pw~~~l~~~~~~~~~Cggsli~~~~vltaaHC~~~~~~~~~~V~~G~~~~~~~~~~~~~~~~~~v~~~ 92 (256)
T KOG3627|consen 13 IVGGTEAEPGSFPWQVSLQYGGNGRHLCGGSLISPRWVLTAAHCVKGASASLYTVRLGEHDINLSVSEGEEQLVGDVEKI 92 (256)
T ss_pred EeCCccCCCCCCCCEEEEEECCCcceeeeeEEeeCCEEEEChhhCCCCCCcceEEEECccccccccccCchhhhceeeEE
Confidence 33333344446788754332 3378888889889999999999875 66666531 11 111 1123
Q ss_pred EEec-------cC-CCeEEEEeccc-cccCCeeeeEcCCCC----CC-CCeEEEEEeCCCC----C-c---eeEEEEEEe
Q 007213 190 LAIG-------TE-CDIAMLTVEDD-EFWEGVLPVEFGELP----AL-QDAVTVVGYPIGG----D-T---ISVTSGVVS 247 (612)
Q Consensus 190 v~~d-------~~-~DLAlLkv~~~-~~~~~l~pl~l~~~~----~~-G~~V~aiG~p~g~----~-~---~sv~~GiIs 247 (612)
+ .+ .. +|||||+++.. .+.+.+.|+.|.... .. +..+.+.||+... . . ..+..-+++
T Consensus 93 i-~H~~y~~~~~~~nDiall~l~~~v~~~~~i~piclp~~~~~~~~~~~~~~~v~GWG~~~~~~~~~~~~L~~~~v~i~~ 171 (256)
T KOG3627|consen 93 I-VHPNYNPRTLENNDIALLRLSEPVTFSSHIQPICLPSSADPYFPPGGTTCLVSGWGRTESGGGPLPDTLQEVDVPIIS 171 (256)
T ss_pred E-ECCCCCCCCCCCCCEEEEEECCCcccCCcccccCCCCCcccCCCCCCCEEEEEeCCCcCCCCCCCCceeEEEEEeEcC
Confidence 3 22 13 79999999874 456678888886322 22 4778888875431 1 1 111233344
Q ss_pred ceeeecccCCc--eeeeEEEEc-----cCCCCCCCCCeEecCC---CeEEEEEecccC
Q 007213 248 RIEILSYVHGS--TELLGLQID-----AAINSGNSGGPAFNDK---GKCVGIAFQSLK 295 (612)
Q Consensus 248 ~~~~~~~~~~~--~~~~~i~~d-----a~i~~G~SGGPlvn~~---G~VIGI~~~~~~ 295 (612)
...|....... .....++.. ...|.|+|||||+..+ ..++||++.+..
T Consensus 172 ~~~C~~~~~~~~~~~~~~~Ca~~~~~~~~~C~GDSGGPLv~~~~~~~~~~GivS~G~~ 229 (256)
T KOG3627|consen 172 NSECRRAYGGLGTITDTMLCAGGPEGGKDACQGDSGGPLVCEDNGRWVLVGIVSWGSG 229 (256)
T ss_pred hhHhcccccCccccCCCEEeeCccCCCCccccCCCCCeEEEeeCCcEEEEEEEEecCC
Confidence 33333222211 011135543 2468899999999775 599999998653
No 39
>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=98.25 E-value=1.2e-06 Score=94.42 Aligned_cols=61 Identities=20% Similarity=0.315 Sum_probs=50.4
Q ss_pred EEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEE-ECCEEEEEEEEec
Q 007213 357 IRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVL-RDSKILNFNITLA 431 (612)
Q Consensus 357 V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~-R~G~~~~~~v~l~ 431 (612)
|..|.|+|+|++ ||++||+|++|||++|.+|.++. ..+ .++.+.++|. |+|+..++++...
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~----------~~l----~~e~l~L~V~~rdGe~~~l~Ie~~ 64 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQ----------FLC----ADEELELEVLDANGESHQIEIEKD 64 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHH----------HHh----cCCcEEEEEEcCCCeEEEEEEecC
Confidence 678999999999 99999999999999999998853 333 2466899997 8998877776653
No 40
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.21 E-value=5.1e-06 Score=91.81 Aligned_cols=53 Identities=26% Similarity=0.374 Sum_probs=42.2
Q ss_pred EEEecCCCcccC--CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEE
Q 007213 357 IRRVDPTAPESE--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLR 419 (612)
Q Consensus 357 V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R 419 (612)
|++|.+||||+. .|+.||.|++|||+.|.+...-. +..++.. .|-+|+|+|.-
T Consensus 782 iGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHad--------iv~LIKd--aGlsVtLtIip 836 (984)
T KOG3209|consen 782 IGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHAD--------IVSLIKD--AGLSVTLTIIP 836 (984)
T ss_pred ccccccCChhHhhccccccceEEEecCeeeeccCchh--------HHHHHHh--cCceEEEEEcC
Confidence 789999999999 59999999999999999876531 2344443 67788888874
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=98.20 E-value=3e-06 Score=71.23 Aligned_cols=61 Identities=13% Similarity=0.130 Sum_probs=55.2
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEeCC-eE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLEYD-QV 581 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~r~-~~ 581 (612)
..+++|..|.+++++..+|+++||+|++|||+++.+| .++..+++..+++.+.+++.|+ ++
T Consensus 12 ~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~~~~ 75 (85)
T cd00988 12 DGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGDGE 75 (85)
T ss_pred CCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcCCCC
Confidence 4568999999999999999999999999999999999 9999999877778899999887 54
No 42
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.20 E-value=2.9e-06 Score=93.87 Aligned_cols=68 Identities=24% Similarity=0.324 Sum_probs=59.5
Q ss_pred ccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEecc
Q 007213 354 GVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLAT 432 (612)
Q Consensus 354 G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~ 432 (612)
+++|.+|.++|||++ ||++||+|++|||++|.+|.++. ..+.. ..|+.+.++|.|+|+..++++++..
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~~dl~----------~~l~~-~~~~~v~l~v~R~g~~~~~~v~~~~ 290 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFV----------TLVRD-NPGKPLALEIERQGSPLSLTLTPDS 290 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHH----------HHHHh-CCCCEEEEEEEECCEEEEEEEEeee
Confidence 578999999999999 99999999999999999999853 55544 5778899999999999988888753
No 43
>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=98.20 E-value=3.8e-06 Score=89.45 Aligned_cols=72 Identities=21% Similarity=0.284 Sum_probs=56.6
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
.+++|..|.++|||++ ||++||+|++|||++|.+|..-. +..++ ....|+.+.++|.|+|+..++++++.
T Consensus 62 ~~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~--------~~~~l-~~~~g~~v~l~v~R~g~~~~~~v~l~ 132 (334)
T TIGR00225 62 GEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDD--------AVALI-RGKKGTKVSLEILRAGKSKPLTFTLK 132 (334)
T ss_pred CEEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHH--------HHHhc-cCCCCCEEEEEEEeCCCCceEEEEEE
Confidence 4799999999999999 99999999999999999984100 11233 23468899999999988777777666
Q ss_pred cC
Q 007213 432 TH 433 (612)
Q Consensus 432 ~~ 433 (612)
..
T Consensus 133 ~~ 134 (334)
T TIGR00225 133 RD 134 (334)
T ss_pred EE
Confidence 53
No 44
>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=98.17 E-value=6.1e-06 Score=88.45 Aligned_cols=63 Identities=10% Similarity=0.021 Sum_probs=56.8
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHh-CCCCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVEN-CDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~-~~~~~~~l~~~r~~~~~ 583 (612)
..+++|.+|.+++++..+|+++||+|++|||++|.++++|.+++++ .+++.+.|++.|+++..
T Consensus 277 ~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~dl~~~l~~~~~g~~v~l~v~R~g~~~ 340 (351)
T TIGR02038 277 LRGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEELMDRIAETRPGSKVMVTVLRQGKQL 340 (351)
T ss_pred cccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 4679999999999999999999999999999999999999999987 56778999999987653
No 45
>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=98.15 E-value=4.3e-06 Score=67.53 Aligned_cols=55 Identities=20% Similarity=0.134 Sum_probs=50.9
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEE
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~ 576 (612)
.+++|++|.+++++..+|+++||+|++|||+++.++ +++.++++...++.++|++
T Consensus 13 ~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 69 (70)
T cd00136 13 GGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69 (70)
T ss_pred CCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEE
Confidence 379999999999999999999999999999999999 9999999998878888876
No 46
>PRK10942 serine endoprotease; Provisional
Probab=98.13 E-value=8.8e-06 Score=90.47 Aligned_cols=62 Identities=16% Similarity=0.138 Sum_probs=55.9
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhC-CCCeEEEEEeCCeEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENC-DDEFLKFDLEYDQVV 582 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~-~~~~~~l~~~r~~~~ 582 (612)
..+++|..|.+++++..+|++.||+|++|||++|.++++|.+.+... +++.+.+++.|+++.
T Consensus 310 ~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~dl~~~l~~~~~g~~v~l~v~R~G~~ 372 (473)
T PRK10942 310 QRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFAALRAQVGTMPVGSKLTLGLLRDGKP 372 (473)
T ss_pred CCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEECCeE
Confidence 46799999999999999999999999999999999999999999874 466899999888754
No 47
>PRK10898 serine endoprotease; Provisional
Probab=98.06 E-value=1.6e-05 Score=85.21 Aligned_cols=63 Identities=11% Similarity=0.013 Sum_probs=57.0
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHh-CCCCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVEN-CDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~-~~~~~~~l~~~r~~~~~ 583 (612)
..+++|.+|.+++++.++|++.||+|++|||++|.++.+|.+.+.+ .+++.+.+++.|+++..
T Consensus 278 ~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~l~~~l~~~~~g~~v~l~v~R~g~~~ 341 (353)
T PRK10898 278 LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALETMDQVAEIRPGSVIPVVVMRDDKQL 341 (353)
T ss_pred CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 4689999999999999999999999999999999999999999987 56778999999987653
No 48
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=98.04 E-value=1.6e-05 Score=86.29 Aligned_cols=69 Identities=20% Similarity=0.302 Sum_probs=54.7
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEe
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITL 430 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l 430 (612)
.|++|..|.++|||++ ||++||+|++|||++|.++.... +..++ ....|..+.|+|.|+|+..+++++-
T Consensus 102 ~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~--------~~~~l-~g~~g~~v~ltv~r~g~~~~~~l~r 171 (389)
T PLN00049 102 AGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYE--------AADRL-QGPEGSSVELTLRRGPETRLVTLTR 171 (389)
T ss_pred CcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHH--------HHHHH-hcCCCCEEEEEEEECCEEEEEEEEe
Confidence 3899999999999999 99999999999999998763210 22333 3346889999999999887776653
No 49
>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=98.03 E-value=1.2e-05 Score=67.22 Aligned_cols=72 Identities=22% Similarity=0.269 Sum_probs=52.4
Q ss_pred CCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhh
Q 007213 327 FPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 405 (612)
Q Consensus 327 ~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~ 405 (612)
...+|+.+.... ... ..+++|.+|.++|||++ ||+.||+|++|||+.+.++...+ ...++.
T Consensus 9 ~~~lG~~l~~~~-~~~---------~~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~--------~~~~l~ 70 (81)
T PF00595_consen 9 NGPLGFTLRGGS-DND---------EKGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDE--------VVQLLK 70 (81)
T ss_dssp TSBSSEEEEEES-TSS---------SEEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHH--------HHHHHH
T ss_pred CCCcCEEEEecC-CCC---------cCCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHH--------HHHHHH
Confidence 456888887651 110 24899999999999999 99999999999999999986532 223333
Q ss_pred ccCCCCEEEEEEE
Q 007213 406 QKYTGDSAAVKVL 418 (612)
Q Consensus 406 ~~~~g~~v~l~V~ 418 (612)
. .+..++|+|+
T Consensus 71 ~--~~~~v~L~V~ 81 (81)
T PF00595_consen 71 S--ASNPVTLTVQ 81 (81)
T ss_dssp H--STSEEEEEEE
T ss_pred C--CCCcEEEEEC
Confidence 3 3347888764
No 50
>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=98.00 E-value=1.2e-05 Score=66.77 Aligned_cols=60 Identities=12% Similarity=-0.005 Sum_probs=49.9
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVV 582 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~ 582 (612)
..+++|.+|.+++++..+|+++||+|++|||+++.+|.++.+.+ ..++.+.+++.|+++.
T Consensus 11 ~~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~~l~~~--~~~~~v~l~v~r~g~~ 70 (80)
T cd00990 11 EGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQDRLKEY--QAGDPVELTVFRDDRL 70 (80)
T ss_pred CCcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHHHHHhc--CCCCEEEEEEEECCEE
Confidence 34699999999999999999999999999999999977654433 2566889999888755
No 51
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=97.99 E-value=4.6e-05 Score=64.79 Aligned_cols=75 Identities=24% Similarity=0.384 Sum_probs=48.3
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCC--------CcccC-C--CCCCCEEEEECCEEeCCCCCCccccCc
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPT--------APESE-V--LKPSDIILSFDGIDIANDGTVPFRHGE 396 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~--------spA~~-G--L~~GDiIlaInG~~V~s~~~v~~~~~~ 396 (612)
++||+.|..- ..+..|.+|.++ ||..+ | +++||+|++|||+++....++
T Consensus 1 G~LGAd~~~~--------------~~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~------ 60 (88)
T PF14685_consen 1 GLLGADFSYD--------------NGGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANP------ 60 (88)
T ss_dssp -B-SEEEEEE--------------TTEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-H------
T ss_pred CccceEEEEc--------------CCEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCH------
Confidence 3678877653 357888888775 78877 6 559999999999999987774
Q ss_pred cchHHHHhhccCCCCEEEEEEEECC-EEEEEE
Q 007213 397 RIGFSYLVSQKYTGDSAAVKVLRDS-KILNFN 427 (612)
Q Consensus 397 ~~~~~~~l~~~~~g~~v~l~V~R~G-~~~~~~ 427 (612)
..++ ....|+.+.|+|.+.+ +.+++.
T Consensus 61 ----~~lL-~~~agk~V~Ltv~~~~~~~R~v~ 87 (88)
T PF14685_consen 61 ----YRLL-EGKAGKQVLLTVNRKPGGARTVV 87 (88)
T ss_dssp ----HHHH-HTTTTSEEEEEEE-STT-EEEEE
T ss_pred ----HHHh-cccCCCEEEEEEecCCCCceEEE
Confidence 2444 4458899999999865 455554
No 52
>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=97.96 E-value=1.9e-05 Score=84.79 Aligned_cols=68 Identities=25% Similarity=0.373 Sum_probs=55.5
Q ss_pred CCccEEEEec--------CCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCE
Q 007213 352 QKGVRIRRVD--------PTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSK 422 (612)
Q Consensus 352 ~~G~~V~~V~--------p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~ 422 (612)
..|++|.+.. .+|||++ |||+||+|++|||++|.+|.++ .+.+... .++.+.++|.|+|+
T Consensus 104 t~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~DL----------~~iL~~~-~g~~V~LtV~R~Ge 172 (402)
T TIGR02860 104 TKGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDDL----------ANLINKA-GGEKLTLTIERGGK 172 (402)
T ss_pred cCEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHHH----------HHHHHhC-CCCeEEEEEEECCE
Confidence 3488885542 2589999 9999999999999999999985 3666554 48899999999999
Q ss_pred EEEEEEEe
Q 007213 423 ILNFNITL 430 (612)
Q Consensus 423 ~~~~~v~l 430 (612)
..++.++.
T Consensus 173 ~~tv~V~P 180 (402)
T TIGR02860 173 IIETVIKP 180 (402)
T ss_pred EEEEEEEE
Confidence 88888864
No 53
>PF00863 Peptidase_C4: Peptidase family C4 This family belongs to family C4 of the peptidase classification.; InterPro: IPR001730 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. Nuclear inclusion A (NIA) proteases from potyviruses are cysteine peptidases belong to the MEROPS peptidase family C4 (NIa protease family, clan PA(C)) [, ]. Potyviruses include plant viruses in which the single-stranded RNA encodes a polyprotein with NIA protease activity, where proteolytic cleavage is specific for Gln+Gly sites. The NIA protease acts on the polyprotein, releasing itself by Gln+Gly cleavage at both the N- and C-termini. It further processes the polyprotein by cleavage at five similar sites in the C-terminal half of the sequence. In addition to its C-terminal protease activity, the NIA protease contains an N-terminal domain that has been implicated in the transcription process []. This peptidase is present in the nuclear inclusion protein of potyviruses.; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MMG_B 1Q31_B 1LVB_A 1LVM_A.
Probab=97.92 E-value=0.0009 Score=67.02 Aligned_cols=144 Identities=21% Similarity=0.270 Sum_probs=71.4
Q ss_pred CCEEEecccccC-CCCeEEEEEcCCCcEEEEE-----EEEeccCCCeEEEEeccccccCCeeeeEcC---CCCCCCCeEE
Q 007213 158 GRRVLTNAHSVE-HYTQVKLKKRGSDTKYLAT-----VLAIGTECDIAMLTVEDDEFWEGVLPVEFG---ELPALQDAVT 228 (612)
Q Consensus 158 ~g~ILT~aHvV~-~~~~i~V~~~~~g~~~~a~-----vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~---~~~~~G~~V~ 228 (612)
..||+|++|... +...+.|... -| .|... -+.-=...||.+|+++.+ ++|.+-. ..+..++.|.
