Query psy13360
Match_columns 1161
No_of_seqs 441 out of 3060
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 17:29:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13360.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13360hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0187 GyrB Type IIA topoisom 100.0 4E-222 9E-227 1904.8 58.2 630 344-1161 3-635 (635)
2 PRK14939 gyrB DNA gyrase subun 100.0 1E-204 2E-209 1850.1 69.0 753 344-1161 4-756 (756)
3 PTZ00109 DNA gyrase subunit b; 100.0 1E-200 3E-205 1798.3 57.0 703 335-1154 88-900 (903)
4 TIGR01058 parE_Gpos DNA topois 100.0 6E-195 1E-199 1756.1 59.4 622 345-1156 3-630 (637)
5 PRK05644 gyrB DNA gyrase subun 100.0 7E-184 2E-188 1667.4 59.6 632 344-1161 5-638 (638)
6 PRK05559 DNA topoisomerase IV 100.0 1E-183 3E-188 1666.3 59.8 621 344-1156 5-628 (631)
7 TIGR01055 parE_Gneg DNA topois 100.0 7E-182 2E-186 1644.0 57.0 616 345-1154 2-623 (625)
8 TIGR01059 gyrB DNA gyrase, B s 100.0 3E-178 6E-183 1632.0 60.3 648 347-1161 1-654 (654)
9 PHA02569 39 DNA topoisomerase 100.0 2E-172 4E-177 1550.5 53.0 570 350-1151 2-602 (602)
10 smart00433 TOP2c Topoisomerase 100.0 8E-170 2E-174 1539.8 55.3 589 377-1153 1-593 (594)
11 PTZ00108 DNA topoisomerase 2-l 100.0 4E-167 8E-172 1576.5 56.9 596 349-1154 7-649 (1388)
12 PLN03128 DNA topoisomerase 2; 100.0 2E-160 5E-165 1508.7 55.1 527 349-919 4-571 (1135)
13 PLN03237 DNA topoisomerase 2; 100.0 3E-157 6E-162 1476.0 55.2 523 349-919 29-596 (1465)
14 KOG0355|consensus 100.0 2E-104 5E-109 935.5 27.7 596 350-1154 6-637 (842)
15 PRK14944 DNA polymerase III su 100.0 1.1E-55 2.5E-60 514.6 39.8 337 1-342 1-348 (375)
16 PRK14942 DNA polymerase III su 100.0 4.2E-55 9E-60 509.6 39.8 336 1-342 1-346 (373)
17 PRK14947 DNA polymerase III su 100.0 9.8E-55 2.1E-59 507.9 39.4 334 1-342 1-346 (384)
18 PRK14940 DNA polymerase III su 100.0 2E-54 4.2E-59 504.3 41.4 334 1-341 1-338 (367)
19 PRK06673 DNA polymerase III su 100.0 2.8E-54 6.1E-59 503.9 39.6 333 1-341 1-347 (376)
20 PRK14946 DNA polymerase III su 100.0 6.1E-54 1.3E-58 497.8 39.4 328 1-341 1-338 (366)
21 cd03366 TOPRIM_TopoIIA_GyrB TO 100.0 1.3E-56 2.9E-61 421.1 11.7 114 780-894 1-114 (114)
22 cd01030 TOPRIM_TopoIIA_like TO 100.0 3.6E-55 7.8E-60 414.3 10.9 115 780-894 1-115 (115)
23 PRK14941 DNA polymerase III su 100.0 3.1E-51 6.8E-56 478.6 40.8 331 1-342 1-342 (374)
24 PRK07761 DNA polymerase III su 100.0 2.9E-51 6.2E-56 480.2 39.9 333 1-342 1-341 (376)
25 PRK14945 DNA polymerase III su 100.0 2.4E-50 5.2E-55 470.1 40.4 329 1-341 1-334 (362)
26 smart00480 POL3Bc DNA polymera 100.0 1.3E-49 2.7E-54 461.5 39.1 320 19-342 1-322 (345)
27 PRK05643 DNA polymerase III su 100.0 5.5E-49 1.2E-53 460.1 41.1 335 1-341 1-339 (367)
28 PRK14943 DNA polymerase III su 100.0 1.6E-48 3.4E-53 457.0 40.9 335 1-342 1-348 (374)
29 TIGR00663 dnan DNA polymerase 100.0 1.6E-48 3.4E-53 456.2 40.0 336 1-342 1-340 (367)
30 cd03365 TOPRIM_TopoIIA TOPRIM_ 100.0 9.8E-52 2.1E-56 393.1 8.7 115 780-894 1-120 (120)
31 COG0592 DnaN DNA polymerase sl 100.0 9.2E-43 2E-47 404.5 38.2 333 1-342 1-337 (364)
32 cd00140 beta_clamp Beta clamp 100.0 2.1E-42 4.6E-47 404.0 41.0 336 1-341 1-338 (365)
33 cd00822 TopoII_Trans_DNA_gyras 100.0 2.9E-41 6.4E-46 351.0 18.5 172 577-753 1-172 (172)
34 PF00204 DNA_gyraseB: DNA gyra 100.0 1.6E-38 3.4E-43 332.4 18.6 173 578-753 1-173 (173)
35 PF00986 DNA_gyraseB_C: DNA gy 100.0 6.5E-33 1.4E-37 235.3 5.0 63 1088-1150 3-65 (65)
36 cd03481 TopoIIA_Trans_ScTopoII 100.0 4.3E-29 9.2E-34 253.3 13.7 121 613-742 32-152 (153)
37 PRK00095 mutL DNA mismatch rep 99.9 2.1E-21 4.5E-26 239.9 23.1 285 376-725 21-327 (617)
38 PF00712 DNA_pol3_beta: DNA po 99.9 1.2E-21 2.7E-26 192.9 13.8 120 1-122 1-120 (120)
39 cd00140 beta_clamp Beta clamp 99.9 1.6E-20 3.5E-25 219.7 21.6 204 130-341 2-216 (365)
40 PF02767 DNA_pol3_beta_2: DNA 99.9 7.4E-21 1.6E-25 186.2 15.2 116 132-247 1-116 (116)
41 PRK01115 DNA polymerase slidin 99.8 2.3E-18 4.9E-23 191.0 21.7 191 134-342 8-219 (247)
42 PRK05643 DNA polymerase III su 99.8 7.5E-18 1.6E-22 197.6 26.3 218 5-231 129-352 (367)
43 TIGR00663 dnan DNA polymerase 99.8 2.7E-18 5.8E-23 201.4 21.0 197 130-335 2-208 (367)
44 PRK14945 DNA polymerase III su 99.8 2E-17 4.3E-22 193.6 27.5 217 5-231 125-347 (362)
45 PRK14943 DNA polymerase III su 99.8 8.1E-18 1.8E-22 197.8 19.5 203 130-341 2-215 (374)
46 smart00480 POL3Bc DNA polymera 99.7 1.3E-16 2.7E-21 185.7 25.1 217 5-230 111-333 (345)
47 TIGR01052 top6b DNA topoisomer 99.7 1.4E-16 3.1E-21 188.1 12.7 184 352-566 4-205 (488)
48 PRK07761 DNA polymerase III su 99.7 9.5E-15 2.1E-19 171.9 24.7 215 6-231 126-353 (376)
49 cd00577 PCNA Proliferating Cel 99.6 1.1E-14 2.4E-19 161.0 21.1 190 135-341 6-219 (248)
50 PRK14940 DNA polymerase III su 99.6 3E-14 6.6E-19 166.9 21.4 203 130-341 2-216 (367)
51 PRK14941 DNA polymerase III su 99.6 6.6E-14 1.4E-18 164.5 24.2 214 5-230 131-353 (374)
52 PRK14944 DNA polymerase III su 99.5 2.8E-13 6E-18 159.0 22.1 173 130-306 2-183 (375)
53 TIGR00585 mutl DNA mismatch re 99.5 2.2E-13 4.8E-18 156.2 20.6 257 376-695 21-301 (312)
54 COG1389 DNA topoisomerase VI, 99.5 8.6E-15 1.9E-19 165.5 8.2 191 350-566 10-214 (538)
55 PRK04184 DNA topoisomerase VI 99.5 4.5E-14 9.8E-19 168.8 11.9 189 351-565 11-213 (535)
56 PRK14942 DNA polymerase III su 99.5 9.6E-13 2.1E-17 154.3 19.9 172 130-306 2-187 (373)
57 PRK14946 DNA polymerase III su 99.5 1.6E-12 3.5E-17 151.9 20.2 166 130-302 2-175 (366)
58 PRK06673 DNA polymerase III su 99.5 1.8E-12 3.8E-17 152.4 19.8 170 130-305 2-185 (376)
59 PRK14947 DNA polymerase III su 99.5 1.6E-12 3.4E-17 153.0 19.2 166 130-302 2-176 (384)
60 PRK14867 DNA topoisomerase VI 99.4 2.4E-13 5.2E-18 165.2 11.4 190 350-565 10-210 (659)
61 PF02768 DNA_pol3_beta_3: DNA 99.4 1.2E-12 2.7E-17 129.2 9.7 93 249-342 1-95 (121)
62 PF00712 DNA_pol3_beta: DNA po 99.3 2.4E-11 5.1E-16 119.9 14.5 117 130-248 2-119 (120)
63 COG0592 DnaN DNA polymerase sl 99.2 1.2E-09 2.5E-14 128.0 21.0 192 130-329 2-200 (364)
64 PRK14868 DNA topoisomerase VI 99.1 3.6E-10 7.9E-15 137.8 13.5 196 351-580 21-230 (795)
65 COG0323 MutL DNA mismatch repa 99.1 2.9E-10 6.2E-15 140.9 12.2 157 377-565 23-193 (638)
66 PRK14939 gyrB DNA gyrase subun 99.0 2.4E-11 5.3E-16 151.0 -1.4 81 1056-1141 534-623 (756)
67 PF01751 Toprim: Toprim domain 99.0 4.4E-10 9.5E-15 107.2 5.5 98 781-893 1-99 (100)
68 PF02767 DNA_pol3_beta_2: DNA 98.9 3.4E-08 7.5E-13 96.8 15.7 113 7-120 2-116 (116)
69 PRK01115 DNA polymerase slidin 98.7 4.3E-06 9.2E-11 93.0 26.9 202 8-230 8-229 (247)
70 PF02518 HATPase_c: Histidine 98.6 2.5E-08 5.5E-13 96.4 2.7 86 376-480 4-92 (111)
71 KOG1978|consensus 98.6 1.2E-07 2.6E-12 113.6 8.7 172 376-582 19-209 (672)
72 cd00329 TopoII_MutL_Trans MutL 98.5 2E-07 4.3E-12 89.3 7.6 98 581-702 3-106 (107)
73 cd00577 PCNA Proliferating Cel 98.4 3.7E-05 8.1E-10 85.1 24.1 198 8-225 5-224 (248)
74 PF13589 HATPase_c_3: Histidin 98.4 3.3E-08 7.2E-13 99.9 -0.6 98 378-493 3-105 (137)
75 PRK05218 heat shock protein 90 98.3 3.6E-05 7.8E-10 96.0 20.9 157 378-564 27-210 (613)
76 KOG1979|consensus 98.2 2.2E-06 4.7E-11 100.5 7.1 153 378-565 28-197 (694)
77 PHA03383 PCNA-like protein; Pr 98.1 0.00039 8.5E-09 77.8 21.5 192 134-342 14-234 (262)
78 TIGR00590 pcna proliferating c 97.9 0.0016 3.4E-08 73.2 22.1 190 134-341 8-227 (259)
79 PLN00057 proliferating cell nu 97.9 0.0018 4E-08 72.7 22.4 190 134-341 8-227 (263)
80 PTZ00113 proliferating cell nu 97.8 0.0017 3.8E-08 73.1 21.6 190 134-342 8-230 (275)
81 PTZ00483 proliferating cell nu 97.8 0.0026 5.6E-08 71.4 21.6 193 131-342 4-228 (264)
82 TIGR00590 pcna proliferating c 97.8 0.0082 1.8E-07 67.4 25.7 202 9-231 9-241 (259)
83 PRK14083 HSP90 family protein; 97.8 4.9E-05 1.1E-09 94.0 8.6 159 378-565 24-197 (601)
84 PTZ00113 proliferating cell nu 97.8 0.011 2.5E-07 66.6 26.3 210 3-231 2-243 (275)
85 PLN00057 proliferating cell nu 97.7 0.012 2.6E-07 66.3 25.8 203 8-231 8-241 (263)
86 cd00075 HATPase_c Histidine ki 97.6 0.00016 3.6E-09 66.6 6.9 85 378-481 1-92 (103)
87 PHA03383 PCNA-like protein; Pr 97.5 0.036 7.8E-07 62.3 24.8 203 8-231 14-247 (262)
88 PTZ00483 proliferating cell nu 97.4 0.039 8.5E-07 62.0 24.4 207 3-226 2-233 (264)
89 KOG1977|consensus 97.3 5.2E-05 1.1E-09 90.4 0.3 161 377-567 21-196 (1142)
90 PTZ00272 heat shock protein 83 97.2 0.00064 1.4E-08 85.3 8.4 154 380-563 28-206 (701)
91 smart00387 HATPase_c Histidine 97.1 0.00096 2.1E-08 62.5 5.9 83 377-478 5-90 (111)
92 PF02768 DNA_pol3_beta_3: DNA 97.0 0.0066 1.4E-07 59.9 11.9 94 4-103 11-107 (121)
93 PF13581 HATPase_c_2: Histidin 96.6 0.008 1.7E-07 59.3 8.6 89 378-490 32-124 (125)
94 PRK04069 serine-protein kinase 96.5 0.0091 2E-07 62.1 8.2 92 377-487 42-137 (161)
95 COG2205 KdpD Osmosensitive K+ 96.4 0.0034 7.4E-08 77.9 5.4 100 356-473 744-854 (890)
96 PHA02545 45 sliding clamp; Pro 96.3 0.62 1.3E-05 50.3 20.6 205 1-238 1-214 (223)
97 PTZ00130 heat shock protein 90 96.2 0.015 3.3E-07 73.5 9.4 158 379-564 90-272 (814)
98 COG0326 HtpG Molecular chapero 96.1 0.0053 1.2E-07 74.9 4.5 160 382-566 32-212 (623)
99 PRK10549 signal transduction h 95.9 0.013 2.8E-07 70.9 7.1 81 378-476 353-436 (466)
100 TIGR01925 spIIAB anti-sigma F 95.9 0.037 8E-07 55.5 9.2 81 377-479 39-123 (137)
101 COG3920 Signal transduction hi 95.7 0.03 6.5E-07 61.4 8.1 96 365-494 111-216 (221)
102 PRK11086 sensory histidine kin 95.6 0.013 2.9E-07 72.1 5.6 76 377-474 433-511 (542)
103 TIGR01386 cztS_silS_copS heavy 95.4 0.028 6E-07 67.6 7.3 80 378-475 354-436 (457)
104 TIGR01924 rsbW_low_gc serine-p 95.4 0.088 1.9E-06 54.7 9.9 95 377-490 42-140 (159)
105 PRK15053 dpiB sensor histidine 95.4 0.027 6E-07 69.7 7.3 81 376-475 431-516 (545)
106 COG3290 CitA Signal transducti 95.4 0.016 3.5E-07 69.5 4.8 78 378-477 428-510 (537)
107 TIGR02938 nifL_nitrog nitrogen 95.4 0.025 5.4E-07 68.3 6.6 80 377-475 387-471 (494)
108 PRK03660 anti-sigma F factor; 95.3 0.1 2.2E-06 52.9 9.9 83 377-481 39-125 (146)
109 PRK09470 cpxA two-component se 95.2 0.032 6.9E-07 67.3 6.9 78 377-474 353-433 (461)
110 PRK10604 sensor protein RstB; 95.1 0.031 6.8E-07 67.4 6.3 80 377-476 319-401 (433)
111 PRK10364 sensor protein ZraS; 95.1 0.024 5.3E-07 68.7 5.4 75 377-475 348-425 (457)
112 PRK11006 phoR phosphate regulo 95.0 0.046 1E-06 65.8 7.2 82 376-475 316-400 (430)
113 PRK10337 sensor protein QseC; 94.9 0.055 1.2E-06 65.2 7.7 77 378-476 353-429 (449)
114 PRK11073 glnL nitrogen regulat 94.6 0.083 1.8E-06 61.3 7.8 75 377-474 237-324 (348)
115 PRK11100 sensory histidine kin 94.6 0.062 1.3E-06 64.9 6.9 80 378-476 369-451 (475)
116 PRK09467 envZ osmolarity senso 94.4 0.073 1.6E-06 63.8 7.0 77 378-476 332-411 (435)
117 PRK09303 adaptive-response sen 94.3 0.054 1.2E-06 64.3 5.5 78 377-474 272-353 (380)
118 PRK15347 two component system 94.3 0.066 1.4E-06 70.8 6.7 77 377-476 513-592 (921)
119 PRK11466 hybrid sensory histid 94.2 0.064 1.4E-06 71.0 6.3 77 377-476 561-640 (914)
120 PRK10755 sensor protein BasS/P 94.1 0.092 2E-06 61.3 6.8 77 377-475 247-326 (356)
121 PRK09835 sensor kinase CusS; P 93.7 0.12 2.5E-06 62.8 7.1 81 377-475 375-458 (482)
122 KOG1636|consensus 93.6 2.4 5.1E-05 45.7 15.1 177 157-342 22-228 (260)
123 PRK10815 sensor protein PhoQ; 93.5 0.091 2E-06 64.5 5.5 74 378-475 379-455 (485)
124 COG4191 Signal transduction hi 93.1 0.098 2.1E-06 63.5 4.7 51 377-427 497-550 (603)
125 TIGR03785 marine_sort_HK prote 93.0 0.14 2.9E-06 65.9 6.2 81 377-475 597-680 (703)
126 PRK11644 sensory histidine kin 92.8 0.21 4.5E-06 61.6 7.1 44 377-423 410-456 (495)
127 TIGR02916 PEP_his_kin putative 92.5 0.17 3.7E-06 64.9 6.2 74 377-474 579-656 (679)
128 COG2172 RsbW Anti-sigma regula 92.5 0.52 1.1E-05 48.3 8.5 82 378-484 41-130 (146)
129 KOG1636|consensus 92.3 12 0.00025 40.6 18.2 201 11-231 11-239 (260)
130 PRK13837 two-component VirA-li 92.2 0.23 5E-06 65.2 7.0 75 377-475 560-652 (828)
131 COG3850 NarQ Signal transducti 91.9 0.2 4.3E-06 60.1 5.1 47 378-427 482-531 (574)
132 PRK10600 nitrate/nitrite senso 91.7 0.52 1.1E-05 59.1 9.0 43 378-423 470-515 (569)
133 COG0642 BaeS Signal transducti 91.7 0.2 4.4E-06 56.2 4.8 47 377-426 228-277 (336)
134 TIGR02966 phoR_proteo phosphat 91.4 0.26 5.6E-06 56.1 5.5 80 377-474 229-311 (333)
135 PRK10841 hybrid sensory kinase 91.4 0.26 5.6E-06 65.3 6.0 81 377-476 562-645 (924)
136 PRK11360 sensory histidine kin 91.0 0.45 9.8E-06 58.9 7.5 75 377-475 500-578 (607)
137 COG3852 NtrB Signal transducti 91.0 0.22 4.9E-06 55.9 4.1 72 336-427 219-306 (363)
138 PRK10618 phosphotransfer inter 90.6 0.8 1.7E-05 60.4 9.3 89 365-476 556-650 (894)
139 PRK10490 sensor protein KdpD; 90.3 0.38 8.2E-06 63.6 6.1 79 377-475 778-859 (895)
140 PRK10547 chemotaxis protein Ch 90.2 0.74 1.6E-05 58.4 8.2 43 383-425 391-446 (670)
141 PRK13560 hypothetical protein; 90.2 0.57 1.2E-05 60.7 7.6 46 378-423 712-762 (807)
142 TIGR02956 TMAO_torS TMAO reduc 90.0 0.31 6.8E-06 64.9 5.0 88 365-476 570-661 (968)
143 cd00188 TOPRIM Topoisomerase-p 89.3 0.89 1.9E-05 40.1 5.9 71 781-877 2-72 (83)
144 PF04139 Rad9: Rad9; InterPro 89.3 41 0.00089 37.6 20.8 204 12-233 1-239 (252)
145 PRK11091 aerobic respiration c 89.3 0.39 8.5E-06 62.5 5.0 81 377-475 398-482 (779)
146 COG4585 Signal transduction hi 88.1 0.55 1.2E-05 55.4 4.8 46 376-424 278-326 (365)
147 PRK11107 hybrid sensory histid 88.0 0.55 1.2E-05 62.1 5.2 81 378-475 409-495 (919)
148 PRK13557 histidine kinase; Pro 88.0 1.1 2.4E-05 54.9 7.6 77 377-475 277-371 (540)
149 COG5000 NtrY Signal transducti 88.0 0.58 1.3E-05 57.0 4.7 80 368-470 592-679 (712)
150 PF02747 PCNA_C: Proliferating 87.8 3.6 7.8E-05 41.1 9.7 84 252-341 2-101 (128)
151 KOG0787|consensus 87.6 0.43 9.4E-06 54.9 3.3 65 357-426 245-318 (414)
152 PRK13559 hypothetical protein; 87.6 1.5 3.3E-05 51.2 8.0 46 377-422 267-318 (361)
153 PRK09959 hybrid sensory histid 85.1 1.3 2.8E-05 60.7 6.5 82 377-477 828-915 (1197)
154 COG5002 VicK Signal transducti 84.2 0.61 1.3E-05 53.3 2.2 91 360-470 325-420 (459)
155 PF00705 PCNA_N: Proliferating 83.5 16 0.00036 36.5 11.9 82 134-225 8-95 (127)
156 PF00705 PCNA_N: Proliferating 79.9 22 0.00049 35.5 11.4 85 8-101 8-101 (127)
157 COG3851 UhpB Signal transducti 79.4 2.2 4.9E-05 49.0 4.5 44 377-423 410-456 (497)
158 COG4564 Signal transduction hi 76.7 3.6 7.7E-05 46.9 5.0 67 358-427 330-409 (459)
159 PRK10935 nitrate/nitrite senso 74.9 3.9 8.5E-05 50.8 5.5 42 378-422 472-517 (565)
160 COG4192 Signal transduction hi 71.9 5.4 0.00012 47.3 5.1 77 378-477 565-645 (673)
161 cd00823 TopoIIB_Trans TopoIIB_ 65.0 46 0.001 34.2 9.4 80 611-704 32-116 (151)
162 PF14501 HATPase_c_5: GHKL dom 62.7 21 0.00046 33.7 6.4 71 378-476 6-80 (100)
163 KOG0020|consensus 62.2 9.4 0.0002 45.5 4.5 159 379-555 97-275 (785)
164 PF09239 Topo-VIb_trans: Topoi 61.4 57 0.0012 33.8 9.3 79 612-704 42-125 (160)
165 COG2972 Predicted signal trans 57.6 11 0.00023 46.1 4.3 46 379-424 352-402 (456)
166 PRK04017 hypothetical protein; 56.7 3.4 7.3E-05 41.5 -0.2 29 851-879 64-92 (132)
167 COG0643 CheA Chemotaxis protei 44.3 21 0.00046 45.9 4.0 42 385-426 440-494 (716)
168 COG1658 Small primase-like pro 42.0 23 0.0005 35.5 3.0 26 850-875 53-78 (127)
169 COG3275 LytS Putative regulato 42.0 35 0.00077 41.2 5.0 45 379-423 458-507 (557)
170 PF13662 Toprim_4: Toprim doma 38.5 7.2 0.00016 35.5 -1.1 19 852-870 46-64 (81)
171 cd01027 TOPRIM_RNase_M5_like T 36.6 5.8 0.00013 36.5 -2.0 27 852-878 45-71 (81)
172 KOG0019|consensus 31.3 76 0.0016 39.5 5.6 139 398-567 90-239 (656)
173 PRK04184 DNA topoisomerase VI 30.5 3.7E+02 0.008 33.7 11.4 100 611-724 352-460 (535)
174 cd01028 TOPRIM_TopoIA TOPRIM_T 29.5 43 0.00094 34.0 2.8 26 852-877 91-116 (142)
175 COG1389 DNA topoisomerase VI, 27.7 3.8E+02 0.0082 32.7 10.2 101 611-726 356-465 (538)
176 COG4251 Bacteriophytochrome (l 27.6 25 0.00055 43.7 0.8 97 378-493 637-741 (750)
177 PF10691 DUF2497: Protein of u 26.4 1E+02 0.0022 27.9 4.2 31 707-741 35-66 (73)
178 PRK14867 DNA topoisomerase VI 25.2 4E+02 0.0087 34.2 10.6 98 612-724 498-613 (659)
179 cd01026 TOPRIM_OLD TOPRIM_OLD: 24.8 67 0.0014 30.3 3.0 59 781-867 5-70 (97)
180 PF02144 Rad1: Repair protein 24.0 1.1E+03 0.024 26.8 15.7 216 71-293 6-267 (275)
181 TIGR01052 top6b DNA topoisomer 23.9 5.1E+02 0.011 32.1 10.9 85 612-711 348-439 (488)
182 PRK04031 DNA primase; Provisio 23.6 1.2E+02 0.0027 36.1 5.4 122 715-895 121-243 (408)
183 PF04139 Rad9: Rad9; InterPro 22.9 1.1E+03 0.023 26.2 22.3 195 79-290 6-227 (252)
184 PRK14868 DNA topoisomerase VI 21.5 5.5E+02 0.012 33.5 10.7 91 611-712 541-639 (795)
185 PF14484 FISNA: Fish-specific 20.5 55 0.0012 29.6 1.4 15 778-792 29-43 (73)
186 cd03363 TOPRIM_TopoIA_TopoI TO 20.2 74 0.0016 31.6 2.4 24 853-876 74-97 (123)
No 1
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=4e-222 Score=1904.75 Aligned_cols=630 Identities=59% Similarity=0.958 Sum_probs=605.8
Q ss_pred ccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccc
Q psy13360 344 ESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPID 423 (1161)
Q Consensus 344 ~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~ 423 (1161)
.++|++++|++|+||||||||||||||||+.++|||||||||||||||||+||||+.|.|+||+||||+|.||||||||+
T Consensus 3 ~~~Y~a~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvd 82 (635)
T COG0187 3 TNNYDASSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVD 82 (635)
T ss_pred cCcCCHhHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccc
Confidence 36799999999999999999999999999998999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccc
Q psy13360 424 IKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKT 503 (1161)
Q Consensus 424 ~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~ 503 (1161)
+||+ +++|++|+|||.||||||||+++||+||||||||+|||||||+||+|+|+|+|+.|+|.|++|
T Consensus 83 iH~~----~~~~~vEvI~T~LHAGGKFd~~~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G--------- 149 (635)
T COG0187 83 IHPK----EKVSAVEVIFTVLHAGGKFDNDSYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERG--------- 149 (635)
T ss_pred cCCC----CCCCceEEEEEeeccCcccCCCccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCC---------
Confidence 9999 889999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccccCcEEecc--CCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEE-EEEeCCchh
Q psy13360 504 INGISVSPIKIIGD--TNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKE-IFEFKGGTS 580 (1161)
Q Consensus 504 ~~~~~~~~~~~~g~--~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~-~f~~~~Gi~ 580 (1161)
.++++++++|. ++++||+|+||||++||++..|++++|.+|||++|||||||+|.|+|+|..... .|||++||+
T Consensus 150 ---~~~~~l~~ig~~~~~~~GT~V~F~PD~~iF~~~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~~~~~~y~~Gl~ 226 (635)
T COG0187 150 ---VPVTPLEVIGSTDTKKTGTKVRFKPDPEIFGETEFDYEILKRRLRELAFLNKGVKITLTDERTGEEKKEFHYEGGLK 226 (635)
T ss_pred ---CcCCCceecccCCCCCCccEEEEEcChHhcCCcccCHHHHHHHHHHHhccCCCCEEEEEeccCCcccceeecccHHH
Confidence 78888888885 357899999999999999999999999999999999999999999999975322 599999999
Q ss_pred hhhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHH
Q psy13360 581 GFVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIE 660 (1161)
Q Consensus 581 ~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~ 660 (1161)
+|+++++..+.++|+.++++.++. +++.|||||||+++|+|+++||||||+|++||||++||++||||+||+|++
T Consensus 227 ~yv~~l~~~k~~l~~~~~~~~~~~-----~~~~vEvA~q~~d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~ 301 (635)
T COG0187 227 DYVEYLNKGKTPLHEEIFYFNGEK-----DGIAVEVALQWNDGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAK 301 (635)
T ss_pred HHHHHHhcCCCccccCceecccCc-----cceEEEEEEEEecCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999987776 789999999999999999999999999999999999999999999999999
Q ss_pred HhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHH
Q psy13360 661 ENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEA 740 (1161)
Q Consensus 661 ~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~ 740 (1161)
+++++|+.+ ++++||||||++||||+||||||+||||+||+|++++++|++++++.|..||++||..|+.|++|++.+
T Consensus 302 ~~~~~k~~~--l~g~Diregl~aviSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~a 379 (635)
T COG0187 302 KKNLLKEGD--LTGDDIREGLTAVISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAA 379 (635)
T ss_pred HhCcCcccC--CCHHHHhhccEEEEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHH
Confidence 999998765 999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccch
Q psy13360 741 ARSREAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARF 820 (1161)
Q Consensus 741 ~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~ 820 (1161)
|+||+|||+||+++|||++++...||||||||+++||++|||||||||||||||||||||+|||||||||||||||||+.