T Consensus 40 G~~iItn~HLf~~nng~L~i~s~-hG-~f~v~nt~~lkv~~i~~~DiviirmPkD-----fpPf~~kl~FR~P~~~e~v~ 112 (235)
T PF00863_consen 40 GSYIITNAHLFKRNNGELTIKSQ-HG-EFTVPNTTQLKVHPIEGRDIVIIRMPKD-----FPPFPQKLKFRAPKEGERVC 112 (235)
T ss_dssp TTEEEEEGGGGSSTTCEEEEEET-TE-EEEECEGGGSEEEE-TCSSEEEEE--TT-----S----S---B----TT-EEE
T ss_pred CCEEEEChhhhccCCCeEEEEeC-ce-EEEcCCccccceEEeCCccEEEEeCCcc-----cCCcchhhhccCCCCCCEEE
Confidence 779999999996 4456777762 22 22221 122335789999999875 4553322 3567799999
Q ss_pred EEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecC-CCeEEEEEecccCCCccceeecccC
Q 007213 229 VVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFND-KGKCVGIAFQSLKHEDVENIGYVIP 307 (612)
Q Consensus 229 aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~-~G~VIGI~~~~~~~~~~~~~~~aIP 307 (612)
.+|.-+.....+.+..--+.+... .+. .+-..-.....|+-|+|||+. ||.+|||++.... ....+|+.|
T Consensus 113 mVg~~fq~k~~~s~vSesS~i~p~---~~~---~fWkHwIsTk~G~CG~PlVs~~Dg~IVGiHsl~~~---~~~~N~F~~ 183 (235)
T PF00863_consen 113 MVGSNFQEKSISSTVSESSWIYPE---ENS---HFWKHWISTKDGDCGLPLVSTKDGKIVGIHSLTSN---TSSRNYFTP 183 (235)
T ss_dssp EEEEECSSCCCEEEEEEEEEEEEE---TTT---TEEEE-C---TT-TT-EEEETTT--EEEEEEEEET---TTSSEEEEE
T ss_pred EEEEEEEcCCeeEEECCceEEeec---CCC---CeeEEEecCCCCccCCcEEEcCCCcEEEEEcCccC---CCCeEEEEc
Confidence 999865533322222222222111 111 123334455678999999988 8999999997542 234455544
Q ss_pred --hhhHHHHHHH
Q 007213 308 --TPVIMHFIQD 317 (612)
Q Consensus 308 --i~~i~~~l~~ 317 (612)
-+.+..+++.
T Consensus 184 f~~~f~~~~l~~ 195 (235)
T PF00863_consen 184 FPDDFEEFYLEN 195 (235)
T ss_dssp --TTHHHHHCC-
T ss_pred CCHHHHHHHhcc
Confidence 4444444433
No 54
>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=97.89 E-value=2.3e-05 Score=65.10 Aligned_cols=51 Identities=24% Similarity=0.414 Sum_probs=40.9
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeC--CCCC
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIA--NDGT 389 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~--s~~~ 389 (612)
..+|+.+... ... ..|++|..|.++|||++ ||++||+|++|||+++. ++.+
T Consensus 12 ~~~G~~~~~~-~~~----------~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~ 65 (82)
T cd00992 12 GGLGFSLRGG-KDS----------GGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEE 65 (82)
T ss_pred CCcCEEEeCc-ccC----------CCCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHH
Confidence 4578777654 111 24899999999999999 99999999999999999 4444
No 55
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=97.87 E-value=2.6e-05 Score=79.91 Aligned_cols=63 Identities=10% Similarity=-0.035 Sum_probs=57.4
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCC-CeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDD-EFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~-~~~~l~~~r~~~~~ 583 (612)
..|+.|..+.+++++..+|++.||+|++|||+++.+++++.+++.+.+. ..++|+++|+|+.+
T Consensus 190 ~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~~~~~~~l~~~~~~~~v~l~V~R~G~~~ 253 (259)
T TIGR01713 190 LEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDPEQAFQALQMLREETNLTLTVERDGQRE 253 (259)
T ss_pred eeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCeEEEEEEECCEEE
Confidence 5689999999999999999999999999999999999999999998644 58999999998754
No 56
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.81 E-value=0.00021 Score=77.98 Aligned_cols=63 Identities=13% Similarity=-0.123 Sum_probs=48.0
Q ss_pred hhhcccCCCCceEEEeeecccccccccccccceeEeeCCeecCCHH--HHHHHHHh-CCCCeEEEE
Q 007213 513 FLLSLSLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLK--SLANMVEN-CDDEFLKFD 575 (612)
Q Consensus 513 ~~~~~~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~--~l~~~l~~-~~~~~~~l~ 575 (612)
-|....+.+-|++|+.|..+++|.+-|++.||+|+.||.++..|+. +.+..|-. .+++.++|.
T Consensus 420 GLRLAGGNDVGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtil 485 (1027)
T KOG3580|consen 420 GLRLAGGNDVGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTIL 485 (1027)
T ss_pred eeEeccCCceeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeeh
Confidence 3444555567899999999999999999999999999999998873 33444433 456666654
No 57
>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=97.74 E-value=7.4e-05 Score=62.03 Aligned_cols=54 Identities=15% Similarity=0.148 Sum_probs=47.9
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEE
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~ 576 (612)
.+++|+.|.+++++..+|+++||+|++|||+++. +++++.++++.... .+++.+
T Consensus 26 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 26 GGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 4699999999999999999999999999999999 99999999997554 666654
No 58
>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=97.72 E-value=5.9e-05 Score=62.91 Aligned_cols=54 Identities=11% Similarity=0.225 Sum_probs=47.4
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEE
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~ 576 (612)
.+++|++|.+++++...|++.||+|++|||+++.++ ++..++++.+.+ .++|++
T Consensus 25 ~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~~~-~v~L~V 80 (81)
T PF00595_consen 25 KGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSASN-PVTLTV 80 (81)
T ss_dssp EEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHSTS-EEEEEE
T ss_pred CCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCCCC-cEEEEE
Confidence 479999999999999999999999999999999965 777888887764 777776
No 59
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.71 E-value=0.00013 Score=79.61 Aligned_cols=61 Identities=25% Similarity=0.401 Sum_probs=45.9
Q ss_pred CCccEEEEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCE
Q 007213 352 QKGVRIRRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSK 422 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~ 422 (612)
.+-++|..|.||+||+.-||.||.|+.|||....+.... | ..-.....|+...++|.|..+
T Consensus 39 etSiViSDVlpGGPAeG~LQenDrvvMVNGvsMenv~ha---------F-AvQqLrksgK~A~ItvkRprk 99 (1027)
T KOG3580|consen 39 ETSIVISDVLPGGPAEGLLQENDRVVMVNGVSMENVLHA---------F-AVQQLRKSGKVAAITVKRPRK 99 (1027)
T ss_pred ceeEEEeeccCCCCcccccccCCeEEEEcCcchhhhHHH---------H-HHHHHHhhccceeEEecccce
Confidence 456899999999999989999999999999988876542 1 111223356777888888543
No 60
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=97.63 E-value=0.00016 Score=78.80 Aligned_cols=83 Identities=24% Similarity=0.374 Sum_probs=60.3
Q ss_pred CCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhh
Q 007213 327 FPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 405 (612)
Q Consensus 327 ~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~ 405 (612)
+..+|++++.. +..++.|.++.+++||++ ||++||+|++|||+++....- . .... ..
T Consensus 99 ~~GiG~~i~~~-------------~~~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~-~-------~av~-~i 156 (406)
T COG0793 99 FGGIGIELQME-------------DIGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSL-D-------EAVK-LI 156 (406)
T ss_pred ccceeEEEEEe-------------cCCCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCH-H-------HHHH-Hh
Confidence 56678877754 115889999999999999 999999999999999988641 0 0012 23
Q ss_pred ccCCCCEEEEEEEECCEEEEEEEEec
Q 007213 406 QKYTGDSAAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 406 ~~~~g~~v~l~V~R~G~~~~~~v~l~ 431 (612)
+...|..++|++.|.|....+.+++.
T Consensus 157 rG~~Gt~V~L~i~r~~~~k~~~v~l~ 182 (406)
T COG0793 157 RGKPGTKVTLTILRAGGGKPFTVTLT 182 (406)
T ss_pred CCCCCCeEEEEEEEcCCCceeEEEEE
Confidence 44588999999999754444444444
No 61
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=97.60 E-value=7.7e-05 Score=76.31 Aligned_cols=67 Identities=25% Similarity=0.326 Sum_probs=54.4
Q ss_pred CccEEE-EecCCCc---ccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEE
Q 007213 353 KGVRIR-RVDPTAP---ESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFN 427 (612)
Q Consensus 353 ~G~~V~-~V~p~sp---A~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~ 427 (612)
.| +++ .+.|+.. ..+ |||+||++++|||.++.+.++. ..++........++|+|+|+|+..++.
T Consensus 204 ~G-l~GYrl~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~qa----------~~l~~~L~~~tei~ltVeRdGq~~~i~ 272 (276)
T PRK09681 204 EG-IVGYAVKPGADRSLFDASGFKEGDIAIALNQQDFTDPRAM----------IALMRQLPSMDSIQLTVLRKGARHDIS 272 (276)
T ss_pred CC-ceEEEECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHHH----------HHHHHHhccCCeEEEEEEECCEEEEEE
Confidence 36 443 4677743 356 9999999999999999988764 377777888889999999999999998
Q ss_pred EEe
Q 007213 428 ITL 430 (612)
Q Consensus 428 v~l 430 (612)
+.+
T Consensus 273 i~l 275 (276)
T PRK09681 273 IAL 275 (276)
T ss_pred EEc
Confidence 865
No 62
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00021 Score=69.07 Aligned_cols=73 Identities=22% Similarity=0.216 Sum_probs=59.0
Q ss_pred ccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEEecc
Q 007213 354 GVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNITLAT 432 (612)
Q Consensus 354 G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~l~~ 432 (612)
-++|.+|.|+|||+. ||+.||.|++++...-.++..++ =...+.....++.+.++|.|.|+.+.+.++...
T Consensus 140 Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq--------~i~~~v~~~e~~~v~v~v~R~g~~v~L~ltP~~ 211 (231)
T KOG3129|consen 140 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQ--------NIAAVVQSNEDQIVSVTVIREGQKVVLSLTPKK 211 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHH--------HHHHHHHhccCcceeEEEecCCCEEEEEeCccc
Confidence 367899999999999 99999999999987777765532 112334556788899999999999999999887
Q ss_pred Cc
Q 007213 433 HR 434 (612)
Q Consensus 433 ~~ 434 (612)
|.
T Consensus 212 W~ 213 (231)
T KOG3129|consen 212 WQ 213 (231)
T ss_pred cc
Confidence 64
No 63
>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=97.42 E-value=0.00026 Score=58.83 Aligned_cols=58 Identities=14% Similarity=0.114 Sum_probs=47.0
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCCHHHHHH--HHHhCCCCeEEEEEeCCe
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLAN--MVENCDDEFLKFDLEYDQ 580 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~--~l~~~~~~~~~l~~~r~~ 580 (612)
.+++|+.|.+++++..+|+++||+|++|||+++.++.+... .+... ++.++|.+.|++
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~~ 85 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRGG 85 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeCC
Confidence 57999999999999999999999999999999998755443 34433 458888887753
No 64
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=97.39 E-value=0.00032 Score=72.01 Aligned_cols=72 Identities=25% Similarity=0.300 Sum_probs=64.1
Q ss_pred CCccEEEEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEE-CCEEEEEEEEe
Q 007213 352 QKGVRIRRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLR-DSKILNFNITL 430 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R-~G~~~~~~v~l 430 (612)
-.|+++..|..++|+...|+.||.|++|||+++.+.++ |..++....+|+++++++.| +++....++++
T Consensus 129 y~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~s~~e----------~i~~v~~~k~Gd~VtI~~~r~~~~~~~~~~tl 198 (342)
T COG3480 129 YAGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFTSSDE----------LIDYVSSKKPGDEVTIDYERHNETPEIVTITL 198 (342)
T ss_pred EeeEEEEEccCCcchhceeccCCeEEeeCCeecCCHHH----------HHHHHhccCCCCeEEEEEEeccCCCceEEEEE
Confidence 35999999999999988999999999999999999988 45888889999999999997 88888888887
Q ss_pred ccC
Q 007213 431 ATH 433 (612)
Q Consensus 431 ~~~ 433 (612)
...
T Consensus 199 ~~~ 201 (342)
T COG3480 199 IKN 201 (342)
T ss_pred Eee
Confidence 765
No 65
>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=97.37 E-value=0.00039 Score=74.86 Aligned_cols=62 Identities=18% Similarity=0.235 Sum_probs=52.5
Q ss_pred CCceEEEee---e-----cccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCeEE
Q 007213 521 FSFPWFCKV---L-----VADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQVV 582 (612)
Q Consensus 521 ~~~v~v~~v---~-----~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~~~ 582 (612)
.+||+|... . ..++|..+|++.||+|++|||++|.+|+||.+++++..++.+.+++.|+++.
T Consensus 104 t~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~DL~~iL~~~~g~~V~LtV~R~Ge~ 173 (402)
T TIGR02860 104 TKGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDDLANLINKAGGEKLTLTIERGGKI 173 (402)
T ss_pred cCEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCCCCeEEEEEEECCEE
Confidence 466766443 2 2467888899999999999999999999999999998888999999998764
No 66
>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=97.35 E-value=0.0034 Score=63.08 Aligned_cols=113 Identities=18% Similarity=0.219 Sum_probs=62.0
Q ss_pred EEEEEEEe---CCEEEecccccCCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCCCCCCe
Q 007213 150 SSSGFAIG---GRRVLTNAHSVEHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELPALQDA 226 (612)
Q Consensus 150 ~GSGfiI~---~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~~~G~~ 226 (612)
.|||=+.. +-.|+|+.||+. ...-.|.. .+.... .-++..-|+|.-.++.- ....|.+++++. ..|..
T Consensus 113 ~Gsggvft~~~~~vvvTAtHVlg-~~~a~v~~--~g~~~~---~tF~~~GDfA~~~~~~~--~G~~P~~k~a~~-~~GrA 183 (297)
T PF05579_consen 113 VGSGGVFTIGGNTVVVTATHVLG-GNTARVSG--VGTRRM---LTFKKNGDFAEADITNW--PGAAPKYKFAQN-YTGRA 183 (297)
T ss_dssp EEEEEEEECTTEEEEEEEHHHCB-TTEEEEEE--TTEEEE---EEEEEETTEEEEEETTS---S---B--B-TT--SEEE
T ss_pred ccccceEEECCeEEEEEEEEEcC-CCeEEEEe--cceEEE---EEEeccCcEEEEECCCC--CCCCCceeecCC-cccce
Confidence 55555554 449999999998 55666665 333332 23455779999998432 125667777621 22211
Q ss_pred EEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecc
Q 007213 227 VTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQS 293 (612)
Q Consensus 227 V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~ 293 (612)
-+. .. .-+..|.|..-.+ +.+ ..+|+||+|++..+|.+|||+++.
T Consensus 184 yW~---t~----tGvE~G~ig~~~~------------~~f---T~~GDSGSPVVt~dg~liGVHTGS 228 (297)
T PF05579_consen 184 YWL---TS----TGVEPGFIGGGGA------------VCF---TGPGDSGSPVVTEDGDLIGVHTGS 228 (297)
T ss_dssp EEE---ET----TEEEEEEEETTEE------------EES---S-GGCTT-EEEETTC-EEEEEEEE
T ss_pred EEE---cc----cCcccceecCceE------------EEE---cCCCCCCCccCcCCCCEEEEEecC
Confidence 111 10 1244555554332 222 457999999999999999999984
No 67
>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=97.34 E-value=0.00026 Score=75.43 Aligned_cols=60 Identities=5% Similarity=0.010 Sum_probs=53.3
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEeCCe
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLEYDQ 580 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~r~~ 580 (612)
...++|..|.+++++..+|++.||+|++|||++|.+| .++...+....+..+.+++.|++
T Consensus 61 ~~~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~R~g 122 (334)
T TIGR00225 61 DGEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAG 122 (334)
T ss_pred CCEEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHhccCCCCCEEEEEEEeCC
Confidence 3568999999999999999999999999999999986 68888887777888999998875
No 68
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=97.30 E-value=0.00045 Score=75.31 Aligned_cols=84 Identities=21% Similarity=0.353 Sum_probs=65.7
Q ss_pred CCeEEeeecChhhHHhhhcccC--CCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhc
Q 007213 330 LGVEWQKMENPDLRVAMSMKAD--QKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 406 (612)
Q Consensus 330 lGi~~~~~~~~~~~~~lgl~~~--~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~ 406 (612)
.|+.+..+ .. ..-+||+.-. ..+.+|..|.++|||.+ ||.+||.|++|||. + ..+.+
T Consensus 439 ~gL~~~~~-~~-~~~~LGl~v~~~~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~---s---------------~~l~~ 498 (558)
T COG3975 439 FGLTFTPK-PR-EAYYLGLKVKSEGGHEKITFVFPGGPAYKAGLSPGDKIVAINGI---S---------------DQLDR 498 (558)
T ss_pred cceEEEec-CC-CCcccceEecccCCeeEEEecCCCChhHhccCCCccEEEEEcCc---c---------------ccccc
Confidence 57777665 22 2556777542 44678899999999999 99999999999998 1 12455
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEeccC
Q 007213 407 KYTGDSAAVKVLRDSKILNFNITLATH 433 (612)
Q Consensus 407 ~~~g~~v~l~V~R~G~~~~~~v~l~~~ 433 (612)
...++.+++++.|.|..+++.+++...
T Consensus 499 ~~~~d~i~v~~~~~~~L~e~~v~~~~~ 525 (558)
T COG3975 499 YKVNDKIQVHVFREGRLREFLVKLGGD 525 (558)
T ss_pred cccccceEEEEccCCceEEeecccCCC
Confidence 568899999999999999999888754
No 69
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=97.24 E-value=0.00052 Score=74.67 Aligned_cols=60 Identities=10% Similarity=0.019 Sum_probs=53.1
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCC--HHHHHHHHHhCCCCeEEEEEeCCeE
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKN--LKSLANMVENCDDEFLKFDLEYDQV 581 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~--~~~l~~~l~~~~~~~~~l~~~r~~~ 581 (612)
.+++|..|.+++++..+|+++||+|++|||++|.+ +.++...++...+..+.|++.|++.
T Consensus 102 ~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~r~g~ 163 (389)
T PLN00049 102 AGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRRGPE 163 (389)
T ss_pred CcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEEECCE
Confidence 36899999999999999999999999999999985 4788888877677889999988765
No 70
>PRK11186 carboxy-terminal protease; Provisional
Probab=97.22 E-value=0.0013 Score=75.69 Aligned_cols=71 Identities=17% Similarity=0.169 Sum_probs=48.4
Q ss_pred CccEEEEecCCCcccC--CCCCCCEEEEEC--CEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEEC---CEEEE
Q 007213 353 KGVRIRRVDPTAPESE--VLKPSDIILSFD--GIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRD---SKILN 425 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~--GL~~GDiIlaIn--G~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~---G~~~~ 425 (612)
.+++|.+|.|||||++ ||++||+|++|| |.++.+...+.+ -....++ ....|.+|.|+|.|+ |+..+
T Consensus 255 ~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~-----~~vv~li-rG~~Gt~V~LtV~r~~~~~~~~~ 328 (667)
T PRK11186 255 DYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRL-----DDVVALI-KGPKGSKVRLEILPAGKGTKTRI 328 (667)
T ss_pred CeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCH-----HHHHHHh-cCCCCCEEEEEEEeCCCCCceEE
Confidence 4688999999999987 899999999999 555443222110 0022333 345789999999984 45555
Q ss_pred EEEE
Q 007213 426 FNIT 429 (612)
Q Consensus 426 ~~v~ 429 (612)
++++
T Consensus 329 vtl~ 332 (667)
T PRK11186 329 VTLT 332 (667)
T ss_pred EEEE
Confidence 5554
No 71
>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=97.05 E-value=0.00064 Score=73.72 Aligned_cols=54 Identities=17% Similarity=0.169 Sum_probs=46.6
Q ss_pred EEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEe-CCeEE
Q 007213 526 FCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLE-YDQVV 582 (612)
Q Consensus 526 v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~-r~~~~ 582 (612)
|..|.++++|..+|+++||+|++|||++|.+|.++..++. ++.+.+++. |+|+.
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~~~l~---~e~l~L~V~~rdGe~ 56 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQFLCA---DEELELEVLDANGES 56 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHhc---CCcEEEEEEcCCCeE
Confidence 4678899999999999999999999999999999988884 467888885 66644
No 72
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.03 E-value=0.0033 Score=66.98 Aligned_cols=146 Identities=16% Similarity=0.213 Sum_probs=102.0
Q ss_pred CCccEEEEecCCCcccC-CCCC-CCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECC--EEEEEE
Q 007213 352 QKGVRIRRVDPTAPESE-VLKP-SDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDS--KILNFN 427 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-GL~~-GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G--~~~~~~ 427 (612)
..|.-|-+|..+|+|++ ||.+ -|-|++|||..+....+. |..++..... +|+++|.-.. ..+.++
T Consensus 14 teg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~---------Lk~llk~~se--kVkltv~n~kt~~~R~v~ 82 (462)
T KOG3834|consen 14 TEGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDT---------LKALLKANSE--KVKLTVYNSKTQEVRIVE 82 (462)
T ss_pred ceeEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHH---------HHHHHHhccc--ceEEEEEecccceeEEEE
Confidence 34778889999999999 9988 578999999999987764 3344444332 3899988432 233444
Q ss_pred EEeccCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccccccccchhhhhhhccCCcccc
Q 007213 428 ITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCIQCHNCQMSSLLWCLRSPLCLN 507 (612)
Q Consensus 428 v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 507 (612)
|+.... +. . + +.|+.++-++++.++
T Consensus 83 I~ps~~--------wg-g-q---llGvsvrFcsf~~A~------------------------------------------ 107 (462)
T KOG3834|consen 83 IVPSNN--------WG-G-Q---LLGVSVRFCSFDGAV------------------------------------------ 107 (462)
T ss_pred eccccc--------cc-c-c---ccceEEEeccCccch------------------------------------------
Confidence 443321 10 0 0 456666666632211
Q ss_pred ccchhhhhcccCCCCceEEEeeeccccccccccc-ccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEE
Q 007213 508 CFNKVFLLSLSLTFSFPWFCKVLVADINIGYEEI-VNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 508 ~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g~~-~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~ 576 (612)
....=|-+|.+.+++..+|++ .+|-|+.+-+.-....+||...|+.+.++.+++-+
T Consensus 108 -------------~~vwHvl~V~p~SPaalAgl~~~~DYivG~~~~~~~~~eDl~~lIeshe~kpLklyV 164 (462)
T KOG3834|consen 108 -------------ESVWHVLSVEPNSPAALAGLRPYTDYIVGIWDAVMHEEEDLFTLIESHEGKPLKLYV 164 (462)
T ss_pred -------------hheeeeeecCCCCHHHhcccccccceEecchhhhccchHHHHHHHHhccCCCcceeE
Confidence 112225578899999999999 68999999666778999999999999888888765
No 73
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=97.01 E-value=0.00066 Score=66.91 Aligned_cols=66 Identities=18% Similarity=0.229 Sum_probs=53.7
Q ss_pred ccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECCEEEEEEEE
Q 007213 354 GVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDSKILNFNIT 429 (612)
Q Consensus 354 G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G~~~~~~v~ 429 (612)
|..+.-..+++...+ |||.||+.++||+..+++.+++ ..++.....-+.++++|+|+|+...+.|.
T Consensus 208 Gyr~~pgkd~slF~~sglq~GDIavaiNnldltdp~~m----------~~llq~l~~m~s~qlTv~R~G~rhdInV~ 274 (275)
T COG3031 208 GYRFEPGKDGSLFYKSGLQRGDIAVAINNLDLTDPEDM----------FRLLQMLRNMPSLQLTVIRRGKRHDINVR 274 (275)
T ss_pred EEEecCCCCcchhhhhcCCCcceEEEecCcccCCHHHH----------HHHHHhhhcCcceEEEEEecCccceeeec
Confidence 444444455677788 9999999999999999998874 47777777778899999999999888764
No 74
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=97.00 E-value=0.017 Score=59.84 Aligned_cols=109 Identities=17% Similarity=0.255 Sum_probs=65.3
Q ss_pred cCCCeEEEEeccccccCCeeeeEcCCCC---CCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCC
Q 007213 194 TECDIAMLTVEDDEFWEGVLPVEFGELP---ALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAI 270 (612)
Q Consensus 194 ~~~DLAlLkv~~~~~~~~l~pl~l~~~~---~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i 270 (612)
...+++||+++.+ +.....|+.|+++. ..++.+.+.|+.... .+....+.-..... ....+......
T Consensus 159 ~~~~~mIlEl~~~-~~~~~~~~Cl~~~~~~~~~~~~~~~yg~~~~~---~~~~~~~~i~~~~~------~~~~~~~~~~~ 228 (282)
T PF03761_consen 159 RPYSPMILELEED-FSKNVSPPCLADSSTNWEKGDEVDVYGFNSTG---KLKHRKLKITNCTK------CAYSICTKQYS 228 (282)
T ss_pred cccceEEEEEccc-ccccCCCEEeCCCccccccCceEEEeecCCCC---eEEEEEEEEEEeec------cceeEeccccc
Confidence 3469999999887 34478999999854 347889999983221 22233332222211 11235556677
Q ss_pred CCCCCCCeEecC-CC--eEEEEEecccCCCccceeecccChhhHHH
Q 007213 271 NSGNSGGPAFND-KG--KCVGIAFQSLKHEDVENIGYVIPTPVIMH 313 (612)
Q Consensus 271 ~~G~SGGPlvn~-~G--~VIGI~~~~~~~~~~~~~~~aIPi~~i~~ 313 (612)
+.|++||||+.. +| .||||.+..-.. ...+..+++.+...++
T Consensus 229 ~~~d~Gg~lv~~~~gr~tlIGv~~~~~~~-~~~~~~~f~~v~~~~~ 273 (282)
T PF03761_consen 229 CKGDRGGPLVKNINGRWTLIGVGASGNYE-CNKNNSYFFNVSWYQD 273 (282)
T ss_pred CCCCccCeEEEEECCCEEEEEEEccCCCc-ccccccEEEEHHHhhh
Confidence 899999999843 44 599998763321 1112445555555443
No 75
>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=96.95 E-value=0.0018 Score=59.98 Aligned_cols=86 Identities=23% Similarity=0.338 Sum_probs=54.6
Q ss_pred CCcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCC-CCEEEEECCEEeCCCCCCccccCccchHHHHh
Q 007213 327 FPLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKP-SDIILSFDGIDIANDGTVPFRHGERIGFSYLV 404 (612)
Q Consensus 327 ~~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~-GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l 404 (612)
.+.||+.++.- ...- ....+.-|.+|.|+|||++ ||++ .|.|+.+|+..+.+.++ |..++
T Consensus 25 ~g~LG~sv~~~-~~~~-------~~~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~----------l~~~v 86 (138)
T PF04495_consen 25 QGLLGISVRFE-SFEG-------AEEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDD----------LFELV 86 (138)
T ss_dssp SSSS-EEEEEE-E-TT-------GCCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCH----------HHHHH
T ss_pred CCCCcEEEEEe-cccc-------cccceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHH----------HHHHH
Confidence 46788887654 1110 1245888999999999999 9999 69999999988886555 44666
Q ss_pred hccCCCCEEEEEEEEC--CEEEEEEEEec
Q 007213 405 SQKYTGDSAAVKVLRD--SKILNFNITLA 431 (612)
Q Consensus 405 ~~~~~g~~v~l~V~R~--G~~~~~~v~l~ 431 (612)
.. ..+..+.|.|... ...+++.+++.
T Consensus 87 ~~-~~~~~l~L~Vyns~~~~vR~V~i~P~ 114 (138)
T PF04495_consen 87 EA-NENKPLQLYVYNSKTDSVREVTITPS 114 (138)
T ss_dssp HH-TTTS-EEEEEEETTTTCEEEEEE---
T ss_pred HH-cCCCcEEEEEEECCCCeEEEEEEEcC
Confidence 54 5788999999963 34556666554
No 76
>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=96.87 E-value=0.015 Score=55.95 Aligned_cols=139 Identities=17% Similarity=0.293 Sum_probs=82.2
Q ss_pred cceEEEEEEEeCCEEEecccccCCCCeEEEEEcCCCcEEEE--EEEEecc---CCCeEEEEeccccccCCe-eeeEcCCC
Q 007213 147 YSSSSSGFAIGGRRVLTNAHSVEHYTQVKLKKRGSDTKYLA--TVLAIGT---ECDIAMLTVEDDEFWEGV-LPVEFGEL 220 (612)
Q Consensus 147 ~~~~GSGfiI~~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a--~vv~~d~---~~DLAlLkv~~~~~~~~l-~pl~l~~~ 220 (612)
....++++-|.+.++|...| .....++.+ +|..++. .+...+. ..||++++++...-+.++ +.+. ...
T Consensus 23 g~~t~l~~gi~~~~~lvp~H---~~~~~~i~i--~g~~~~~~d~~~lv~~~~~~~Dl~~v~l~~~~kfrDIrk~~~-~~~ 96 (172)
T PF00548_consen 23 GEFTMLALGIYDRYFLVPTH---EEPEDTIYI--DGVEYKVDDSVVLVDRDGVDTDLTLVKLPRNPKFRDIRKFFP-ESI 96 (172)
T ss_dssp EEEEEEEEEEEBTEEEEEGG---GGGCSEEEE--TTEEEEEEEEEEEEETTSSEEEEEEEEEESSS-B--GGGGSB-SSG
T ss_pred ceEEEecceEeeeEEEEECc---CCCcEEEEE--CCEEEEeeeeEEEecCCCcceeEEEEEccCCcccCchhhhhc-ccc
Confidence 45678888999999999999 223334444 4555532 3333444 459999999764311222 2222 112
Q ss_pred CCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecC---CCeEEEEEecc
Q 007213 221 PALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFND---KGKCVGIAFQS 293 (612)
Q Consensus 221 ~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~---~G~VIGI~~~~ 293 (612)
....+.+.++-.. .........+.++..+.. ...+......+..+++...|+-||||+.. .++++||+.++
T Consensus 97 ~~~~~~~l~v~~~-~~~~~~~~v~~v~~~~~i-~~~g~~~~~~~~Y~~~t~~G~CG~~l~~~~~~~~~i~GiHvaG 170 (172)
T PF00548_consen 97 PEYPECVLLVNST-KFPRMIVEVGFVTNFGFI-NLSGTTTPRSLKYKAPTKPGMCGSPLVSRIGGQGKIIGIHVAG 170 (172)
T ss_dssp GTEEEEEEEEESS-SSTCEEEEEEEEEEEEEE-EETTEEEEEEEEEESEEETTGTTEEEEESCGGTTEEEEEEEEE
T ss_pred ccCCCcEEEEECC-CCccEEEEEEEEeecCcc-ccCCCEeeEEEEEccCCCCCccCCeEEEeeccCccEEEEEecc
Confidence 2334444444433 223324455555555443 22333344578888888999999999963 57999999873
No 77
>PF12812 PDZ_1: PDZ-like domain
Probab=96.86 E-value=0.0016 Score=54.30 Aligned_cols=58 Identities=12% Similarity=0.073 Sum_probs=51.2
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCC
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGT 389 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~ 389 (612)
-|.|..|+.+ +.+.++.++++- |.++.....++++.+ |+..|-+|++|||+++.+.++
T Consensus 9 ~~~Ga~f~~L-s~q~aR~~~~~~---~gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~ 67 (78)
T PF12812_consen 9 EVCGAVFHDL-SYQQARQYGIPV---GGVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDLDD 67 (78)
T ss_pred EEcCeecccC-CHHHHHHhCCCC---CEEEEEecCCChhhhCCCCCCeEEEeECCcCCcCHHH
Confidence 4789999999 999999999987 466667788999998 699999999999999999877
No 78
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=96.80 E-value=0.0016 Score=72.14 Aligned_cols=62 Identities=23% Similarity=0.315 Sum_probs=46.8
Q ss_pred eEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEeCCeEEEEechhhHHHHHHHHH
Q 007213 524 PWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLEYDQVVVLRTKTSKAATLDILA 598 (612)
Q Consensus 524 v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~r~~~~~l~~~~~~~~~~~i~~ 598 (612)
=+||..+.+++|.+-|.+.|-+|++||||.|--. +-++++|.+.-++-+ -|+|.++.=|+|+
T Consensus 758 GiICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVGEIh-------------MKTMPasMfRLLT 821 (829)
T KOG3605|consen 758 GIICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVGEIH-------------MKTMPAAMFRLLT 821 (829)
T ss_pred cEeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhhhhh-------------hhcchHHHHHHhh
Confidence 4678899999999999999999999999998633 446777776554421 2677777666664
No 79
>COG5640 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.013 Score=61.38 Aligned_cols=59 Identities=22% Similarity=0.294 Sum_probs=37.7
Q ss_pred eEEEEEEEeCCEEEecccccCCCC-----eEEEEEc-CC---CcEEEEEEEEec-------cCCCeEEEEecccc
Q 007213 149 SSSSGFAIGGRRVLTNAHSVEHYT-----QVKLKKR-GS---DTKYLATVLAIG-------TECDIAMLTVEDDE 207 (612)
Q Consensus 149 ~~GSGfiI~~g~ILT~aHvV~~~~-----~i~V~~~-~~---g~~~~a~vv~~d-------~~~DLAlLkv~~~~ 207 (612)
.+|.|-++...||||+|||+.+.. .+.|... +| ++....+.++.+ ...|+|++++....
T Consensus 61 tfCGgs~l~~RYvLTAAHC~~~~s~is~d~~~vv~~l~d~Sq~~rg~vr~i~~~efY~~~n~~ND~Av~~l~~~a 135 (413)
T COG5640 61 TFCGGSKLGGRYVLTAAHCADASSPISSDVNRVVVDLNDSSQAERGHVRTIYVHEFYSPGNLGNDIAVLELARAA 135 (413)
T ss_pred eEeccceecceEEeeehhhccCCCCccccceEEEecccccccccCcceEEEeeecccccccccCcceeecccccc
Confidence 468888888789999999998654 2223221 11 233344444432 35799999997643
No 80
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=96.42 E-value=0.0069 Score=64.84 Aligned_cols=63 Identities=17% Similarity=0.076 Sum_probs=57.1
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCC-CCeEEEEEeCCeEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCD-DEFLKFDLEYDQVVV 583 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~-~~~~~l~~~r~~~~~ 583 (612)
..|+++..|.+++++.++|++.||+|+++||+++.+..++...+..+. +..+.+++.|+++..
T Consensus 269 ~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~l~~~v~~~~~g~~v~~~~~r~g~~~ 332 (347)
T COG0265 269 AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDLVAAVASNRPGDEVALKLLRGGKER 332 (347)
T ss_pred CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHHHHHHHhccCCCCEEEEEEEECCEEE
Confidence 567999999999999999999999999999999999999999998865 678999998885544
No 81
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=96.33 E-value=0.008 Score=51.18 Aligned_cols=60 Identities=12% Similarity=0.060 Sum_probs=42.2
Q ss_pred CCceEEEeeecc--------cccccc--cccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEEeCCe
Q 007213 521 FSFPWFCKVLVA--------DINIGY--EEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDLEYDQ 580 (612)
Q Consensus 521 ~~~v~v~~v~~~--------~~~~~~--g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~~r~~ 580 (612)
..+..|.+++.+ +|-... ..+.||.|++|||+++..-.++..+|.+..++.+.|++.+..