T Consensus 380 a~aR~aarkare~~R~k~~~~~~~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~ 459 (635)
T COG0187 380 AKAREAARKARELTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARL 459 (635)
T ss_pred HHHHHHHHHHHHHHhhhcccccCCCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEE
Q psy13360 821 EKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIK 900 (1161)
Q Consensus 821 ~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~ 900 (1161)
+||++|+||++|++|||||+++ +||+++||||||||||||||||+|||||||||||||||+||++|||||||||||||+
T Consensus 460 ~kil~N~EI~~ii~AlG~g~~~-~fd~~~LRY~kIiIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~ 538 (635)
T COG0187 460 DKILKNEEIQTIITALGTGIGK-DFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVK 538 (635)
T ss_pred hhhhhhHHHHHHHHHhCCCCCC-CCChhhCccCcEEEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEE
Confidence 9999999999999999999995 599999999999999999999999999999999999999999999999999999999
Q ss_pred eCCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcC
Q psy13360 901 YGNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLD 980 (1161)
Q Consensus 901 ~gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 980 (1161)
+||++.|+|||.|+++.+.+
T Consensus 539 ~~k~~~Y~~~d~E~~~~~~~------------------------------------------------------------ 558 (635)
T COG0187 539 KGKKTFYAYDDEELEKLLER------------------------------------------------------------ 558 (635)
T ss_pred cCCceeEeCCHHHHHHHHHH------------------------------------------------------------
Confidence 99999999999997665421
Q ss_pred ChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEE
Q psy13360 981 TRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVII 1060 (1161)
Q Consensus 981 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1060 (1161)
+
T Consensus 559 ---------------~---------------------------------------------------------------- 559 (635)
T COG0187 559 ---------------L---------------------------------------------------------------- 559 (635)
T ss_pred ---------------h----------------------------------------------------------------
Confidence 0
Q ss_pred EeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCC
Q psy13360 1061 QKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGD 1140 (1161)
Q Consensus 1061 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~ 1140 (1161)
. + + ++++||||||||||||+|||||||||++|+|+||+|+||++||++|++||||
T Consensus 560 -----~--~-----------------~-~~~~IqRyKGLGEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd 614 (635)
T COG0187 560 -----G--K-----------------K-KGYEIQRYKGLGEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGD 614 (635)
T ss_pred -----c--c-----------------c-CCceeEeecccCCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCC
Confidence 0 0 1 4699999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHHHhhcccccCCC
Q psy13360 1141 NVELRRKFIELNALHAKNIDI 1161 (1161)
Q Consensus 1141 ~v~~Rr~fi~~~a~~~~~ld~ 1161 (1161)
+|||||+||++||.++.++||
T Consensus 615 ~ve~Rr~fIe~na~~~~~~di 635 (635)
T COG0187 615 KVEPRRNFIEENALFVENLDI 635 (635)
T ss_pred CchHHHHHHHHHhhhhhhccC
Confidence 999999999999999999997
No 2
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=100.00 E-value=1e-204 Score=1850.09 Aligned_cols=753 Identities=56% Similarity=0.935 Sum_probs=705.4
Q ss_pred ccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccc
Q psy13360 344 ESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPID 423 (1161)
Q Consensus 344 ~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~ 423 (1161)
...|++++|++|+|+||||||||||||||+.++||||||||||||||||++||||+.|.|+|+.||+|+|+|||||||++
T Consensus 4 ~~~Y~a~~i~vL~gle~VRkRPgMYIGst~~~~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPvd 83 (756)
T PRK14939 4 SNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTD 83 (756)
T ss_pred cCCCCHHHCeEecccHHHhcCCCCeeCCCCCCcchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccCC
Confidence 35699999999999999999999999999987899999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccc
Q psy13360 424 IKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKT 503 (1161)
Q Consensus 424 ~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~ 503 (1161)
+||+ +|+|++|+|||+||||||||++.|++|||+||||+|||||||+||+|+++|+|+.|+|+|++|
T Consensus 84 ~h~~----~g~~~~Elvlt~lhAggKfd~~~ykvSgGlhGvG~svvNAlS~~l~v~v~r~gk~~~q~f~~G--------- 150 (756)
T PRK14939 84 IHPE----EGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHG--------- 150 (756)
T ss_pred cccc----cCCchhhheeeeecccCCCCCCcccccCCccCccceEeehccCeEEEEEEeCCeEEEEEEecC---------
Confidence 9998 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCchhhhh
Q psy13360 504 INGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGGTSGFV 583 (1161)
Q Consensus 504 ~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~Gi~~fv 583 (1161)
.++.|+..++.+.++||+|+|+||+++|++..|+++.|.+|++++|||||||+|+|+|+|.++++.|+|+||+.+|+
T Consensus 151 ---~~~~~l~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~i~~rl~elA~lnpgl~i~l~der~~~~~~f~~egGi~~fv 227 (756)
T PRK14939 151 ---VPVAPLKVVGETDKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGGIKAFV 227 (756)
T ss_pred ---ccccCccccCCcCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHhhcCCCCEEEEeccCCCceeEEEeCChHHHHH
Confidence 67788888887788999999999999998889999999999999999999999999999987778899999999999
Q ss_pred hhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhc
Q psy13360 584 SYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENE 663 (1161)
Q Consensus 584 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~ 663 (1161)
+|++.++.++|++++++.++. +++.||||+||+++|+++++||||||+|++||||++||++||+++||+|+++++
T Consensus 228 ~~l~~~~~~~~~~~i~~~~~~-----~~~~veval~~~~~~~e~~~SFvN~I~T~~GGTHv~gf~~altr~in~y~~~~~ 302 (756)
T PRK14939 228 EYLNRNKTPLHPNIFYFSGEK-----DGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEG 302 (756)
T ss_pred HHHhcCCCcCCCCceEEEeee-----CCeEEEEEEEEcCCCceeEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence 999988888988899998876 779999999999999999999999999999999999999999999999999989
Q ss_pred ccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHH
Q psy13360 664 FLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAARS 743 (1161)
Q Consensus 664 l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~a 743 (1161)
++|+.+.+++++||||||++||||++|||+|+||||+||+|++++++|++++++.|..||++||..|+.|++|++.+|+|
T Consensus 303 l~K~~~~~l~~~diregl~~vvsvki~~P~FegQTK~kL~n~ev~~~v~~~v~e~l~~~l~~np~~a~~ii~k~~~aa~a 382 (756)
T PRK14939 303 LAKKAKVSLTGDDAREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARA 382 (756)
T ss_pred cccccCCCCCHhHHhhceEEEEEEecCCCcccCchhccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHH
Confidence 98887789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHH
Q psy13360 744 REAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKI 823 (1161)
Q Consensus 744 r~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki 823 (1161)
|+||++||+++|||++++..+|||||+||+++||++|||||||||||||||||||||+|||||||||||||||||+++||
T Consensus 383 R~aa~kar~~~rrK~~~~~~~lpgKL~Dc~~~d~~~~eLfivEGDSAgGsAk~gRdr~~qailPLRGKiLNveka~~~ki 462 (756)
T PRK14939 383 REAARKARELTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKM 462 (756)
T ss_pred HHHHHHHHHHhccccccccCCCCCCccccccCCCCceEEEEEeCCCCccccccccCccceeccccCCccchhccCCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEEeCC
Q psy13360 824 ILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIKYGN 903 (1161)
Q Consensus 824 ~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~~gk 903 (1161)
++|+||++||+|||||+|+++||+++||||||||||||||||+|||||||||||||||+||++||||+||||||||++||
T Consensus 463 l~N~Ei~~li~alG~gig~~~fd~~~LRY~kIiIMTDADvDGsHIrtLLltff~r~~p~Lie~G~vyia~pPLykv~~gk 542 (756)
T PRK14939 463 LSSQEIGTLITALGCGIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGK 542 (756)
T ss_pred hcCHHHHHHHHHhCCCCCcccCChhhCCcCeEEEEcCCCCCchHHHHHHHHHHHHhChhhccCCeEEEecCcEEEEecCC
Confidence 99999999999999999966899999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCChH
Q psy13360 904 NECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDTRE 983 (1161)
Q Consensus 904 ~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 983 (1161)
+++|||||+|+++|+.+.+.++..+... ++..+.++.|.++......++..++...|++.+..++.+.....+.
T Consensus 543 ~~~y~~~~~e~~~~l~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~----- 616 (756)
T PRK14939 543 QEQYLKDDEALDDYLIELALEGATLHLA-DGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALD----- 616 (756)
T ss_pred eeEecCCHHHHHHHHHHhCcCCceeecC-CCCcccHHHHHHHHHHHHHHHHHHhHHhccccHHHHHHHHhccccc-----
Confidence 9999999999999999888888877654 4567999999999999999999999999998876666554221111
Q ss_pred HHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEEec
Q psy13360 984 NAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQKS 1063 (1161)
Q Consensus 984 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1063 (1161)
..+ +. +. .....+|.+|++|++|+++.+..+.+.++++.++.+..+
T Consensus 617 ----------~~~--------~~---~~-------------~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~ 662 (756)
T PRK14939 617 ----------LDD--------LA---DE-------------AAVAALDADFLTSAEYRRLVELAEKLRGLIEEGAYLERG 662 (756)
T ss_pred ----------hhh--------hc---ch-------------hhhhhcchhhhcCHHHHHHHHHHHHHHHHhccCcEEEcC
Confidence 000 00 00 001226789999999999999999999987666777665
Q ss_pred cccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCCch
Q psy13360 1064 IGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDNVE 1143 (1161)
Q Consensus 1064 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~v~ 1143 (1161)
+ ++..+.++.+++++|++.|+++..||||||||||||+|||+|||||++|+|+||.++|+..|+++|+.|||+.|+
T Consensus 663 --~--~~~~~~~~~ell~~v~~~gr~g~~Iqr~KgLgEM~~eqL~eTtmdp~~R~l~~v~led~~~a~~~f~~lMg~~ve 738 (756)
T PRK14939 663 --E--RKQPVSSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVE 738 (756)
T ss_pred --C--cceecCCHHHHHHHHHhhhccCccccccccHHHhHHHHHHHHhhChhheeeeeeehhhHHHHHHHHHHHhcCCcc
Confidence 3 457899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcccccCCC
Q psy13360 1144 LRRKFIELNALHAKNIDI 1161 (1161)
Q Consensus 1144 ~Rr~fi~~~a~~~~~ld~ 1161 (1161)
|||+||+.||+.+.+||+
T Consensus 739 ~rr~fI~~~a~~v~~LD~ 756 (756)
T PRK14939 739 PRREFIEENALNVANLDV 756 (756)
T ss_pred hhHHHHHHhhhhHhhcCC
Confidence 999999999998888986
No 3
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=100.00 E-value=1.5e-200 Score=1798.30 Aligned_cols=703 Identities=39% Similarity=0.624 Sum_probs=600.6
Q ss_pred CccccccccccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEE
Q psy13360 335 NSYDIQDTQESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISIS 414 (1161)
Q Consensus 335 ~~d~i~l~~~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~ 414 (1161)
++..+++.+...|++++|++|+||||||||||||||||+. +||||||||||||||||+++|+|+.|+|+||+||||+|+
T Consensus 88 ~~~~~~~~~~~~Y~a~~I~vLeGLEaVRkRPGMYIGst~~-~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~DgsItV~ 166 (903)
T PTZ00109 88 KERVPQLQRCSEYDADDIVVLEGLEAVRKRPGMYIGNTDE-KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEIS 166 (903)
T ss_pred cCCCCCcCcCCCCChHhCeehhccHHHhcCCCceeCCCCC-CcceEEEEEEeeccchhhccCCCcEEEEEEcCCCeEEEE
Confidence 3344555555679999999999999999999999999998 999999999999999999999999999999999999999
Q ss_pred ECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC----------------------------------------c
Q psy13360 415 DNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN----------------------------------------S 454 (1161)
Q Consensus 415 DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~----------------------------------------~ 454 (1161)
|||||||+++||+ +|+|++|+|||+|||||||+++ .
T Consensus 167 DnGRGIPvd~h~k----~g~s~~E~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~ 242 (903)
T PTZ00109 167 DNGRGIPCDVSEK----TGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQM 242 (903)
T ss_pred eCCcccccccccc----CCCcceeEEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCc
Confidence 9999999999999 9999999999999999999883 7
Q ss_pred eeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccccCCccccCcEEeccC-CCCCcEEEEEeC-cc
Q psy13360 455 YKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDT-NKQGTKIHFWVD-EK 532 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~-~~~GT~V~F~PD-~~ 532 (1161)
|++||||||||+|||||||+||+|+|+|+|+.|+|+|++| .++.|+++++++ .++||+|+|||| ++
T Consensus 243 YkvSGGLHGVG~SVVNALS~~l~VeV~RdGK~y~q~F~rG------------~~v~pLkvig~~~~~tGT~VtF~PD~~~ 310 (903)
T PTZ00109 243 YEYSSGLHGVGLSVVNALSSFLKVDVFKGGKIYSIELSKG------------KVTKPLSVFSCPLKKRGTTIHFLPDYKH 310 (903)
T ss_pred ceecCcCCCcceeeeeeccCeEEEEEEECCEEEEEEeCCC------------cccCCccccCCcCCCCceEEEEEeCcch
Confidence 9999999999999999999999999999999999999999 677888888877 789999999999 99
Q ss_pred cccc-CC-------------CCHHHHHHHHHhhhccCCCcEEEEeecccc------eEEEEEeCCchhhhhhhhhcCCcc
Q psy13360 533 IFSN-IE-------------FHYEILKKRIRELSFLNNGVCITLIDERIK------KKEIFEFKGGTSGFVSYINKSKLV 592 (1161)
Q Consensus 533 iF~~-~~-------------~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~------~~~~f~~~~Gi~~fv~~l~~~~~~ 592 (1161)
||++ .. |++++|.+||+++|||||||+|+|+|+|.+ ..+.|+|+||+.+|+++++.++.+
T Consensus 311 IF~~~~~~~~~~~~~~~~~~F~~d~L~~RLrElAfLNpGL~I~L~DeR~~~~~~~~~~e~f~~egGi~dfv~~ln~~k~~ 390 (903)
T PTZ00109 311 IFKTHHQHTETEEEEGCKNGFNLDLIKNRIHELSYLNPGLTFYLVDERIANENNFYPYETIKHEGGTREFLEELIKDKTP 390 (903)
T ss_pred hcCccccccccccccccccccCHHHHHHHHHHHhccCCCcEEEEEecCccccCCcceEEEEEecCCHHHHHHHhcCCCCc
Confidence 9975 33 899999999999999999999999999953 346799999999999999998888
Q ss_pred cCCc--eEEEeeccccccCCceEEEEEEeec-CCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhccccccc
Q psy13360 593 VHPT--IFQAIGNKISEKKNNINIDVSMQWN-NSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSK 669 (1161)
Q Consensus 593 ~~~~--~~~~~~~~~~~~~~~~~veva~~~~-~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~ 669 (1161)
+|++ +++++++. +++.|||||||+ ++|+++++||||+|+|+ ||||++||++||+++||.|+++++++|+++
T Consensus 391 l~~~~~~I~~~g~~-----~~i~VEVAlq~s~~~y~e~i~SFVNnI~T~-GGTHv~Gfr~ALTr~In~y~kk~~llK~k~ 464 (903)
T PTZ00109 391 LYKDINIISIRGVI-----KNVNVEVSLSWSLESYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNF 464 (903)
T ss_pred cCCCCceEEEEeee-----cCeEEEEEEEecCCCCceEEEEEECCccCC-CCCHHHHHHHHHHHHHHHHHHHhCcccccC
Confidence 8765 78888876 678899999998 58999999999999999 999999999999999999999999888767
Q ss_pred ccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHHHH
Q psy13360 670 IEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAARSREAARK 749 (1161)
Q Consensus 670 ~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~ 749 (1161)
.+++++||||||++||||+++||+|+||||+||+|++++.+|+++|.+.|..||++||..++.|++|++.+++||+|||+
T Consensus 465 ~~i~gedIREGLtavISvki~~PqFeGQTK~KLgn~~vk~~ve~iv~e~L~~~l~~np~~a~~I~~Ka~~a~~AreaAk~ 544 (903)
T PTZ00109 465 VNIPGEFIREGMTAIISVKLNGAEFDGQTKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKA 544 (903)
T ss_pred CCCCHHHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcccccc-cccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccc-hhHHhccH
Q psy13360 750 TRELTRKKNLID-DIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKAR-FEKIILSE 827 (1161)
Q Consensus 750 a~~~~r~k~~~~-~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~-~~ki~~n~ 827 (1161)
||+++|+|++.. ...|||||+||+++||++|||||||||||||||||||||+||||||||||||||||++ .+||++|+
T Consensus 545 arel~R~K~~~~~~~~lPgKL~DC~s~d~~~~ELfIVEGDSAgGSAKqgRdR~~QAILPLRGKILNVeka~~~~kil~N~ 624 (903)
T PTZ00109 545 AKDLIRQKNNQYYSTILPGKLVDCISDDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNKKVFENS 624 (903)
T ss_pred hHHHhhhhhcccccCCCCCcccccccCCCcccEEEEEcccCCCcccccccCccceeecccCCceehhcccccHHHHHhcH
Confidence 999999987764 4679999999999999999999999999999999999999999999999999999995 99999999
Q ss_pred hHHHHHHHhCCCCCCC---CCcc----------------------------cccccceEEEeecCCCCChhhHHHHHHHH
Q psy13360 828 QITTLISTLGIGIEQD---EFNL----------------------------EKLRYHRIIIMTDADIDGAHIRALLLTFF 876 (1161)
Q Consensus 828 Ei~~l~~alG~~~~~~---~~~~----------------------------~~lRY~kiiimtDaD~DG~HI~~Llltff 876 (1161)
||++||+|||||++.. +||+ ++||||||||||||||||+|||+||||||
T Consensus 625 EI~~Li~alG~gig~~~~~~~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LRYgKIIIMTDADVDGsHIrtLLLTff 704 (903)
T PTZ00109 625 EIKLLITSIGLSVNPVTWRQYDLSHGTKASKDESVQNNNSTLTKKKNSLFDTPLRYGKIILLTDADVDGEHLRILLLTLL 704 (903)
T ss_pred HHHHHHHHhCCCCCcccccccCcccccccccccccccccccccccccccccccCCcCeEEEEeCCCCChhHHHHHHHHHH
Confidence 9999999999999852 6888 99999999999999999999999999999
Q ss_pred HHhcHhhhhcCcEEEEcCcEEEEEeC------------CcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHH
Q psy13360 877 YRKMPKLIEYGYIYIAQPPLYKIKYG------------NNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFK 944 (1161)
Q Consensus 877 ~~~~p~Li~~g~v~~~~~Pl~kv~~g------------k~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 944 (1161)
|||||+||++||||+|+||||||++| |+.+|+|||+|+++++.+.+.+.....-.
T Consensus 705 ~r~~p~Lie~G~vyia~pPLyki~~~~~~~~~~~~~~~k~~~y~~sd~el~~~~~~~~~~~~~~~~~------------- 771 (903)
T PTZ00109 705 YRFCPSLYEHGRVYVACPPLYRITNNRMKQFNVSTKNSKKYIYTWSDEELNVLIKLLNKDYSSKETT------------- 771 (903)
T ss_pred HHhCHHhhhCCEEEEecCCEEEEEecCcccccccccccceeEEeCCHHHHHHHHHHhhccccccccc-------------
Confidence 99999999999999999999999985 77899999999999986432111000000
Q ss_pred HHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecc
Q psy13360 945 LIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLK 1024 (1161)
Q Consensus 945 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1024 (1161)
++++ ..+.++ +. +..|..+...+.... ++.
T Consensus 772 ------------~~~~------------~~~~~~--~~---------------~~~~~~~~~~~~~~~---------~~~ 801 (903)
T PTZ00109 772 ------------RSVE------------EKGNAP--DL---------------DNEYEDEKLDNKNMR---------ENN 801 (903)
T ss_pred ------------cccc------------cccccc--cc---------------ccccccccccccccc---------ccc
Confidence 0000 001111 00 000110000000000 000
Q ss_pred eeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEEeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCCh
Q psy13360 1025 KKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNP 1104 (1161)
Q Consensus 1025 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~ 1104 (1161)
........++ . .. +... + +..++. +=+.+.. ..++++||||||||||||
T Consensus 802 ~~~~~~~~~~-~-----------~~----------~~~~--~-----~~~~~~-~~~~~~~-~~~~~~iqRfKGLGEM~~ 850 (903)
T PTZ00109 802 VDEVELKTEL-G-----------TN----------VADT--E-----QTDELD-INKAFFK-FSKHYEIQRFKGLGEMMA 850 (903)
T ss_pred cccccccccc-c-----------cc----------cccc--c-----cccccc-ccccccc-cCCcccceeeccHhhhhH
Confidence 0000000000 0 00 0000 0 000000 0000001 123589999999999999
Q ss_pred hhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCCchHHHHHHHHhhc
Q psy13360 1105 GQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDNVELRRKFIELNAL 1154 (1161)
Q Consensus 1105 ~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~v~~Rr~fi~~~a~ 1154 (1161)
+|||||||||++|+|+||+|+||.+|+++|++|||++|+|||+||++||.
T Consensus 851 ~qLweTTMdP~~R~L~rv~v~d~~~a~~~~~~LMG~~~~~Rk~fI~~n~~ 900 (903)
T PTZ00109 851 DQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRKQFIFENSP 900 (903)
T ss_pred HHHHHhhhChhhceeeeeeHHHHHHHHHHHHHHhCCCChhhHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999999985
No 4
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=5.9e-195 Score=1756.11 Aligned_cols=622 Identities=49% Similarity=0.789 Sum_probs=593.1
Q ss_pred cccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCcccccc
Q psy13360 345 SSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPIDI 424 (1161)
Q Consensus 345 ~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~~ 424 (1161)
..|++++|++|+|+||||||||||||||+. +|||||||||||||+||+++|+|+.|+|+|++||+|+|+|||||||++.
T Consensus 3 ~~Y~~~~i~~L~glE~VRkRPgMYIGst~~-~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~~ 81 (637)
T TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDS-KGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGI 81 (637)
T ss_pred CccCHHHCeeecccHHHhcCCCCeECCCCc-chhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCcc
Confidence 459999999999999999999999999998 9999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCcccccccccc
Q psy13360 425 KIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKTI 504 (1161)
Q Consensus 425 ~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~ 504 (1161)
||. +|+|++|+|||+||||||||+++|++||||||||+|||||||+||+|+|+|+|+.|+|+|++||
T Consensus 82 h~~----~~~~~~E~v~t~LhaGgkfd~~~ykvSGGlhGvG~svvNAlS~~~~V~v~r~gk~~~q~f~~Gg--------- 148 (637)
T TIGR01058 82 HQD----GNISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGG--------- 148 (637)
T ss_pred cCc----CCCccceeEEEEecccCcCCCCcccccCCcccccccccceeeceEEEEEEECCEEEEEEEecCC---------
Confidence 998 8999999999999999999999999999999999999999999999999999999999999974
Q ss_pred CCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCchhhhhh
Q psy13360 505 NGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGGTSGFVS 584 (1161)
Q Consensus 505 ~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~Gi~~fv~ 584 (1161)
.|++|+++++.+.++||+|+||||++||++..|++++|.+||+++|||||||+|+|+|+|.+.++.|||++|+.+|++
T Consensus 149 --~~~~~l~~~~~~~~~GT~V~F~PD~~iF~~~~f~~d~l~~RlrelA~Ln~GL~I~l~der~~~~~~f~~~~Gl~~yv~ 226 (637)
T TIGR01058 149 --KIVQSLKKIGTTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTTVFFYENGLVDFVD 226 (637)
T ss_pred --cCcCCcccccCCCCCceEEEEEeCHHHcCCCccCHHHHHHHHHHHhccCCCcEEEEEecCCCceEEEEcCcCHHHHHH
Confidence 788888888888889999999999999998899999999999999999999999999999776667999999999999
Q ss_pred hhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhcc
Q psy13360 585 YINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEF 664 (1161)
Q Consensus 585 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l 664 (1161)
+++.++++++ ++++++++. +++.||||++|+++|+++++||||+|+|++||||++||++||+++||+|++++++
T Consensus 227 ~l~~~k~~l~-~~i~~~~~~-----~~~~vevAl~~~~~~~e~~~SFvN~I~T~~GGTHv~g~~~aLtr~in~~~~~~~~ 300 (637)
T TIGR01058 227 YINETKETLS-QVTYFEGEK-----NGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNL 300 (637)
T ss_pred HhcCCCCcCC-ccEEEEEEE-----CCcEEEEEEEEcCCCCeEEEEeECCccCCCCCcHHHHHHHHHHHHHHHHHHHhch
Confidence 9998877775 588888876 6788999999999999999999999999999999999999999999999999888
Q ss_pred cccccccCChhhHhcceEEEEEEeecCC--CcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHH
Q psy13360 665 LKKSKIEIIGEDIREGLTCVLSIKIPDP--KFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAAR 742 (1161)
Q Consensus 665 ~Kk~~~~~~~~diregL~~vvsv~i~~P--~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ 742 (1161)
+|+++.+++++|||+||++||||++++| +|+||||+||+|++++.+|++++++.|..||++||..|+.|+++++.+|+
T Consensus 301 lK~~~~~i~~~diregL~~vIsvki~~pnP~FegQTK~kL~n~~v~~~v~~~v~e~l~~~l~~np~~a~~Iiek~~~~a~ 380 (637)
T TIGR01058 301 LKEKDKNLEGSDIREGLSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARD 380 (637)
T ss_pred hccccccCChhhHhhccEEEEEEecCCCcccccCcccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHH
Confidence 8877789999999999999999999755 99999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhhc--ccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccch
Q psy13360 743 SREAARKTRELTRK--KNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARF 820 (1161)
Q Consensus 743 ar~aa~~a~~~~r~--k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~ 820 (1161)
||+|||+||++.|+ |+++....|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+|+.
T Consensus 381 aR~aa~~ar~~~r~~~k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSAggsak~gRdr~~qailPLRGKiLNv~ka~~ 460 (637)
T TIGR01058 381 AKEAAKKAREEKKSGKKPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKL 460 (637)
T ss_pred HHHHHHHHHHHHhhccccccccCCCCcccccccCCCCCccEEEEEecCccccccccccccceEEEeccCCcccccccCCH
Confidence 99999999999987 4466667899999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEE
Q psy13360 821 EKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIK 900 (1161)
Q Consensus 821 ~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~ 900 (1161)
+||++|+||++|++|||||+| ++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||+
T Consensus 461 ~ki~~N~Ei~~l~~alG~~~g-~~~~~~~LRY~kIiImTDADvDGsHIr~LLltff~r~~p~Li~~G~v~~~~~Pl~kv~ 539 (637)
T TIGR01058 461 ADILKNEEINTIIFCIGTGIG-ADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLS 539 (637)
T ss_pred HHHhcchHHHHHHHHhCCCcC-ccCCccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEE
Confidence 999999999999999999999 5799999999999999999999999999999999999999999999999999999999
Q ss_pred eC--CcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCC
Q psy13360 901 YG--NNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILN 978 (1161)
Q Consensus 901 ~g--k~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 978 (1161)
+| +++.|+|||+|+++|+.+
T Consensus 540 ~~~~~~~~y~~~~~e~~~~~~~---------------------------------------------------------- 561 (637)
T TIGR01058 540 KKDGKKVKYAWSDLELESVKKK---------------------------------------------------------- 561 (637)
T ss_pred eCCCceEEEeCCHHHHHHHHHh----------------------------------------------------------
Confidence 85 678899999999999631
Q ss_pred cCChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCe
Q psy13360 979 LDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGV 1058 (1161)
Q Consensus 979 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1058 (1161)
T Consensus 562 -------------------------------------------------------------------------------- 561 (637)
T TIGR01058 562 -------------------------------------------------------------------------------- 561 (637)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhc
Q psy13360 1059 IIQKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLM 1138 (1161)
Q Consensus 1059 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lm 1138 (1161)
.++++||||||||||||+|||||||||++|+|+||+++|++.|+++|++||
T Consensus 562 -----------------------------~~~~~i~ryKGLGem~~~~l~ettm~p~~r~l~~v~~~d~~~~~~~~~~lm 612 (637)
T TIGR01058 562 -----------------------------LKNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLM 612 (637)
T ss_pred -----------------------------cCCCCceEECchhhhhHHHHHHHhhCcccceeeEEehhhhhhHHHHHHHHc
Confidence 013679999999999999999999999999999999999999999999999
Q ss_pred CCCchHHHHHHHHhhccc
Q psy13360 1139 GDNVELRRKFIELNALHA 1156 (1161)
Q Consensus 1139 g~~v~~Rr~fi~~~a~~~ 1156 (1161)
|++|+|||+||++||..+
T Consensus 613 g~~~~~Rk~~i~~~~~~~ 630 (637)
T TIGR01058 613 GDKVEPRKKWIEANINFS 630 (637)
T ss_pred CCCchHHHHHHHHhhhhh
Confidence 999999999999999654
No 5
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=100.00 E-value=7.3e-184 Score=1667.40 Aligned_cols=632 Identities=56% Similarity=0.932 Sum_probs=601.0
Q ss_pred ccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccc
Q psy13360 344 ESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPID 423 (1161)
Q Consensus 344 ~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~ 423 (1161)
++.|++++|++|+++||||+|||||||||+. +||||+||||||||+||+++|||++|+|+|+.||+|+|+|||||||++
T Consensus 5 ~~~Y~~~~i~~L~~lE~Vr~RPgMYiGs~~~-~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~ 83 (638)
T PRK05644 5 AQEYDASQIQVLEGLEAVRKRPGMYIGSTGE-RGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVD 83 (638)
T ss_pred cCCCCHHHCeEecchHHHhcCCCceECCCCh-hhHHhhhHHhhhcccccccCCCCCEEEEEEeCCCcEEEEEeCccccCC
Confidence 3569999999999999999999999999998 899999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccc
Q psy13360 424 IKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKT 503 (1161)
Q Consensus 424 ~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~ 503 (1161)
.|+. +|+|++|+|||++|||||||+++|++|||+||+|+++|||||++|+|+++|+|+.|+|+|++|
T Consensus 84 ~h~~----~ki~~~e~i~~~lhag~kfd~~~yk~s~G~~G~Gls~vnalS~~~~v~t~r~g~~~~~~~~~G--------- 150 (638)
T PRK05644 84 IHPK----TGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG--------- 150 (638)
T ss_pred ccCC----CCCCchHHheeeecccCccCCCcccccCCccccchhhhhheeceEEEEEEeCCcEEEEEEECC---------
Confidence 9998 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccc--eEEEEEeCCchhh
Q psy13360 504 INGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIK--KKEIFEFKGGTSG 581 (1161)
Q Consensus 504 ~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~--~~~~f~~~~Gi~~ 581 (1161)
.++.|+..++.+.++||+|+|+||+++|++..++++.|.+|++++|+|||||+|+|+++|.+ +++.|+|++|+.+
T Consensus 151 ---~~~~~~~~~~~~~~~GT~I~F~Pd~~~F~~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~~~~~~f~~~~Gl~d 227 (638)
T PRK05644 151 ---VPVTPLEVIGETDETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKEETFHYEGGIKE 227 (638)
T ss_pred ---eEccCccccCCcCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHHhhCCCcEEEEEeccCCCcceeEEEcCCCHHH
Confidence 56666666776678999999999999998889999999999999999999999999999853 3567999999999
Q ss_pred hhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHH
Q psy13360 582 FVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEE 661 (1161)
Q Consensus 582 fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~ 661 (1161)
|+++++.+++++|+++++++++. +++.||||++|+++|+++++||||+|+|++||||++||++||+++||+|+++
T Consensus 228 yv~~l~~~~~~~~~~~i~~~~~~-----~~~~veval~~~~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~l~~~~~k 302 (638)
T PRK05644 228 YVEYLNRNKEPLHEEPIYFEGEK-----DGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARK 302 (638)
T ss_pred HHHHHhcCCCcCCCCCeEEEeec-----cCeEEEEEEEecCCCceEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999988888887888888765 6788999999999999999999999999999999999999999999999999
Q ss_pred hcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHH
Q psy13360 662 NEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAA 741 (1161)
Q Consensus 662 ~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~ 741 (1161)
++++|+.+.+++++|||+||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||+.++.|+++++.+|
T Consensus 303 ~~~~Kk~~~~i~~~dIregl~~vVsv~i~nP~F~gQTKekL~~~~v~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~a 382 (638)
T PRK05644 303 NKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAA 382 (638)
T ss_pred hCcccccCCCCChhHHhhceEEEEEEecCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHH
Confidence 88888766899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccchh
Q psy13360 742 RSREAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFE 821 (1161)
Q Consensus 742 ~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ 821 (1161)
++|++++++|++.|||+++...+|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+++.+
T Consensus 383 ~~r~~a~~~k~~~r~k~~~~~~~lpgKL~dc~~~~~~~~eLflvEGDSA~gsak~grdr~~qailPLrGKiLNv~~a~~~ 462 (638)
T PRK05644 383 RAREAARKARELTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLD 462 (638)
T ss_pred HHHHHHHHhHHHhhcccccccCCCCchhcccccCCCCccEEEEEecCCCccccccccCccceeecccCCceeccccCCHH
Confidence 99999999999999988888899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEEe
Q psy13360 822 KIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIKY 901 (1161)
Q Consensus 822 ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~~ 901 (1161)
||++|+||++|++|||||+| ++||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++
T Consensus 463 ki~~N~Ei~~l~~alG~~~~-~~~~~~~LRY~kiiImtDaD~DG~HI~~Llltff~~~~p~Li~~G~l~~~~~Pl~kv~~ 541 (638)
T PRK05644 463 KILKNEEIRALITALGTGIG-DDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKK 541 (638)
T ss_pred HHHhCHHHHHHHHHhCCCCC-CcCChhhCccCeEEEEeCCCCCchHHHHHHHHHHHHhCHHhccCCeEEEecCCEEEEEe
Confidence 99999999999999999998 57999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCC
Q psy13360 902 GNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDT 981 (1161)
Q Consensus 902 gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 981 (1161)
||++ ||||++|+++|+.+
T Consensus 542 gk~~-~~~~~~e~~~~~~~------------------------------------------------------------- 559 (638)
T PRK05644 542 GGKE-YAYSDEELDEILAE------------------------------------------------------------- 559 (638)
T ss_pred CCeE-eecCHHHHHHHHHH-------------------------------------------------------------
Confidence 9988 99999999999742
Q ss_pred hHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEE
Q psy13360 982 RENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQ 1061 (1161)
Q Consensus 982 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1061 (1161)
+
T Consensus 560 --------------~----------------------------------------------------------------- 560 (638)
T PRK05644 560 --------------L----------------------------------------------------------------- 560 (638)
T ss_pred --------------h-----------------------------------------------------------------
Confidence 0
Q ss_pred eccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCC
Q psy13360 1062 KSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDN 1141 (1161)
Q Consensus 1062 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~ 1141 (1161)
+ . .+.++++||||||||||||+|||||||||++|+|+||+++|++.++.+|++|||++
T Consensus 561 -~--~-------------------~~~~~~~i~ryKGLGe~~~~~~~e~~~~~~~r~~~~v~~~d~~~~~~~f~~lmg~~ 618 (638)
T PRK05644 561 -K--L-------------------KGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDD 618 (638)
T ss_pred -c--c-------------------ccCCCCceeEecCccccCHHHHHHHhcCccceeeeeeccccHHHHHHHHHHHhCCC
Confidence 0 0 01235889999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHhhcccccCCC
Q psy13360 1142 VELRRKFIELNALHAKNIDI 1161 (1161)
Q Consensus 1142 v~~Rr~fi~~~a~~~~~ld~ 1161 (1161)
+++||+||++||..++++||
T Consensus 619 ~~~Rk~~i~~~~~~~~~~d~ 638 (638)
T PRK05644 619 VEPRREFIEENAKYVRNLDI 638 (638)
T ss_pred ChHHHHHHHHhhhhHhhccC
Confidence 99999999999988878886
No 6
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=100.00 E-value=1.2e-183 Score=1666.25 Aligned_cols=621 Identities=46% Similarity=0.778 Sum_probs=589.7
Q ss_pred ccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccc
Q psy13360 344 ESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPID 423 (1161)
Q Consensus 344 ~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~ 423 (1161)
++.|++++|++|+|+|||||||||||||++. +||||+||||||||+||+++|+|+.|.|+|++||+|+|+|||||||++
T Consensus 5 ~~~y~~~~i~~L~~lE~VrkRP~mYiGs~~~-~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~ 83 (631)
T PRK05559 5 TNNYNADSIEVLEGLEPVRKRPGMYIGSTDT-RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83 (631)
T ss_pred cCCCCHHHCeeccchHHHhcCCCceeCCCCC-chhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCcc
Confidence 4679999999999999999999999999998 899999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccc
Q psy13360 424 IKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKT 503 (1161)
Q Consensus 424 ~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~ 503 (1161)
.||. +|+|+||+|||+|||||||++..|++|||+||||+|+|||||++|+|+++|+|+.|+|+|++|
T Consensus 84 ~~~~----~~~~~~E~v~t~lhagsKf~~~~yk~SgGl~GvGls~vNalS~~l~V~s~r~g~~~~~~f~~G--------- 150 (631)
T PRK05559 84 IHPE----EGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGG--------- 150 (631)
T ss_pred cccc----cCCcchheeeeeccccCccCCccccccCcccccchhhhhhheeeEEEEEEeCCeEEEEEEECC---------
Confidence 9998 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCccccCcEEeccC--CCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCchhh
Q psy13360 504 INGISVSPIKIIGDT--NKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGGTSG 581 (1161)
Q Consensus 504 ~~~~~~~~~~~~g~~--~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~Gi~~ 581 (1161)
.+..|+..++.+ .++||+|+|+||+++|++..++++.|.+|++++|||||||+|+|+|++ .++.|+|++|+.+
T Consensus 151 ---~~~~~l~~~~~~~~~~~GT~V~f~PD~~iF~~~~~~~~~i~~~l~~~A~lnpgl~i~l~d~~--~~~~f~~~~gl~~ 225 (631)
T PRK05559 151 ---DPVGPLEVVGTAGKRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENGLKD 225 (631)
T ss_pred ---cCccCccccccccCCCCCcEEEEEECHHHcCCcccCHHHHHHHHHHHHhhCCCeEEEEEeCC--ceEEEECCccHHH
Confidence 666666666655 679999999999999988899999999999999999999999999998 3567999999999
Q ss_pred hhhhhhcCCcccCCc-eEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHH
Q psy13360 582 FVSYINKSKLVVHPT-IFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIE 660 (1161)
Q Consensus 582 fv~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~ 660 (1161)
|+.+++.+++++|+. +++++++. ++..||||++|+++|+++++||||+|+|++|||||+||++||+++||+|++
T Consensus 226 ~v~~~~~~~~~i~~~~~i~~~~~~-----~~~~veval~~~~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~in~~~~ 300 (631)
T PRK05559 226 YLAELNEGKETLPEEFVGSFEGEA-----EGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAE 300 (631)
T ss_pred HHHHHhCCCCccCCCCceEEeeee-----ccceEEEEEEecCCCCeEEEEEECcccCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 999999887888876 88998876 678899999999999999999999999999999999999999999999999
Q ss_pred HhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHH
Q psy13360 661 ENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEA 740 (1161)
Q Consensus 661 ~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~ 740 (1161)
+++++| ++.+++++|||+||++||||+++||+|+||||++|+|++++.+|++++++.|..||++||..|+.|+++++.+
T Consensus 301 ~~~l~k-~~~~l~~~diregl~~vvsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~ 379 (631)
T PRK05559 301 KRNLLP-KGKKLEGEDVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKA 379 (631)
T ss_pred HhCccc-cccCCChhhHhhceEEEEEEEcCCCcccCcccccccCHhHhhhhhhHHHHHHHHHHHHChHHHHHHHHHHHHH
Confidence 988888 4679999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccch
Q psy13360 741 ARSREAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARF 820 (1161)
Q Consensus 741 ~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~ 820 (1161)
|++|++ ++|+++|||.++. +.|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+|+.
T Consensus 380 a~ar~~--~~~~~~r~k~~~~-~~lpgKL~dc~~~~~~~~eL~lvEGDSAggsak~grdr~~qailPLRGKiLNv~~a~~ 456 (631)
T PRK05559 380 AQARLR--AAKKVKRKKKTSG-PALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASL 456 (631)
T ss_pred HHHHHH--HHHHHhhhccccC-CCCCCcCcccccCCCCCCEEEEEeCCCCccccccccCccceeecccCCeecccccCCH
Confidence 999998 4788888888777 8999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEE
Q psy13360 821 EKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIK 900 (1161)
Q Consensus 821 ~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~ 900 (1161)
+||++|+||++|++|||||+| ++||+++||||||||||||||||+|||||||||||||||+||++||||+|+||||||+
T Consensus 457 ~ki~~N~Ei~~l~~alG~~~~-~~~~~~~LRY~kIiImTDaDvDGsHI~~Llltff~~~~p~Li~~G~v~~~~~Pl~kv~ 535 (631)
T PRK05559 457 DDVLANEEIHDIIVAIGIGPG-DSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVD 535 (631)
T ss_pred HHHhcChhHHHHHHHhCCCCC-CccCccccccCeEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEecCCEEEEE
Confidence 999999999999999999998 6899999999999999999999999999999999999999999999999999999999
Q ss_pred eCCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcC
Q psy13360 901 YGNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLD 980 (1161)
Q Consensus 901 ~gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 980 (1161)
+||+++|||||+|+++|+.+
T Consensus 536 ~gk~~~y~~~~~e~~~~~~~------------------------------------------------------------ 555 (631)
T PRK05559 536 KGKKKIYALDEEEKEELLKK------------------------------------------------------------ 555 (631)
T ss_pred cCCceEEecCHHHHHHHHHH------------------------------------------------------------
Confidence 99999999999999999742
Q ss_pred ChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEE
Q psy13360 981 TRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVII 1060 (1161)
Q Consensus 981 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1060 (1161)
+
T Consensus 556 ---------------~---------------------------------------------------------------- 556 (631)
T PRK05559 556 ---------------L---------------------------------------------------------------- 556 (631)
T ss_pred ---------------h----------------------------------------------------------------
Confidence 0
Q ss_pred EeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCC
Q psy13360 1061 QKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGD 1140 (1161)
Q Consensus 1061 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~ 1140 (1161)
+ . ..++++||||||||||||+|||||||||++|+|+||+++|+..|+++|++|||+
T Consensus 557 --~--~--------------------~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~ 612 (631)
T PRK05559 557 --G--K--------------------KGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGK 612 (631)
T ss_pred --c--c--------------------cCCCCCceEeCchhhcCHHHHHHHhhCccceeEEEEEccchhhHHHHHHHHhCC
Confidence 0 0 012588999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHHHhhccc
Q psy13360 1141 NVELRRKFIELNALHA 1156 (1161)
Q Consensus 1141 ~v~~Rr~fi~~~a~~~ 1156 (1161)
+|++||+||++||..+
T Consensus 613 ~~~~Rk~~i~~~~~~~ 628 (631)
T PRK05559 613 KAEPRREWIEENGDFA 628 (631)
T ss_pred CchHHHHHHHHhhhhh
Confidence 9999999999999654
No 7
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=100.00 E-value=7e-182 Score=1644.04 Aligned_cols=616 Identities=38% Similarity=0.629 Sum_probs=573.7
Q ss_pred cccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCcccccc
Q psy13360 345 SSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPIDI 424 (1161)
Q Consensus 345 ~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~~ 424 (1161)
..|++++|++|+||||||||||||||||+ +||+|||||||||||++||+|+.|.|+|+.||+|+|+|||||||++.
T Consensus 2 ~~y~~~~i~~L~gle~VRkRPgMYigs~~----~~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d~~I~V~DnGrGIp~~~ 77 (625)
T TIGR01055 2 TNYSAKDIEVLDGLEPVRKRPGMYTDTTR----PNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDI 77 (625)
T ss_pred CccChhhceeecccHHhhcCCCCeeCCCC----cceeehhhhhcccchhhcCCCCEEEEEEeCCCeEEEEecCCccCccc
Confidence 35999999999999999999999999985 49999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCcccccccccc
Q psy13360 425 KIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKTI 504 (1161)
Q Consensus 425 ~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~ 504 (1161)
||+ +|+|++|++||++||||||+++.|++|||+||||+|+|||||+||+|+++|+|+.|+|+|++|
T Consensus 78 h~~----~g~~~~e~v~t~lhagsK~~~~~~~~SgG~~GvGls~vnalS~~l~v~~~r~g~~~~~~~~~G---------- 143 (625)
T TIGR01055 78 HPK----EGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENG---------- 143 (625)
T ss_pred ccc----cCCcHHHHhhhcccccCCCCCCcceecCCCcchhHHHHHHhcCeEEEEEEECCeEEEEEEECC----------
Confidence 999 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccCcEEeccC--CCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCchhhh
Q psy13360 505 NGISVSPIKIIGDT--NKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGGTSGF 582 (1161)
Q Consensus 505 ~~~~~~~~~~~g~~--~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~Gi~~f 582 (1161)
.++.++..++.+ ..+||+|+|+||+++|++..|+++.|.+|++++|||||||+|+|+|+|.+.++.|||++|+++|
T Consensus 144 --~~~~~~~~i~~~~~~~~GT~V~F~PD~~~F~~~~~e~~~i~~~l~~lA~lnpgi~~~l~der~~~~~~f~~~~Gi~~y 221 (625)
T TIGR01055 144 --AKVTDLISAGTCGKRLTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDY 221 (625)
T ss_pred --eEccccccccccCCCCCCeEEEEEECHHHCCCCccCHHHHHHHHHHHHhhCCCcEEEEeecCCCceeEEecCchHHHH
Confidence 565666666655 3599999999999999989999999999999999999999999999997655679999999999
Q ss_pred hhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeec-CCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHH
Q psy13360 583 VSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWN-NSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEE 661 (1161)
Q Consensus 583 v~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~-~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~ 661 (1161)
+++++.++.++++++++..... +++.+|||++|+ ++|+++++||||||+|++||||++||++||+++||+|+++
T Consensus 222 v~~l~~~~~~~~~~~~~~~~~~-----~~~~ve~al~~~~~~~~~~~~SFvN~I~T~~GGTHv~gf~~alt~~in~~~~~ 296 (625)
T TIGR01055 222 LSEAVNGDNTLPPKPFSGNFEG-----DDEAVEWALLWLPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEM 296 (625)
T ss_pred HHHHhcCCCCCCCCceEEEEee-----CCceEEEEEEEecCCCCEEEEEeeccccCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 9999988777776665544333 567899999997 4578889999999999999999999999999999999998
Q ss_pred hcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHH
Q psy13360 662 NEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAA 741 (1161)
Q Consensus 662 ~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~ 741 (1161)
++++|+ +.+++++|||+||++||||+++||+|+||||+||+|++++.+|++++.+.|..||++||..|+.|+++++.+|
T Consensus 297 ~~~~kk-~~~i~~~diregl~~vVsvki~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k~~~~a 375 (625)
T TIGR01055 297 RNNLPR-GVKLTAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSA 375 (625)
T ss_pred hCcccc-cCCCCHHHHhhccEEEEEEeccCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH
Confidence 887765 5789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccchh
Q psy13360 742 RSREAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFE 821 (1161)
Q Consensus 742 ~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ 821 (1161)
+||+ ++||++.| |+.++...|||||+||+++||++|||||||||||||||||||||+|||||||||||||||||+.+
T Consensus 376 ~ar~--~~a~~~~r-k~~~~~~~lpgKL~dc~~~~~~~~eLfivEGDSA~gsak~grdr~~qailPLRGKiLNv~ka~~~ 452 (625)
T TIGR01055 376 QRRK--RAAKKVVR-KKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLD 452 (625)
T ss_pred HHHH--HHHHHHhh-cccccCCCCCccccccccCCCCceEEEEEecCCCCccccccCCcceeEEeccCCceeecccCCHH
Confidence 9997 77888776 55777889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEEe
Q psy13360 822 KIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIKY 901 (1161)
Q Consensus 822 ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~~ 901 (1161)
||++|+||++|++|||||+|+ + ++++||||||||||||||||+|||||||||||||||+||++||||+|+||||||++
T Consensus 453 ki~~N~Ei~~li~alG~g~~~-~-~~~~LRY~kiiImTDADvDG~HI~~LLltff~r~~p~Li~~G~vy~~~~Pl~kv~~ 530 (625)
T TIGR01055 453 KVLNSQEIHDIEVALGIDPDS-N-DLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDL 530 (625)
T ss_pred HhhcCHHHHHHHHHhCCCccc-c-cccccccceEEEEeCCCCCcchhHHHHHHHHHHhCHhhccCCeEEEEeCCEEEEec
Confidence 999999999999999999984 4 59999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCC
Q psy13360 902 GNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDT 981 (1161)
Q Consensus 902 gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 981 (1161)
||++.|+|+|.|+++++.+
T Consensus 531 gk~~~y~~~e~e~~~~~~~------------------------------------------------------------- 549 (625)
T TIGR01055 531 SKEVYYALDEEEKEKLLYK------------------------------------------------------------- 549 (625)
T ss_pred CCceEEcCCHHHHHHHHHh-------------------------------------------------------------
Confidence 9999999999998887531
Q ss_pred hHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEE
Q psy13360 982 RENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQ 1061 (1161)
Q Consensus 982 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1061 (1161)
+
T Consensus 550 --------------~----------------------------------------------------------------- 550 (625)
T TIGR01055 550 --------------L----------------------------------------------------------------- 550 (625)
T ss_pred --------------h-----------------------------------------------------------------
Confidence 0
Q ss_pred eccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHH--HHHHHHHhcC
Q psy13360 1062 KSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAIS--ADKIFMTLMG 1139 (1161)
Q Consensus 1062 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~--a~~~~~~lmg 1139 (1161)
+ . ..++++||||||||||||+|||||||||++|+|+||+++|+.. |+++|++|||
T Consensus 551 -~--~--------------------~~~~~~i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~~~~~~~~~~~~~~lmg 607 (625)
T TIGR01055 551 -K--K--------------------KKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVQDQRVDKIMDMLLA 607 (625)
T ss_pred -c--c--------------------cCCCcceeEecccchhhHHHHHHHhhCccceecccccccchhhhhHHHHHHHHhC
Confidence 0 0 0124889999999999999999999999999999999999985 9999999999
Q ss_pred CC-chHHHHHHHHhhc
Q psy13360 1140 DN-VELRRKFIELNAL 1154 (1161)
Q Consensus 1140 ~~-v~~Rr~fi~~~a~ 1154 (1161)
++ |+|||+||++||.
T Consensus 608 ~~~~~~Rk~~i~~~~~ 623 (625)
T TIGR01055 608 KKRSEDRFNWLQEKGD 623 (625)
T ss_pred CCCCchhHHHHHhccc
Confidence 99 9999999999985
No 8
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=100.00 E-value=2.6e-178 Score=1632.03 Aligned_cols=648 Identities=57% Similarity=0.937 Sum_probs=601.2
Q ss_pred cCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCcccccccc
Q psy13360 347 YSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPIDIKI 426 (1161)
Q Consensus 347 y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~~~~ 426 (1161)
|++++|++|+++|||||||||||||++. +||||+||||||||+||+++|+|+.|.|+|+.||+|+|+|||||||++.|+
T Consensus 1 Y~~~~i~~L~~lE~vr~RP~mYiGs~~~-~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~g~I~V~DnG~GIp~~~h~ 79 (654)
T TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTINVTINDDGSVTVEDNGRGIPVDIHP 79 (654)
T ss_pred CChHHCeEecchHHHhcCCCceeCCCCc-chHHhhhHHhhhccccccccCCCCEEEEEEeCCCcEEEEEeCCCcCccccC
Confidence 8999999999999999999999999998 899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEcCccccccccccCC
Q psy13360 427 DDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRYGVLQNRIIKTING 506 (1161)
Q Consensus 427 ~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~G~~~~~~~~~~~~ 506 (1161)
. +|+|.+|+||++||||||||++.|++|||+||+|++++||||+||+|+++|+|+.|+|+|++|
T Consensus 80 ~----~ki~~~e~i~~~l~ag~kf~~~~~k~s~G~~G~gl~~inalS~~l~v~~~~~g~~~~~~~~~G------------ 143 (654)
T TIGR01059 80 E----EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERG------------ 143 (654)
T ss_pred c----CCCCchHHheeeecccCccCCCcceecCCccchhHHHHHHhcCeEEEEEEECCeEEEEEEeCC------------
Confidence 8 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeeccc--ceEEEEEeCCchhhhhh
Q psy13360 507 ISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERI--KKKEIFEFKGGTSGFVS 584 (1161)
Q Consensus 507 ~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~--~~~~~f~~~~Gi~~fv~ 584 (1161)
.++.|+++.+.+.++||+|+|+|||++|.+..++++.|.+|++++|+|||||+|+|+++|. ++++.|+|++|+.+|++
T Consensus 144 ~~~~~l~~~~~~~~~GT~V~F~pdp~~F~~~~~e~~~i~~rl~~~A~l~pgl~i~l~~er~~~~~~~~f~~~~Gl~~yv~ 223 (654)
T TIGR01059 144 IPLGPLEVVGETKKTGTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKSVTFHYEGGIKSFVK 223 (654)
T ss_pred CcccCceeccCCCCCCcEEEEEEChHHhCCcccCHHHHHHHHHHhhccCCCeEEEEEeecCCCCceeEEEcCCcHHHHHH
Confidence 6677888888888899999999999999988999999999999999999999999999986 34678999999999999
Q ss_pred hhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhcc
Q psy13360 585 YINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEF 664 (1161)
Q Consensus 585 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l 664 (1161)
+++.+++++++++++++++. +++.||||++|+++|+++++||||+|+|++||||++||++||+++||+|++++++
T Consensus 224 ~l~~~~~~l~~~~i~~~~~~-----~~~~veva~~~~~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~l 298 (654)
T TIGR01059 224 YLNRNKEPLHEEIIYIKGEK-----EGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKL 298 (654)
T ss_pred HHhcCCCcCCCCCeEEEecc-----cCeEEEEEEEecCCCceeEEEEECcccCCCCCcHHHHHHHHHHHHHHHHHHHhCc
Confidence 99988888888899998875 6789999999999999999999999999999999999999999999999999898
Q ss_pred cccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHH
Q psy13360 665 LKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAARSR 744 (1161)
Q Consensus 665 ~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar 744 (1161)
+|+.+.+++++|||+||++||||+++||+|+||||++|+|++++.+|++++.+.|..||++||..|+.|+++++.+|++|
T Consensus 299 ~K~~~~~i~~~diregl~~vvsv~i~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~iv~k~~~~a~~r 378 (654)
T TIGR01059 299 LKESKPNLTGEDIREGLTAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAR 378 (654)
T ss_pred ccccCCCCCHHHHhhccEEEEEEecCCCcccCcccccccChhHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHH
Confidence 88777899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHHh
Q psy13360 745 EAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKII 824 (1161)
Q Consensus 745 ~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki~ 824 (1161)
++|+++|++.|+|++.+.++|||||+||+++||++|||||||||||||||||||||+|||||||||||||||+++.+||+
T Consensus 379 ~~a~~~k~~~r~k~~~~~~~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsak~gRd~~~qai~PLrGKiLNv~~~~~~ki~ 458 (654)
T TIGR01059 379 EAARKARELTRRKSALDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRKFQAILPLRGKILNVEKARLDKIL 458 (654)
T ss_pred HHHHHhHHHhhcccccccCCCCcCccCcccCCCCCCEEEEEecCCCCcccccccccccccccccCCccchhccCCHHHHh
Confidence 99999999999998888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEEeCCc
Q psy13360 825 LSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIKYGNN 904 (1161)
Q Consensus 825 ~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~~gk~ 904 (1161)
+|+||++|++|||||+| ++||+++|||||||||||||+||+|||||||||||||||+||++||||+|+||||||++||+
T Consensus 459 ~n~Ei~~l~~~lG~~~~-~~~~~~~LrY~kiiImtDaD~DG~HI~~Lll~ff~~~~p~Li~~g~~~~~~~Pl~kv~~g~~ 537 (654)
T TIGR01059 459 SNQEIGAIITALGCGIG-KDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKK 537 (654)
T ss_pred hChHHHHHHHHhCCCcc-ccccccccccceEEEEeCCCCCcchhHHHHHHHHHHhcHhhccCCeEEEecCCEEEEEeCCe
Confidence 99999999999999998 68999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCChHH
Q psy13360 905 ECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDTREN 984 (1161)
Q Consensus 905 ~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 984 (1161)
++|+||+++++ +..+...