T Consensus 11 ~~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~~~lL~~~agk~V~Ltv~~~~ 80 (88)
T PF14685_consen 11 NGGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANPYRLLEGKAGKQVLLTVNRKP 80 (88)
T ss_dssp TTEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-HHHHHHTTTTSEEEEEEE-ST
T ss_pred CCEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCHHHHhcccCCCEEEEEEecCC
Confidence 355778888765 333333 456999999999999999999999999999999999997753
No 82
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=96.27 E-value=0.0067 Score=62.29 Aligned_cols=49 Identities=4% Similarity=-0.029 Sum_probs=43.6
Q ss_pred cccccccccceeEeeCCeecCCHHHHHHHHHhCCCC-eEEEEEeCCeEEE
Q 007213 535 NIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDE-FLKFDLEYDQVVV 583 (612)
Q Consensus 535 ~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~-~~~l~~~r~~~~~ 583 (612)
-..+|+++||++++|||.++.+.++..+++++..+. .++|+++|||+.+
T Consensus 220 F~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~~~tei~ltVeRdGq~~ 269 (276)
T PRK09681 220 FDASGFKEGDIAIALNQQDFTDPRAMIALMRQLPSMDSIQLTVLRKGARH 269 (276)
T ss_pred HHHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhccCCeEEEEEEECCEEE
Confidence 367899999999999999999999999999986554 7999999998865
No 83
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=96.26 E-value=0.0034 Score=53.64 Aligned_cols=34 Identities=32% Similarity=0.519 Sum_probs=31.3
Q ss_pred CCccEEEEecCCCcccC-CCCCCCEEEEECCEEeC
Q 007213 352 QKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIA 385 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~ 385 (612)
..|++|++|..||||+. ||+.+|.|+.+||...+
T Consensus 58 D~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfT 92 (124)
T KOG3553|consen 58 DKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFT 92 (124)
T ss_pred CccEEEEEeccCChhhhhcceecceEEEecCceeE
Confidence 46999999999999999 99999999999997654
No 84
>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=95.93 E-value=0.077 Score=59.90 Aligned_cols=117 Identities=19% Similarity=0.275 Sum_probs=73.7
Q ss_pred CCCeEEEEecccc-----ccCCe------eeeEcCCC--------CCCCCeEEEEEeCCCCCceeEEEEEEeceeeeccc
Q 007213 195 ECDIAMLTVEDDE-----FWEGV------LPVEFGEL--------PALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYV 255 (612)
Q Consensus 195 ~~DLAlLkv~~~~-----~~~~l------~pl~l~~~--------~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~ 255 (612)
-.|+|||+++... +.+++ +.+.+.+. ...|..|+=+|.-.|+ |.|+|.++....+.
T Consensus 542 LsD~AIIkV~~~~~~~N~LGddi~f~~~dP~l~f~NlyV~~~~~~~~~G~~VfK~GrTTgy-----T~G~lNg~klvyw~ 616 (695)
T PF08192_consen 542 LSDWAIIKVNKERKCQNYLGDDIQFNEPDPTLMFQNLYVREVVSNLVPGMEVFKVGRTTGY-----TTGILNGIKLVYWA 616 (695)
T ss_pred ccceEEEEeCCCceecCCCCccccccCCCccccccccchhhhhhccCCCCeEEEecccCCc-----cceEecceEEEEec
Confidence 3599999998643 22222 22333321 1237899999988764 45667666544343
Q ss_pred CCcee-eeEEEEc----cCCCCCCCCCeEecCCC------eEEEEEecccCCCccceeecccChhhHHHHHHHH
Q 007213 256 HGSTE-LLGLQID----AAINSGNSGGPAFNDKG------KCVGIAFQSLKHEDVENIGYVIPTPVIMHFIQDY 318 (612)
Q Consensus 256 ~~~~~-~~~i~~d----a~i~~G~SGGPlvn~~G------~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l~~l 318 (612)
.+... .+++... .=...|+||+-|++.-+ .|+||.++.- .....+|++.|+..|..-|++.
T Consensus 617 dG~i~s~efvV~s~~~~~Fa~~GDSGS~VLtk~~d~~~gLgvvGMlhsyd--ge~kqfglftPi~~il~rl~~v 688 (695)
T PF08192_consen 617 DGKIQSSEFVVSSDNNPAFASGGDSGSWVLTKLEDNNKGLGVVGMLHSYD--GEQKQFGLFTPINEILDRLEEV 688 (695)
T ss_pred CCCeEEEEEEEecCCCccccCCCCcccEEEecccccccCceeeEEeeecC--CccceeeccCcHHHHHHHHHHh
Confidence 33322 3444443 22346999999998744 4999998843 2456889999999887776654
No 85
>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=95.87 E-value=0.0091 Score=69.12 Aligned_cols=56 Identities=25% Similarity=0.365 Sum_probs=34.4
Q ss_pred EEEEccCCCCCCCCCeEecCCCeEEEEEecccCCC--------ccceeecccChhhHHHHHHHH
Q 007213 263 GLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHE--------DVENIGYVIPTPVIMHFIQDY 318 (612)
Q Consensus 263 ~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~--------~~~~~~~aIPi~~i~~~l~~l 318 (612)
++.++..+..||||+|++|.+|++||+++-+-..+ ...+-+..|-+..|..+|+++
T Consensus 623 ~FlstnDitGGNSGSPvlN~~GeLVGl~FDgn~Esl~~D~~fdp~~~R~I~VDiRyvL~~ldkv 686 (698)
T PF10459_consen 623 NFLSTNDITGGNSGSPVLNAKGELVGLAFDGNWESLSGDIAFDPELNRTIHVDIRYVLWALDKV 686 (698)
T ss_pred EEEeccCcCCCCCCCccCCCCceEEEEeecCchhhcccccccccccceeEEEEHHHHHHHHHHH
Confidence 35566677788888888888888888877532211 111223445556666666655
No 86
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=95.82 E-value=0.016 Score=63.31 Aligned_cols=58 Identities=3% Similarity=-0.016 Sum_probs=52.3
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEeCC
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLEYD 579 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~r~ 579 (612)
.++.|.++.+++||.++|+++||+|++|||+++.+. ++.++.|+..++..++|++.|.
T Consensus 112 ~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~~~av~~irG~~Gt~V~L~i~r~ 171 (406)
T COG0793 112 GGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRA 171 (406)
T ss_pred CCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCHHHHHHHhCCCCCCeEEEEEEEc
Confidence 668889999999999999999999999999999977 6788888888888999999884
No 87
>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=95.28 E-value=0.026 Score=52.26 Aligned_cols=56 Identities=11% Similarity=0.023 Sum_probs=46.3
Q ss_pred CCceEEEeeecccccccccccc-cceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIV-NTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~-gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~ 576 (612)
..+.-|.+|.++|||..+|+++ .|.|+.+|+....+.++|.+.++++.++.+.|.+
T Consensus 42 ~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~l~~~v~~~~~~~l~L~V 98 (138)
T PF04495_consen 42 EEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDDLFELVEANENKPLQLYV 98 (138)
T ss_dssp CCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCHHHHHHHHTTTS-EEEEE
T ss_pred cceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHHHHHHHHHcCCCcEEEEE
Confidence 4567889999999999999998 6999999999999999999999999999999887
No 88
>PRK11186 carboxy-terminal protease; Provisional
Probab=95.02 E-value=0.033 Score=64.30 Aligned_cols=57 Identities=7% Similarity=0.241 Sum_probs=48.7
Q ss_pred CceEEEeeecccccccc-cccccceeEeeC--CeecCC-----HHHHHHHHHhCCCCeEEEEEeC
Q 007213 522 SFPWFCKVLVADINIGY-EEIVNTQVLAFN--GNPVKN-----LKSLANMVENCDDEFLKFDLEY 578 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~-g~~~gd~I~~vn--g~~v~~-----~~~l~~~l~~~~~~~~~l~~~r 578 (612)
..++|.+|.+++||..+ |+++||+|++|| |+++.+ +++++++|+..+|..|+|++.|
T Consensus 255 ~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~vv~lirG~~Gt~V~LtV~r 319 (667)
T PRK11186 255 DYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALIKGPKGSKVRLEILP 319 (667)
T ss_pred CeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHHHHHhcCCCCCEEEEEEEe
Confidence 45888999999999997 999999999999 555443 5689999998888899999987
No 89
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=94.96 E-value=0.02 Score=49.09 Aligned_cols=48 Identities=13% Similarity=0.005 Sum_probs=39.1
Q ss_pred cCCCCceEEEeeecccccccccccccceeEeeCCeecC--CHHHHHHHHH
Q 007213 518 SLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVK--NLKSLANMVE 565 (612)
Q Consensus 518 ~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~--~~~~l~~~l~ 565 (612)
+.++.|++|++|..++||..+||+.+|.|+.+||.... +-+..++.|.
T Consensus 55 ~ytD~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i~ 104 (124)
T KOG3553|consen 55 SYTDKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRIT 104 (124)
T ss_pred CcCCccEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHhh
Confidence 35589999999999999999999999999999998765 3344444444
No 90
>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=94.70 E-value=0.4 Score=48.07 Aligned_cols=99 Identities=20% Similarity=0.302 Sum_probs=72.2
Q ss_pred CCCCCccccc--CCcceEEEEEEEeCCEEEecccccCCC----CeEEEEEcCCCcEEE------EEEEEec-----cCCC
Q 007213 135 PNFSLPWQRK--RQYSSSSSGFAIGGRRVLTNAHSVEHY----TQVKLKKRGSDTKYL------ATVLAIG-----TECD 197 (612)
Q Consensus 135 ~~~~~p~~~~--~~~~~~GSGfiI~~g~ILT~aHvV~~~----~~i~V~~~~~g~~~~------a~vv~~d-----~~~D 197 (612)
..+.+||-.. ..+...|+|++|+..|||++..|+.+. .++.+.+ +.++++. -++..+| +..+
T Consensus 12 e~y~WPWlA~IYvdG~~~CsgvLlD~~WlLvsssCl~~I~L~~~Yvsall-G~~Kt~~~v~Gp~EQI~rVD~~~~V~~S~ 90 (267)
T PF09342_consen 12 EDYHWPWLADIYVDGRYWCSGVLLDPHWLLVSSSCLRGISLSHHYVSALL-GGGKTYLSVDGPHEQISRVDCFKDVPESN 90 (267)
T ss_pred ccccCcceeeEEEcCeEEEEEEEeccceEEEeccccCCcccccceEEEEe-cCcceecccCCChheEEEeeeeeeccccc
Confidence 4567898753 456679999999999999999999863 5688888 3666543 2454444 5789
Q ss_pred eEEEEeccc-cccCCeeeeEcCC--C-CCCCCeEEEEEeCC
Q 007213 198 IAMLTVEDD-EFWEGVLPVEFGE--L-PALQDAVTVVGYPI 234 (612)
Q Consensus 198 LAlLkv~~~-~~~~~l~pl~l~~--~-~~~G~~V~aiG~p~ 234 (612)
++||.++.+ .|...+.|+-+.+ . ....+.++++|...
T Consensus 91 v~LLHL~~~~~fTr~VlP~flp~~~~~~~~~~~CVAVg~d~ 131 (267)
T PF09342_consen 91 VLLLHLEQPANFTRYVLPTFLPETSNENESDDECVAVGHDD 131 (267)
T ss_pred eeeeeecCcccceeeecccccccccCCCCCCCceEEEEccc
Confidence 999999765 4556778877765 1 22356899999887
No 91
>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=94.40 E-value=0.031 Score=55.06 Aligned_cols=135 Identities=21% Similarity=0.183 Sum_probs=48.8
Q ss_pred CCEEEecccccCCCCeEEEEEcCCCcEEE---EEEEEeccCCCeEEEEecccccc--CCeeeeEcCCCCCCCCeEEEEEe
Q 007213 158 GRRVLTNAHSVEHYTQVKLKKRGSDTKYL---ATVLAIGTECDIAMLTVEDDEFW--EGVLPVEFGELPALQDAVTVVGY 232 (612)
Q Consensus 158 ~g~ILT~aHvV~~~~~i~V~~~~~g~~~~---a~vv~~d~~~DLAlLkv~~~~~~--~~l~pl~l~~~~~~G~~V~aiG~ 232 (612)
...++|++||......+.... +|+.++ -+.+..+...|++||+.... ++ -.++.+.|.....+ .-|-
T Consensus 41 ~~~L~ta~Hv~~~~~~~~~~k--~g~kipl~~f~~~~~~~~~D~~il~~P~n-~~s~Lg~k~~~~~~~~~~-----~~g~ 112 (203)
T PF02122_consen 41 EDALLTARHVWSRPSKVTSLK--TGEKIPLAEFTDLLESRIADFVILRGPPN-WESKLGVKAAQLSQNSQL-----AKGP 112 (203)
T ss_dssp -EEEEE-HHHHTSSS---EEE--TTEEEE--S-EEEEE-TTT-EEEEE--HH-HHHHHT-----B----SE-----EEEE
T ss_pred ccceecccccCCCccceeEcC--CCCcccchhChhhhCCCccCEEEEecCcC-HHHHhCcccccccchhhh-----CCCC
Confidence 459999999999866555444 555544 35556788999999999842 21 13444444322111 1111
Q ss_pred CCCCCc----eeEEEEEEeceeeecccCCceeeeEEEEccCCCCCCCCCeEecCCCeEEEEEecccCCCccceeecccCh
Q 007213 233 PIGGDT----ISVTSGVVSRIEILSYVHGSTELLGLQIDAAINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPT 308 (612)
Q Consensus 233 p~g~~~----~sv~~GiIs~~~~~~~~~~~~~~~~i~~da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi 308 (612)
-.-+.. .......|... .+ .+..+-+...+|.||.|+++.. +++|+..+.......++.++.-|+
T Consensus 113 ~~~y~~~~~~~~~~sa~i~g~------~~----~~~~vls~T~~G~SGtp~y~g~-~vvGvH~G~~~~~~~~n~n~~spi 181 (203)
T PF02122_consen 113 VSFYGFSSGEWPCSSAKIPGT------EG----KFASVLSNTSPGWSGTPYYSGK-NVVGVHTGSPSGSNRENNNRMSPI 181 (203)
T ss_dssp SSTTSEEEEEEEEEE-S----------ST----TEEEE-----TT-TT-EEE-SS--EEEEEEEE---------------
T ss_pred eeeeeecCCCceeccCccccc------cC----cCCceEcCCCCCCCCCCeEECC-CceEeecCcccccccccccccccc
Confidence 000000 01111111111 11 2456666788999999999987 999999985332344566665555
Q ss_pred hhH
Q 007213 309 PVI 311 (612)
Q Consensus 309 ~~i 311 (612)
.-+
T Consensus 182 p~~ 184 (203)
T PF02122_consen 182 PPI 184 (203)
T ss_dssp ---
T ss_pred ccc
Confidence 433
No 92
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=94.40 E-value=0.086 Score=54.58 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=49.2
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhC-CCCeEEEEEeC
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENC-DDEFLKFDLEY 578 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~-~~~~~~l~~~r 578 (612)
..||++..|..++++.+- +..||.|.+|||+++.+.++|.+++++. .++.++|+++|
T Consensus 129 y~gvyv~~v~~~~~~~gk-l~~gD~i~avdg~~f~s~~e~i~~v~~~k~Gd~VtI~~~r 186 (342)
T COG3480 129 YAGVYVLSVIDNSPFKGK-LEAGDTIIAVDGEPFTSSDELIDYVSSKKPGDEVTIDYER 186 (342)
T ss_pred EeeEEEEEccCCcchhce-eccCCeEEeeCCeecCCHHHHHHHHhccCCCCeEEEEEEe
Confidence 568888888888877543 7899999999999999999999999984 56799999986
No 93
>PF00947 Pico_P2A: Picornavirus core protein 2A; InterPro: IPR000081 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 domain defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies 3CA and 3CB. 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 3C 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: 0008233 peptidase activity, 0006508 proteolysis, 0016032 viral reproduction; PDB: 2HRV_B 1Z8R_A.
Probab=94.35 E-value=0.18 Score=45.43 Aligned_cols=107 Identities=13% Similarity=-0.010 Sum_probs=54.3
Q ss_pred EEEeccCCCeEEEEeccccccCCeeeeEcCCCCCCCCeEEEEEeCCCCCceeEEEEEEeceeeecccCCceeeeEEEEcc
Q 007213 189 VLAIGTECDIAMLTVEDDEFWEGVLPVEFGELPALQDAVTVVGYPIGGDTISVTSGVVSRIEILSYVHGSTELLGLQIDA 268 (612)
Q Consensus 189 vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~~~G~~V~aiG~p~g~~~~sv~~GiIs~~~~~~~~~~~~~~~~i~~da 268 (612)
.+..+...||++++.+... ...+...+-. ..|+.-=+-.-.-..+++.-..-.++...+.+......++....