T Consensus 538 ~~~~~~~~~~~--~~~~~~~------------------------------------------------------------ 555 (654)
T TIGR01059 538 ERYIKDDKEKE--LVGEALE------------------------------------------------------------ 555 (654)
T ss_pred eeecccchhhh--ccccccc------------------------------------------------------------
Confidence 99999999875 2110000
Q ss_pred HHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEEecc
Q psy13360 985 AEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQKSI 1064 (1161)
Q Consensus 985 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1064 (1161)
+. +
T Consensus 556 -----------~~-------------~----------------------------------------------------- 558 (654)
T TIGR01059 556 -----------DL-------------R----------------------------------------------------- 558 (654)
T ss_pred -----------cc-------------c-----------------------------------------------------
Confidence 00 0
Q ss_pred ccccceeeecCHHHHHHHHHHhc----cCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCC
Q psy13360 1065 GEKIKKYTANNFYKIINYLRNEA----ENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGD 1140 (1161)
Q Consensus 1065 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~ 1140 (1161)
+..+.|-.|+-+|+.+.+ .++++||||||||||+|+|||||||||++|+|+||+++|+..++++|++|||+
T Consensus 559 -----e~Y~~dd~e~e~~l~~l~~~~~~~~~~IqryKGLGem~~~~l~ettmdp~~R~l~~v~l~d~~~~~~~f~~lmg~ 633 (654)
T TIGR01059 559 -----ALYIYSDKEKEEAKTQIPVHEGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGD 633 (654)
T ss_pred -----ceecCCHHHHHHHHHhccccccCCCcceeeeCchhhcCHHHHHHHhcCcccceeeeeecchHHHHHHHHHHHhCC
Confidence 000011111112221111 24689999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHHHhhcccccCCC
Q psy13360 1141 NVELRRKFIELNALHAKNIDI 1161 (1161)
Q Consensus 1141 ~v~~Rr~fi~~~a~~~~~ld~ 1161 (1161)
+|++||+||++||..+.+||+
T Consensus 634 ~~~~Rk~~I~~~~~~~~~ld~ 654 (654)
T TIGR01059 634 EVEPRREFIEANALDVKNLDV 654 (654)
T ss_pred CchHHHHHHHHhhhhHhhcCC
Confidence 999999999999976666875
No 9
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=100.00 E-value=1.9e-172 Score=1550.52 Aligned_cols=570 Identities=27% Similarity=0.430 Sum_probs=522.3
Q ss_pred chhhccccccceeeccceEEeecCCC----------------CccchhHHhHHHhhHhhhcC---CCCCeEEEEEecCCc
Q psy13360 350 SSIQILEGLEAVRKRPEMYIGDTSDG----------------TGLHHFVFEILDNAIDESLA---GYCTKINVTIYSDNS 410 (1161)
Q Consensus 350 ~~i~~L~~~e~vrkRP~mYiGs~~~~----------------~gl~hlv~EivdNsiDe~~~---g~~~~I~V~i~~dgs 410 (1161)
++|++|+++||||||||||||||+.. +|||||||||||||+||+++ |+|+.|+|+|| ||+
T Consensus 2 ~~i~~L~~lE~Vr~RPgmYIGs~~~~~~~~~~~~~~~~~~~~~GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~-dgs 80 (602)
T PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEAHERFLFGKFTQVEYVPGLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK-NNQ 80 (602)
T ss_pred CceeEccchHHHhcCCCceeCCCCcccccceeecccccccccccceeeeehhhhhhhhhhhccCCCCCcEEEEEEc-CCE
Confidence 58999999999999999999999972 89999999999999999999 99999999999 999
Q ss_pred EEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEE
Q psy13360 411 ISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYME 490 (1161)
Q Consensus 411 isV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~ 490 (1161)
|||+||||||||++|++. .+.++|++|+|||+|||||||| ++|++||||||||+|||||||+||+|+++|+|+.|+|+
T Consensus 81 isV~dnGrGIPv~~h~~~-~g~~~~~~E~i~t~LhaGgkFd-~~ykvSGGlhGVG~svvNaLS~~~~V~v~~~~~~~~q~ 158 (602)
T PHA02569 81 VTVSDNGRGIPQAMVTTP-EGEEIPGPVAAWTRTKAGSNFD-DTNRVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTVN 158 (602)
T ss_pred EEEEECCCcccCCccccc-ccccccceEEEEEeeccccccC-CcceeeCCcCCccceeeeccchhhheEEEcCCEEEEEE
Confidence 999999999999999741 1124999999999999999994 67999999999999999999999999999999999999
Q ss_pred EEcCccccccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCC---HHHHHHHHHhhhccCCCcEEEEeeccc
Q psy13360 491 FRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFH---YEILKKRIRELSFLNNGVCITLIDERI 567 (1161)
Q Consensus 491 f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~---~~~l~~Rl~elA~lnpgl~i~l~d~r~ 567 (1161)
|++| .+..++. ++.+.++||+|+||||++||++..|+ +++|.+||+|+|||||||+|+|+|+|.
T Consensus 159 f~~G------------~~~~~~~-~~~~~~~GT~V~F~PD~~iF~~~~~~~~~~~~l~~Rl~elA~Ln~Gl~I~l~der~ 225 (602)
T PHA02569 159 CSNG------------AENISWS-TKPGKGKGTSVTFIPDFSHFEVNGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKV 225 (602)
T ss_pred ecCC------------cccCCcc-cCCCCCCccEEEEEECHHHhCCCccCccHHHHHHHHHHHHhcCCCCCEEEEEecCC
Confidence 9999 4444543 46667899999999999999887776 789999999999999999999999985
Q ss_pred ceEEEEEeCCchhhhhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeec-CCCcceeeeeecccccCCCCchhHH
Q psy13360 568 KKKEIFEFKGGTSGFVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWN-NSYNENILCFTNNILQVDGGTHLTG 646 (1161)
Q Consensus 568 ~~~~~f~~~~Gi~~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~-~~~~e~~~SFvN~I~T~~GGtHv~g 646 (1161)
+ +|+.+|+++++. +++++++ + .||||++|+ ++| +++||||||+|++||||++|
T Consensus 226 ~--------~g~~~yv~~~~~-------~~i~~~~-------~--~veva~~~~~~~~--~~~SFvN~I~T~~GGTHv~g 279 (602)
T PHA02569 226 S--------GKFKKYAKQFGD-------DTIVQEN-------D--NVSIALAPSPDGF--RQLSFVNGLHTKNGGHHVDC 279 (602)
T ss_pred C--------CCHHHHHHHhCC-------CCeEEec-------C--cEEEEEEecCCCc--EEEEEECcccCCCCCCHHHH
Confidence 3 699999999953 2456543 2 389999999 777 47999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEe-ecCCCcccccccccccc--cccchhHHHHHHHHHHHH
Q psy13360 647 LRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIK-IPDPKFNSQTKNKLVSS--EVRKPVEEIIIKTLFDFL 723 (1161)
Q Consensus 647 ~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~-i~~P~FegQTK~kL~n~--~v~~~v~~~v~~~l~~~l 723 (1161)
|++||+++||+|+++ +.+.+++++||||||++||||+ ++||+|+||||++|+|+ +++..| +++.+.|..||
T Consensus 280 f~~altr~in~~~~k-----k~~~~l~~~diregL~avVsvk~i~~P~FegQTK~kL~~~~~~~~~~v-~~~~~~l~~~l 353 (602)
T PHA02569 280 VMDDICEELIPMIKK-----KHKIEVTKARVKECLTIVLFVRNMSNPRFDSQTKERLTSPFGEIRNHI-DLDYKKIAKQI 353 (602)
T ss_pred HHHHHHHHHHHHHHh-----cccCCCCHHHHHhCCEEEEEEeccCCCcccCcccccccCChHHhccce-eehHHHHHHHH
Confidence 999999999999875 3346899999999999999998 99999999999999999 799999 99999999999
Q ss_pred hhCchhHHHHHHHHHHHHHHHHHHHHhh---hhhhccccc-ccccccCccccCCCCCCCcceEEEEeccCCCcccccccC
Q psy13360 724 QENPGESKLICEKIIEAARSREAARKTR---ELTRKKNLI-DDIELSTKLADCQEKNPELCELYIVEGDSAGGSVKQGRD 799 (1161)
Q Consensus 724 ~~n~~~~~~i~~~~~~~~~ar~aa~~a~---~~~r~k~~~-~~~~lpgKl~dc~~~~~~~~eL~ivEGDSA~gsak~grd 799 (1161)
++||..++.|+++++.+++||+|++++| +..|+|..+ +.++|||| |++||||||||||||||||||||
T Consensus 354 ~~n~~~~~~i~~~a~~~~~ar~a~~~~k~~k~~~r~k~~~~~~a~lpGk--------~~~~eL~ivEGDSAggsAk~~Rd 425 (602)
T PHA02569 354 LKTEAIIMPIIEAALARKLAAEKAAETKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRD 425 (602)
T ss_pred HHCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhccccccccCCCCCC--------CCCceEEEEecCCCCcccccccC
Confidence 9999999999999999999999886443 777777666 58999998 78999999999999999999999
Q ss_pred CcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCC-hhhHHHHHHHHHH
Q psy13360 800 RRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDG-AHIRALLLTFFYR 878 (1161)
Q Consensus 800 r~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG-~HI~~Llltff~~ 878 (1161)
|+|||||||||||||||||+.+||++|+||++|++|||||+| ++| ++|||||||||||||||| |||||||||||||
T Consensus 426 R~~qaIlPLRGKiLNV~ka~~~ki~~N~Ei~~li~alG~g~g-~~~--~~LRY~kIiImTDADvDG~sHIr~LLltff~~ 502 (602)
T PHA02569 426 EELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLG-EKA--ENMNYKNIAIMTDADVDGKGSIYPLLLAFFSR 502 (602)
T ss_pred ccceeecccCCcccchhhCCHHHhhcchhHHHHHHHhCCCcC-ccc--cccccCcEEEEecCCCcchHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999998 466 499999999999999999 9999999999999
Q ss_pred hcHhhhhcCcEEEEcCcEEEEEeCCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHHHHHHH
Q psy13360 879 KMPKLIEYGYIYIAQPPLYKIKYGNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTIEIVHR 958 (1161)
Q Consensus 879 ~~p~Li~~g~v~~~~~Pl~kv~~gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~ 958 (1161)
||+||++||||+|+||||||++||+++||||++|+++|+.+
T Consensus 503 -~p~Li~~G~v~~~~~Pl~kv~~gk~~~~~~~~~e~~~~~~~-------------------------------------- 543 (602)
T PHA02569 503 -WPELFEQGRIRFVKTPVIIAQVGKETKWFYSLDEFEKAKDS-------------------------------------- 543 (602)
T ss_pred -chhhccCCeEEEecCCEEEEEcCCeeEEecCHHHHHHHHHh--------------------------------------
Confidence 99999999999999999999999999999999999999631
Q ss_pred HhcccCHHHHHHHHhcccCCcCChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEecccccCCH
Q psy13360 959 LKQIIDISILSAIMSDVILNLDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDINFINNK 1038 (1161)
Q Consensus 959 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1038 (1161)
+
T Consensus 544 -------------------------------------~------------------------------------------ 544 (602)
T PHA02569 544 -------------------------------------L------------------------------------------ 544 (602)
T ss_pred -------------------------------------c------------------------------------------
Confidence 0
Q ss_pred HHHHHHHHHHHHHhhhcCCeEEEeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccCcCcee
Q psy13360 1039 DYKKLVSIISTFKKIIGKGVIIQKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMNPMIRC 1118 (1161)
Q Consensus 1039 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~p~~r~ 1118 (1161)
++++||||||||||||+|||||||||+
T Consensus 545 --------------------------------------------------~~~~i~~yKGLGe~~~~~~~e~~~~p~--- 571 (602)
T PHA02569 545 --------------------------------------------------KKWSIRYIKGLGSLRKSEYRRVINNPV--- 571 (602)
T ss_pred --------------------------------------------------CCcceEEeccCCCCCHHHHHHHhcCcc---
Confidence 136799999999999999999999999
Q ss_pred EEEeeeccHHHHHHHHHHhcCCCchHHHHHHHH
Q psy13360 1119 LLKVKIKDAISADKIFMTLMGDNVELRRKFIEL 1151 (1161)
Q Consensus 1119 l~~v~~~d~~~a~~~~~~lmg~~v~~Rr~fi~~ 1151 (1161)
|+||+++| .|+++|++|||+++++||+||++
T Consensus 572 l~~~~~~d--~~~~~~~~l~g~~~~~Rk~wi~~ 602 (602)
T PHA02569 572 YDVVVLPD--DWKELFEMLFGDDADLRKDWMSQ 602 (602)
T ss_pred cEEEecCc--hHHHHHHHHhCCCchHHHHHhhC
Confidence 99999998 48999999999999999999963
No 10
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=100.00 E-value=7.6e-170 Score=1539.80 Aligned_cols=589 Identities=53% Similarity=0.846 Sum_probs=557.3
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCcee
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYK 456 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk 456 (1161)
||||+||||||||+||+++|+|+.|.|+|+.||+|+|+|||||||++.|+. .++|++|+|||++|||||||+++|+
T Consensus 1 GL~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g~I~V~DnG~GIp~~~h~~----~~~~~~e~v~~~lhag~kfd~~~~k 76 (594)
T smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPK----EKKYAPEVIFTVLHAGGKFDDDAYK 76 (594)
T ss_pred CceEEEeeehhcccchhccCCCCEEEEEEeCCCeEEEEEeCCceeCCccCc----CCCCcHHHhhhhhcccCCCCCCCcc
Confidence 899999999999999999999999999999999999999999999999998 8999999999999999999999999
Q ss_pred eecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEc-CccccccccccCCccccCcEEeccCCCCCcEEEEEeCccccc
Q psy13360 457 ISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRY-GVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFS 535 (1161)
Q Consensus 457 ~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~-G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~ 535 (1161)
+|||+||+|+|+|||||++|+|+++|+|+.|+|+|++ | .+++|+++.+.+.++||+|+|+||+++|.
T Consensus 77 ~s~G~~G~Gls~vnalS~~l~v~~~~~g~~~~~~~~~~G------------~~~~~~~~~~~~~~~GT~V~F~Pd~~~F~ 144 (594)
T smart00433 77 VSGGLHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNG------------KPLSEPKIIGDTKKDGTKVTFKPDLEIFG 144 (594)
T ss_pred ccCCcccchHHHHHHhcCceEEEEEeCCcEEEEEEeCCC------------eECccceecCCCCCCCcEEEEEECHHHhC
Confidence 9999999999999999999999999999999999988 5 78888877887788999999999999997
Q ss_pred cC-CCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCchhhhhhhhhcCCcccCCceEEEeeccccccCCceEE
Q psy13360 536 NI-EFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGGTSGFVSYINKSKLVVHPTIFQAIGNKISEKKNNINI 614 (1161)
Q Consensus 536 ~~-~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~Gi~~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~v 614 (1161)
.. .++++.|.+|++++|+|||||+|+|+|+|...+++|+|++|+.+|+++++.++.++++.++++.++. ++..|
T Consensus 145 ~~~~~~~~~i~~rl~~~A~l~pgl~i~l~der~~~~~~f~~~~Gl~~yv~~~~~~~~~~~~~~i~~~~~~-----~~~~v 219 (594)
T smart00433 145 MTTDDDFELLKRRLRELAFLNKGVKITLNDERSDEEETFLFEGGIKDYVELLNKNKELLSPEPTYIEGEK-----DNIRV 219 (594)
T ss_pred CcccchHHHHHHHHHHHHhcCCCcEEEEeccCCCcceEEECCCCHHHHHHHHhCCCCcccCCCeEEEEEe-----CCcEE
Confidence 65 8999999999999999999999999999976667799999999999999988888888888888776 67889
Q ss_pred EEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCCCc
Q psy13360 615 DVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKF 694 (1161)
Q Consensus 615 eva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~F 694 (1161)
|||++|+++|+++++||||+|+|++|||||+||+++|+++||+|+++++++|+ .+++++|||+||++||||+++||+|
T Consensus 220 eval~~~~~~~~~~~SFvN~I~T~~GGTHv~g~~~al~~~i~~~~~~~~~~k~--~~i~~~diregl~~vIsvki~~P~F 297 (594)
T smart00433 220 EVAFQYTDGYSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKE--KNIKGEDVREGLTAFISVKIPEPQF 297 (594)
T ss_pred EEEEEccCCCCcEEEEEECCccCCCCCcHHHHHHHHHHHHHHHHHHHhCcccc--CCCChhhHhhCeEEEEEEEEchhee
Confidence 99999999999999999999999999999999999999999999999887764 6899999999999999999999999
Q ss_pred ccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccccCccccCCC
Q psy13360 695 NSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNLIDDIELSTKLADCQE 774 (1161)
Q Consensus 695 egQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~ 774 (1161)
+||||++|+|++++..|++++++.|..||++||..|+.|+++++.+|++|++|+++|++.|+| ++....+||||+||++
T Consensus 298 egQTK~kL~n~~~~~~v~~~v~~~l~~~l~~n~~~a~~ii~k~~~~a~ar~~a~~~~~~~r~k-~~~~~~l~~KL~dc~~ 376 (594)
T smart00433 298 EGQTKEKLGTSEVRFGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSKISLPGKLADASS 376 (594)
T ss_pred cccccccccChhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHhHHHhccc-cccccccccccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999888 7778899999999999
Q ss_pred CCCCcceEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccce
Q psy13360 775 KNPELCELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHR 854 (1161)
Q Consensus 775 ~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~k 854 (1161)
++|++|||||||||||||||||||||+|||||||||||||||+++.+||++|+||++|++|||||+| ++||+++|||||
T Consensus 377 ~~~~~~eL~ivEGDSA~gsak~grdr~~qailPLrGKiLNv~~~~~~ki~~N~Ei~~li~alG~~~~-~~~~~~~LRY~k 455 (594)
T smart00433 377 AGPKKCELFLVEGDSAGGSAKSGRDRDFQAILPLRGKLLNVEKASLDKILKNEEIQALITALGLGIG-KDFDIEKLRYGK 455 (594)
T ss_pred CCCCCcEEEEEecCCCccccccccCccceeecccCCeecchhhccHHHHhhCHHHHHHHHHhCCCcC-cccCccccccce
Confidence 9999999999999999999999999999999999999999999999999999999999999999998 579999999999
Q ss_pred EEEeecCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcCcEEEEEeCCc--ceeecCHHHHHHHHHHhcccceEEEEcC
Q psy13360 855 IIIMTDADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQPPLYKIKYGNN--ECYLRDDIEEERYMLKIAFKNVKLISIE 932 (1161)
Q Consensus 855 iiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~Pl~kv~~gk~--~~y~~~~~e~~~~~~~~~~~~~~~~~~~ 932 (1161)
|||||||||||+|||||||||||||||+||++||||+|+||||||++||+ ..++|+++|+.+|+..
T Consensus 456 IiImtDaDvDG~HI~~Llltff~r~~p~Li~~G~vy~~~~Pl~ki~~g~~~~~~~~~~~~~~~~~~~~------------ 523 (594)
T smart00433 456 IIIMTDADVDGSHIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSFYSLDEYEKWLET------------ 523 (594)
T ss_pred EEEEeCCCCCcchhHHHHHHHHHHhChhhhhCCeEEEecCCEEEEEeCCcceEEeehhhHHHHHHHHh------------
Confidence 99999999999999999999999999999999999999999999999986 4566666666666531
Q ss_pred CCcccChHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCChHHHHHHHHHHHHHhccCceEEEEEeecccc
Q psy13360 933 NGDIIKENYFFKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNN 1012 (1161)
Q Consensus 933 ~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 1012 (1161)
..
T Consensus 524 --------------------------------------------------------------~~---------------- 525 (594)
T smart00433 524 --------------------------------------------------------------KG---------------- 525 (594)
T ss_pred --------------------------------------------------------------hh----------------
Confidence 00
Q ss_pred eEEEEEEEeecceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEEeccccccceeeecCHHHHHHHHHHhccCCce
Q psy13360 1013 KYLLNIKKKFLKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQKSIGEKIKKYTANNFYKIINYLRNEAENMVI 1092 (1161)
Q Consensus 1013 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1092 (1161)
+ .+++++
T Consensus 526 --------------------------------------------------~-----------------------~~~~~~ 532 (594)
T smart00433 526 --------------------------------------------------G-----------------------NKSKYE 532 (594)
T ss_pred --------------------------------------------------c-----------------------cCCCcc
Confidence 0 013588
Q ss_pred eeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCCchHHHHHHHHhh
Q psy13360 1093 KQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDNVELRRKFIELNA 1153 (1161)
Q Consensus 1093 iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~v~~Rr~fi~~~a 1153 (1161)
||||||||||||+|||||||||++|+|+||+++|+..|+++|++|||++|+|||+||++||
T Consensus 533 i~ryKGLGe~~~~~~~e~~~~p~~r~l~~v~~~d~~~~~~~~~~l~g~~~~~Rk~~i~~~~ 593 (594)
T smart00433 533 IQRYKGLGEMNADQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593 (594)
T ss_pred ceeccccccCCHHHHHHHhcCccceeEEEEEcCchhhHHHHHHHHcCCCchHHHHHHHhhC
Confidence 9999999999999999999999999999999999999999999999999999999999998
No 11
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=3.7e-167 Score=1576.48 Aligned_cols=596 Identities=26% Similarity=0.356 Sum_probs=547.9
Q ss_pred cchhhccccccceeeccceEEeecCCC----------------------CccchhHHhHHHhhHhhhc----CCCCCeEE
Q psy13360 349 ASSIQILEGLEAVRKRPEMYIGDTSDG----------------------TGLHHFVFEILDNAIDESL----AGYCTKIN 402 (1161)
Q Consensus 349 ~~~i~~L~~~e~vrkRP~mYiGs~~~~----------------------~gl~hlv~EivdNsiDe~~----~g~~~~I~ 402 (1161)
+..|++|+++||||+|||||||||+.. +|||||||||||||+||++ +|+|+.|+
T Consensus 7 ~~~yq~L~~lEhVr~RP~mYIGS~~~~~~~~wv~~~~~~~m~~~~v~~vpGL~ki~dEIldNAvDe~~r~~~~g~~~~I~ 86 (1388)
T PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQTEDMWVYDEEKNRMVYKTITYVPGLYKIFDEILVNAADNKARDKGGHRMTYIK 86 (1388)
T ss_pred HHhhhcccchhHHhcCCCceeCCCCccccceeeecccccccccccccccchhhhhHHHHhhhhhhhhcccCCCCCccEEE
Confidence 457999999999999999999999983 6999999999999999999 68999999
Q ss_pred EEEecC-CcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEE
Q psy13360 403 VTIYSD-NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTIN 481 (1161)
Q Consensus 403 V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~ 481 (1161)
|+|++| |+|+|+||||||||++|++ +|+|+||+|||+|||||||||++|++||||||||+|||||||+||+|+|+
T Consensus 87 V~i~~d~g~IsV~dnGrGIPv~~h~~----~~~~~pElIft~L~aGgkfdd~~yKvSGGlhGVGasvvNalS~~f~Vev~ 162 (1388)
T PTZ00108 87 VTIDEENGEISVYNDGEGIPVQIHKE----HKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECV 162 (1388)
T ss_pred EEEeccCCeEEEEecCCcccCCCCCC----CCCccceEEEEEeeccccCCCCceeeecccccCCccccccccceEEEEEE
Confidence 999998 9999999999999999998 99999999999999999999999999999999999999999999999999
Q ss_pred eC--CEEEEEEEEcCccccccccccCCccccCcEEeccC-C-CCCcEEEEEeCccccccCCCCHHH---HHHHHHhhhcc
Q psy13360 482 RN--KKIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDT-N-KQGTKIHFWVDEKIFSNIEFHYEI---LKKRIRELSFL 554 (1161)
Q Consensus 482 r~--g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~-~-~~GT~V~F~PD~~iF~~~~~~~~~---l~~Rl~elA~l 554 (1161)
|+ |+.|+|+|++||. .+..| +++.+ . ++||+|+||||+++|++..|++++ |.+|++++|||
T Consensus 163 r~~~gk~y~q~f~~Gm~----------~~~~p--~i~~~~~~~~GT~VtF~PD~~iF~~~~fd~d~~~ll~~Rl~dlA~l 230 (1388)
T PTZ00108 163 DSKSGKKFKMTWTDNMS----------KKSEP--RITSYDGKKDYTKVTFYPDYAKFGMTEFDDDMLRLLKKRVYDLAGC 230 (1388)
T ss_pred ECCCCCEEEEEecCCCc----------CCCCC--ccCCCCCCCCceEEEEEeCHHHcCCCccChHHHHHHHHHHHHHhcC
Confidence 99 9999999999952 44455 44444 3 799999999999999989999999 99999999999
Q ss_pred CCCcEEEEeecccceEEEEEeCCchhhhhhhhh---cCCcccCCceEE-EeeccccccCCceEEEEEEeecCCCcceeee
Q psy13360 555 NNGVCITLIDERIKKKEIFEFKGGTSGFVSYIN---KSKLVVHPTIFQ-AIGNKISEKKNNINIDVSMQWNNSYNENILC 630 (1161)
Q Consensus 555 npgl~i~l~d~r~~~~~~f~~~~Gi~~fv~~l~---~~~~~~~~~~~~-~~~~~~~~~~~~~~veva~~~~~~~~e~~~S 630 (1161)
||||+|+|+|+|. |+.+|++|++ .+..+.+ .+++ +.++. ++..||||++|++ ++++++|
T Consensus 231 n~GLkI~lnder~----------gi~~F~~y~~ly~~~~~~~~-~~~~~~~~~~-----~~~~~eVal~~s~-~~~~~~S 293 (1388)
T PTZ00108 231 FGKLKVYLNGERI----------AIKSFKDYVDLYLPDGEEGK-KPPYPFVYTS-----VNGRWEVVVSLSD-GQFQQVS 293 (1388)
T ss_pred CCCcEEEEeCccc----------cHHHHHHHHHhhccCCccCC-CCceeeeccc-----cCceEEEEEEEeC-CCceEEE
Confidence 9999999999973 8999999983 3444443 3433 56655 5678999999998 7788999
Q ss_pred eecccccCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccch
Q psy13360 631 FTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKP 710 (1161)
Q Consensus 631 FvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~ 710 (1161)
|||+|+|++|||||+||++||+++|++|+++. |+.+.+++++|||+||++||||+++||+|+||||++|+|++++..
T Consensus 294 FVN~I~T~~GGTHv~g~~~alt~~i~~~~k~k---kk~~~~i~~~dIregl~~~Vs~~i~nP~FdsQTKekL~~~~~~~~ 370 (1388)
T PTZ00108 294 FVNSICTTKGGTHVNYILDQLISKLQEKAKKK---KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFG 370 (1388)
T ss_pred EEcccccCCCCCHHHHHHHHHHHHHHHHHHHh---cccCCCCCHHHHHhCcEEEEEEecCCCccCCcccccccChhhHHH
Confidence 99999999999999999999999999999862 444578999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccccCccccCC---CCCCCcceEEEEec
Q psy13360 711 VEEIIIKTLFDFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNLIDDIELSTKLADCQ---EKNPELCELYIVEG 787 (1161)
Q Consensus 711 v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~---~~~~~~~eL~ivEG 787 (1161)
+.+.+.+.|..||+++ .|+++++.+|++|++|+++|++.|+| .....++| ||+||+ ++++++||||||||
T Consensus 371 ~~~~v~e~l~~~l~~~-----~Ivekil~~a~aR~aa~~ak~~~~~K-~~~~~~ip-KL~Dc~~aG~k~~~~ceL~lvEG 443 (1388)
T PTZ00108 371 STCELSEKLIKYVLKS-----PILENIVEWAQAKLAAELNKKMKAGK-KSRILGIP-KLDDANDAGGKNSEECTLILTEG 443 (1388)
T ss_pred HHHHHHHHHHHHHhhh-----HHHHHHHHHHHHHHHHHHHHHHhhhh-hhcccCch-hhhhcccccCCChhhcEEEEEec
Confidence 9999999999999974 59999999999999999999988877 33444455 999999 69999999999999
Q ss_pred cCCCcccccc---cCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCC
Q psy13360 788 DSAGGSVKQG---RDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADID 864 (1161)
Q Consensus 788 DSA~gsak~g---rdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~D 864 (1161)
|||||||+|| |||+|||||||||||||||+|+.+||++|+||++|++|||||+|+++||+++|||||||||||||||
T Consensus 444 DSAggsAk~Gl~vrdR~~qaVfPLRGKiLNV~kas~~ki~~N~EI~~li~aLGlg~g~~y~d~~~LRYgkIiIMTDADvD 523 (1388)
T PTZ00108 444 DSAKALALAGLSVVGRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHD 523 (1388)
T ss_pred CcccchhhhcccccCccceeeeccCCcccccccccHhhhhccHHHHHHHHHhCCCcCccccccccCCCCeEEEEeCCCCC
Confidence 9999999999 7999999999999999999999999999999999999999999976689999999999999999999
Q ss_pred ChhhHHHHHHHHHHhcHhhhh-cCcEEEEcCcEEEEEe-CCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHH
Q psy13360 865 GAHIRALLLTFFYRKMPKLIE-YGYIYIAQPPLYKIKY-GNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYF 942 (1161)
Q Consensus 865 G~HI~~Llltff~~~~p~Li~-~g~v~~~~~Pl~kv~~-gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 942 (1161)
|+|||||||||||||||+||+ +||||+|+||||||++ ||+++||||++|+++|+.+
T Consensus 524 GsHIr~LLlnff~~~~p~Li~~~Gfl~~~~tPl~kv~k~gk~~~~fys~~E~e~~~~~---------------------- 581 (1388)
T PTZ00108 524 GSHIKGLLINMIHHFWPSLLKNPGFLKEFITPIVKATKKGNQVISFFTIPDFEKWKQT---------------------- 581 (1388)
T ss_pred ccHHHHHHHHHHHHhhHHhcccCCEEEEecCCEEEEEECCceeEEecCHHHHHHHHHH----------------------
Confidence 999999999999999999999 9999999999999999 9999999999999999741
Q ss_pred HHHHHHHHHHHHHHHHHhcccCHHHHHHHHhcccCCcCChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEee
Q psy13360 943 FKLIDKYNKTIEIVHRLKQIIDISILSAIMSDVILNLDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKF 1022 (1161)
Q Consensus 943 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1022 (1161)
.
T Consensus 582 -----------------------------------------------------~-------------------------- 582 (1388)
T PTZ00108 582 -----------------------------------------------------V-------------------------- 582 (1388)
T ss_pred -----------------------------------------------------c--------------------------
Confidence 0
Q ss_pred cceeeEEecccccCCHHHHHHHHHHHHHHhhhcCCeEEEeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCC
Q psy13360 1023 LKKKNYIIDINFINNKDYKKLVSIISTFKKIIGKGVIIQKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEM 1102 (1161)
Q Consensus 1023 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEm 1102 (1161)
+.++++||||||||||
T Consensus 583 ----------------------------------------------------------------~~~~~~IkyyKGLGe~ 598 (1388)
T PTZ00108 583 ----------------------------------------------------------------GLKGWKIKYYKGLGTS 598 (1388)
T ss_pred ----------------------------------------------------------------CCCCCccccccchhhc
Confidence 0124889999999999
Q ss_pred ChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCC-chHHHHHHHHhhc
Q psy13360 1103 NPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDN-VELRRKFIELNAL 1154 (1161)
Q Consensus 1103 n~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~-v~~Rr~fi~~~a~ 1154 (1161)
||+|||||||||+ |.|+||+++|+ .++++|++|||++ +++||+||++|+.
T Consensus 599 ~~~e~~eyf~~~~-r~~i~~~~~~~-~~~~~idl~fgk~~a~~RK~wi~~~~~ 649 (1388)
T PTZ00108 599 TDKEGKEYFSNID-KHRIRFVYVDD-SDDDSIDLAFSKKRVEDRKEWITNYKG 649 (1388)
T ss_pred CHHHHHHHhcccC-ceEEEEecCCc-cHHHHHHHHhCCCChHHHHHHHHhhCc
Confidence 9999999999999 99999999998 7999999999987 9999999999984
No 12
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=2.1e-160 Score=1508.72 Aligned_cols=527 Identities=25% Similarity=0.377 Sum_probs=481.6
Q ss_pred cchhhccccccceeeccceEEeecCCC--------------------CccchhHHhHHHhhHhhhc-CCCCCeEEEEEec
Q psy13360 349 ASSIQILEGLEAVRKRPEMYIGDTSDG--------------------TGLHHFVFEILDNAIDESL-AGYCTKINVTIYS 407 (1161)
Q Consensus 349 ~~~i~~L~~~e~vrkRP~mYiGs~~~~--------------------~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~~ 407 (1161)
+..+|+|+++||||+|||||||||+.. +|||||||||||||+||++ +|+|+.|.|+||+
T Consensus 4 ~~~yqk~s~lEhV~~RP~mYIGS~~~~~~~~wv~~~~~~~~~~v~~vpGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~ 83 (1135)
T PLN03128 4 EETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEGGEMVNREVTYVPGLYKIFDEILVNAADNKQRDPSMDSLKVDIDV 83 (1135)
T ss_pred HHhhhhhcchhHHhcCCCCeeCCCCCccceeeEecccceeeeccccchhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEc
Confidence 347899999999999999999999984 6999999999999999995 5999999999999
Q ss_pred -CCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEE--eCC
Q psy13360 408 -DNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTIN--RNK 484 (1161)
Q Consensus 408 -dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~--r~g 484 (1161)
||+|||+||||||||++||+ +|+|+||+|||+||||||||+++|++||||||||+|||||||+||+|+|+ |+|
T Consensus 84 ~dgsIsV~DnGrGIPv~ih~~----~g~~~~ElIft~LhaGgkFdd~~ykvSGGlhGvGasvvNaLS~~f~Vev~d~r~g 159 (1135)
T PLN03128 84 EQNTISVYNNGKGIPVEIHKE----EGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETADGNRG 159 (1135)
T ss_pred CCCeEEEEecCccccCCCCCC----CCCccceEEEEeeccccccCCccceeeccccCCCCeEEEeecCeEEEEEEECCCC
Confidence 79999999999999999998 99999999999999999999999999999999999999999999999999 999
Q ss_pred EEEEEEEEcCccccccccccCCccccCcEEeccC--CCCCcEEEEEeCccccccCCCCHH---HHHHHHHhhh-ccCCCc
Q psy13360 485 KIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDT--NKQGTKIHFWVDEKIFSNIEFHYE---ILKKRIRELS-FLNNGV 558 (1161)
Q Consensus 485 ~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~--~~~GT~V~F~PD~~iF~~~~~~~~---~l~~Rl~elA-~lnpgl 558 (1161)
+.|+|+|++|| ++.++.+++.+ +++||+|+|+||+++|++..|+++ .|.+|++|+| ||||||
T Consensus 160 k~y~q~f~~G~------------~~~~~p~i~~~~~~~~GT~ItF~PD~~iF~~~~fd~d~~~~l~kRl~elAa~Ln~Gl 227 (1135)
T PLN03128 160 KKYKQVFTNNM------------SVKSEPKITSCKASENWTKITFKPDLAKFNMTRLDEDVVALMSKRVYDIAGCLGKKL 227 (1135)
T ss_pred eEEEEEeCCCc------------ccCCCceeccCCCCCCceEEEEEECHHHcCCCccChHHHHHHHHHHHHHHHhCCCCc
Confidence 99999999994 44444455554 369999999999999998899987 4899999999 999999
Q ss_pred EEEEeecccceEEEEEeCCchhhhhh-hhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeeccccc
Q psy13360 559 CITLIDERIKKKEIFEFKGGTSGFVS-YINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQ 637 (1161)
Q Consensus 559 ~i~l~d~r~~~~~~f~~~~Gi~~fv~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T 637 (1161)
+|+|+|+|.. .+|+++|++ |++..+.+. +.++++++.. ..||||++|+++ +++++||||||+|
T Consensus 228 kI~Lnder~~-------~~G~~dyv~~~~~~~~~~~-~~~i~~~~~~-------~~~eva~~~s~~-~~~~~SFVN~I~T 291 (1135)
T PLN03128 228 KVELNGKKLP-------VKSFQDYVGLYLGPNSRED-PLPRIYEKVN-------DRWEVCVSLSDG-SFQQVSFVNSIAT 291 (1135)
T ss_pred EEEEecCCCC-------CCCHHHHHHHHhcCCCCCC-CCCeEEEecC-------ceEEEEEEEcCC-CceEEEEECcEec
Confidence 9999999843 479999999 455544333 3356666543 359999999987 6779999999999
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHH
Q psy13360 638 VDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIK 717 (1161)
Q Consensus 638 ~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~ 717 (1161)
++|||||+||+++|++.+++|+++.+ |+ ..+++++|||+||++||||+++||+|+||||++|+|++++..|++++.+
T Consensus 292 ~~GGTHv~g~~~~i~~~i~~~~~kk~--K~-~~~l~~~diregL~~vIs~ki~nP~FesQTKekL~s~~~~~~v~~~v~e 368 (1135)
T PLN03128 292 IKGGTHVDYVADQIVKHIQEKVKKKN--KN-ATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSE 368 (1135)
T ss_pred CCCCchHHHHHHHHHHHHHHHHHHcc--CC-CCCCCHHHHHhCcEEEEEEecCCCcccCcccccccChhHHHHHHHHHHH
Confidence 99999999999999999999987632 22 3579999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccccCccccCC---CCCCCcceEEEEeccCCCccc
Q psy13360 718 TLFDFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNLIDDIELSTKLADCQ---EKNPELCELYIVEGDSAGGSV 794 (1161)
Q Consensus 718 ~l~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~---~~~~~~~eL~ivEGDSA~gsa 794 (1161)
.|..||+ ++.|+++++.+|+||++|+++|+..+||+. ..++| ||+||+ +++|++|||||||||||||||
T Consensus 369 ~~~~~l~-----~~~Ivekil~~a~aR~aa~~~k~~~~kk~~--~~~ip-KL~Dc~~ag~k~~~~ceLflvEGDSAggsA 440 (1135)
T PLN03128 369 EFLKKVE-----KCGVVENILSWAQFKQQKELKKKDGAKRQR--LTGIP-KLDDANDAGGKKSKDCTLILTEGDSAKALA 440 (1135)
T ss_pred HHHHHHh-----hHHHHHHHHHHHHHHHHHHHHHHHhhccCC--CCCCc-ccccccccCCCChhHcEEEEEecCCCCcch
Confidence 9999995 458999999999999999999988777654 23444 999997 899999999999999999999
Q ss_pred ccc---cCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCC---cccccccceEEEeecCCCCChhh
Q psy13360 795 KQG---RDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEF---NLEKLRYHRIIIMTDADIDGAHI 868 (1161)
Q Consensus 795 k~g---rdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~---~~~~lRY~kiiimtDaD~DG~HI 868 (1161)
||| |||+|||||||||||||||+|+.+||++|+||++|++|||||+|+ +| |+++|||||||||||||||||||
T Consensus 441 k~Gl~~rdR~~qaIlPLRGKiLNV~ka~~~ki~~N~EI~~li~alG~~~g~-~~~~~d~~~LRYgkIiIMTDaDvDGsHI 519 (1135)
T PLN03128 441 MSGLSVVGRDHYGVFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFGK-TYDEENTKSLRYGHLMIMTDQDHDGSHI 519 (1135)
T ss_pred hhcccccCccceeeeccCCceeccccCCHHHHhcchHHHHHHHHhCCCcCc-cccccChhhcccCeEEEEeCCCCCcchh
Confidence 999 999999999999999999999999999999999999999999994 56 99999999999999999999999
Q ss_pred HHHHHHHHHHhcHhhhhc-CcEEEEcCcEEEEEeCCcceeecCHHHHHHHHH
Q psy13360 869 RALLLTFFYRKMPKLIEY-GYIYIAQPPLYKIKYGNNECYLRDDIEEERYML 919 (1161)
Q Consensus 869 ~~Llltff~~~~p~Li~~-g~v~~~~~Pl~kv~~gk~~~y~~~~~e~~~~~~ 919 (1161)
|||||||||||||+||+. ||||+|+||||||++||+++||||++|+++|+.
T Consensus 520 r~LLltff~~~~p~Li~~~G~l~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~ 571 (1135)
T PLN03128 520 KGLIINFFHSFWPSLLKIPGFLVEFITPIVKATKGGKSLSFYTMPEYEAWKE 571 (1135)
T ss_pred HHHHHHHHHHhCHHhhccCCeEEEccCCEEEEEcCCeeEecCCHHHHHHHHH
Confidence 999999999999999997 999999999999999999999999999999974
No 13
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=2.8e-157 Score=1476.01 Aligned_cols=523 Identities=26% Similarity=0.385 Sum_probs=464.5
Q ss_pred cchhhccccccceeeccceEEeecCC--------------------CCccchhHHhHHHhhHhhhc-CCCCCeEEEEEe-
Q psy13360 349 ASSIQILEGLEAVRKRPEMYIGDTSD--------------------GTGLHHFVFEILDNAIDESL-AGYCTKINVTIY- 406 (1161)
Q Consensus 349 ~~~i~~L~~~e~vrkRP~mYiGs~~~--------------------~~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~- 406 (1161)
+..+|+|+++||||+|||||||||+. .+|||||||||||||+||++ +|+|+.|+|+||
T Consensus 29 ~~~Yqkls~lEhVr~RP~mYIGSt~~~~~~~wv~~~~~m~~~~v~~vpGL~kifdEIldNAvDe~~r~g~~~~I~V~I~~ 108 (1465)
T PLN03237 29 EEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYETDKMVQRSVTYVPGLYKIFDEILVNAADNKQRDPKMDSLRVVIDV 108 (1465)
T ss_pred HHhhhccccchHHhcCCCCEeCCCCcccceeeeeccccceeeeccccchhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEc
Confidence 45799999999999999999999993 28999999999999999995 599999999999
Q ss_pred cCCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEE--eCC
Q psy13360 407 SDNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTIN--RNK 484 (1161)
Q Consensus 407 ~dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~--r~g 484 (1161)
.||+|||+||||||||++|++ +|+|+||+|||+|||||||||++|++||||||||+|||||||+||+|+|+ ++|
T Consensus 109 ~~gsIsV~DnGRGIPV~iH~~----eg~~~pElIft~LhAGgkFdd~~yKvSGGlhGVGasvvNaLS~~f~Vev~Dg~~g 184 (1465)
T PLN03237 109 EQNLISVYNNGDGVPVEIHQE----EGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIETADGKRQ 184 (1465)
T ss_pred CCCEEEEEecCccccCCCCCC----CCCccceEEEEeeeccccCCCCcceeeccccccCccccccccCeeEEEEEECCCC
Confidence 569999999999999999998 99999999999999999999999999999999999999999999999999 568
Q ss_pred EEEEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHH---HHHHHhhh-ccCCCcEE
Q psy13360 485 KIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEIL---KKRIRELS-FLNNGVCI 560 (1161)
Q Consensus 485 ~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l---~~Rl~elA-~lnpgl~i 560 (1161)
+.|+|+|++|| +.+..|+.....+.++||+|+||||++||++..|++++| .+|++|+| ||||||+|
T Consensus 185 k~y~Q~f~~nm----------G~~~~p~i~~~~~~~~GT~VtF~PD~eiF~~~~fd~D~l~~~~rRlrdLAa~LnkGlkI 254 (1465)
T PLN03237 185 KKYKQVFSNNM----------GKKSEPVITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVALMKKRVVDIAGCLGKTVKV 254 (1465)
T ss_pred eEEEEEEeCCC----------CccCCceeccCCCCCCceEEEEEECHHHhCCceEcHHHHHHHHHHHHHHHhccCCCcEE
Confidence 99999999963 266666432222347999999999999999899999987 58999999 99999999
Q ss_pred EEeecccceEEEEEeCCchhhhhhh-hhcC---CcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccc
Q psy13360 561 TLIDERIKKKEIFEFKGGTSGFVSY-INKS---KLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNIL 636 (1161)
Q Consensus 561 ~l~d~r~~~~~~f~~~~Gi~~fv~~-l~~~---~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~ 636 (1161)
+|+|+|.+ .+|+++|+++ ++.. +...++ ++ +++ .+..||||++|+++ +++++||||||+
T Consensus 255 ~LndeR~~-------~~G~kdYV~~yl~~~~k~k~~~~~-~i-~e~-------~~~~~EVAl~~sd~-~~~~~SFVNnI~ 317 (1465)
T PLN03237 255 ELNGKRIP-------VKSFSDYVDLYLESANKSRPENLP-RI-YEK-------VNDRWEVCVSLSEG-QFQQVSFVNSIA 317 (1465)
T ss_pred EEEecCCC-------CCCHHHHHHHHhhcccccCCCCCC-cc-Eec-------CCCeEEEEEEEeCC-CceEEEEECccc
Confidence 99999864 3699999995 4321 123333 33 333 24569999999998 488999999999
Q ss_pred cCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHH
Q psy13360 637 QVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIII 716 (1161)
Q Consensus 637 T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~ 716 (1161)
|++|||||+||+++|++.|++|+++ |+++.+++++|||+||++||||+++||+|+||||++|+|+++. +.
T Consensus 318 T~~GGTHv~g~~~aIt~~l~~~~~k----K~k~~~l~~~DIregL~a~IsvkI~nP~FesQTKekLtn~~~~------f~ 387 (1465)
T PLN03237 318 TIKGGTHVDYVTNQIANHVMEAVNK----KNKNANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQSS------FG 387 (1465)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHHHh----ccCCCCCCHHHHHhCcEEEEEEeCCCCccCCcccCcccChHHH------HH
Confidence 9999999999999999999999864 3334689999999999999999999999999999999998753 55
Q ss_pred HHHH---HHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccc--cccccccCccccCC---CCCCCcceEEEEecc
Q psy13360 717 KTLF---DFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNL--IDDIELSTKLADCQ---EKNPELCELYIVEGD 788 (1161)
Q Consensus 717 ~~l~---~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~--~~~~~lpgKl~dc~---~~~~~~~eL~ivEGD 788 (1161)
..+. .|+. +..++.|+++++.+|++ +++|++.|+|++ ....++| ||+||+ +++|++|||||||||
T Consensus 388 s~l~l~~~flk--~~~~~~Ivekil~~A~a----k~arel~k~k~~k~~~~~~ip-KL~Dc~~aG~kd~~~ceLfLvEGD 460 (1465)
T PLN03237 388 SKCELSEDFLK--KVMKSGIVENLLSWADF----KQSKELKKTDGAKTTRVTGIP-KLEDANEAGGKNSEKCTLILTEGD 460 (1465)
T ss_pred HHhccCHHHHh--HHHHHHHHHHHHHHHHH----HHHHHHHhhhcccccccCCCc-ccccccccccCCccccEEEEEecC
Confidence 5565 7776 34678899999999876 455666666544 3444556 999998 699999999999999
Q ss_pred CCCccccccc---CCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCC
Q psy13360 789 SAGGSVKQGR---DRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDG 865 (1161)
Q Consensus 789 SA~gsak~gr---dr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG 865 (1161)
|||||||||| ||+|||||||||||||||+|+.+||++|+||++|++|||||+|+++||+++||||||||||||||||
T Consensus 461 SAgGsAk~GR~vvdR~~qaIlPLRGKILNV~kAs~~kil~N~EI~~ii~aLGlgig~~y~d~~~LRYgkIiIMTDADvDG 540 (1465)
T PLN03237 461 SAKALAVAGLSVVGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDG 540 (1465)
T ss_pred cCCchhhhhhcccCccceeeeccCCceehhccCcHHhhhcchHHHHHHHHhCCCcCcccCcccccccCcEEEEeCCCCCc
Confidence 9999999999 7999999999999999999999999999999999999999999766799999999999999999999
Q ss_pred hhhHHHHHHHHHHhcHhhhh-cCcEEEEcCcEEEEEe-CCcceeecCHHHHHHHHH
Q psy13360 866 AHIRALLLTFFYRKMPKLIE-YGYIYIAQPPLYKIKY-GNNECYLRDDIEEERYML 919 (1161)
Q Consensus 866 ~HI~~Llltff~~~~p~Li~-~g~v~~~~~Pl~kv~~-gk~~~y~~~~~e~~~~~~ 919 (1161)
||||||||||||||||+||+ .||||+|+||||||++ ||+++||||++|+++|+.
T Consensus 541 sHIrgLLLtFF~r~~P~Li~~~Gfl~~~~tPL~Kv~~~gk~~~~fys~~E~e~w~~ 596 (1465)
T PLN03237 541 SHIKGLLINFIHSFWPSLLKVPSFLVEFITPIVKATRRGKKVLSFYSMPEYEEWKE 596 (1465)
T ss_pred cHHHHHHHHHHHHhhHHhcccCCEEEEecCCeEEEEECCCeeEeecCHHHHHHHHH
Confidence 99999999999999999999 8999999999999999 999999999999999974
No 14
>KOG0355|consensus
Probab=100.00 E-value=2.1e-104 Score=935.48 Aligned_cols=596 Identities=24% Similarity=0.335 Sum_probs=508.3
Q ss_pred chhhccccccceeeccceEEeecCCC--------------------CccchhHHhHHHhhHhhhcC-CCCCeEEEEEec-
Q psy13360 350 SSIQILEGLEAVRKRPEMYIGDTSDG--------------------TGLHHFVFEILDNAIDESLA-GYCTKINVTIYS- 407 (1161)
Q Consensus 350 ~~i~~L~~~e~vrkRP~mYiGs~~~~--------------------~gl~hlv~EivdNsiDe~~~-g~~~~I~V~i~~- 407 (1161)
+.++..+.+||++.||+.||||++.. |||||+++||++||+| ..+ ..++.|.|+||+
T Consensus 6 ~~yqkks~~ehiL~rPdtyig~ve~~~~~~wv~~~e~~k~~~~t~~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~e 84 (842)
T KOG0355|consen 6 DIYQKKSQLEHILLRPDTYIGSVEPTEQLMWVYDMEKRKMVQRTYVPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDKE 84 (842)
T ss_pred HHHhhhhhhhhhhcCCcccccccccceeEEeeeccccCceeEeecCCcHHHHHHHHhhcccc-cccCCCcceeEEEEccC
Confidence 46788899999999999999999863 7999999999999999 765 468899999997
Q ss_pred CCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEE--eCCE
Q psy13360 408 DNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTIN--RNKK 485 (1161)
Q Consensus 408 dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~--r~g~ 485 (1161)
+|+|+|+|||+|||++.||. +++|.||+|||+|||++||||++.|++||+||+|++++|+||..|.+|+. +.++
T Consensus 85 ~~~isv~nnGkGIPv~~H~~----ek~yvpelifg~Lltssny~d~ekK~tggrngygakLcniFs~~f~~Et~d~~~~~ 160 (842)
T KOG0355|consen 85 KNEISVYNNGKGIPVTIHKV----EKVYVPELIFGNLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFTVETADREYKM 160 (842)
T ss_pred CCEEEEEeCCCcceeeeccc----ccccchHHHHhhhhhccccCCCccccccCCCccceeeeeeccccceeeeeehHhHH
Confidence 68999999999999999999 99999999999999999999999999999999999999999999999985 5788
Q ss_pred EEEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHH---HHHHHHhhhccCCCcEEEE
Q psy13360 486 IHYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEI---LKKRIRELSFLNNGVCITL 562 (1161)
Q Consensus 486 ~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~---l~~Rl~elA~lnpgl~i~l 562 (1161)
.|+|+|.+|| ...+++.++...++.||+|||+||.+.|.+.++|.|+ +.+|+.++|....++++.+
T Consensus 161 ~~kQ~w~~nm-----------~~~~~~~i~~~~~~~yTkitF~PDl~~F~m~eLD~Div~l~~rr~~d~a~~~~~vkv~l 229 (842)
T KOG0355|consen 161 AFKQTWINNM-----------TRDEEPKIVPSTDEDYTKITFSPDLEKFKMKELDDDIVALMARRAYDLAGSVKSVKVEL 229 (842)
T ss_pred HHHHhhhcCC-----------cccCCceeecCCCCCcceEEeCcChHhcCchhhcchHHHhHHhhhhhhcccccceeeee
Confidence 8999999997 3335566777677779999999999999999999886 6799999998779999999
Q ss_pred eecccceEEEEEeCCchhhhhhhhhcCCccc--CCceEEEeeccccccCCceEEEEEEeecC-CCcceeeeeecccccCC
Q psy13360 563 IDERIKKKEIFEFKGGTSGFVSYINKSKLVV--HPTIFQAIGNKISEKKNNINIDVSMQWNN-SYNENILCFTNNILQVD 639 (1161)
Q Consensus 563 ~d~r~~~~~~f~~~~Gi~~fv~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~veva~~~~~-~~~e~~~SFvN~I~T~~ 639 (1161)
++.+.+. +|..+|++.+.. .... ...++|- . .+-.||++++-++ +|+ ++||||+|+|.+
T Consensus 230 n~~~~~~-------~~f~~yv~~~~~-~~~~~~~~~~ihe---~-----~~~RwEv~~a~s~~~fq--qisfvNsI~T~k 291 (842)
T KOG0355|consen 230 NGKNIPV-------KGFYDYVKMYLE-VLWLNDDLKPLHE---V-----LNFRWEVALALSDVGFQ--QVSFVNSIATTK 291 (842)
T ss_pred cCCCCcc-------chHHHHHhhccc-cccccCcchhhhc---c-----cchHHHHhhhccccccc--eeeeecceeecC
Confidence 9998643 478888887764 2111 0123331 1 2345788887766 455 499999999999
Q ss_pred CCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHH
Q psy13360 640 GGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTL 719 (1161)
Q Consensus 640 GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l 719 (1161)
|||||+++++++++.|+..+++.+.. .+.++++..|+++||++|+|.|+||.|+||||+.|+++..+..+.+.+.+.+
T Consensus 292 GGThVd~V~D~iv~~l~~vvkKk~~~--~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~ 369 (842)
T KOG0355|consen 292 GGTHVDYVVDQIVAKLIDVVKKKKVK--KDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKF 369 (842)
T ss_pred CCcccchhhhhHHHHHHHHhcccccc--cccccchhhhhcceEEEEEEEecCccccccchhhcccccccccceEeehhHH
Confidence 99999999999999999887764322 2478999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccccCccccCC---CCCCCcceEEEEeccCCCccc--
Q psy13360 720 FDFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNLIDDIELSTKLADCQ---EKNPELCELYIVEGDSAGGSV-- 794 (1161)
Q Consensus 720 ~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~---~~~~~~~eL~ivEGDSA~gsa-- 794 (1161)
..++.+++ ....|++.+..+++...+.++.++..+.+. +| ||-|+. .+.+..|+|+++|||||...|
T Consensus 370 ~k~~~~~~-i~esils~s~~~~~~dL~kk~~~~~s~~e~------I~-KleDa~~ag~k~s~kctlIltEgdsaksLavs 441 (842)
T KOG0355|consen 370 TKAIELKG-VVESILSKSLNKYKDDLAKKRGKLTSRSKG------IP-KLEDANDAGTKTSEKCTLILTEGDSAKSLAVS 441 (842)
T ss_pred HHHHHhCc-hHHHHHHHHHHHHHHhhhhhhhhhhccccc------hh-HhhhcccccccccccceeEEeccccchhheec
Confidence 99999998 666666666555555555555554444332 33 555553 357789999999999997555
Q ss_pred -ccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHH
Q psy13360 795 -KQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLL 873 (1161)
Q Consensus 795 -k~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Lll 873 (1161)
++..+|++++|||||||+|||++++.+++++|+||++|+.+||++..+.+|+.+.|||||+|||||||+|||||++|||
T Consensus 442 Gl~vvgRd~~gVfplrgklLNv~e~s~kqilkn~EI~aIikIlgl~~~~~y~~~eslryg~~mimtDQd~dgshikgllI 521 (842)
T KOG0355|consen 442 GLSVVGRDYYGVFPLRGKLLNVREASHKQILKNAEINAIIKILGLQYKKKYFDVESLRYGKLMIMTDQDHDGSHIKGLLI 521 (842)
T ss_pred ccccccceeEeecccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhheEeeeccccccchHHHHHH
Confidence 4455699999999999999999999999999999999999999999888899999999999999999999999999999
Q ss_pred HHHHHhcHhhhhcCcEEEEcCcEEEEEeCCcceeecCHHHHHHHHHHhcccceEEEEcCCCcccChHHHHHHHHHHHHHH
Q psy13360 874 TFFYRKMPKLIEYGYIYIAQPPLYKIKYGNNECYLRDDIEEERYMLKIAFKNVKLISIENGDIIKENYFFKLIDKYNKTI 953 (1161)
Q Consensus 874 tff~~~~p~Li~~g~v~~~~~Pl~kv~~gk~~~y~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~ 953 (1161)
||||+|||+|++.+||+.+.||++|+++|++..+|||++||++|+..