T Consensus 13 ~v~~~~~rDL~V~~t~a~G----~D~I~~C~Ct---~GvYyCks~~k~yPV~~~~~~~~~i~~s~YYP~h~Q~~~l~g~G 85 (127)
T PF00947_consen 13 TVWEDYTRDLLVDRTTAHG----CDTIPRCDCT---TGVYYCKSKNKYYPVTVTGPTWYWIEESEYYPKHYQYNLLIGEG 85 (127)
T ss_dssp CCEEECCCTEEEEEECCEE----E--BB----S---EEEEEETTTTCEEEEEEEEECEEEE-SBTTB-SEEEECEEEEE-
T ss_pred ceehhhCCCEEEEecCCCC----CCcccCccCC---CCEEEeeECCeEeeEEEeccceEEECCccCchhheecCceeecc
Confidence 3456778999999997652 2223222210 01111100000000112222223444555555555566777788
Q ss_pred CCCCCCCCCeEecCCCeEEEEEecccCCCccceeecccCh
Q 007213 269 AINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPT 308 (612)
Q Consensus 269 ~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi 308 (612)
...||+-||+|+... -||||+++ ++++...+..+
T Consensus 86 p~~PGdCGg~L~C~H-GViGi~Ta-----gg~g~VaF~di 119 (127)
T PF00947_consen 86 PAEPGDCGGILRCKH-GVIGIVTA-----GGEGHVAFADI 119 (127)
T ss_dssp SSSTT-TCSEEEETT-CEEEEEEE-----EETTEEEEEEC
T ss_pred cCCCCCCCceeEeCC-CeEEEEEe-----CCCceEEEEec
Confidence 999999999999764 49999998 44454444433
No 94
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=94.18 E-value=0.11 Score=58.33 Aligned_cols=56 Identities=9% Similarity=0.073 Sum_probs=49.1
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCeEEEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~~~l~~ 576 (612)
.+.|-|+.|++.++|.++.+.+||++++|||.||.+..+..+.++...+....+..
T Consensus 397 ~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~~~~~~s~~~~~~~l~~ 452 (1051)
T KOG3532|consen 397 NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQATRFLQSTTGDLTVLVE 452 (1051)
T ss_pred ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHHHHHHHhcccceEEEEe
Confidence 45689999999999999999999999999999999999999999987765444443
No 95
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=93.27 E-value=0.18 Score=46.58 Aligned_cols=67 Identities=13% Similarity=0.110 Sum_probs=48.5
Q ss_pred CCceEEEeeecccccccc-cccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEEeCCeEEEEechhh
Q 007213 521 FSFPWFCKVLVADINIGY-EEIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDLEYDQVVVLRTKTS 589 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~-g~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~~r~~~~~l~~~~~ 589 (612)
.+.++|+++.|++.+.+- |++.||++++|||..|. .-+-.+++|++.. +.+++.+ |=-..+|+..++
T Consensus 114 nspiyisriipggvadrhgglkrgdqllsvngvsvege~hekavellkaa~-gsvklvv-rytpkvleeme~ 183 (207)
T KOG3550|consen 114 NSPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEHHEKAVELLKAAV-GSVKLVV-RYTPKVLEEMEA 183 (207)
T ss_pred CCceEEEeecCCccccccCcccccceeEeecceeecchhhHHHHHHHHHhc-CcEEEEE-ecChHHHHHHHH
Confidence 567999999999988765 58999999999999997 4455677888765 5566655 333344444433
No 96
>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=93.22 E-value=0.096 Score=47.99 Aligned_cols=30 Identities=37% Similarity=0.647 Sum_probs=21.8
Q ss_pred EEccCCCCCCCCCeEecCCCeEEEEEeccc
Q 007213 265 QIDAAINSGNSGGPAFNDKGKCVGIAFQSL 294 (612)
Q Consensus 265 ~~da~i~~G~SGGPlvn~~G~VIGI~~~~~ 294 (612)
..+....+|.||+|+||.+|+||||....+
T Consensus 89 ~~~~d~~~GsSGSpi~n~~g~ivGlYg~g~ 118 (132)
T PF00949_consen 89 AIDLDFPKGSSGSPIFNQNGEIVGLYGNGV 118 (132)
T ss_dssp EE---S-TTGTT-EEEETTSCEEEEEEEEE
T ss_pred eeecccCCCCCCCceEcCCCcEEEEEccce
Confidence 334457899999999999999999987755
No 97
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=93.12 E-value=0.13 Score=57.46 Aligned_cols=104 Identities=20% Similarity=0.237 Sum_probs=72.2
Q ss_pred CCCCCeEe-----cCCCeEEEEEecccCCCccceeecccChhhHHHHHHHHHHcCccc--CCCcCCeEEeeecChhhHHh
Q 007213 273 GNSGGPAF-----NDKGKCVGIAFQSLKHEDVENIGYVIPTPVIMHFIQDYEKNGAYT--GFPLLGVEWQKMENPDLRVA 345 (612)
Q Consensus 273 G~SGGPlv-----n~~G~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l~~l~~~g~v~--~~~~lGi~~~~~~~~~~~~~ 345 (612)
-++|||.- |.-.+++.|+-..+ ..+|.++...+++.+++.-.|. -.+..-+.-..+.-|+....
T Consensus 680 mm~~GpAarsgkLnIGDQiiaING~SL---------VGLPLstcQs~Ik~~KnQT~VkltiV~cpPV~~V~I~RPd~kyQ 750 (829)
T KOG3605|consen 680 MMHGGPAARSGKLNIGDQIMSINGTSL---------VGLPLSTCQSIIKGLKNQTAVKLNIVSCPPVTTVLIRRPDLRYQ 750 (829)
T ss_pred cccCChhhhcCCccccceeEeecCcee---------ccccHHHHHHHHhcccccceEEEEEecCCCceEEEeecccchhh
Confidence 45667663 33335555543322 3699999999999987655442 01222344344446888889
Q ss_pred hhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCC
Q 007213 346 MSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIAND 387 (612)
Q Consensus 346 lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~ 387 (612)
||+.- ++|+ |-....|+.|+. |++.|-+|+.|||+.|--.
T Consensus 751 LGFSV-QNGi-ICSLlRGGIAERGGVRVGHRIIEINgQSVVA~ 791 (829)
T KOG3605|consen 751 LGFSV-QNGI-ICSLLRGGIAERGGVRVGHRIIEINGQSVVAT 791 (829)
T ss_pred cccee-eCcE-eehhhcccchhccCceeeeeEEEECCceEEec
Confidence 99987 7787 457788999999 9999999999999987643
No 98
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=93.07 E-value=0.17 Score=49.45 Aligned_cols=62 Identities=18% Similarity=0.211 Sum_probs=50.7
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecCC---HHHHHHHHHhCCCCeEEEEEeCCeEEE
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKN---LKSLANMVENCDDEFLKFDLEYDQVVV 583 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~---~~~l~~~l~~~~~~~~~l~~~r~~~~~ 583 (612)
-+++|++|.+++||..+|++.||.|+++....--| +..+...++++.++.+.+++.|.++.+
T Consensus 139 ~Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~e~~~v~v~v~R~g~~v 203 (231)
T KOG3129|consen 139 PFAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQKV 203 (231)
T ss_pred ceEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCCCEE
Confidence 36899999999999999999999999887665544 556667777788889999998876554
No 99
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=92.00 E-value=0.19 Score=46.30 Aligned_cols=36 Identities=25% Similarity=0.448 Sum_probs=32.3
Q ss_pred CCccEEEEecCCCcccC--CCCCCCEEEEECCEEeCCC
Q 007213 352 QKGVRIRRVDPTAPESE--VLKPSDIILSFDGIDIAND 387 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~ 387 (612)
..-++|.+|.||+.|.. ||+-||.+++|||..|..-
T Consensus 114 nspiyisriipggvadrhgglkrgdqllsvngvsvege 151 (207)
T KOG3550|consen 114 NSPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGE 151 (207)
T ss_pred CCceEEEeecCCccccccCcccccceeEeecceeecch
Confidence 34689999999999998 8999999999999998764
No 100
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=91.77 E-value=0.2 Score=58.16 Aligned_cols=55 Identities=24% Similarity=0.306 Sum_probs=46.1
Q ss_pred CceEEEeeecccccccccccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEEeC
Q 007213 522 SFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDLEY 578 (612)
Q Consensus 522 ~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~~r 578 (612)
+.|+|-.|.++++..| .|++||+|++|||.+|+ .|+..+++|+.|+ ..+.|++-+
T Consensus 75 rPviVr~VT~GGps~G-KL~PGDQIl~vN~Epv~daprervIdlvRace-~sv~ltV~q 131 (1298)
T KOG3552|consen 75 RPVIVRFVTEGGPSIG-KLQPGDQILAVNGEPVKDAPRERVIDLVRACE-SSVNLTVCQ 131 (1298)
T ss_pred CceEEEEecCCCCccc-cccCCCeEEEecCcccccccHHHHHHHHHHHh-hhcceEEec
Confidence 4588889999999875 48999999999999998 5899999999987 555666644
No 101
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=91.59 E-value=0.18 Score=56.64 Aligned_cols=38 Identities=16% Similarity=0.486 Sum_probs=33.9
Q ss_pred CccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCC
Q 007213 353 KGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTV 390 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v 390 (612)
.-+.|-.|.+++||.+ .|++||++++|||.||.+.+++
T Consensus 398 ~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~ 436 (1051)
T KOG3532|consen 398 RAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQA 436 (1051)
T ss_pred eEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHH
Confidence 3566788999999999 9999999999999999997763
No 102
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=90.45 E-value=0.28 Score=57.01 Aligned_cols=57 Identities=28% Similarity=0.359 Sum_probs=42.6
Q ss_pred CccEEEEecCCCcccCCCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEE
Q 007213 353 KGVRIRRVDPTAPESEVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLR 419 (612)
Q Consensus 353 ~G~~V~~V~p~spA~~GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R 419 (612)
.-++|..|.+|+|+...|++||.|++|||++|.+.-- +| ..++++.. .+.|.|+|.+
T Consensus 75 rPviVr~VT~GGps~GKL~PGDQIl~vN~Epv~dapr------er--vIdlvRac--e~sv~ltV~q 131 (1298)
T KOG3552|consen 75 RPVIVRFVTEGGPSIGKLQPGDQILAVNGEPVKDAPR------ER--VIDLVRAC--ESSVNLTVCQ 131 (1298)
T ss_pred CceEEEEecCCCCccccccCCCeEEEecCcccccccH------HH--HHHHHHHH--hhhcceEEec
Confidence 3578889999999988999999999999999986321 11 22455543 3567888876
No 103
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=88.33 E-value=0.8 Score=49.33 Aligned_cols=57 Identities=28% Similarity=0.427 Sum_probs=44.0
Q ss_pred EEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCE---EEEEEEE-CCEEE
Q 007213 357 IRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDS---AAVKVLR-DSKIL 424 (612)
Q Consensus 357 V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~---v~l~V~R-~G~~~ 424 (612)
+..+..+|+|+. |+++||.|+++|++++.+|.++. ..+. ...+.. +.+.+.| ++...
T Consensus 133 ~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~----------~~~~-~~~~~~~~~~~i~~~~~~~~~~ 194 (375)
T COG0750 133 VGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVR----------RLLV-AAAGDVFNLLTILVIRLDGEAH 194 (375)
T ss_pred eeecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHH----------HHHH-hccCCcccceEEEEEeccceee
Confidence 347889999999 99999999999999999998853 2222 234444 7888899 77664
No 104
>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=88.26 E-value=0.7 Score=42.06 Aligned_cols=29 Identities=28% Similarity=0.542 Sum_probs=24.3
Q ss_pred EccCCCCCCCCCeEecCCCeEEEEEeccc
Q 007213 266 IDAAINSGNSGGPAFNDKGKCVGIAFQSL 294 (612)
Q Consensus 266 ~da~i~~G~SGGPlvn~~G~VIGI~~~~~ 294 (612)
-.....+|+||-|++|..|+||||+.++.
T Consensus 99 p~g~g~~GDSGRpi~DNsGrVVaIVLGG~ 127 (158)
T PF00944_consen 99 PTGVGKPGDSGRPIFDNSGRVVAIVLGGA 127 (158)
T ss_dssp ETTS-STTSTTEEEESTTSBEEEEEEEEE
T ss_pred ccCCCCCCCCCCccCcCCCCEEEEEecCC
Confidence 35567799999999999999999999854
No 105
>PF05580 Peptidase_S55: SpoIVB peptidase S55; InterPro: IPR008763 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S55 (SpoIVB peptidase family, clan PA(S)). The protein SpoIVB plays a key role in signalling in the final sigma-K checkpoint of Bacillus subtilis [, ].
Probab=88.21 E-value=0.28 Score=48.45 Aligned_cols=41 Identities=27% Similarity=0.377 Sum_probs=32.3
Q ss_pred ccCCCCCCCCCeEecCCCeEEEEEecccCCCccceeecccChhh
Q 007213 267 DAAINSGNSGGPAFNDKGKCVGIAFQSLKHEDVENIGYVIPTPV 310 (612)
Q Consensus 267 da~i~~G~SGGPlvn~~G~VIGI~~~~~~~~~~~~~~~aIPi~~ 310 (612)
...+-.|+||+|++ .+|++||=++..+. +....+|.++++.
T Consensus 174 TGGIvqGMSGSPI~-qdGKLiGAVthvf~--~dp~~Gygi~ie~ 214 (218)
T PF05580_consen 174 TGGIVQGMSGSPII-QDGKLIGAVTHVFV--NDPTKGYGIFIEW 214 (218)
T ss_pred hCCEEecccCCCEE-ECCEEEEEEEEEEe--cCCCceeeecHHH
Confidence 34677899999999 58999999888775 4456777888754
No 106
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=87.94 E-value=0.28 Score=55.13 Aligned_cols=39 Identities=26% Similarity=0.326 Sum_probs=34.1
Q ss_pred cCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCC
Q 007213 350 ADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDG 388 (612)
Q Consensus 350 ~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~ 388 (612)
+...|++|.+|.|++.|+. ||+-||.|+.|||+...+..
T Consensus 559 EkGfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis 598 (1283)
T KOG3542|consen 559 EKGFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENIS 598 (1283)
T ss_pred cccceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhh
Confidence 3356899999999999999 99999999999998777643
No 107
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=87.90 E-value=0.66 Score=49.42 Aligned_cols=47 Identities=13% Similarity=0.066 Sum_probs=42.6
Q ss_pred CCceEEEeeecccccccc-cccccceeEeeCCeecCCHHHHHHHHHhC
Q 007213 521 FSFPWFCKVLVADINIGY-EEIVNTQVLAFNGNPVKNLKSLANMVENC 567 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~-g~~~gd~I~~vng~~v~~~~~l~~~l~~~ 567 (612)
..+|.|++|-..++..|+ |+.+||+|+++||-||.+.+|+.+.++..
T Consensus 219 g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~dW~ecl~ts 266 (484)
T KOG2921|consen 219 GEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSDWLECLATS 266 (484)
T ss_pred CceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHHHHHHHHhh
Confidence 678999999988888766 79999999999999999999999999874
No 108
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=87.41 E-value=0.8 Score=45.75 Aligned_cols=52 Identities=6% Similarity=-0.031 Sum_probs=43.7
Q ss_pred cccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCC-eEEEEEeCCeEE
Q 007213 531 VADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDE-FLKFDLEYDQVV 582 (612)
Q Consensus 531 ~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~-~~~l~~~r~~~~ 582 (612)
..+.-...|++.||+.+++|+....+.++...+++..... .+.+++.|+|+.
T Consensus 216 d~slF~~sglq~GDIavaiNnldltdp~~m~~llq~l~~m~s~qlTv~R~G~r 268 (275)
T COG3031 216 DGSLFYKSGLQRGDIAVAINNLDLTDPEDMFRLLQMLRNMPSLQLTVIRRGKR 268 (275)
T ss_pred CcchhhhhcCCCcceEEEecCcccCCHHHHHHHHHhhhcCcceEEEEEecCcc
Confidence 3344566789999999999999999999999999986554 799999998764
No 109
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=87.39 E-value=0.63 Score=54.38 Aligned_cols=60 Identities=20% Similarity=0.299 Sum_probs=45.7
Q ss_pred CCccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEECC
Q 007213 352 QKGVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLRDS 421 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R~G 421 (612)
.-|++|..|.+|++|+. | |+.||.+++|||+.+-...+=+ ..+++ ...|..|.|+|...|
T Consensus 959 klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQEr--------AA~lm--trtg~vV~leVaKqg 1020 (1629)
T KOG1892|consen 959 KLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQER--------AARLM--TRTGNVVHLEVAKQG 1020 (1629)
T ss_pred ccceEEEEeccCCccccccccccCceeeeecCcccccccHHH--------HHHHH--hccCCeEEEehhhhh
Confidence 45899999999999988 4 9999999999999887665421 11233 346788889887655
No 110
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=86.97 E-value=0.6 Score=52.56 Aligned_cols=59 Identities=15% Similarity=0.144 Sum_probs=45.0
Q ss_pred cCCCCceEEEeeecccccccccccccceeEeeCCeecCCHHHH--HHHHHhCCCCeEEEEEeC
Q 007213 518 SLTFSFPWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSL--ANMVENCDDEFLKFDLEY 578 (612)
Q Consensus 518 ~~~~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l--~~~l~~~~~~~~~l~~~r 578 (612)
....-+++|.+|.+++.|...|++.||+|++||||..+++..- .++|.+ +-.++|++.-
T Consensus 558 sEkGfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrn--nthLtltvKt 618 (1283)
T KOG3542|consen 558 SEKGFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRN--NTHLTLTVKT 618 (1283)
T ss_pred ccccceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcC--CceEEEEEec
Confidence 3334579999999999999999999999999999999877543 334443 3456676643
No 111
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=86.68 E-value=0.49 Score=52.34 Aligned_cols=32 Identities=13% Similarity=-0.037 Sum_probs=29.9
Q ss_pred CCceEEEeeecccccccccccccceeEeeCCe
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAFNGN 552 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~vng~ 552 (612)
.+..+|+.|.+++||.++|+.+||.|++|||.