T Consensus 522 nf~~~~~psl~~~~fleefitpi~k~~~~~~~~~fys~pey~kw~~~--------------------------------- 568 (842)
T KOG0355|consen 522 NFIHHFWPSLLQIPFLEEFITPIVKATKGKQEVSFYSLPEYEKWKKN--------------------------------- 568 (842)
T ss_pred HHHHHhhHHhhcCCcceecCCcceEeccCCcceeeeccHHHHHHHhc---------------------------------
Confidence 99999999999999999999999999999999999999999999741
Q ss_pred HHHHHHhcccCHHHHHHHHhcccCCcCChHHHHHHHHHHHHHhccCceEEEEEeecccceEEEEEEEeecceeeEEeccc
Q psy13360 954 EIVHRLKQIIDISILSAIMSDVILNLDTRENAEQFAKKIIKKLNDSNIEIIVEFDQLNNKYLLNIKKKFLKKKNYIIDIN 1033 (1161)
Q Consensus 954 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 (1161)
+
T Consensus 569 ------------------------------------------------------~------------------------- 569 (842)
T KOG0355|consen 569 ------------------------------------------------------T------------------------- 569 (842)
T ss_pred ------------------------------------------------------C-------------------------
Confidence 0
Q ss_pred ccCCHHHHHHHHHHHHHHhhhcCCeEEEeccccccceeeecCHHHHHHHHHHhccCCceeeEEecCCCCChhhhhhhccC
Q psy13360 1034 FINNKDYKKLVSIISTFKKIIGKGVIIQKSIGEKIKKYTANNFYKIINYLRNEAENMVIKQRYKGLGEMNPGQLWETTMN 1113 (1161)
Q Consensus 1034 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iqr~KGLGEmn~~qlwettm~ 1113 (1161)
+ +.+++.|++|||||+|.|+|+||++||
T Consensus 570 --------------------------------~--------------------~~~~~~ikyykglgts~~~e~keyf~~ 597 (842)
T KOG0355|consen 570 --------------------------------D--------------------NWKSWKIKYYKGLGTSTSKEAKEYFSD 597 (842)
T ss_pred --------------------------------c--------------------cccccceEEeecCCcccHHHHHHHhcC
Confidence 0 123578999999999999999999999
Q ss_pred cCceeEEEeeeccHHHHHHHHHHhcCCCchHHHHHHHHhhc
Q psy13360 1114 PMIRCLLKVKIKDAISADKIFMTLMGDNVELRRKFIELNAL 1154 (1161)
Q Consensus 1114 p~~r~l~~v~~~d~~~a~~~~~~lmg~~v~~Rr~fi~~~a~ 1154 (1161)
+++++++.....+-+.+---+...|+. .+.||+|+.+++.
T Consensus 598 ~~~h~~~F~~~~~~d~~~i~~af~k~k-~~~rk~wL~~~~~ 637 (842)
T KOG0355|consen 598 LDRHRILFKYDGGIDDEAIDMAFSKKK-IDARKEWLRKYMP 637 (842)
T ss_pred cchheEEEeccCcchHHHHhhhccccc-HHHHHHHHHHHhH
Confidence 999998888776655555555665554 5789999998874
No 15
>PRK14944 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=1.1e-55 Score=514.60 Aligned_cols=337 Identities=19% Similarity=0.325 Sum_probs=310.1
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeec--ccCCceEEEEechhHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVG--YGNSSINIIVAARKFI 78 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~--~~~~~G~v~V~ak~l~ 78 (1161)
||| .|+|++|+++|+.+.+++++|++.|+|+||+|+|++++|+|+|||+++++++.++++ ...++|+++||||.|.
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~v~~k~~~piL~~ili~a~~~~l~l~atD~ei~i~~~i~~~~~~v~e~G~v~v~ak~l~ 78 (375)
T PRK14944 1 MYL--EINKDIFLEQLLKIQKILPQKTFFPIFNALKIQTKKNFLILEANNGNIAIKIEIKDESLKIKKEGKIACLGRYFI 78 (375)
T ss_pred CEE--EEeHHHHHHHHHHHHhHhcCCCCchhhcCEEEEEECCEEEEEEECccEEEEEEEeCCcceeecceEEEEehHhHH
Confidence 999 556999999999999999999999999999999999999999999999999999873 2357899999999999
Q ss_pred HHHhcCCCCccEEEEEe-CcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccc
Q psy13360 79 DILRSLPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYY 157 (1161)
Q Consensus 79 ~Ivk~Lp~~~~I~ie~~-~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpi 157 (1161)
+|||+||++ .|+++.+ ++.+.|+||+++|+|+++++++||.+|...+....+.+++..|.++|++|.+|+|++++||+
T Consensus 79 ~ivk~Lp~~-~I~~~~~~~~~l~I~s~~s~f~L~~~~~~~fP~~~~~~~~~~~~~i~~~~l~~~i~~t~fa~s~de~r~~ 157 (375)
T PRK14944 79 EIIKKINDS-LIKMTVMENNFLVIKTEFCEYKLKLMDLCNFLELDFFFEKKEFFEIKTHFFKKIIKEINISTSKNEKRPI 157 (375)
T ss_pred HHHHhCCCC-cEEEEEcCCCEEEEEECcEEEEEcCCCHHHCCCCCcccCcCeEEEECHHHHHHHHhheeEEEccccCccc
Confidence 999999987 7999874 67999999999999999999999999863233567999999999999999999999999999
Q ss_pred eeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcC-CCCcEEEEEeCcEEEEEECcEEE
Q psy13360 158 LNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLEN-KENPVELKISNNQIKIIFSNIEI 236 (1161)
Q Consensus 158 L~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~-~~~~V~i~~~~~~l~f~~~~~~~ 236 (1161)
|+||+|+.+++.|+++||||||||.++.+++... .+++++||+|.+.+|.|+|++ .++.|.|.++++++.|.+++.++
T Consensus 158 L~Gv~~~~~~~~l~~vATDghRLa~~~~~~~~~~-~~~~~iIP~k~l~el~kll~~~~~~~v~i~~~~~~i~f~~~~~~~ 236 (375)
T PRK14944 158 LTGLNLIYQKNLLKALATDSFRMSQKKIKLDFNY-HNFNIVIPNKSLEELSKILEYYQSKNLKIYSDSKKIFLKIDNLWF 236 (375)
T ss_pred eeEEEEEEECCEEEEEEEccceeEEEEeccCCCC-CceEEEEECchHHHHHHHhccCCCCcEEEEEcCCEEEEEECCEEE
Confidence 9999999999999999999999999998776442 247899999999999999974 45679999999999999999999
Q ss_pred EEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC---cceEEEEEe-CCEEEEEEEcCCccccceee-e
Q psy13360 237 ISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK---LKGVRLVIK-PNYLKITVSSSNREKASEEL-E 311 (1161)
Q Consensus 237 ~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~---~~~V~l~~~-~~~L~isa~d~~~g~~~E~i-~ 311 (1161)
.+||++|+||||++++|.+++..+.++|++|++||+|++++++++ .+.|.|.++ ++.|++++.+++.|++.|++ +
T Consensus 237 ~srLieG~fPdy~~viP~~~~~~~~i~r~~l~~al~Rvslls~~~~~~~~~v~l~~~~~~~l~iss~~~e~G~a~e~i~~ 316 (375)
T PRK14944 237 QTSLLEGNYPQIQEIKLTNFPFSIHLNKDDLMKALERVSLLFSKEQNNTNVVKFILTKEKSIEISSSNESLGTALEKIIP 316 (375)
T ss_pred EEEeecccCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHhccccCCCceEEEEEcCCCEEEEEEcCcccCeEEEEEec
Confidence 999999999999999999999999999999999999999999764 367999995 78999999999999999984 8
Q ss_pred eeeeCCccceeeechhhhh--hcccCccccccc
Q psy13360 312 INYNGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 312 ~~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
++++|++++ ++||++||+ |+++++++|.+.
T Consensus 317 ~~~~Ge~~~-I~fN~~YL~d~L~~i~~~~v~i~ 348 (375)
T PRK14944 317 LKVSANSFE-IAFNAKYLEDILKVLSVKEIVFY 348 (375)
T ss_pred ccccCCcEE-EEEcHHHHHHHHhcCCCCEEEEE
Confidence 899999999 999999999 999999999883
No 16
>PRK14942 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=4.2e-55 Score=509.58 Aligned_cols=336 Identities=20% Similarity=0.360 Sum_probs=309.6
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
|||+ |+|++|+++|+.+.+++++|++.|||+||+|++++++|+|+|||++++++++++++. .++|+++||||.|.++
T Consensus 1 Mkf~--i~k~~L~~~l~~v~~~i~~k~~~pIL~~ili~a~~~~l~l~atD~ei~i~~~i~~~i-~e~G~~~vpak~l~ei 77 (373)
T PRK14942 1 MKIK--VNTSEFLKAIHAVEGVISVREIKSILSNLKIEAEEKEVFLSATDLEISIKTSVPATV-GQKGTASLPAKQLSSF 77 (373)
T ss_pred CEEE--EEHHHHHHHHHHHHhhcCCCCCchhhcCEEEEEECCEEEEEEECCCeEEEEEEeeee-ccCeEEEEEhHHHHHH
Confidence 9994 569999999999999999999999999999999999999999999999999999865 5689999999999999
Q ss_pred HhcCCCCc-cEEEEE---eCcEEEEEE--Cc--EEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccc
Q psy13360 81 LRSLPETE-KVTIYI---ENKHMFIKS--GK--SKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (1161)
Q Consensus 81 vk~Lp~~~-~I~ie~---~~~~l~I~s--G~--~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~ 152 (1161)
||+||+++ .|+++. +++.+.|++ |+ ++|+|+++++++||.+|..+ ....+.+++..|.++|++|.||++++
T Consensus 78 vr~lp~~~~~i~~~~~~~~~~~~~I~~~~~~~~~~f~l~~~~~~dfP~~~~~~-~~~~~~i~~~~L~~~i~~t~fa~s~d 156 (373)
T PRK14942 78 FKTIHFETTLLSLEESDSESSIVYITDASGKNDYKSKISGMDAEEIKTISKVD-ESQVSSFPSQLINDMIRKTSYAIAHE 156 (373)
T ss_pred HHhCCCCCceEEEEEccCCCCEEEEEECCCCCccEEEEccCCHHHCCCCCCCC-CceEEEECHHHHHHHHhhEeEEEecc
Confidence 99999752 477776 246899984 85 49999999999999999764 35678999999999999999999999
Q ss_pred ccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEEC
Q psy13360 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFS 232 (1161)
Q Consensus 153 ~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~ 232 (1161)
++||+|+||+|+++++.|++||||||||+.+..+++......++++||+|.+.+|.|+|.+ ++.+.|.++++++.|.++
T Consensus 157 e~R~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIP~k~l~el~kll~~-~~~v~i~~~~~~i~f~~~ 235 (373)
T PRK14942 157 DQRFIFNGLYMIPDGTKLIFVGTDGRRLCKIERTLPSPLQFKDSIIVPAKAVREISKMIAT-SETGNIGLIDEQIYVSAN 235 (373)
T ss_pred ccchhheeEEEEEeCCEEEEEEechHHeEEEecccCCCCCCCceEEEehHHHHHHHHhcCC-CCcEEEEEcCCEEEEEEC
Confidence 9999999999999999999999999999999887754333246899999999999999975 457999999999999999
Q ss_pred cEEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeee
Q psy13360 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEI 312 (1161)
Q Consensus 233 ~~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~ 312 (1161)
+.++.|||++|+||||++++|.+++..+.++|.+|+++|+|++++++++.+.|.|+++++.|++++.+++.|+++|++++
T Consensus 236 ~~~~~srLieG~yPdy~~vIP~~~~~~~~v~r~~l~~al~Rv~~~~~~~~~~v~l~~~~~~l~isa~~~~~g~~~e~i~~ 315 (373)
T PRK14942 236 NIELLCKLIEGNFPNYEQVIPKQTKFSVRISKEEFQVSLRQVLTAAEEPSRQVRLTFSKNNLNLFAQTLGASEADINMPI 315 (373)
T ss_pred CEEEEEEecccCCCChhhhCCCCCCeEEEEeHHHHHHHHHHHHHHhhcCCceEEEEEeCCEEEEEEeCCCcceEEEEEEE
Confidence 99999999999999999999999999999999999999999999998777889999999999999999999999999999
Q ss_pred eeeCCccceeeechhhhh--hcccCccccccc
Q psy13360 313 NYNGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 313 ~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
+++|++++ ++||++||+ |+++++++|.+.
T Consensus 316 ~~~G~~~~-I~fN~~ylld~L~~i~~~~v~l~ 346 (373)
T PRK14942 316 EYSGEEIT-IAFKGEYLMDIFRSIDDNEVKIE 346 (373)
T ss_pred EecCCcEE-EEECHHHHHHHHhcCCCCeEEEE
Confidence 99999999 999999999 999999999883
No 17
>PRK14947 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=9.8e-55 Score=507.88 Aligned_cols=334 Identities=22% Similarity=0.313 Sum_probs=307.1
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||| .|+|++|+++|+.+.+++++|++.|+|+||+|+|++++|+|+|||++++++++++++. +++|+++||||.|.+|
T Consensus 1 Mkf--~i~k~~l~~~L~~v~~~i~~k~~~pIL~~ili~a~~~~L~l~atD~ei~i~~~i~~~i-~e~G~~~v~ak~l~di 77 (384)
T PRK14947 1 MYL--KVNKEDVIDGLQKAANIIPAKTGAAYLRTIWLKAEDGTLSIMSTDSNIEFRGTYPAEV-TEPGLAGVQGRAFVDL 77 (384)
T ss_pred CEE--EEEHHHHHHHHHHHHhhhCCCCcchhhcCEEEEEECCEEEEEEECCcEEEEEEEeeee-ccCeEEEEEhHHHHHH
Confidence 999 5569999999999999999999999999999999999999999999999999999875 5689999999999999
Q ss_pred HhcCCCCccEEEEEe--CcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccce
Q psy13360 81 LRSLPETEKVTIYIE--NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~--~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL 158 (1161)
||+||++ .|+++.+ ++.+.|+||+++|+|+++|+++||.+|..+. ...+.+++..|.++|++|.||++++++||+|
T Consensus 78 vk~lp~~-~i~i~~~~~~~~l~I~~g~s~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~t~fA~s~de~r~~L 155 (384)
T PRK14947 78 VRKLPPG-EITLKLDASSGNLLIEQGRRKYKLPVNDPSWFQNFSAFPA-EGAVVWSGDFLQELIDRIAFCISDEDAMEAI 155 (384)
T ss_pred HHhCCCC-ceEEEEeCCCCEEEEEECCeEEEEcCCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhheeeEeeccchhhhh
Confidence 9999987 7999875 3589999999999999999999999997754 5679999999999999999999999999999
Q ss_pred eeEEEEE-ECCEEEEEEecceEEEEEEEecCCC--CCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECc--
Q psy13360 159 NGLLLSF-QKKNIIAVSSDGHRLTYYQVNIDKK--FSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSN-- 233 (1161)
Q Consensus 159 ~GV~~~~-~~~~L~lvATDg~RLa~~~i~~~~~--~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~-- 233 (1161)
+||+|++ .++.|+++|||||||++++.+.+.. ....++++||+|.+.+|.|+++ +++|.+.++++++.|.+++
T Consensus 156 ~Gv~~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~~~iIP~k~l~el~kll~--~~~v~i~~~~~~i~f~~~~~~ 233 (384)
T PRK14947 156 ACLKIKPVADNAIEVCGLNGHQFALLRFLNDDIHAKLPQEGILIQKKYLLELKKWLG--ADEIELSISEKRLFFRTGDGK 233 (384)
T ss_pred ceEEEEEcCCCEEEEEEcCccceEEEEccccccccccCCccEEEechHHHHHHHhCC--CCcEEEEEeCCEEEEEECCcE
Confidence 9999997 4678999999999999998765421 1123589999999999999996 3579999999999999995
Q ss_pred EEEEEeecCCCCCCccccccC---CcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceee
Q psy13360 234 IEIISKLIDGKFLDYKYVISN---KYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEEL 310 (1161)
Q Consensus 234 ~~~~~rli~g~fPdy~~vip~---~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i 310 (1161)
..+.+||++|+||||++++|. +++..++++|++|+++|+|++++++++.+.|.|.++++.|++++.+++.|+++|++
T Consensus 234 ~~~~srLieG~fPdY~~vIP~~~~~~~~~~~i~r~~l~~al~Rvsi~s~~~~~~v~l~~~~~~l~iss~~~e~G~a~E~i 313 (384)
T PRK14947 234 ETFSLPLSYYQYPDYMNFLSKLQGDDVSNLEVDRKECMDALDRILIFNTDNNRCTYFDFGPGELSLSAQGQDVGSATESL 313 (384)
T ss_pred EEEEEEeeecccCcceeeCCCCCCCCCEEEEEEHHHHHHHHHHHHHHhcCCCceEEEEEeCCEEEEEEcCCCCceEEEEE
Confidence 488899999999999999997 66789999999999999999999988778899999999999999999999999999
Q ss_pred eeeeeCCccceeeechhhhh--hcccCccccccc
Q psy13360 311 EINYNGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 311 ~~~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
+++++|++++ ++||++||+ |+++++++|.+.
T Consensus 314 ~~~~~Ge~~~-I~fN~~YL~d~L~~i~~~~i~l~ 346 (384)
T PRK14947 314 EVTYSGDIKK-IAFPTKNLIEILGHFQSDKITLT 346 (384)
T ss_pred EEEecCCcEE-EEECHHHHHHHHhcCCCCeEEEE
Confidence 9999999999 999999999 999999999883
No 18
>PRK14940 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=2e-54 Score=504.29 Aligned_cols=334 Identities=29% Similarity=0.491 Sum_probs=313.7
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||| .|+|++|.++|+++.+++++|++.|+|+||+|+|++++|+|+|||++++++++++++. .++|+++||||.|.++
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~v~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~i-~e~G~v~v~ak~l~~i 77 (367)
T PRK14940 1 MKI--LCEKEALLKEISIAQEIISTKKALSILSNVLLAAQDGSLTIKATDTKVSFETSIPVNI-LAEGSTTVFCDKFVGI 77 (367)
T ss_pred CEE--EEEHHHHHHHHHHHHhhccCCCchHHhcCEEEEEECCEEEEEEECCceEEEEEEEeee-ccCeEEEEEhHHHHHH
Confidence 999 5569999999999999999999999999999999999999999999999999999875 5789999999999999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEE--CcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccce
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKS--GKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~s--G~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL 158 (1161)
||+||++ .|+++.+++++.|+| |+++|+|+++|+++||.+|..+. ...+.|++..|.++|++|.+|++++++||+|
T Consensus 78 vk~lp~~-~i~~~~~~~~l~I~~~~~~~~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~v~~a~s~~~~rpiL 155 (367)
T PRK14940 78 LSSLPTG-EIELELCDEQLVITPPNKKISFQLKTISHESFPCFPENEG-GVSFAIPTKDLREMINQTIFAVSDDETRYFM 155 (367)
T ss_pred HHhCCCC-ceEEEEcCCEEEEEEcCCceEEEEccCChHHCCCCCCCCC-CeEEEECHHHHHHHHhhEeEEEcCCCCCcee
Confidence 9999987 799999888999999 78999999999999999997653 5789999999999999999999999999999
Q ss_pred eeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEE
Q psy13360 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIIS 238 (1161)
Q Consensus 159 ~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~ 238 (1161)
+||+|++++|.|+++||||||||.++.+++....+.++++||+|.+.+|.+++.. ++.|.+.++++++.|.+++..|.+
T Consensus 156 ~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~viiP~k~l~~l~kll~~-~~~v~i~~~~~~i~f~~~~~~~~~ 234 (367)
T PRK14940 156 NGVYVEFQYGNIICVATDGRRLAYIKKKGESSPQEFSGVIVPPKILGIINKKLSP-EGNVTLCITSQNIFFFFGGYKFSS 234 (367)
T ss_pred EEEEEEEeCCEEEEEEEcCceEEEEEeccCCCccccceEEEcHHHHHHHHHhcCC-CCcEEEEEeCCEEEEEECCEEEEE
Confidence 9999999999999999999999999887765433345899999999999999864 568999999999999999999999
Q ss_pred eecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCc
Q psy13360 239 KLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKD 318 (1161)
Q Consensus 239 rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~ 318 (1161)
|+++|+||||++++|.+++..++++|++|.++|+|++++++++.+.|.|+++++.|++++.+++.|+++|+++|+++|++
T Consensus 235 rlidg~fPdy~~vip~~~~~~~~i~~~~L~~al~R~~~~~~~~~~~v~l~~~~~~l~l~~~~~e~G~~~e~i~~~~~Ge~ 314 (367)
T PRK14940 235 VLIEGQFPNYKRVIPDHQERSFCVGRVELMEALKRVSLLVEQKSRRIFLTIQQGLLTLSSQENEIGDAQEEIACAYTGEE 314 (367)
T ss_pred EEccccccchHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhccCCceEEEEEeCCEEEEEEcCCCCccEEEEEEEEecCCc
Confidence 99999999999999998899999999999999999999998877889999999999999999999999999999999999
Q ss_pred cceeeechhhhh--hcccCcccccc
Q psy13360 319 KNFIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 319 ~~ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
+. ++||++||+ |+++++++|.+
T Consensus 315 ~~-I~fN~~yl~d~L~~i~~~~v~l 338 (367)
T PRK14940 315 EV-IALNYLYLEEPLKVFTSKEVQV 338 (367)
T ss_pred EE-EEECHHHHHHHHhCCCCCEEEE
Confidence 99 999999999 99999999988
No 19
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=2.8e-54 Score=503.86 Aligned_cols=333 Identities=23% Similarity=0.421 Sum_probs=308.2
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeeccc-------CCceEEEEe
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYG-------NSSINIIVA 73 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~-------~~~G~v~V~ 73 (1161)
||| +|+|++|+++|+.+++++++|++.|+|+||+|+|++++|+++|||++++++++++++.. .++|+++||
T Consensus 1 Mkf--~i~k~~L~~~L~~v~~~i~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~~~~~~~~~i~~~G~v~v~ 78 (376)
T PRK06673 1 MEF--IVNHKHFTQALSEVSKAISTKAIIPILSGIKITADQSGITLIASNSNIFIEKFIPSAIDDEQITTILQAGTIVVP 78 (376)
T ss_pred CEE--EEEHHHHHHHHHHHHHHhCCCCCchhhcCEEEEEcCCeEEEEEECCcEEEEEEEecccccccccccccCEEEEEE
Confidence 999 55699999999999999999999999999999999999999999999999999987542 357999999
Q ss_pred chhHHHHHhcCCCCccEEEEE-eCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccc
Q psy13360 74 ARKFIDILRSLPETEKVTIYI-ENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (1161)
Q Consensus 74 ak~l~~Ivk~Lp~~~~I~ie~-~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~ 152 (1161)
||.|.++||+||++ ++++. +++.+.|++|+++|+|+++++++||.+|..+ ....+.+++..|.++|++|.||++++
T Consensus 79 ak~l~~ivk~lp~~--i~~~~~~~~~l~I~~~~~~f~l~~~~~~dfP~~~~~~-~~~~~~i~~~~L~~~i~kt~fA~s~~ 155 (376)
T PRK06673 79 AKYFIEIIKKMPSD--IVIKSKNEQTITIQSGEITLNLNGFPANEFPNVPQID-DHTEIQIETKQLIDAFKQTVFAVAKN 155 (376)
T ss_pred hHHHHHHHHcCCCC--cEEEECCCCEEEEEECCEEEEEcCCCHHHCCCCCCCC-CCceEEECHHHHHHHHhhEeEEEecC
Confidence 99999999999975 77876 4678999999999999999999999999764 35679999999999999999999999
Q ss_pred ccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEEC
Q psy13360 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFS 232 (1161)
Q Consensus 153 ~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~ 232 (1161)
++||+|+||+|+.+++.++++||||||||.++.+++.. .+++++||+|.+.+|.|++++.++.|.+.++++++.|.++
T Consensus 156 e~r~~L~Gv~l~~~~~~l~~vaTDg~RLA~~~~~~~~~--~~~~~iIP~k~l~el~kll~~~~~~v~i~~~~~~i~f~~~ 233 (376)
T PRK06673 156 ESRPVLTGVHIELDHNKLICAATDSHRLAIRETLISTN--MKANCIVPSATINELLKLMNSNLEFVSIYLSESHIIFTFG 233 (376)
T ss_pred CCChhceeEEEEEeCCEEEEEEecCceEEEEecccCCC--CCCcEEEEHHHHHHHHHhccCCCceEEEEEeCCEEEEEEC
Confidence 99999999999999999999999999999999877543 2468999999999999999765668999999999999999
Q ss_pred cEEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccC-CcceEEEEE-eCCEEEEEEEcCCccccceee
Q psy13360 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISND-KLKGVRLVI-KPNYLKITVSSSNREKASEEL 310 (1161)
Q Consensus 233 ~~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~-~~~~V~l~~-~~~~L~isa~d~~~g~~~E~i 310 (1161)
+.++.+||++|+||||++++|.++...++++|++|++||+|+++++++ ..+.|.|.+ +++.|++++.+++.|+++|++
T Consensus 234 ~~~~~srLieG~fPdy~~vip~~~~~~v~i~r~~l~~al~Rvsi~~~~~~~~~v~l~~~~~~~l~i~s~~~e~G~a~e~i 313 (376)
T PRK06673 234 TTTLYSRLIEGKYPNISTLIPNEFQTVINIDRQRMLQGVDRSSLLASEWANNNVNLEIVNESTIQISSNASQIGKISETQ 313 (376)
T ss_pred CEEEEEEEecccCCChhhcCCCCCcEEEEEEHHHHHHHHHHHHHhhccCCCCcEEEEEcCCCEEEEEEcCCCCCcEEEEE
Confidence 999999999999999999999999999999999999999999999976 456799999 789999999999999999999
Q ss_pred eee-eeCC-ccceeeechhhhh--hcccCcccccc
Q psy13360 311 EIN-YNGK-DKNFIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 311 ~~~-~~Ge-~~~ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
+++ ++|+ +++ ++||++||+ |+++++++|.+
T Consensus 314 ~~~~~~Ge~~~~-I~fN~~YLld~L~~i~~e~v~l 347 (376)
T PRK06673 314 QIDAIQGEKQLN-ISFDGRFMLDALRAIKEETVTL 347 (376)
T ss_pred EeeecCCCccEE-EEECHHHHHHHHhcCCCCEEEE
Confidence 997 7898 899 999999999 99999999988
No 20
>PRK14946 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=6.1e-54 Score=497.77 Aligned_cols=328 Identities=16% Similarity=0.235 Sum_probs=302.2
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeee----cccCCceEEEEechh
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV----GYGNSSINIIVAARK 76 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a----~~~~~~G~v~V~ak~ 76 (1161)
||| .|+|++|.++|+++.+++++ ++.|+|+||+|+|++++|+|+|||+++++++++++ +. +++|+++||||.
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~v~~-~~~~iL~~iliea~~~~l~l~atD~ei~i~~~i~~~~~~~i-~e~G~~~v~ak~ 76 (366)
T PRK14946 1 MKF--TIEKEIIEKQIERMQSAILN-NGNSPLSGFFLKLTRSGLFIISTNSELSYKSFINKKDLIEI-NDVGSCLIDGVF 76 (366)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCC-CCCcccccEEEEEECCeEEEEEECCcEEEEEEEeCCcCcee-ccCeEEEEEcHH
Confidence 999 45699999999999999999 56679999999999999999999999999999997 44 578999999999
Q ss_pred HHHHHhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccccccc
Q psy13360 77 FIDILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRY 156 (1161)
Q Consensus 77 l~~Ivk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trp 156 (1161)
|.+|||+||+ .|+++.+++.+.|+||+++|+|+++|+++||.+|..+. ...+.+++..|+++|++|.||++++++||
T Consensus 77 l~eIvk~lp~--~I~~~~~~~~l~I~s~~s~f~l~~~~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~kt~fA~s~de~r~ 153 (366)
T PRK14946 77 LKNIIKKSDN--QISFELIGSELKVFWEDAQFSKTLRDSSFFPEINFEQK-GIKLTVNAKNLKRAIKNTAFATTNNPNQP 153 (366)
T ss_pred HHHHHHcCCC--cEEEEEeCCEEEEEECceEEEEcCCCHHHCCCCCcccC-CcEEEECHHHHHHHHhhEEEEEeCCCCcc
Confidence 9999999985 39998888899999999999999999999999997754 56899999999999999999999999999
Q ss_pred ceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEE
Q psy13360 157 YLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEI 236 (1161)
Q Consensus 157 iL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~ 236 (1161)
+|+||+|+.+++.|+++||||||||+++.+++.. .+++++||+|.+.+| ++.+.+++|.+.++++++.|.+++..+
T Consensus 154 ~L~Gv~~~~~~~~l~~vATDg~RLA~~~~~~~~~--~~~~~iIP~k~l~el--l~~~~~~~v~i~~~~~~i~f~~~~~~~ 229 (366)
T PRK14946 154 ILSAINLKSEDNFLHFSATDTIRFASEKIEISNP--SRIDISISAKNLKDF--IPPELDKDIELFIESSKISYTYDNLTI 229 (366)
T ss_pred cceEEEEEEeCCEEEEEEecchheEEEEeccCCC--CcceEEEeccCHHHH--hcccCCCcEEEEEeCCEEEEEECCEEE
Confidence 9999999999999999999999999999887533 347899999999999 554445689999999999999999999
Q ss_pred EEeecCCCCCCccccccCCc--ceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceee--ee
Q psy13360 237 ISKLIDGKFLDYKYVISNKY--EKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEEL--EI 312 (1161)
Q Consensus 237 ~~rli~g~fPdy~~vip~~~--~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i--~~ 312 (1161)
.+||++|+||||++++|.+. ...++++|++|+++|+|++++++++.+.|.|+++++.|++++.+++.|+++|++ ++
T Consensus 230 ~srLieG~fPdy~~viP~~~~~~~~~~i~r~~l~~al~Rvsl~a~~~~~~v~l~~~~~~l~lss~~~e~G~a~e~i~~~~ 309 (366)
T PRK14946 230 QSRIFTIEYKDISNVLPKDSEILYSLTIEKKEILDLIDKATIITPGKDNVINFSLSKNELKGYISQYESGQSNVKTKNVL 309 (366)
T ss_pred EEEEecccCCCHHHhCCCCCCccEEEEEEHHHHHHHHHHhheeecCCCceEEEEEcCCEEEEEEECCCCceEEEEecccc
Confidence 99999999999999999874 579999999999999999999988778899999999999999999999999998 36
Q ss_pred eeeCCccceeeechhhhh--hcccCcccccc
Q psy13360 313 NYNGKDKNFIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 313 ~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
+|+|+++. ++||++||+ |++++ ++|.+
T Consensus 310 ~~~Ge~~~-IafN~~YL~D~L~~i~-~~v~l 338 (366)
T PRK14946 310 RFSGELAQ-VNVNYKYLKDAISVFD-KVINI 338 (366)
T ss_pred cccCCcEE-EEEcHHHHHHHHHhCC-CeEEE
Confidence 79999999 999999999 99998 66877
No 21
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleava
Probab=100.00 E-value=1.3e-56 Score=421.14 Aligned_cols=114 Identities=74% Similarity=1.197 Sum_probs=112.7
Q ss_pred ceEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEee
Q psy13360 780 CELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMT 859 (1161)
Q Consensus 780 ~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimt 859 (1161)
|||||||||||||||||||||+||||||||||||||||++.+|+++|+||++|++|||||++ ++||+++||||||||||
T Consensus 1 ~eL~lvEGDSAggsak~gRdr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~~-~~~~~~~lrY~kiiimt 79 (114)
T cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIG-EDFDLEKLRYHKIIIMT 79 (114)
T ss_pred CEEEEEeCCCCccccccccCcCceEEeccCCccchHhhccHHHHhcChHHHHHHHHhCCCCC-CCCChhhCCcCeEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999998 68999999999999999
Q ss_pred cCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcC
Q psy13360 860 DADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQP 894 (1161)
Q Consensus 860 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~ 894 (1161)
|||+||+||++|||||||||||+||++||||+|+|
T Consensus 80 DaD~DG~hI~~Llltff~~~~p~Li~~G~vyia~p 114 (114)
T cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114 (114)
T ss_pred CCCCCchHHHHHHHHHHHHHhHHHHhCCeEEEecC
Confidence 99999999999999999999999999999999998
No 22
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=100.00 E-value=3.6e-55 Score=414.28 Aligned_cols=115 Identities=67% Similarity=1.145 Sum_probs=113.6
Q ss_pred ceEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEee
Q psy13360 780 CELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMT 859 (1161)
Q Consensus 780 ~eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimt 859 (1161)
|||||||||||||||||||||++|||||||||||||||++.+|+++|+||++|++||||++++++||+++||||||||||
T Consensus 1 ~eL~lvEGDSA~gsak~gR~~~~qailPLrGKiLNv~ka~~~k~~~n~Ei~~l~~alG~~~~~~~~~~~~lrY~kiiimt 80 (115)
T cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80 (115)
T ss_pred CEEEEEecCCcchhhhhhcCcccEEEeccCCeeccHhcCCHHHHhcChHHHHHHHHhCCCCCcccCChhhcCcCeEEEEe
Confidence 89999999999999999999999999999999999999999999999999999999999999778999999999999999
Q ss_pred cCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEcC
Q psy13360 860 DADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQP 894 (1161)
Q Consensus 860 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~~ 894 (1161)
|||+||+||++|||||||||||+|+++||||+|+|
T Consensus 81 DaD~DG~hI~~Llltff~~~~p~Li~~G~v~~~~~ 115 (115)
T cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115 (115)
T ss_pred CCCCCccHhHHHHHHHHHHHhhHhhhCCEEEEeeC
Confidence 99999999999999999999999999999999997
No 23
>PRK14941 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=3.1e-51 Score=478.57 Aligned_cols=331 Identities=26% Similarity=0.406 Sum_probs=303.0
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
|||+ |+|++|+++|+.+.+++++|++.|+|+||+|++++++|+|+|||++++++++++++. +++|+++|||+.|.++
T Consensus 1 Mkf~--i~k~~l~~~l~~v~~~v~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~~-~~~G~~~v~a~~l~~i 77 (374)
T PRK14941 1 MKFT--SSIKQLQEAVNKVAQAIPAKSIDPRFENIHLTLENGKLTLFATDGELSITAKTEVES-SDSGNIGIRARTLQDF 77 (374)
T ss_pred CEEE--EEHHHHHHHHHHHHhhhcCCCchhHhcCEEEEEECCEEEEEEECCCeEEEEEEeeee-ccceEEEEEhHHHHHH
Confidence 9995 559999999999999999999999999999999999999999999999999999865 5689999999999999
Q ss_pred HhcCCCCccEEEEEe------CcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccccc
Q psy13360 81 LRSLPETEKVTIYIE------NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDI 154 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~------~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~t 154 (1161)
||+||++ .|+++.+ ++.+.|+||+++|+|++++++ ||.++... ....+++++..|.++|++|.+|++.+++
T Consensus 78 vk~lp~~-~i~~~~~~~~~~~~~~l~I~~~~~~f~l~~~~~~-~p~~~~~~-~~~~~~i~~~~L~~~i~~v~~a~s~~~~ 154 (374)
T PRK14941 78 LRSMYDT-EVTFSIERQEISDHGTVHIATDKGRYKIPCLFES-KPEKQEKN-FDISLDLETSELLDLIQKTIFACSVDGM 154 (374)
T ss_pred HHcCCCC-cEEEEEeccccCCCCEEEEEECCEEEEeeccCcc-cCCCcCCC-CceEEEECHHHHHHHHhheeEEEecccc
Confidence 9999987 7999875 678999999999999999754 79887553 3568999999999999999999999999
Q ss_pred ccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEe--CcEEEEEEC
Q psy13360 155 RYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKIS--NNQIKIIFS 232 (1161)
Q Consensus 155 rpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~--~~~l~f~~~ 232 (1161)
||+|+||+|++.++.|+++|||||||+..+.+.+...+.+++++||+|.+.+|.|++.+. ++.+.++ ++++.|.++
T Consensus 155 rpiL~Gv~l~~~~~~l~lvATDg~Rla~~~~~~~~~~~~~~~~iiP~k~l~el~kll~~~--~v~i~~~~~~~~i~~~~~ 232 (374)
T PRK14941 155 RPAMMGVLFELEGNTITAVSTDGHRLVRCRKNSSVGVEEKQKIVVPARVLSILQKLAQHE--TVTMSIDSERRFVRFICG 232 (374)
T ss_pred hhhhceEEEEEeCCEEEEEEecCeeEEEEEecccCCccccceEEechHHHHHHHHhCCCC--ceEEEEEcCCCEEEEEEC
Confidence 999999999999999999999999999998876433334578999999999999998642 5777776 678999999
Q ss_pred cEEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCcc-ccceeee
Q psy13360 233 NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNRE-KASEELE 311 (1161)
Q Consensus 233 ~~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g-~~~E~i~ 311 (1161)
+..|.++|++|+||||++++|.+++..+.++|.+|+++|+|+++++++ ..+++.++++.|++++.+++.| .++|+++
T Consensus 233 ~~~~~s~Li~g~fPdy~~viP~~~~~~i~i~~~~L~~al~rv~~~~~~--~~v~~~~~~~~l~l~~~~~~~g~~~~e~i~ 310 (374)
T PRK14941 233 NVVLDAALIVEPYPNYEAVIPVENDKKLVINRSNIYDSVKRVGRFSSI--GDIKISVEGSVLKVMAENTNEGESAQEELP 310 (374)
T ss_pred CEEEEEEEEeecCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHccC--CceEEEEECCEEEEEEECcccccceEEEEE
Confidence 999999999999999999999999999999999999999999999875 4699999999999999998887 7999999
Q ss_pred eeeeCCccceeeechhhhh--hcccCccccccc
Q psy13360 312 INYNGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 312 ~~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
++++|++++ ++||++||+ |+++++++|.++
T Consensus 311 ~~~~G~~~~-I~fN~~yl~d~L~~~~~~~v~l~ 342 (374)
T PRK14941 311 CSYTGEDIT-IGFNSKFIEAALAHLDEEEIIIE 342 (374)
T ss_pred eEeCCCcEE-EEEcHHHHHHHHhcCCCCEEEEE
Confidence 999999999 999999999 999999999884
No 24
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=2.9e-51 Score=480.15 Aligned_cols=333 Identities=19% Similarity=0.326 Sum_probs=308.5
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||| .|+|++|.++|+++.+++++++++|+|+||+|++++++|+|+|||++++++++++++. .++|+++||+|.|.+|
T Consensus 1 Mkf--~i~k~~l~~~l~~v~~~v~~k~~~piL~~iliea~~~~l~l~atd~~~~i~~~i~~~i-~~~G~~~v~~k~l~~i 77 (376)
T PRK07761 1 MKF--RVERDVLADAVAWVARSLPARPPVPVLAGVLLEADDGGLTLSGFDYEVSARVTIEAEV-DEPGRVLVSGRLLADI 77 (376)
T ss_pred CEE--EEEHHHHHHHHHHHHhhcCCCCCcHHHcCeEEEEeCCEEEEEEECccEEEEEEEEeEe-ccCceEEEEHHHHHHH
Confidence 999 5569999999999999999999999999999999999999999999999999999875 5789999999999999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccceee
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~G 160 (1161)
+|+||++ .|+++.+++.+.|+||+++|+|+++++++||.+|..+. ..+.+++..|.++|++|.+|+++++++|+|+|
T Consensus 78 ik~lp~~-~i~~~~~~~~l~I~~~~~~~~l~~~~~~~fP~~~~~~~--~~~~i~~~~L~~~i~~v~~a~s~~~~~piL~g 154 (376)
T PRK07761 78 TRSLPNK-PVDISVDGSRVTLTCGSARFTLPTMPVEDYPTLPELPE--ATGTVDADAFAEAVSQVAVAAGRDDTLPMLTG 154 (376)
T ss_pred HHhCCCC-cEEEEEcCCEEEEEECceEEEecCCCHHHCCCCCCCCC--cceEECHHHHHHHHhhEeEEEEcccchhhhce
Confidence 9999987 79999988899999999999999999999999997653 23599999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEecceEEEEEEEecCCC-CCCcceEEEehhhHHHHHhhhcCCCCcEEEEEe-----CcEEEEEECcE
Q psy13360 161 LLLSFQKKNIIAVSSDGHRLTYYQVNIDKK-FSSCSDIIIPRKTVFTLQRLLENKENPVELKIS-----NNQIKIIFSNI 234 (1161)
Q Consensus 161 V~~~~~~~~L~lvATDg~RLa~~~i~~~~~-~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~-----~~~l~f~~~~~ 234 (1161)
|+|++++|.|+++|||||||+...++.... .+++++++||++.+.++.|.|++ ++.++|.++ ++++.|.+++.
T Consensus 155 V~l~~~~~~L~l~ATDg~rLa~~~~~~~~~~~~~~~~~iIP~k~l~ei~k~l~~-~~~v~i~~~~~~~~~~~i~~~~~~~ 233 (376)
T PRK07761 155 VRVEIEGDTVTLAATDRYRLAVRELTWKPASPDISAAALVPARTLSDTAKSLGS-GGNVSIALSTGVGGEGLIGFEGGGR 233 (376)
T ss_pred EEEEEeCCEEEEEEECCceEEEEEeccCCCCCCcceeEEEEhHHHHHHHHhcCC-CCcEEEEEecCcCCCCEEEEEECCE
Confidence 999999999999999999999998665432 23357999999999999999976 557889987 78899999999
Q ss_pred EEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeee
Q psy13360 235 EIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINY 314 (1161)
Q Consensus 235 ~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~ 314 (1161)
.|.+++++|+||+|++++|.++...++++|.+|+++|+|++++++ +..+|.|+++++.|++++.+++.|+++|+++|++
T Consensus 234 ~~~~~li~g~fP~~~~vip~~~~~~~~i~~~~L~~~l~r~~~~~~-~~~~v~l~~~~~~l~l~~~~~~~G~~~e~i~~~~ 312 (376)
T PRK07761 234 RTTTRLLDGEFPKVRRLFPDEHPAVAVVETAPLIEAIKRVALVAE-RNAPVRLEFSDGQLTLSAGGGDDAQASEALEADL 312 (376)
T ss_pred EEEEEEecccCCChHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhc-CCceEEEEEeCCEEEEEEcCCCcceEEEEEEEEe
Confidence 999999999999999999998889999999999999999999974 4568999999999999999999999999999999
Q ss_pred eCCccceeeechhhhh--hcccCccccccc
Q psy13360 315 NGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 315 ~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
+|+++. ++||++||+ |+++++++|.+.
T Consensus 313 ~Ge~~~-i~fN~~yl~d~L~~~~~~~v~l~ 341 (376)
T PRK07761 313 TGEDLT-IAFNPQYLLDGLSALHTPRVRFG 341 (376)
T ss_pred cCCcEE-EEECHHHHHHHHhcCCCCeEEEE
Confidence 999999 999999999 999999999883
No 25
>PRK14945 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=2.4e-50 Score=470.07 Aligned_cols=329 Identities=21% Similarity=0.387 Sum_probs=305.4
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
|||+ |+|++|.++|+.+++++++|++.|+|+||+|+|++++|+|+|||++++++++++++. .++|+++||+|.|.++
T Consensus 1 Mkf~--i~k~~l~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atd~~~~i~~~i~~~i-~~~G~~~v~ak~l~~i 77 (362)
T PRK14945 1 MNVR--VPKKTLSEGLGLLERIIPSRSSNPLLTYLKVELSEGGLTLSGTNGEVDLEVTLPAEV-QGPGRVVVPAHLFFQI 77 (362)
T ss_pred CEEE--EEHHHHHHHHHHHHhhcCCCCchhhhcCEEEEEeCCEEEEEEECCcEEEEEEEeeee-ccCeEEEEEccCHHHH
Confidence 9995 569999999999999999999999999999999999999999999999999999875 5789999999999999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccceee
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~G 160 (1161)
+|+||++ .|+++.+++.+.|++|+++|+|+++|+++||.++.... ..+.++++.|.++|++|.+|+++++++|+|+|
T Consensus 78 vk~lp~~-~i~~~~~~~~l~i~~~~~~~~l~~~~~~~fP~~~~~~~--~~~~i~~~~L~~~i~~v~~avs~~~~~piL~g 154 (362)
T PRK14945 78 VRNLPGE-LVELEFQGGELEVRSGSSRTKLQTAPPEGYPELSFPSQ--GDVRLSAGELAKALTHVRYAASNEEFQAIFRG 154 (362)
T ss_pred HHhCCCC-cEEEEEcCCEEEEEECCEEEEeccCChHHCCCCCCCCC--ceEEECHHHHHHHHhhEEEEEecccchhheee
Confidence 9999987 79999888899999999999999999999999986543 35799999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEEee
Q psy13360 161 LLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKL 240 (1161)
Q Consensus 161 V~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~rl 240 (1161)
|+|+.+++.|+++||||||++...++++.. ++++++||++.+.++.|++++++ +|.+.++++++.|++++..|.+++
T Consensus 155 v~l~~~~~~l~lvATDg~rla~~~~~~~~~--~~~~~iip~k~l~el~k~l~~~~-~v~i~~~~~~i~~~~~~~~~~~~l 231 (362)
T PRK14945 155 VKLEHSPQGLRAVASDGYRLAIYDLPASQG--QGRKLVIPARSADELVRVLKDGD-EASLALGEGVLTLTTGGVRMNLKL 231 (362)
T ss_pred EEEEEeCCEEEEEEEccceEEEEEeccCCC--CCceEEEEHHHHHHHHHhcCCCC-cEEEEEcCCEEEEEECCEEEEEEe
Confidence 999999999999999999999999876533 35799999999999999998643 799999999999999999999999
Q ss_pred cCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC-cceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCC--
Q psy13360 241 IDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK-LKGVRLVIKPNYLKITVSSSNREKASEELEINYNGK-- 317 (1161)
Q Consensus 241 i~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~-~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge-- 317 (1161)
++|+||+|++++|.++...+++++++|.++|+|+++++++. ...|.|+++++.|++++++ +.|.+.++++++++|+
T Consensus 232 idg~fP~~~~vip~~~~~~v~i~~~~L~~~l~r~~~~~~~~~~~~v~l~~~~~~l~~~a~~-~~g~a~~~i~~~~~G~~~ 310 (362)
T PRK14945 232 MEGEFPDYERVIPQDFKLQVTLPAEALREAVNRVAVLSDRNANNRVELLVAEGRLRLTAEG-DYGRGQEELAVTQEGSEP 310 (362)
T ss_pred ecccCCChhhhCCCCCCEEEEEEHHHHHHHHHHHhhhhccCCCccEEEEEECCEEEEEecC-CCceEEEEEEEEeecCCC
Confidence 99999999999998888999999999999999999999776 6679999999999999886 8999999999999996
Q ss_pred ccceeeechhhhh--hcccCcccccc
Q psy13360 318 DKNFIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 318 ~~~ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
++. ++||++||+ |+++++ +|.|
T Consensus 311 ~~~-i~fN~~yl~d~L~~~~~-~v~l 334 (362)
T PRK14945 311 AMA-LAYNARYLLDALAPIEG-DARL 334 (362)
T ss_pred CEE-EEECHHHHHHHHHhCCC-cEEE
Confidence 788 999999999 999984 6877
No 26
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=100.00 E-value=1.3e-49 Score=461.50 Aligned_cols=320 Identities=35% Similarity=0.588 Sum_probs=298.4
Q ss_pred hhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHHHhcCCCCccEEEEEeCcE
Q psy13360 19 VISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSLPETEKVTIYIENKH 98 (1161)
Q Consensus 19 v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~Ivk~Lp~~~~I~ie~~~~~ 98 (1161)
+++++++|+++|+|+||++++++++|+++|||++++++.+++++...++|+++||++.|.+++|+||++ .|+++.+++.
T Consensus 1 ~~~~v~~k~~~piL~~ill~a~~~~l~l~atd~e~~i~~~i~~~~~~~~G~~~v~a~~l~~ivk~lp~~-~i~~~~~~~~ 79 (345)
T smart00480 1 VSRVISNRNTIPILSNILLEAKDDGLTLTATDLEISIKSSISAEVEDEEGSVTVPAKKFLDIVRKLPDK-EITLSVEEDK 79 (345)
T ss_pred CccccCCCCChhHhcCEEEEEECCEEEEEEECCceEEEEEEEeeEccCCeEEEEEhHHHHHHHHhCCCC-ceEEEEcCCE
Confidence 468999999999999999999999999999999999999999876326899999999999999999986 7999988889
Q ss_pred EEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecce
Q psy13360 99 MFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGH 178 (1161)
Q Consensus 99 l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~ 178 (1161)
+.|+||+++|+|+++++++||.+|..+. ...+++++..|.++|++|.+|+++++++|+|+||+|+++++.|+++|||||
T Consensus 80 l~i~~~~~~~~l~~~~~~~fP~~~~~~~-~~~~~i~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l~lvATDg~ 158 (345)
T smart00480 80 LVITSGKSRFNLPTLDAEEFPELPFIEE-GVTFELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGH 158 (345)
T ss_pred EEEEECcEEEEecCCCHHHCCCCCCcCC-CcEEEECHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEEEEEEEcCc
Confidence 9999999999999999999999997653 568999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEEeecCCCCCCccccccCCcce
Q psy13360 179 RLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKLIDGKFLDYKYVISNKYEK 258 (1161)
Q Consensus 179 RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~g~fPdy~~vip~~~~~ 258 (1161)
|++..+++++... .+++++||++.+.++.|+|++.++.|+|.++++++.|.+++..+.+++++|+||+|++++|.++..
T Consensus 159 rla~~~~~~~~~~-~~~~~ivP~k~l~el~k~l~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~g~fP~~~~vip~~~~~ 237 (345)
T smart00480 159 RLAVREIKLESEE-DDFSVIIPRKSLLELNKLLTDNEELVEIFISSNQILFETGNVIFTSRLIDGEFPDYKRVIPKEFET 237 (345)
T ss_pred eEEEEEeccCCCC-CcceEEEehHHHHHHHHhccCCCCcEEEEEeCCEEEEEECCEEEEEEEeeecCCCchhhCCCCCCE
Confidence 9999998765432 247899999999999999986456799999999999999999999999999999999999998899
Q ss_pred EEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCccceeeechhhhh--hcccCc
Q psy13360 259 SFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKDKNFIKFLIKIML--LKNKNS 336 (1161)
Q Consensus 259 ~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~~~ii~fn~~yLl--L~~~~~ 336 (1161)
.+++++.+|+++|+|++++++++.++|.|+++++.|++++++++.|.++|+++++++|+++. ++||++||+ |+++++
T Consensus 238 ~~~i~~~~L~~ai~rv~~~~~~~~~~v~l~~~~~~l~~~a~d~~~g~~~e~i~~~~~g~~~~-i~fN~~yL~d~l~~~~~ 316 (345)
T smart00480 238 KLTVNRKELKEALKRVALLANEKNRSVKLTLEEGQLKLTANSPEVGEAEEEVDVDYEGEDLE-IAFNPKYLLDALKALKS 316 (345)
T ss_pred EEEEEHHHHHHHHHHHhhhhcCCCceEEEEEeCCEEEEEEcCCccceEEEEEEEEecCCcEE-EEECHHHHHHHHhcCCC
Confidence 99999999999999999999776678999999999999999999999999999999999999 999999999 999999
Q ss_pred cccccc
Q psy13360 337 YDIQDT 342 (1161)
Q Consensus 337 d~i~l~ 342 (1161)
++|.|.