T Consensus 461 ~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~ 492 (558)
T COG3975 461 GGHEKITFVFPGGPAYKAGLSPGDKIVAINGI 492 (558)
T ss_pred CCeeEEEecCCCChhHhccCCCccEEEEEcCc
Confidence 45578999999999999999999999999999
No 112
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=86.55 E-value=0.45 Score=50.62 Aligned_cols=38 Identities=26% Similarity=0.378 Sum_probs=35.1
Q ss_pred CCccEEEEecCCCcccC--CCCCCCEEEEECCEEeCCCCC
Q 007213 352 QKGVRIRRVDPTAPESE--VLKPSDIILSFDGIDIANDGT 389 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~~ 389 (612)
..|+.|.+|...||+.. ||++||+|+++||-+|.+.+|
T Consensus 219 g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~d 258 (484)
T KOG2921|consen 219 GEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSD 258 (484)
T ss_pred CceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHH
Confidence 56899999999999987 999999999999999998776
No 113
>PF02907 Peptidase_S29: Hepatitis C virus NS3 protease; InterPro: IPR004109 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 the Hepatitis C virus NS3 protein as a serine protease which belongs to MEROPS peptidase family S29 (hepacivirin family, clan PA(S)), which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. The NS2 proteinase (IPR002518 from INTERPRO), a zinc-dependent enzyme, performs a single proteolytic cut to release the N terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4. It has been suggested that the NS3 serine protease of hepatitus C is involved in cell transformation and that the ability to transform requires an active enzyme [].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis, 0019087 transformation of host cell by virus; PDB: 2QV1_B 3LOX_C 2OBQ_C 2OC1_C 2OC0_A 3LON_A 3KNX_A 2O8M_A 2OBO_A 2OC8_A ....
Probab=85.57 E-value=0.79 Score=41.79 Aligned_cols=40 Identities=28% Similarity=0.545 Sum_probs=24.7
Q ss_pred CCCCCCCeEecCCCeEEEEEecccCCCc-cceeecccChhhH
Q 007213 271 NSGNSGGPAFNDKGKCVGIAFQSLKHED-VENIGYVIPTPVI 311 (612)
Q Consensus 271 ~~G~SGGPlvn~~G~VIGI~~~~~~~~~-~~~~~~aIPi~~i 311 (612)
-.|+||||++..+|.+|||..+..-..+ ...+-| +|+..+
T Consensus 106 lkGSSGgPiLC~~GH~vG~f~aa~~trgvak~i~f-~P~e~l 146 (148)
T PF02907_consen 106 LKGSSGGPILCPSGHAVGMFRAAVCTRGVAKAIDF-IPVETL 146 (148)
T ss_dssp HTT-TT-EEEETTSEEEEEEEEEEEETTEEEEEEE-EEHHHH
T ss_pred EecCCCCcccCCCCCEEEEEEEEEEcCCceeeEEE-Eeeeec
Confidence 3699999999999999999766432112 223333 476543
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=84.20 E-value=0.51 Score=54.98 Aligned_cols=21 Identities=33% Similarity=0.259 Sum_probs=19.1
Q ss_pred EEEEEEEe-CCEEEecccccCC
Q 007213 150 SSSGFAIG-GRRVLTNAHSVEH 170 (612)
Q Consensus 150 ~GSGfiI~-~g~ILT~aHvV~~ 170 (612)
.|||-+|+ +|+||||.||+.+
T Consensus 48 GCSgsfVS~~GLvlTNHHC~~~ 69 (698)
T PF10459_consen 48 GCSGSFVSPDGLVLTNHHCGYG 69 (698)
T ss_pred ceeEEEEcCCceEEecchhhhh
Confidence 59999999 8999999999864
No 115
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=82.35 E-value=2.1 Score=44.11 Aligned_cols=55 Identities=15% Similarity=0.236 Sum_probs=40.7
Q ss_pred ccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEE
Q 007213 354 GVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVL 418 (612)
Q Consensus 354 G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~ 418 (612)
-++|..|..++||++ | ++.||.|++|||..|....-+. ...++... -+.+.+++.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKve--------VAkmIQ~~--~~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVE--------VAKMIQVS--LNEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHH--------HHHHHHHh--ccceEEEeh
Confidence 468889999999999 5 9999999999999998765543 33455442 234666554
No 116
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=82.12 E-value=2.5 Score=45.53 Aligned_cols=58 Identities=10% Similarity=0.064 Sum_probs=49.0
Q ss_pred EEEeeecccccccccccccceeEeeCCeecCCHHHHHHHHHhCCCCe---EEEEEeC-CeEE
Q 007213 525 WFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLKSLANMVENCDDEF---LKFDLEY-DQVV 582 (612)
Q Consensus 525 ~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~~l~~~l~~~~~~~---~~l~~~r-~~~~ 582 (612)
++..+...+++..+|++.||.++++|++++.++++....+....+.. +.+.+.| ++..
T Consensus 132 ~~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~ 193 (375)
T COG0750 132 VVGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFNLLTILVIRLDGEA 193 (375)
T ss_pred eeeecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHHHHHHhccCCcccceEEEEEecccee
Confidence 34467788899999999999999999999999999999998877666 7888888 4444
No 117
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=82.01 E-value=2.3 Score=44.54 Aligned_cols=53 Identities=15% Similarity=0.127 Sum_probs=44.0
Q ss_pred ceEEEeeeccccccccc-ccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEE
Q 007213 523 FPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 523 ~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~ 576 (612)
.|+|+++..+.+|..-| +..||-|+.|||.-|. .-++.+++|++ .++.++|++
T Consensus 81 PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLRN-AGdeVtlTV 136 (505)
T KOG3549|consen 81 PVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILRN-AGDEVTLTV 136 (505)
T ss_pred cEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHHh-cCCEEEEEe
Confidence 48999999988887776 5799999999999997 56889999996 567777776
No 118
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=81.62 E-value=2.8 Score=43.14 Aligned_cols=55 Identities=16% Similarity=0.148 Sum_probs=45.5
Q ss_pred CCceEEEeeeccccccccc-ccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEE
Q 007213 521 FSFPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~ 576 (612)
+..++|-+|+...||..-| ++.||-|++|||..|+ +--++.++|+... ..++|.+
T Consensus 29 CPClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~-~eV~Ihy 86 (429)
T KOG3651|consen 29 CPCLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSL-NEVKIHY 86 (429)
T ss_pred CCeEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhc-cceEEEe
Confidence 5669999999999998887 6799999999999997 5667888998765 4556665
No 119
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=81.34 E-value=1.7 Score=47.65 Aligned_cols=37 Identities=16% Similarity=0.343 Sum_probs=31.4
Q ss_pred CCccEEEEecCCCcccC--CCCCCCEEEEECCEEeCCCC
Q 007213 352 QKGVRIRRVDPTAPESE--VLKPSDIILSFDGIDIANDG 388 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~ 388 (612)
..|++|+.|.+++.-+. -+.+||.||.||.....++.
T Consensus 276 DggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmS 314 (626)
T KOG3571|consen 276 DGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMS 314 (626)
T ss_pred CCceEEeeeccCceeeccCccCccceEEEeeecchhhcC
Confidence 46999999999887666 59999999999998777654
No 120
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=77.29 E-value=2.2 Score=43.29 Aligned_cols=56 Identities=21% Similarity=0.294 Sum_probs=41.1
Q ss_pred CCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCC
Q 007213 330 LGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIAND 387 (612)
Q Consensus 330 lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~ 387 (612)
||+....- +.--..-.||.. ..|+.|.+..||+-|+. | |-..|.|++|||.+|...
T Consensus 173 LGFYIRDG-~SVRVtp~Glek-vpGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGK 230 (358)
T KOG3606|consen 173 LGFYIRDG-TSVRVTPHGLEK-VPGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGK 230 (358)
T ss_pred ceEEEecC-ceEEeccccccc-cCceEEEeecCCccccccceeeecceeEEEcCEEeccc
Confidence 66655432 111122346655 67999999999999999 6 678999999999999754
No 121
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=76.40 E-value=3.9 Score=45.55 Aligned_cols=54 Identities=15% Similarity=0.211 Sum_probs=47.1
Q ss_pred ceEEEeeeccccccccc-ccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEEe
Q 007213 523 FPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDLE 577 (612)
Q Consensus 523 ~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~~ 577 (612)
-+++.+++.++.+.+-| ++.||.|.+|||..|. ++.++.+++.++. +.++|.+.
T Consensus 147 ~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~-G~itfkii 203 (542)
T KOG0609|consen 147 KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR-GSITFKII 203 (542)
T ss_pred ccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC-CcEEEEEc
Confidence 38999999999998888 5689999999999997 4799999999887 88888773
No 122
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=74.06 E-value=2.9 Score=50.26 Aligned_cols=35 Identities=20% Similarity=0.247 Sum_probs=30.8
Q ss_pred cEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCC
Q 007213 355 VRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGT 389 (612)
Q Consensus 355 ~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~ 389 (612)
-.|..|..+|||.. ||++||.|+.+||++|.....
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H 695 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVH 695 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhH
Confidence 35788999999988 999999999999999987543
No 123
>PF03510 Peptidase_C24: 2C endopeptidase (C24) cysteine protease family; InterPro: IPR000317 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. The two signatures that defines this group of calivirus polyproteins identify a cysteine peptidase signature that belongs to MEROPS peptidase family C24 (clan PA(C)). Caliciviruses are positive-stranded ssRNA viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF2 encodes a structural protein []; while ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely those classified as small round structured viruses (SRSVs) and those classed as non-SRSVs. Calicivirus proteases from the non-SRSV group, which are members of the PA protease clan, constitute family C24 of the cysteine proteases (proteases from SRSVs belong to the C37 family). As mentioned above, the protease activity resides within a polyprotein. The enzyme cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=73.08 E-value=23 Score=31.19 Aligned_cols=53 Identities=15% Similarity=0.271 Sum_probs=34.6
Q ss_pred EEEEeCCEEEecccccCCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCC
Q 007213 153 GFAIGGRRVLTNAHSVEHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGE 219 (612)
Q Consensus 153 GfiI~~g~ILT~aHvV~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~ 219 (612)
++=|++|..+|+.||.+.++.|. |..+ +++. ...|+++++.+.. .++...+++
T Consensus 3 avHIGnG~~vt~tHva~~~~~v~------g~~f--~~~~--~~ge~~~v~~~~~----~~p~~~ig~ 55 (105)
T PF03510_consen 3 AVHIGNGRYVTVTHVAKSSDSVD------GQPF--KIVK--TDGELCWVQSPLV----HLPAAQIGT 55 (105)
T ss_pred eEEeCCCEEEEEEEEeccCceEc------CcCc--EEEE--eccCEEEEECCCC----CCCeeEecc
Confidence 44567999999999998765432 2222 2222 3459999999875 356666654
No 124
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=72.00 E-value=6.3 Score=43.93 Aligned_cols=56 Identities=23% Similarity=0.307 Sum_probs=42.5
Q ss_pred ccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEEE
Q 007213 354 GVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVLR 419 (612)
Q Consensus 354 G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~R 419 (612)
-++|++|..|+-+++ | |+.||.|+.|||..|.+..- . .+..++.... .+++++|.-
T Consensus 147 ~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~-~-------e~q~~l~~~~--G~itfkiiP 204 (542)
T KOG0609|consen 147 KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSP-E-------ELQELLRNSR--GSITFKIIP 204 (542)
T ss_pred ccEEeeeccCCcchhccceeeccchheecCeecccCCH-H-------HHHHHHHhCC--CcEEEEEcc
Confidence 488999999998888 5 99999999999999987522 1 2445665554 458888764
No 125
>PF02395 Peptidase_S6: Immunoglobulin A1 protease Serine protease Prosite pattern; InterPro: IPR000710 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S6 (clan PA(S)). The type sample being the IgA1-specific serine endopeptidase from Neisseria gonorrhoeae []. These cleave prolyl bonds in the hinge regions of immunoglobulin A heavy chains. Similar specificity is shown by the unrelated family of M26 metalloendopeptidases.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SZE_A 3H09_B 3SYJ_A 1WXR_A 3AK5_B.
Probab=70.35 E-value=15 Score=43.49 Aligned_cols=160 Identities=22% Similarity=0.211 Sum_probs=74.7
Q ss_pred EEEEEEeCCEEEecccccCCCCeEEEEEcC-CCcEEEEEEEEec--cCCCeEEEEeccccccCCeeeeEcCCCC-C---C
Q 007213 151 SSGFAIGGRRVLTNAHSVEHYTQVKLKKRG-SDTKYLATVLAIG--TECDIAMLTVEDDEFWEGVLPVEFGELP-A---L 223 (612)
Q Consensus 151 GSGfiI~~g~ILT~aHvV~~~~~i~V~~~~-~g~~~~a~vv~~d--~~~DLAlLkv~~~~~~~~l~pl~l~~~~-~---~ 223 (612)
|...+|++.||+|.+|+..+... |.|.. ....| +++..+ +..|+.+-|++.-. ..+.|+...... . .
T Consensus 67 G~aTLigpqYiVSV~HN~~gy~~--v~FG~~g~~~Y--~iV~RNn~~~~Df~~pRLnK~V--TEvaP~~~t~~~~~~~~y 140 (769)
T PF02395_consen 67 GVATLIGPQYIVSVKHNGKGYNS--VSFGNEGQNTY--KIVDRNNYPSGDFHMPRLNKFV--TEVAPAEMTTAGSDSNTY 140 (769)
T ss_dssp SS-EEEETTEEEBETTG-TSCCE--ECESCSSTCEE--EEEEEEBETTSTEBEEEESS-----SS----BBSSTTSTTGG
T ss_pred ceEEEecCCeEEEEEccCCCcCc--eeecccCCceE--EEEEccCCCCcccceeecCceE--EEEecccccccccccccc
Confidence 66889999999999999854443 44432 23444 444443 33699999998642 245555554321 0 0
Q ss_pred ----C-CeEEEEE-------eCCCCC-------ceeEEEEEEeceeeecccCCceee-----eEEEE----ccCCCCCCC
Q 007213 224 ----Q-DAVTVVG-------YPIGGD-------TISVTSGVVSRIEILSYVHGSTEL-----LGLQI----DAAINSGNS 275 (612)
Q Consensus 224 ----G-~~V~aiG-------~p~g~~-------~~sv~~GiIs~~~~~~~~~~~~~~-----~~i~~----da~i~~G~S 275 (612)
. ...+=+| +..+.. +...+.|.+..... +..+.... ..... .....+|+|
T Consensus 141 ~d~~rY~~f~R~GsG~Q~i~~~~g~~~~~~~~ay~yltgGt~~~~~~--~~n~~~~~~~~~~~~~~~~~pL~n~~~~GDS 218 (769)
T PF02395_consen 141 NDKERYPAFVRVGSGTQYIKDRNGNGTTILGGAYNYLTGGTVYNLPG--YGNGSMILSGDLKKFNSYNGPLPNYGSPGDS 218 (769)
T ss_dssp GHTTTC-EEEEEESSSEEEEECCEEEEEEEEETTSCEEEEEESSEEE--EECTCEEEEESTTTCCCCCSSSBEB--TT-T
T ss_pred ccchhchheeecCCceEEEEcCCCCeeEEEEeccceecCCccccccc--cccceEEEecccccccccCCccccccccCcC
Confidence 0 1111122 222100 11233444433111 00000000 00111 123568999
Q ss_pred CCeEec--C-C--CeEEEEEecccCCCccceeecccChhhHHHHHHHH
Q 007213 276 GGPAFN--D-K--GKCVGIAFQSLKHEDVENIGYVIPTPVIMHFIQDY 318 (612)
Q Consensus 276 GGPlvn--~-~--G~VIGI~~~~~~~~~~~~~~~aIPi~~i~~~l~~l 318 (612)
|+|||- . + ..++|+.+....-.+..+....+|.+.+..++++.
T Consensus 219 GSPlF~YD~~~kKWvl~Gv~~~~~~~~g~~~~~~~~~~~f~~~~~~~d 266 (769)
T PF02395_consen 219 GSPLFAYDKEKKKWVLVGVLSGGNGYNGKGNWWNVIPPDFINQIKQND 266 (769)
T ss_dssp T-EEEEEETTTTEEEEEEEEEEECCCCHSEEEEEEECHHHHHHHHHHC
T ss_pred CCceEEEEccCCeEEEEEEEccccccCCccceeEEecHHHHHHHHhhh
Confidence 999983 2 2 35899988754332333455678888887777664
No 126
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=69.82 E-value=11 Score=38.58 Aligned_cols=55 Identities=20% Similarity=0.270 Sum_probs=45.1
Q ss_pred CCceEEEeeeccccccccccc-ccceeEeeCCeec--CCHHHHHHHHHhCCCCeEEEEE
Q 007213 521 FSFPWFCKVLVADINIGYEEI-VNTQVLAFNGNPV--KNLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~-~gd~I~~vng~~v--~~~~~l~~~l~~~~~~~~~l~~ 576 (612)
..|++|++..+++-|+.-||. .+|.|++|||..| ++++++..+|-++. ..+-|++
T Consensus 193 vpGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvANs-hNLIiTV 250 (358)
T KOG3606|consen 193 VPGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVANS-HNLIITV 250 (358)
T ss_pred cCceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhcc-cceEEEe
Confidence 568999999999999988864 7999999999999 59999999987653 3344444
No 127
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=69.39 E-value=13 Score=37.93 Aligned_cols=37 Identities=22% Similarity=0.353 Sum_probs=28.2
Q ss_pred ccccceeEeeCCeecCCHHH--HHHHHHhC-CCCeEEEEE
Q 007213 540 EIVNTQVLAFNGNPVKNLKS--LANMVENC-DDEFLKFDL 576 (612)
Q Consensus 540 ~~~gd~I~~vng~~v~~~~~--l~~~l~~~-~~~~~~l~~ 576 (612)
...||.|.+|||+.|-.+.+ +..+|++. +++..++++
T Consensus 168 i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrL 207 (334)
T KOG3938|consen 168 ICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRL 207 (334)
T ss_pred eeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEe
Confidence 45789999999999987765 57788874 455666655
No 128
>PF01732 DUF31: Putative peptidase (DUF31); InterPro: IPR022382 This domain has no known function. It is found in various hypothetical proteins and putative lipoproteins from mycoplasmas.
Probab=68.83 E-value=3.5 Score=44.62 Aligned_cols=25 Identities=32% Similarity=0.535 Sum_probs=21.9
Q ss_pred cCCCCCCCCCeEecCCCeEEEEEec
Q 007213 268 AAINSGNSGGPAFNDKGKCVGIAFQ 292 (612)
Q Consensus 268 a~i~~G~SGGPlvn~~G~VIGI~~~ 292 (612)
..+..|.||+.|+|.+|++|||.++
T Consensus 350 ~~l~gGaSGS~V~n~~~~lvGIy~g 374 (374)
T PF01732_consen 350 YSLGGGASGSMVINQNNELVGIYFG 374 (374)
T ss_pred cCCCCCCCcCeEECCCCCEEEEeCC
Confidence 3667899999999999999999763
No 129
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=67.55 E-value=22 Score=41.49 Aligned_cols=11 Identities=18% Similarity=0.326 Sum_probs=6.6
Q ss_pred CHHHHHHHHHh
Q 007213 556 NLKSLANMVEN 566 (612)
Q Consensus 556 ~~~~l~~~l~~ 566 (612)
=++.|.++|+.
T Consensus 1042 VmDslLeaLqs 1052 (1102)
T KOG1924|consen 1042 VMDSLLEALQS 1052 (1102)
T ss_pred hHHHHHHHHHh
Confidence 35566666664
No 130
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=65.98 E-value=6.7 Score=41.28 Aligned_cols=55 Identities=22% Similarity=0.254 Sum_probs=40.7
Q ss_pred ccEEEEecCCCcccC-C-CCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEE
Q 007213 354 GVRIRRVDPTAPESE-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVL 418 (612)
Q Consensus 354 G~~V~~V~p~spA~~-G-L~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~ 418 (612)
-++|..|..+-.|+. | |-.||-|+.|||..|..-..- + ...++ .+.|+.++++|.
T Consensus 81 PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~He-----e---vV~iL--RNAGdeVtlTV~ 137 (505)
T KOG3549|consen 81 PVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHE-----E---VVNIL--RNAGDEVTLTVK 137 (505)
T ss_pred cEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChH-----H---HHHHH--HhcCCEEEEEeH
Confidence 467888888888887 5 889999999999999875431 1 11233 357899988886
No 131
>PF05416 Peptidase_C37: Southampton virus-type processing peptidase; InterPro: IPR001665 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 group of cysteine peptidases belong to the MEROPS peptidase family C37, (clan PA(C)). The type example is calicivirin from Southampton virus, an endopeptidase that cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase. Southampton virus is a positive-stranded ssRNA virus belonging to the Caliciviruses, which are viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity []. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses []. ORF2 encodes a structural, capsid protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely the Norwalk-like viruses or small round structured viruses (SRSVs), and those classed as non-SRSVs.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 2FYQ_A 2FYR_A 1WQS_D 4ASH_A 2IPH_B.
Probab=63.62 E-value=23 Score=38.49 Aligned_cols=135 Identities=16% Similarity=0.239 Sum_probs=68.9
Q ss_pred eEEEEEEEeCCEEEecccccCCC-CeE-EEEEcCCCcEEEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCCCCCCe
Q 007213 149 SSSSGFAIGGRRVLTNAHSVEHY-TQV-KLKKRGSDTKYLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELPALQDA 226 (612)
Q Consensus 149 ~~GSGfiI~~g~ILT~aHvV~~~-~~i-~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~~~G~~ 226 (612)
+.|=||.|++.+.+|+-||+... ..+ -| +-.-+.++..-++.-+++..+- -.+++-+-|-.-..-|.-
T Consensus 379 GsGWGfWVS~~lfITttHViP~g~~E~FGv---------~i~~i~vh~sGeF~~~rFpk~i-RPDvtgmiLEeGapEGtV 448 (535)
T PF05416_consen 379 GSGWGFWVSPTLFITTTHVIPPGAKEAFGV---------PISQIQVHKSGEFCRFRFPKPI-RPDVTGMILEEGAPEGTV 448 (535)
T ss_dssp TTEEEEESSSSEEEEEGGGS-STTSEETTE---------ECGGEEEEEETTEEEEEESS-S-STTS---EE-SS--TT-E
T ss_pred CCceeeeecceEEEEeeeecCCcchhhhCC---------ChhHeEEeeccceEEEecCCCC-CCCccceeeccCCCCceE
Confidence 45779999999999999999853 211 11 1112233445567777776542 124555555443333544
Q ss_pred EE-EEEeCCCCC-ceeEEEEEEeceeeecc-cCCceeeeEEEE-------ccCCCCCCCCCeEecCCC---eEEEEEecc
Q 007213 227 VT-VVGYPIGGD-TISVTSGVVSRIEILSY-VHGSTELLGLQI-------DAAINSGNSGGPAFNDKG---KCVGIAFQS 293 (612)
Q Consensus 227 V~-aiG~p~g~~-~~sv~~GiIs~~~~~~~-~~~~~~~~~i~~-------da~i~~G~SGGPlvn~~G---~VIGI~~~~ 293 (612)
+. .|=.+.|.. .+.+..|.......... ..+ ...++.+ |-...||+-|-|-|-..| -|+||+++.
T Consensus 449 ~siLiKR~sGEllpLAvRMgt~AsmkIqgr~v~G--Q~GMLLTGaNAK~mDLGT~PGDCGcPYvyKrgNd~VV~GVH~AA 526 (535)
T PF05416_consen 449 CSILIKRPSGELLPLAVRMGTHASMKIQGRTVHG--QMGMLLTGANAKGMDLGTIPGDCGCPYVYKRGNDWVVIGVHAAA 526 (535)
T ss_dssp EEEEEE-TTSBEEEEEEEEEEEEEEEETTEEEEE--EEEEETTSTT-SSTTTS--TTGTT-EEEEEETTEEEEEEEEEEE
T ss_pred EEEEEEcCCccchhhhhhhccceeEEEcceeecc--eeeeeeecCCccccccCCCCCCCCCceeeecCCcEEEEEEEehh
Confidence 33 345665532 23566776665543211 111 1122332 446778999999997655 599999885
Q ss_pred cC
Q 007213 294 LK 295 (612)
Q Consensus 294 ~~ 295 (612)
..
T Consensus 527 tr 528 (535)
T PF05416_consen 527 TR 528 (535)
T ss_dssp -S
T ss_pred cc
Confidence 53
No 132
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=59.47 E-value=5.1 Score=42.74 Aligned_cols=36 Identities=22% Similarity=0.285 Sum_probs=30.8
Q ss_pred ccEEEEecCCCcccC--CCCCCCEEEEECCEEeCCCCC
Q 007213 354 GVRIRRVDPTAPESE--VLKPSDIILSFDGIDIANDGT 389 (612)
Q Consensus 354 G~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~~ 389 (612)
-++|..|.+|-.|.+ -|..||.|++|||....+...
T Consensus 111 PIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtH 148 (506)
T KOG3551|consen 111 PILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATH 148 (506)
T ss_pred ceehhHhccccccccccceeeccEEEEecchhhhhcch
Confidence 477889999988888 699999999999998887543
No 133
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=57.72 E-value=9.8 Score=40.70 Aligned_cols=53 Identities=8% Similarity=0.109 Sum_probs=40.5
Q ss_pred ceEEEeeeccccccccc-ccccceeEeeCCeecC--CHHHHHHHHHhCCCCeEEEEE
Q 007213 523 FPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVK--NLKSLANMVENCDDEFLKFDL 576 (612)
Q Consensus 523 ~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~--~~~~l~~~l~~~~~~~~~l~~ 576 (612)
.++|++++.+-++.+.+ +..||.|++|||.... +-++.+++|+. .++.|.+++
T Consensus 111 PIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLKr-aGkeV~lev 166 (506)
T KOG3551|consen 111 PILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALKR-AGKEVLLEV 166 (506)
T ss_pred ceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHHh-hCceeeeee
Confidence 47889999987776665 7899999999999887 45667777775 456655554
No 134
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=56.50 E-value=8.1 Score=39.29 Aligned_cols=56 Identities=13% Similarity=0.237 Sum_probs=45.1
Q ss_pred cEEEEecCCCcccC--CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCEEEEEEE
Q 007213 355 VRIRRVDPTAPESE--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAAVKVL 418 (612)
Q Consensus 355 ~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~v~l~V~ 418 (612)
+.|..|.++|.... -++.||.|-+|||+.|-.|..++ ..+++.....|++.++.+.
T Consensus 151 AFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYe--------VArmLKel~rge~ftlrLi 208 (334)
T KOG3938|consen 151 AFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYE--------VARMLKELPRGETFTLRLI 208 (334)
T ss_pred eeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHH--------HHHHHHhcccCCeeEEEee
Confidence 56788999998877 79999999999999999887654 4567777777777776655
No 135
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=55.95 E-value=62 Score=37.99 Aligned_cols=11 Identities=27% Similarity=0.087 Sum_probs=6.3
Q ss_pred CCCCCCccccc
Q 007213 12 PKIPDAEKTLD 22 (612)
Q Consensus 12 ~~~~~~~~~~~ 22 (612)
+||..-++|..
T Consensus 502 ~Ki~~l~ae~~ 512 (1102)
T KOG1924|consen 502 EKIKLLEAEKQ 512 (1102)
T ss_pred hhcccCchhhh
Confidence 66666555543
No 136
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=43.68 E-value=39 Score=40.43 Aligned_cols=57 Identities=9% Similarity=0.092 Sum_probs=44.2
Q ss_pred CCceEEEeeeccccccccc-ccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEEEeC
Q 007213 521 FSFPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFDLEY 578 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~~~r 578 (612)
.-|++|.+|.++++|...| |.+||++++|||+..-.+ +...+++-. -+..|.|++..
T Consensus 959 klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmtr-tg~vV~leVaK 1018 (1629)
T KOG1892|consen 959 KLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMTR-TGNVVHLEVAK 1018 (1629)
T ss_pred ccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHhc-cCCeEEEehhh
Confidence 4589999999999987776 789999999999998644 455555553 46678888743
No 137
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=39.54 E-value=48 Score=36.91 Aligned_cols=57 Identities=7% Similarity=0.006 Sum_probs=42.2
Q ss_pred CCceEEEeeeccccccccc-ccccceeEeeCCeecCCH--HHHHHHHHh--CCCCeEEEEEe
Q 007213 521 FSFPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVKNL--KSLANMVEN--CDDEFLKFDLE 577 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~~~--~~l~~~l~~--~~~~~~~l~~~ 577 (612)
+.+++|..+..+++-+..| +.+||.|+.||.....|+ ++.+.+|+. .+..++++++.
T Consensus 276 DggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvA 337 (626)
T KOG3571|consen 276 DGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVA 337 (626)
T ss_pred CCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEe
Confidence 6789999999988776666 568999999999988765 455555554 23456777663
No 138
>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=39.05 E-value=72 Score=31.03 Aligned_cols=29 Identities=3% Similarity=-0.292 Sum_probs=24.8
Q ss_pred CCceEEEeeecccccccccccccceeEee
Q 007213 521 FSFPWFCKVLVADINIGYEEIVNTQVLAF 549 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~gd~I~~v 549 (612)
.+.++|..|..++++.+.|+.-++.|++|
T Consensus 121 ~~~~~Vd~v~fgS~A~~~g~d~d~~I~~v 149 (183)
T PF11874_consen 121 GGKVIVDEVEFGSPAEKAGIDFDWEITEV 149 (183)
T ss_pred CCEEEEEecCCCCHHHHcCCCCCcEEEEE
Confidence 45589999999999999999888877776
No 139
>PF12381 Peptidase_C3G: Tungro spherical virus-type peptidase; InterPro: IPR024387 This entry represents a rice tungro spherical waikavirus-type peptidase that belongs to MEROPS peptidase family C3G. It is a picornain 3C-type protease, and is responsible for the self-cleavage of the positive single-stranded polyproteins of a number of plant viral genomes. The location of the protease activity of the polyprotein is at the C-terminal end, adjacent and N-terminal to the putative RNA polymerase [, ].
Probab=34.19 E-value=52 Score=32.74 Aligned_cols=54 Identities=26% Similarity=0.441 Sum_probs=39.0
Q ss_pred EEEEccCCCCCCCCCeEecCC----CeEEEEEecccCCCccceeecccCh--hhHHHHHHHHH
Q 007213 263 GLQIDAAINSGNSGGPAFNDK----GKCVGIAFQSLKHEDVENIGYVIPT--PVIMHFIQDYE 319 (612)
Q Consensus 263 ~i~~da~i~~G~SGGPlvn~~----G~VIGI~~~~~~~~~~~~~~~aIPi--~~i~~~l~~l~ 319 (612)
.+...+....|+-|||++-.+ -+++||+.++. ...+.+||-++ ..+++.+..|.
T Consensus 170 gleY~~~t~~GdCGs~i~~~~t~~~RKIvGiHVAG~---~~~~~gYAe~itQEDL~~A~~~l~ 229 (231)
T PF12381_consen 170 GLEYQMPTMNGDCGSPIVRNNTQMVRKIVGIHVAGS---ANHAMGYAESITQEDLMRAINKLE 229 (231)
T ss_pred eeeEECCCcCCCccceeeEcchhhhhhhheeeeccc---ccccceehhhhhHHHHHHHHHhhc
Confidence 466677888999999998442 57999999854 34567887666 45666666654
No 140
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=33.59 E-value=65 Score=39.37 Aligned_cols=50 Identities=12% Similarity=0.121 Sum_probs=38.0
Q ss_pred EEEeeecccccccccccccceeEeeCCeecCCH--HHHHHHHHhCCCCeEEEE
Q 007213 525 WFCKVLVADINIGYEEIVNTQVLAFNGNPVKNL--KSLANMVENCDDEFLKFD 575 (612)
Q Consensus 525 ~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~--~~l~~~l~~~~~~~~~l~ 575 (612)
++..|..+++|.-+|+.++|.|+.|||++|..+ .++.+++.+. +..+.++
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll~~-gn~v~~~ 712 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLLKS-GNKVTLR 712 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHHhc-CCeeEEE
Confidence 456778899999999999999999999999865 4566666643 3444443
No 141
>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=32.25 E-value=85 Score=26.69 Aligned_cols=36 Identities=28% Similarity=0.443 Sum_probs=29.9
Q ss_pred ccCCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 167 SVEHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 167 vV~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
++.....+.|.+ .+++.+.+++.++|.+.+|.|=..
T Consensus 10 ~~~~~~~V~V~l-r~~r~~~G~L~~fD~hmNlvL~d~ 45 (87)
T cd01720 10 AVKNNTQVLINC-RNNKKLLGRVKAFDRHCNMVLENV 45 (87)
T ss_pred HHcCCCEEEEEE-cCCCEEEEEEEEecCccEEEEcce
Confidence 344567899999 499999999999999999987654
No 142
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000. Domains described by this model are found, so far, only in the Planctomycetes (Pirellula sp. strain 1 and Gemmata obscuriglobus), in up to six proteins per genome, and may be duplicated within a protein. The function is unknown.
Probab=32.06 E-value=1.2e+02 Score=25.02 Aligned_cols=50 Identities=26% Similarity=0.349 Sum_probs=32.8
Q ss_pred CCEEEEECCEEeCCCCCCccccCccchHHHHhhccCCCCE----EEEEEEECCEEEEEEEEec
Q 007213 373 SDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDS----AAVKVLRDSKILNFNITLA 431 (612)
Q Consensus 373 GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~~~~g~~----v~l~V~R~G~~~~~~v~l~ 431 (612)
-|-.+.+||++..+.+..+- ..-.....|.. +..++.|||+..+.+-.+.
T Consensus 11 adAkl~v~G~~t~~~G~~R~---------F~T~~L~~G~~y~Y~v~a~~~~dG~~~t~~~~V~ 64 (75)
T TIGR03000 11 ADAKLKVDGKETNGTGTVRT---------FTTPPLEAGKEYEYTVTAEYDRDGRILTRTRTVV 64 (75)
T ss_pred CCCEEEECCeEcccCccEEE---------EECCCCCCCCEEEEEEEEEEecCCcEEEEEEEEE
Confidence 57889999999999887641 12223345553 5666779998766554443
No 143
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.65 E-value=80 Score=34.58 Aligned_cols=57 Identities=11% Similarity=0.015 Sum_probs=45.4
Q ss_pred CCceEEEeeecccccccccccc-cceeEeeCCeecC-CHHHHHHHHHhCCCCeEEEEEeC
Q 007213 521 FSFPWFCKVLVADINIGYEEIV-NTQVLAFNGNPVK-NLKSLANMVENCDDEFLKFDLEY 578 (612)
Q Consensus 521 ~~~v~v~~v~~~~~~~~~g~~~-gd~I~~vng~~v~-~~~~l~~~l~~~~~~~~~l~~~r 578 (612)
..+.-|-+|..++++..+|+.+ -|.|++|||...+ +-+.|...++.+-.+ |++++-.
T Consensus 14 teg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~Lk~llk~~sek-Vkltv~n 72 (462)
T KOG3834|consen 14 TEGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDTLKALLKANSEK-VKLTVYN 72 (462)
T ss_pred ceeEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHHHHHHHHhcccc-eEEEEEe
Confidence 3556788999999999999876 5699999999997 667777777776655 8887743
No 144
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=30.92 E-value=1.2e+02 Score=25.43 Aligned_cols=48 Identities=23% Similarity=0.283 Sum_probs=32.5
Q ss_pred EEEEEEEeccCCCeEEEEeccccccCCeeeeEcCCCCCCCCeEEE-EEeCC
Q 007213 185 YLATVLAIGTECDIAMLTVEDDEFWEGVLPVEFGELPALQDAVTV-VGYPI 234 (612)
Q Consensus 185 ~~a~vv~~d~~~DLAlLkv~~~~~~~~l~pl~l~~~~~~G~~V~a-iG~p~ 234 (612)
++++++..|...++|++.+-.-. ..+.---++...++|+.|.+ +||..
T Consensus 5 iPgqI~~I~~~~~~A~Vd~gGvk--reV~l~Lv~~~v~~GdyVLVHvGfAi 53 (82)
T COG0298 5 IPGQIVEIDDNNHLAIVDVGGVK--REVNLDLVGEEVKVGDYVLVHVGFAM 53 (82)
T ss_pred cccEEEEEeCCCceEEEEeccEe--EEEEeeeecCccccCCEEEEEeeEEE
Confidence 57899999988889999986532 11222222336788999877 67753
No 145
>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=30.80 E-value=62 Score=31.50 Aligned_cols=29 Identities=14% Similarity=0.081 Sum_probs=25.2
Q ss_pred CCccEEEEecCCCcccC-CCCCCCEEEEEC
Q 007213 352 QKGVRIRRVDPTAPESE-VLKPSDIILSFD 380 (612)
Q Consensus 352 ~~G~~V~~V~p~spA~~-GL~~GDiIlaIn 380 (612)
...+.|..|..||||++ |+.-|+.|++|-
T Consensus 121 ~~~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 121 GGKVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred CCEEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 34688899999999999 999999888773
No 146
>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=29.67 E-value=1.4e+02 Score=22.95 Aligned_cols=32 Identities=13% Similarity=0.178 Sum_probs=27.0
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEec
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTVE 204 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~ 204 (612)
..+.|.+ .+|+.+.+.+.++|...++.|-...
T Consensus 7 ~~V~V~l-~~g~~~~G~L~~~D~~~Ni~L~~~~ 38 (63)
T cd00600 7 KTVRVEL-KDGRVLEGVLVAFDKYMNLVLDDVE 38 (63)
T ss_pred CEEEEEE-CCCcEEEEEEEEECCCCCEEECCEE
Confidence 4688888 4999999999999999888876654
No 147
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=28.15 E-value=54 Score=24.33 Aligned_cols=20 Identities=40% Similarity=0.567 Sum_probs=16.9
Q ss_pred CCCCCeEecCCCeEEEEEec
Q 007213 273 GNSGGPAFNDKGKCVGIAFQ 292 (612)
Q Consensus 273 G~SGGPlvn~~G~VIGI~~~ 292 (612)
+-+.-|++|.+|+++|+++.
T Consensus 29 ~~~~~~V~d~~~~~~G~is~ 48 (57)
T PF00571_consen 29 GISRLPVVDEDGKLVGIISR 48 (57)
T ss_dssp TSSEEEEESTTSBEEEEEEH
T ss_pred CCcEEEEEecCCEEEEEEEH
Confidence 45567999999999999876
No 148
>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=27.60 E-value=2e+02 Score=22.81 Aligned_cols=34 Identities=15% Similarity=0.188 Sum_probs=27.6
Q ss_pred CCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEecc
Q 007213 171 YTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVED 205 (612)
Q Consensus 171 ~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~ 205 (612)
...+.++.- .|..++++|+.+|....+.+|+-+.
T Consensus 6 Gs~V~~kTc-~g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 6 GSQVSCRTC-FEQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred ccEEEEEec-CCceEEEEEEEecCCCcEEEEECcc
Confidence 345666663 7999999999999999999998654
No 149
>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=26.99 E-value=1.4e+02 Score=23.77 Aligned_cols=32 Identities=22% Similarity=0.256 Sum_probs=27.1
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEec
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTVE 204 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~ 204 (612)
..+.|.+ .+|+.|.+++..+|+..+|-|=...
T Consensus 11 ~~V~V~L-k~g~~~~G~L~~~D~~mNlvL~~~~ 42 (67)
T cd01726 11 RPVVVKL-NSGVDYRGILACLDGYMNIALEQTE 42 (67)
T ss_pred CeEEEEE-CCCCEEEEEEEEEccceeeEEeeEE
Confidence 5788999 4999999999999999998886553
No 150
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=26.65 E-value=34 Score=39.07 Aligned_cols=35 Identities=9% Similarity=0.070 Sum_probs=30.8
Q ss_pred cEEEEecCCCcccC--CCCCCCEEEEECCEEeCCCCC
Q 007213 355 VRIRRVDPTAPESE--VLKPSDIILSFDGIDIANDGT 389 (612)
Q Consensus 355 ~~V~~V~p~spA~~--GL~~GDiIlaInG~~V~s~~~ 389 (612)
.+|.++.++|||.. .|..||.|+.||++.|..|+-
T Consensus 227 h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwql 263 (638)
T KOG1738|consen 227 HVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQL 263 (638)
T ss_pred eeccccccCChHHHhhcccCccceeeecccccccchh
Confidence 45678999999988 799999999999999988853
No 151
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=26.58 E-value=97 Score=37.62 Aligned_cols=170 Identities=14% Similarity=0.128 Sum_probs=0.0
Q ss_pred CcCCeEEeeecChhhHHhhhcccCCCccEEEEecCCCcccC-CCCCCCEEEEECCEEeCCCCCCccccCccchHHHHhhc
Q 007213 328 PLLGVEWQKMENPDLRVAMSMKADQKGVRIRRVDPTAPESE-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 406 (612)
Q Consensus 328 ~~lGi~~~~~~~~~~~~~lgl~~~~~G~~V~~V~p~spA~~-GL~~GDiIlaInG~~V~s~~~v~~~~~~~~~~~~~l~~ 406 (612)
|.||++.... ...+-+....-...-.. -|+.||+++.+||..+.--.. ....-..
T Consensus 1158 ~~l~~~~a~~--------------~~~~~~~~~~~~~~~~~pd~~~g~~l~~~n~i~~~~~~~----------~~~~~~~ 1213 (1332)
T KOG4371|consen 1158 GSLGVQIASL--------------SGRVCIKQLTSEPAISHPDIRVGDVLLYVNGIAVEGKVH----------QEVVAML 1213 (1332)
T ss_pred CCCCceeccC--------------ccceehhhcccCCCCCCCCcchhhhhhhccceeeechhh----------HHHHHHH
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEeccCccccCCCCCCCCCCceeeccEEEeecCchhhhhhHHhhccHHHHHHhCCcccc
Q 007213 407 KYTGDSAAVKVLRDSKILNFNITLATHRRLIPSHNKGRPPSYYIIAGFVFSRCLYLISVLSMERIMNMKLRSSFWTSSCI 486 (612)
Q Consensus 407 ~~~g~~v~l~V~R~G~~~~~~v~l~~~~~~~~~~~~~~~p~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 486 (612)
...|+.+.|-|+| -+....+..+. +..-...+..+-.. ++||..-..+-+....
T Consensus 1214 ~~~~~~~~~~~~r-~~~~~~d~~~~---------------s~~~~~~~l~~~~~----------~~~p~~~~~~~~~~~~ 1267 (1332)
T KOG4371|consen 1214 RGGGDRVVLGVQR-PPPAYSDQHHA---------------SSTSASAPLISVML----------LKKPMATLGLSLAKRT 1267 (1332)
T ss_pred hccCceEEEEeec-CCcccccchhh---------------hhhcccchhhhhee----------eecccccccccccccC
Q ss_pred cccccchhhhhhhccCCccccccchhhhhcccCCCCceEEEeeeccccccccc-ccccceeEeeCCeecC--CHHHHHHH
Q 007213 487 QCHNCQMSSLLWCLRSPLCLNCFNKVFLLSLSLTFSFPWFCKVLVADINIGYE-EIVNTQVLAFNGNPVK--NLKSLANM 563 (612)
Q Consensus 487 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~v~~~~~~~~~g-~~~gd~I~~vng~~v~--~~~~l~~~ 563 (612)
+ .++.++.-+..++.|.-.| ++.||.++..+|+++. ......+.
T Consensus 1268 ~---------------------------------s~~~~~~~~~~~~~a~~~~~~r~g~~~~~~~~~~~~~~~p~~~l~~ 1314 (1332)
T KOG4371|consen 1268 M---------------------------------SDGIFIRNIAQDSAASSEGTLRVGDRLVSLDGEPVDGFTPATILEK 1314 (1332)
T ss_pred c---------------------------------CCceeeecccccccccccccccccceeeccCCccCCCCChHHHHHH
Q ss_pred HHhCCCCeEEEEEeCCeE
Q 007213 564 VENCDDEFLKFDLEYDQV 581 (612)
Q Consensus 564 l~~~~~~~~~l~~~r~~~ 581 (612)
++ .--+.+.+++.|.++
T Consensus 1315 ~~-~v~~p~~~~~~~~q~ 1331 (1332)
T KOG4371|consen 1315 LK-LVQGPVQITVTREQT 1331 (1332)
T ss_pred hh-hccCchhheehhhhc
No 152
>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=25.53 E-value=1.6e+02 Score=23.34 Aligned_cols=32 Identities=9% Similarity=0.109 Sum_probs=28.0
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEec
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTVE 204 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~ 204 (612)
..+.|.+ .+|+.+.+++.++|...+|.|-...
T Consensus 11 ~~V~V~l-~~g~~~~G~L~~~D~~mNlvL~~~~ 42 (68)
T cd01731 11 KPVLVKL-KGGKEVRGRLKSYDQHMNLVLEDAE 42 (68)
T ss_pred CEEEEEE-CCCCEEEEEEEEECCcceEEEeeEE
Confidence 5788889 4899999999999999999887764
No 153
>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=25.46 E-value=1.4e+02 Score=23.79 Aligned_cols=31 Identities=13% Similarity=0.236 Sum_probs=26.6
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+++..+|...+|.|=..
T Consensus 12 ~~V~V~L-k~g~~~~G~L~~~D~~mNi~L~~~ 42 (68)
T cd01722 12 KPVIVKL-KWGMEYKGTLVSVDSYMNLQLANT 42 (68)
T ss_pred CEEEEEE-CCCcEEEEEEEEECCCEEEEEeeE
Confidence 5688899 599999999999999988887554
No 154
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=25.02 E-value=1.7e+02 Score=23.70 Aligned_cols=32 Identities=6% Similarity=0.167 Sum_probs=27.6
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEec
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTVE 204 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~ 204 (612)
..+.|.+ .+|+.+.+.+.++|...++-|=...
T Consensus 15 k~V~V~l-k~g~~~~G~L~~~D~~mNlvL~d~~ 46 (72)
T PRK00737 15 SPVLVRL-KGGREFRGELQGYDIHMNLVLDNAE 46 (72)
T ss_pred CEEEEEE-CCCCEEEEEEEEEcccceeEEeeEE
Confidence 4688888 4899999999999999999887664
No 155
>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=22.29 E-value=1.5e+02 Score=24.60 Aligned_cols=31 Identities=16% Similarity=0.164 Sum_probs=26.1
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+++.++|...+|.|=..
T Consensus 12 k~V~V~l-~~gr~~~G~L~~fD~~mNlvL~d~ 42 (82)
T cd01730 12 ERVYVKL-RGDRELRGRLHAYDQHLNMILGDV 42 (82)
T ss_pred CEEEEEE-CCCCEEEEEEEEEccceEEeccce
Confidence 5788888 489999999999999998876443
No 156
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=22.28 E-value=3.4e+02 Score=21.10 Aligned_cols=38 Identities=24% Similarity=0.211 Sum_probs=29.1
Q ss_pred CCCCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEeccc
Q 007213 169 EHYTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVEDD 206 (612)
Q Consensus 169 ~~~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~~~ 206 (612)
.....+.+..+++..-|++++..+|...++.-++++..
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DG 44 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDG 44 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCC
Confidence 34567889998777788999999999999999988653
No 157
>smart00384 AT_hook DNA binding domain with preference for A/T rich regions. Small DNA-binding motif first described in the high mobility group non-histone chromosomal protein HMG-I(Y).
Probab=21.79 E-value=62 Score=21.07 Aligned_cols=15 Identities=53% Similarity=0.791 Sum_probs=11.7
Q ss_pred ccccCCCCCCCCCcc
Q 007213 5 KRKRGRKPKIPDAEK 19 (612)
Q Consensus 5 ~~~~~~~~~~~~~~~ 19 (612)
++||||-||......
T Consensus 1 kRkRGRPrK~~~~~~ 15 (26)
T smart00384 1 KRKRGRPRKAPKDXX 15 (26)
T ss_pred CCCCCCCCCCCCccc
Confidence 689999999877443
No 158
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=20.83 E-value=2.3e+02 Score=22.83 Aligned_cols=33 Identities=9% Similarity=0.152 Sum_probs=28.5
Q ss_pred CCeEEEEEcCCCcEEEEEEEEeccCCCeEEEEec
Q 007213 171 YTQVKLKKRGSDTKYLATVLAIGTECDIAMLTVE 204 (612)
Q Consensus 171 ~~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv~ 204 (612)
...+.|.+- +|..|.+++..+|...++.|-...
T Consensus 10 g~~V~VeLk-~g~~~~G~L~~~D~~MNl~L~~~~ 42 (70)
T cd01721 10 GHIVTVELK-TGEVYRGKLIEAEDNMNCQLKDVT 42 (70)
T ss_pred CCEEEEEEC-CCcEEEEEEEEEcCCceeEEEEEE
Confidence 357888894 899999999999999999887774
No 159
>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=20.83 E-value=2e+02 Score=23.62 Aligned_cols=31 Identities=6% Similarity=0.273 Sum_probs=26.3
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+.+.++|...+|.|=..
T Consensus 11 ~~V~V~l-~dgR~~~G~L~~~D~~~NlVL~~~ 41 (79)
T cd01717 11 YRLRVTL-QDGRQFVGQFLAFDKHMNLVLSDC 41 (79)
T ss_pred CEEEEEE-CCCcEEEEEEEEEcCccCEEcCCE
Confidence 5688888 599999999999999999876544
No 160
>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=20.82 E-value=1.9e+02 Score=23.77 Aligned_cols=31 Identities=16% Similarity=0.348 Sum_probs=26.3
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+++.++|...++.|=..
T Consensus 14 ~~V~V~l-~~gr~~~G~L~g~D~~mNlvL~da 44 (76)
T cd01732 14 SRIWIVM-KSDKEFVGTLLGFDDYVNMVLEDV 44 (76)
T ss_pred CEEEEEE-CCCeEEEEEEEEeccceEEEEccE
Confidence 5788888 489999999999999999887544
No 161
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=20.79 E-value=82 Score=39.16 Aligned_cols=46 Identities=13% Similarity=0.196 Sum_probs=34.1
Q ss_pred eEEEeeecccccccccccccceeEeeCCeecCCHH--HHHHHHHhCCC
Q 007213 524 PWFCKVLVADINIGYEEIVNTQVLAFNGNPVKNLK--SLANMVENCDD 569 (612)
Q Consensus 524 v~v~~v~~~~~~~~~g~~~gd~I~~vng~~v~~~~--~l~~~l~~~~~ 569 (612)
.++.+|.+.+++..+-|+-||.|+.||.+++..++ +.+.+++..+.
T Consensus 145 ~~~~eV~~n~~~~~a~LQ~~~~V~~v~~q~~A~i~~s~~~S~~~qt~~ 192 (1973)
T KOG4407|consen 145 IFIKEVQANGPAHYANLQTGDRVLMVNNQPIAGIAYSTIVSMIKQTPA 192 (1973)
T ss_pred hhhhhhccCChhHHHhhhccceeEEeecCcccchhhhhhhhhhccCCC
Confidence 33445667778887889999999999999998664 55666665543
No 162
>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=20.14 E-value=2.3e+02 Score=23.61 Aligned_cols=31 Identities=3% Similarity=0.070 Sum_probs=26.2
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+.+..+|...+|.|=..
T Consensus 13 k~V~V~l-~~gr~~~G~L~~~D~~mNlvL~~~ 43 (81)
T cd01729 13 KKIRVKF-QGGREVTGILKGYDQLLNLVLDDT 43 (81)
T ss_pred CeEEEEE-CCCcEEEEEEEEEcCcccEEecCE
Confidence 5688888 489999999999999998877544
No 163
>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=20.06 E-value=2.4e+02 Score=22.88 Aligned_cols=31 Identities=10% Similarity=0.129 Sum_probs=26.1
Q ss_pred CeEEEEEcCCCcEEEEEEEEeccCCCeEEEEe
Q 007213 172 TQVKLKKRGSDTKYLATVLAIGTECDIAMLTV 203 (612)
Q Consensus 172 ~~i~V~~~~~g~~~~a~vv~~d~~~DLAlLkv 203 (612)
..+.|.+ .+|+.+.+++.++|...+|.|=..
T Consensus 11 k~V~V~L-~~g~~~~G~L~~~D~~mNlvL~~~ 41 (72)
T cd01719 11 KKLSLKL-NGNRKVSGILRGFDPFMNLVLDDA 41 (72)
T ss_pred CeEEEEE-CCCeEEEEEEEEEcccccEEeccE
Confidence 5688888 599999999999999988877544
Done!