T Consensus 317 ~~v~l~ 322 (345)
T smart00480 317 EEIELK 322 (345)
T ss_pred CEEEEE
Confidence 999883
No 27
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=100.00 E-value=5.5e-49 Score=460.07 Aligned_cols=335 Identities=41% Similarity=0.675 Sum_probs=311.4
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccC-CceEEEEechhHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGN-SSINIIVAARKFID 79 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~-~~G~v~V~ak~l~~ 79 (1161)
||| .|++++|+++|+++.++++++++.|+|+||+|++++++|+++|||++++++++++++. . ++|+++||+|.|.+
T Consensus 1 Mk~--~i~~~~l~~~l~~~~~~i~~~~~~piL~~ili~~~~~~l~l~atd~~~~~~~~~~~~~-~~~~G~~~v~~k~l~e 77 (367)
T PRK05643 1 MKF--TISRNALLKALQLVQGAVERRNTIPILSNVLIEAEGGKLSLTATDLEISIETTIPAEV-EVEEGSITVPAKKLLD 77 (367)
T ss_pred CEE--EEEHHHHHHHHHHHhhhcCCCCChhHhcCEEEEEeCCEEEEEEECcceEEEEEEEeeE-cccCeEEEEEhHHHHH
Confidence 999 4569999999999999999999999999999999999999999999999999999865 4 68999999999999
Q ss_pred HHhcCCCCccEEEEEeC-cEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccce
Q psy13360 80 ILRSLPETEKVTIYIEN-KHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (1161)
Q Consensus 80 Ivk~Lp~~~~I~ie~~~-~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL 158 (1161)
++|+||++++|+++.++ +.+.|++|+++|+++++++++||.++..+. ...|.++++.|.++|++|.+|+++++++|+|
T Consensus 78 iik~l~~~~~i~i~~~~~~~l~i~~~~~~~~l~~~~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~~v~~a~~~~~~~piL 156 (367)
T PRK05643 78 IVRKLPDGAEITLELEENNRLTIKSGKSRFNLPTLPAEDFPNLPEIEE-EVSFTLPQKTLKRLIEKTQFAMSTQETRYYL 156 (367)
T ss_pred HHHcCCCCCcEEEEECCCCEEEEEECCEEEEeccCCHHHCCCCCCCCC-CcEEEECHHHHHHHHhheeEEeecCCccccc
Confidence 99999986479998854 799999999999999999999999997643 5789999999999999999999999999999
Q ss_pred eeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEE
Q psy13360 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIIS 238 (1161)
Q Consensus 159 ~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~ 238 (1161)
+||+|+++++.|+++||||||++.+.++++....++++++||++.+.++.|+|++ ++.|.+.++++++.|++++.+|.+
T Consensus 157 ~gi~~~~~~~~l~l~aTD~~rl~~~~~~~~~~~~~~~~~~vp~k~l~ei~k~l~~-~~~v~i~~~~~~~~~~~~~~~~~~ 235 (367)
T PRK05643 157 NGVLLEIEGNELRAVATDGHRLAVRKLELEEGSLGDFSVIIPRKTLLELQKLLDD-EEPVEIFISDNQILFEFGNTIFTS 235 (367)
T ss_pred cEEEEEEeCCEEEEEEeccceeEEEEecccCCcccCceEEEchHHHHHHHHhcCC-CCcEEEEEeCCEEEEEECCEEEEE
Confidence 9999999999999999999999999988764333357899999999999999974 557999999999999999999999
Q ss_pred eecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCc
Q psy13360 239 KLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKD 318 (1161)
Q Consensus 239 rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~ 318 (1161)
++++|+||+|++++|.++...+++++++|.++|+|++++++++.++|.|+++++.|++++++++.|.+.++++++++|++
T Consensus 236 ~li~g~yP~~~~~ip~~~~~~~~i~~~~L~~~i~rv~~~~~~~~~~i~l~~~~~~l~~~a~~~~~g~a~~~i~~~~~g~~ 315 (367)
T PRK05643 236 KLIDGKFPDYRRVIPKEFDKKLTVDRKELLQALERASILSNEKSRGVKLSLSEGQLKISANNPEQGEAEEELEVEYSGEE 315 (367)
T ss_pred EEeeecCCChhhhCCCCCCEEEEEEHHHHHHHHHHHHHHhcCCCceEEEEEeCCEEEEEEECCCCCcEEEEEEEEecCCc
Confidence 99999999999999998899999999999999999999987777889999999999999999999999999999999999
Q ss_pred cceeeechhhhh--hcccCcccccc
Q psy13360 319 KNFIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 319 ~~ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
+. +.||++||+ |+.+++++|.+
T Consensus 316 ~~-i~~n~~yL~d~l~~~~~~~v~i 339 (367)
T PRK05643 316 LE-IGFNVKYLLDVLKALDSEEVRL 339 (367)
T ss_pred EE-EEEcHHHHHHHHhcCCCCEEEE
Confidence 99 999999998 99999888888
No 28
>PRK14943 DNA polymerase III subunit beta; Provisional
Probab=100.00 E-value=1.6e-48 Score=457.01 Aligned_cols=335 Identities=27% Similarity=0.470 Sum_probs=311.5
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
|||+ |++++|.++|+.+.++++++++.|+|+||+|++++++|+++|||++++++++++++. .++|+++||+|.|.++
T Consensus 1 Mk~~--i~~~~L~~~l~~v~~~v~~~~~~piL~gill~~~~~~l~l~aTD~~~~~~~~~~~~~-~~~g~~~vpak~l~ei 77 (374)
T PRK14943 1 MKFK--INKDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVIKANV-LREGTVTLPVKKLATI 77 (374)
T ss_pred CEEE--EEHHHHHHHHHHHHhHhCCCCChHHhcCEEEEEECCEEEEEEECccEEEEEEEEeee-ccCeEEEEEhHHHHHH
Confidence 9994 569999999999999999999999999999999999999999999999999998865 4579999999999999
Q ss_pred HhcCCCCccEEEEEe-CcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccccccccee
Q psy13360 81 LRSLPETEKVTIYIE-NKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~-~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~ 159 (1161)
+|+||++ +|++..+ ++++.+++|+++|+++++++++||.+|... ....+.++.+.|.++|++|.+|++.++++|+|+
T Consensus 78 ~k~l~~~-~i~i~~~~~~~~~i~~~~~~~~l~~l~~~~fP~~p~~~-~~~~~~i~~~~l~~~i~~v~~a~s~~~~~~~L~ 155 (374)
T PRK14943 78 VRELPEA-EVQVDANQNNQAKVESGGSQFKIMGIPAEEFPPLPSFE-QATVFQLEQSELRDMLKSVEYAQSTDETRYILN 155 (374)
T ss_pred HHhCCCC-ceEEEEcCCCeEEEEECCEEEEEccCCHHHCCCCCCCC-CCcEEEECHHHHHHHHhhEeEEeccCcCCcceE
Confidence 9999986 7999875 679999999999999999999999998753 356799999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEE--------
Q psy13360 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIF-------- 231 (1161)
Q Consensus 160 GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~-------- 231 (1161)
||+|++++|.|+++|||||||+....+.+...+.+++++||++.+.++.++|++ +++|.+.++++++.|.+
T Consensus 156 gv~l~~~~~~l~l~aTDg~rla~~~~~~~~~~~~~~~~ivp~k~l~~l~~~l~~-~~~V~i~~~~~~~~f~~~~~~~~~~ 234 (374)
T PRK14943 156 GVYFNFRDGKLTLVATDGRRLALAETELEFPEDQAGDAILPAKTVGELRRLLDK-GGKLKIRFNDRQAAFEISIGEDSSG 234 (374)
T ss_pred EEEEEEeCCEEEEEEecchhEEEEEeccCCCCCcCceEEEehhHHHHHHHhCCC-CCcEEEEEeCCEEEEEEeccccccc
Confidence 999999999999999999999998887654444457899999999999999985 56799999999998888
Q ss_pred --CcEEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCcccccee
Q psy13360 232 --SNIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEE 309 (1161)
Q Consensus 232 --~~~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~ 309 (1161)
++..+.+++++|+||||++++|.++...++++|.+|+++|+|++++++++.++|.|+++++.|++++.+++.|+++|+
T Consensus 235 ~~~~~~~~~~li~g~fP~y~~vip~~~~~~~~i~~~~l~~al~r~~~~~~~~~~~v~l~~~~~~l~i~~~~~e~G~~~e~ 314 (374)
T PRK14943 235 LANDTYLISKLVEGNYPNYRQVIPKETKERIKLERELLLECVHRAALVSSDKSNSVKLKFSENLLEIASSSEGVGEAHES 314 (374)
T ss_pred cCCCEEEEEEEeeecCCChHHhCCCCCCeEEEEEHHHHHHHHHHHHhhcccCCceEEEEEECCEEEEEEcCCCCceEEEE
Confidence 888999999999999999999999999999999999999999999998878889999999999999999999999999
Q ss_pred eeeeeeCCccceeeechhhhh--hcccCccccccc
Q psy13360 310 LEINYNGKDKNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 310 i~~~~~Ge~~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
++++++|++++ ++||++||+ |+++++++|++.
T Consensus 315 i~~~~~G~~~~-i~fN~~yl~d~l~~~~~~~v~l~ 348 (374)
T PRK14943 315 MAITYSGPELQ-VAFNPDFFMAPLKALTKDEVFFE 348 (374)
T ss_pred EEEEecCCcEE-EEECHHHHHHHHhcCCCCEEEEE
Confidence 99999999999 999999999 999999999884
No 29
>TIGR00663 dnan DNA polymerase III, beta subunit. University).
Probab=100.00 E-value=1.6e-48 Score=456.19 Aligned_cols=336 Identities=30% Similarity=0.502 Sum_probs=309.6
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEee-ecccCCceEEEEechhHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTA-VGYGNSSINIIVAARKFID 79 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~-a~~~~~~G~v~V~ak~l~~ 79 (1161)
||| .+++++|.++|+++.++++++++.|+|+||+|++++++|+++|||+++.++++++ ++. .++|+++||+|.|.+
T Consensus 1 Mk~--~i~~~~L~~~l~~v~~~i~~~~~~piL~gvlle~~~~~l~l~atD~~~~~~~~~~~~~~-~~~g~~~vp~k~l~e 77 (367)
T TIGR00663 1 MKF--IIERDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIFTINS-EQEGSVTINAKKFLD 77 (367)
T ss_pred CEE--EEEHHHHHHHHHHHHhHhcCCCchhhhcCEEEEEECCEEEEEEECCceEEEEEEecccc-ccCeEEEEEhHHHHH
Confidence 999 5569999999999999999999999999999999999999999999999999984 654 568999999999999
Q ss_pred HHhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccccccccee
Q psy13360 80 ILRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (1161)
Q Consensus 80 Ivk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~ 159 (1161)
++|+||++ +|++..+++++.|++|+++|+++++++++||.++.... ...+.+++..|.++|++|.+|++.++++|+|+
T Consensus 78 i~k~l~~~-~i~i~~~~~~l~i~~~~~~~~~~~l~~~~fP~~~~~~~-~~~~~i~~~~l~~~i~~v~~a~~~~~~r~~L~ 155 (367)
T TIGR00663 78 IVRALPDS-KITLEVKNDKLAITSEKSRFKLPTLSAEEFPNLPTIEE-GVSIEIPSDVLKEAINQTAFAAGEDETRPVLN 155 (367)
T ss_pred HHHhCCCC-ceEEEEcCCEEEEEECcEEEEecCCCHHHCCCCCCcCC-CcEEEECHHHHHHHHhhEEEEEecCCCCcccc
Confidence 99999965 79999988899999999999999999999999997643 56899999999999999999999999999999
Q ss_pred eEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEEe
Q psy13360 160 GLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISK 239 (1161)
Q Consensus 160 GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~r 239 (1161)
||+|++++|.|+++|||||||++...+.+.....+++++||++.+.+|.+++++.++.+.+..+++++.|.+++..+.+|
T Consensus 156 gi~~~~~~~~l~~~atDg~RLa~~~~~~~~~~~~~~~~iiP~k~l~el~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~r 235 (367)
T TIGR00663 156 GVLIEQKGKTLLLVATDGHRLAVCKLKSEVSDEEDFSVIIPAKALNELLKLLSENGSVVLKSLNDQLVYIELGNYKFTSK 235 (367)
T ss_pred eEEEEEeCCEEEEEEecchheEEEeccccCCCCccceEEEecHHHHHHHHHhcCCCCeEEEEEeCCEEEEEECCEEEEEE
Confidence 99999999999999999999999987755433345789999999999999997644445557779999999999999999
Q ss_pred ecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCC-EEEEEEEcCCccccceeeeeeeeCCc
Q psy13360 240 LIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPN-YLKITVSSSNREKASEELEINYNGKD 318 (1161)
Q Consensus 240 li~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~-~L~isa~d~~~g~~~E~i~~~~~Ge~ 318 (1161)
+++|+||||++++|.++.+.++++|.+|+++|+|++++++++.++|.|.++++ .|++++.+++.|.++|++++.++|++
T Consensus 236 li~g~yP~y~~vip~~~~~~~~i~~~~L~~al~rv~~~~~~~~~~v~~~~~~~~~l~i~~~~~~~g~~~e~i~~~~~g~~ 315 (367)
T TIGR00663 236 LIEGNYPDYKSVIPKEQKNSFTVNREELKEAIKRVSLLADEKRNLVLTLSENGKKLKESSDTQEIGEAEEEIEVAYDGED 315 (367)
T ss_pred EeeccCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHhcCCCceEEEEECCCCeEEEEEcCCCCccEEEEEEEEecCCc
Confidence 99999999999999998999999999999999999999987778899999999 99999999999999999999999999
Q ss_pred cceeeechhhhh--hcccCccccccc
Q psy13360 319 KNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 319 ~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
++ ++||++||+ |+.+++++|.+.
T Consensus 316 ~~-i~fN~~yL~d~l~~~~~~~v~l~ 340 (367)
T TIGR00663 316 LV-IAFNIKYLLDALKALKSKEIQIQ 340 (367)
T ss_pred EE-EEECHHHHHHHHhcCCCCEEEEE
Confidence 99 999999998 999999999883
No 30
>cd03365 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofact
Probab=100.00 E-value=9.8e-52 Score=393.09 Aligned_cols=115 Identities=37% Similarity=0.637 Sum_probs=110.6
Q ss_pred ceEEEEeccCCCccccccc---CCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCC-CCCcccccccceE
Q psy13360 780 CELYIVEGDSAGGSVKQGR---DRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQ-DEFNLEKLRYHRI 855 (1161)
Q Consensus 780 ~eL~ivEGDSA~gsak~gr---dr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~-~~~~~~~lRY~ki 855 (1161)
||||||||||||||||||| ||++|||||||||||||||++.+|+++|+||++|++|||||++. ++||+++|||+||
T Consensus 1 ~eLflvEGDSA~gsak~gr~~~dr~~qailPLrGKiLNv~ka~~~ki~~n~Ei~~li~alG~g~~~~~~~~~~~lrY~ki 80 (120)
T cd03365 1 CTLILTEGDSAKALAVAGLSVVGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYESTKSLRYGRL 80 (120)
T ss_pred CEEEEEeCCCchhhHHhhhccCCCceEEEeccCCccchhhcCCHHHHhcCHHHHHHHHHhCCCCCcccccccccCCcCeE
Confidence 8999999999999999999 89999999999999999999999999999999999999999985 3599999999999
Q ss_pred EEeecCCCCChhhHHHHHHHHHHhcHhhhhc-CcEEEEcC
Q psy13360 856 IIMTDADIDGAHIRALLLTFFYRKMPKLIEY-GYIYIAQP 894 (1161)
Q Consensus 856 iimtDaD~DG~HI~~Llltff~~~~p~Li~~-g~v~~~~~ 894 (1161)
|||||||+||+||++|||||||||||+||++ |||+.+.|
T Consensus 81 iimtDaD~DG~hI~~Llltff~r~~p~Li~~~~fi~~~~t 120 (120)
T cd03365 81 MIMTDQDHDGSHIKGLLINFIHSFWPSLLKIPGFLVEFIT 120 (120)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHhHHHhcCCCHHHHhcC
Confidence 9999999999999999999999999999997 99987654
No 31
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.2e-43 Score=404.49 Aligned_cols=333 Identities=31% Similarity=0.524 Sum_probs=311.0
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||| .|+|+.|+++|+++.+++++|++.|+|+||+|+|++++|+++|||+++++.++++++. ..+|.+++++|.|.++
T Consensus 1 mk~--~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~~l~~~~td~ei~~~~~i~~~v-~~~g~~~v~~k~l~di 77 (364)
T COG0592 1 MKF--SIERENLLKALQLVSRIVESRPTIPILSNVLIEAKENGLTLTGTDLEISLEARIPAEV-EAEGEVAVPAKKLLDI 77 (364)
T ss_pred CEE--EEEHHHHHHHHHHHHhhccCCCCChhhhcEEEEEECCeEEEEEecceEEEEEEEEEEE-ecceeEEEEhHHHHHH
Confidence 899 5569999999999999999999999999999999999999999999999999999984 6799999999999999
Q ss_pred HhcCCCCccEEEEE-eCcE-EEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccce
Q psy13360 81 LRSLPETEKVTIYI-ENKH-MFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYL 158 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~-~~~~-l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL 158 (1161)
|++||++. +.+.. ++.. +.|++|+++|.+.++|+++||.++...+ ...|.++.+.|.++|+++.++++.+++++.+
T Consensus 78 i~~L~de~-~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~-~~~~~l~~~~Lk~ii~~~~fa~~~~e~~~~l 155 (364)
T COG0592 78 ISKLPDEA-VFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEE-EVEFGLPTELLKKIIKRTKFADSLLETRYEL 155 (364)
T ss_pred HHhCCCCc-eEEEEecCCceEEEecCceEEEcCCCCHHHCCCCCCCCc-CceEEecHHHHHHHHhheeecccchhhhhhc
Confidence 99999984 54544 4445 9999999999999999999999998754 3679999999999999999999999999999
Q ss_pred eeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEE
Q psy13360 159 NGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIIS 238 (1161)
Q Consensus 159 ~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~ 238 (1161)
+||+|++.++.++.+|||||||+....+.+.... +++++||++.+.++.|++.+.+ +.+...++++.|..++..+.+
T Consensus 156 ngv~~~i~~~~l~~vatd~~rla~~~~~~~~~~~-~~~viIp~k~l~el~k~~~d~~--~~~~~~sd~i~f~~~~~~~~s 232 (364)
T COG0592 156 NGVLLEIEGTKLRLVATDGHRLAVEELEIPELEE-DASVIIPAKTLKELIKLLKDAD--VEIFLVSDQIRFKAGETILFS 232 (364)
T ss_pred ccEEEEEECCEEEEEEECCceEEEEEeccccCCC-CccEEEEhhHHHHHHHhCCCCC--eEEEEcCCeEEEEECCEEEEE
Confidence 9999999999999999999999999998876544 3899999999999999998754 899999999999999999999
Q ss_pred eecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCc
Q psy13360 239 KLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKD 318 (1161)
Q Consensus 239 rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~ 318 (1161)
++++|+||+|++++|.++...+++++.+|.++++|+..++..+...+.+...++.+++++.+++.|.+++++++.+.|++
T Consensus 233 ~lieG~fpd~~~vip~~~~~~~~l~~~el~~al~r~~~l~~~~~~~~~~~~~~~~v~i~~~~~~~g~~~eei~~~~~g~~ 312 (364)
T COG0592 233 KLIEGEFPDYERVIPKEFEKELTLDRLELKEALKRVYSLSYLKDRGKKLSLADGEVKLSLGNDEPGKAEEEIDVGYTGEE 312 (364)
T ss_pred EEecccCCChhhcCCCCCceEEEEeHHHHHHHHHHHHHHHhcccCceEEEeeCCeEEEEecCCCccceEEEEEeccCCce
Confidence 99999999999999999999999999999999999999999988899999999999999999999999999999999999
Q ss_pred cceeeechhhhh--hcccCccccccc
Q psy13360 319 KNFIKFLIKIML--LKNKNSYDIQDT 342 (1161)
Q Consensus 319 ~~ii~fn~~yLl--L~~~~~d~i~l~ 342 (1161)
.. ++||+.|++ |++++++.+.+.
T Consensus 313 ~~-I~fn~~ylld~l~~~~~~~v~~~ 337 (364)
T COG0592 313 LK-IGFNLAYLLDVLKALDSEEVQFG 337 (364)
T ss_pred EE-EEECHHHHHHHHhcCCCCeEEEE
Confidence 99 999999999 999999999883
No 32
>cd00140 beta_clamp Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.
Probab=100.00 E-value=2.1e-42 Score=404.00 Aligned_cols=336 Identities=36% Similarity=0.592 Sum_probs=310.4
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
|+| +|++++|.++|+++.++++++++.|+|+||+|++.+++|+++|||+++.+.++++++...++|+++||+|.|.++
T Consensus 1 M~~--~i~~~~l~~~i~~~~~~~~~~~~~p~L~gvl~e~~~~~l~~~atd~~~~~~~~~~~~~~~~~g~~~vp~k~l~~i 78 (365)
T cd00140 1 MKF--TINREALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEEVEEEGSVTVPAKKLLDI 78 (365)
T ss_pred CEE--EEEHHHHHHHHHHHHhHhCCCCChhHhcCEEEEEECCEEEEEEecceEEEEEEEeceecccCeEEEEEhHHHHHH
Confidence 899 566999999999999999999999999999999999999999999999999999886335689999999999999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccccccccceee
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNG 160 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~G 160 (1161)
+|.++++ +|+++.+++.+.|++|+++|.++.+++++||.++..+ ....+.++.+.|.++|++|.+++++++++|+|+|
T Consensus 79 ~k~l~~~-~v~i~~~~~~l~i~~g~~~~~~~~~~~~~fP~~~~~~-~~~~~~i~~~~l~~~l~~v~~~~~~~~~~~~l~g 156 (365)
T cd00140 79 VRKLPDE-EVTLETEENRLTIKSGKSRFSLNTLPAEEFPELPEIE-NGSSFTIPASELKELIKKTAFAVSTDETRPILNG 156 (365)
T ss_pred HHhCCCC-cEEEEEcCCEEEEEECcEEEEEcCCCHHHCCCCCCCC-CCcEEEECHHHHHHHHhhEEEEecCccCcccceE
Confidence 9999985 7999999999999999999999999999999999763 4678999999999999999999999999999999
Q ss_pred EEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEECcEEEEEee
Q psy13360 161 LLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIFSNIEIISKL 240 (1161)
Q Consensus 161 V~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~rl 240 (1161)
|+|+++++.|+++|||++|++...++++....+++++++|++.+.++.+.++..++.|.+.+.++.+.|++++..|++++
T Consensus 157 I~~~~~~~~l~l~atD~~~~~~~~~~~~~~~~~~~~~~i~~~~l~~l~k~l~~~~~~v~i~~~~~~l~i~~~~~~~~~~l 236 (365)
T cd00140 157 VLLEIEDNKLRAVATDGHRLALREIELESGAEEDFNVIVPRKTLNELLKLLEDDDEEVEISISENQILFKLGNTTFTSRL 236 (365)
T ss_pred EEEEEECCEEEEEEEcCceEEEEEeecCCCCccCceEEEechHHHHHHHhccCCCCcEEEEEeCCEEEEEECCEEEEEEE
Confidence 99999999999999999999999988765333467999999999999999973245799999999999999999999999
Q ss_pred cCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCccc
Q psy13360 241 IDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKDKN 320 (1161)
Q Consensus 241 i~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~~~ 320 (1161)
++|+||+|++++|......+.+++.+|.++|+|+.+++++..++|.|+++++++++++++++.+.+.++++++++|++.+
T Consensus 237 i~~~yP~~~~~ip~~~~~~~~i~~~~L~~~l~~~~~~~~~~~~~v~l~~~~~~l~~~a~~~~~~~~~~~~~~~~~g~~~~ 316 (365)
T cd00140 237 IEGEFPDYERVIPKEFEKSLTVDREELLEALKRVSLLSNEKNRGVKLEISEGQLKLSANNPEIGEAEEELEVEYEGEELE 316 (365)
T ss_pred EeeECCCchhcCCCCCcEEEEEEHHHHHHHHHHHhhhhccCCceEEEEEeCCEEEEEEcCCCCceEEEEEEEEecCCcEE
Confidence 99999999999998888999999999999999999998866678999999999999999987889999999999999888
Q ss_pred eeeechhhhh--hcccCcccccc
Q psy13360 321 FIKFLIKIML--LKNKNSYDIQD 341 (1161)
Q Consensus 321 ii~fn~~yLl--L~~~~~d~i~l 341 (1161)
+.||.+||. |+.+++++|.+
T Consensus 317 -i~~~~~yL~d~lk~~~~~~v~i 338 (365)
T cd00140 317 -IGFNPKYLLDALKAIDSEEVRL 338 (365)
T ss_pred -EEECHHHHHHHHhcCCCCEEEE
Confidence 999999998 89998888877
No 33
>cd00822 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a
Probab=100.00 E-value=2.9e-41 Score=351.04 Aligned_cols=172 Identities=51% Similarity=0.812 Sum_probs=164.8
Q ss_pred CchhhhhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHH
Q psy13360 577 GGTSGFVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAIN 656 (1161)
Q Consensus 577 ~Gi~~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in 656 (1161)
|||.+|+++++.+++++|+++++++++. +++.|||||+|+++|+++++||||+|+|++||||++||+++|+++|+
T Consensus 1 gGl~~fl~~l~~~~~~l~~~~i~~~~~~-----~~~~veva~~~~~~~~~~~~sfvN~i~T~~GGTH~~g~~~~l~~~i~ 75 (172)
T cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEK-----DGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAIN 75 (172)
T ss_pred CCHHHHHHHHhCCCCcCCCCCeEEEEEe-----cceEEEEEEEEeCCCCeEEEEeECcccCCCCCCHHHHHHHHHHHHHH
Confidence 6999999999999989988999998876 67899999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHH
Q psy13360 657 KYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEK 736 (1161)
Q Consensus 657 ~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~ 736 (1161)
+|+++++++|+.+.+++++||++||++||+|+++||+|+||||++|+|++++++|++++.+.|..||++||..|+.|+++
T Consensus 76 ~~~~~~~~~k~~~~~~~~~di~~~l~~vvsv~~~~P~F~gQTK~kL~~~~v~~~v~~~v~~~l~~~l~~n~~~a~~i~~k 155 (172)
T cd00822 76 DYAKKNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEK 155 (172)
T ss_pred HHHHHhCcccccCCCCCHHHHHhCcEEEEEEEcCCCccCCcccccccCHhHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
Confidence 99999998887667899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhh
Q psy13360 737 IIEAARSREAARKTREL 753 (1161)
Q Consensus 737 ~~~~~~ar~aa~~a~~~ 753 (1161)
++.++++|++|+++|++
T Consensus 156 ~~~~~~aR~aa~~ar~~ 172 (172)
T cd00822 156 AILAAKAREAARKAREL 172 (172)
T ss_pred HHHHHHHHHHHHHhhcC
Confidence 99999999999999863
No 34
>PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the second domain found in subunit B (gyrB and parE) of bacterial gyrase and topoisomerase IV, and the equivalent N-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LPS_A 3LNU_A 1KIJ_B 1EI1_B 1S16_B 1QZR_B 1PVG_A 3CWV_B 1ZXN_A 1ZXM_B ....
Probab=100.00 E-value=1.6e-38 Score=332.36 Aligned_cols=173 Identities=43% Similarity=0.713 Sum_probs=156.1
Q ss_pred chhhhhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHH
Q psy13360 578 GTSGFVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINK 657 (1161)
Q Consensus 578 Gi~~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~ 657 (1161)
|+.+|+++++.++.++|+++++++++... .+.+.|+||++|++++.+.++||||+|+|++||||++||+++|+++|++
T Consensus 1 G~~dyv~~~~~~~~~~~~~~~~~~~~~~~--~~~~~v~va~~~~~~~~~~~~SfvN~i~T~~GGtHv~g~~~~i~~~i~~ 78 (173)
T PF00204_consen 1 GFKDYVKLLNKDKEPLHPEPIYFEGEDKE--NDRWEVEVAFQWTSGYDEKIVSFVNNIPTPEGGTHVDGFKDAITKAIND 78 (173)
T ss_dssp SHHHHHHHHCTTS-BSSSSEEEEEEEEE---TTTEEEEEEEEEBSSSSCEEEEEETTEE-TTEBHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcCCCcCCCCCeEEEEEecc--CCcEEEEEEEEecCCCceeeeeeeccccccccccHHHHHHHHHHHHHHH
Confidence 89999999999989999999999876410 0349999999999989889999999999999999999999999999999
Q ss_pred HHHHhcccccccccCChhhHhcceEEEEEEeecCCCcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHH
Q psy13360 658 YIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDPKFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKI 737 (1161)
Q Consensus 658 ~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~ 737 (1161)
|+++.+++|++. +++++||++||++||||+++||+|+||||++|+|++++..|++++.+.|..||++||+.++.|++++
T Consensus 79 ~~~k~~~~k~~~-~i~~~di~~~l~~vv~~~i~nP~F~gQTK~~L~~~~~~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~ 157 (173)
T PF00204_consen 79 YAKKKNKLKKKD-KITPEDIREGLTAVVSVKIPNPQFEGQTKEKLTNPEVRSIVEKAVSEKLEKWLEKNPEIAKAIIEKA 157 (173)
T ss_dssp HHHHTTCCCTTT-GSSHHHHHTTEEEEEEEEESSG-BSSTTTTSB--HHHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHH
T ss_pred hHhhhCcccccc-ccchhhcccccEEEEEEEEecccccccccceeeHHHhhhhhhhhhHHHHHHHHHHCHHHHHHHHHHH
Confidence 999998887765 8999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhh
Q psy13360 738 IEAARSREAARKTREL 753 (1161)
Q Consensus 738 ~~~~~ar~aa~~a~~~ 753 (1161)
+.++++|+++++|||+
T Consensus 158 ~~~~~~r~~ak~are~ 173 (173)
T PF00204_consen 158 LQAAKAREAAKKARET 173 (173)
T ss_dssp HHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHhcCC
Confidence 9999999999999974
No 35
>PF00986 DNA_gyraseB_C: DNA gyrase B subunit, carboxyl terminus The Prosite motif does not match this Pfam entry.; InterPro: IPR002288 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the C-terminal region (C-terminal part of domain 2) of subunit B found in topoisomerase II (gyrB) and topoisomerase IV (parE), which are primarily of bacterial origin. It does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. This region is involved in subunit interaction, which accounts for the difference between subunit B and single polypeptide topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LTN_D 3RAF_C 3FOF_C 3RAE_C 3KSA_D 3RAD_C 3FOE_D 3KSB_D 3K9F_D 2XCT_D ....
Probab=99.97 E-value=6.5e-33 Score=235.29 Aligned_cols=63 Identities=62% Similarity=0.964 Sum_probs=60.2
Q ss_pred cCCceeeEEecCCCCChhhhhhhccCcCceeEEEeeeccHHHHHHHHHHhcCCCchHHHHHHH
Q psy13360 1088 ENMVIKQRYKGLGEMNPGQLWETTMNPMIRCLLKVKIKDAISADKIFMTLMGDNVELRRKFIE 1150 (1161)
Q Consensus 1088 ~~~~~iqr~KGLGEmn~~qlwettm~p~~r~l~~v~~~d~~~a~~~~~~lmg~~v~~Rr~fi~ 1150 (1161)
+++++||||||||||||+|||||||||++|+|+||+|+|+++|+++|++|||++|+|||+||+
T Consensus 3 ~~~~~I~RfKGLGEM~p~qL~eTTmdP~~R~L~~V~i~d~~~~~~~~~~LMG~~v~~Rr~fIe 65 (65)
T PF00986_consen 3 KKKVEIQRFKGLGEMNPDQLWETTMDPETRRLIRVTIEDAEEADELFEMLMGKNVEPRREFIE 65 (65)
T ss_dssp TTTTEEEESSSGGGS-HHHHHHHHTSTTTTEEEEEEHCCHHHHHHHHHHHHSSTHHHHHHHHH
T ss_pred CCCceeEEecccccCCHHHHHHHccCccceEEEEEEECCHHHHHHHHHHHcCCCcHHHHHHhC
Confidence 456999999999999999999999999999999999999999999999999999999999997
No 36
>cd03481 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded by a single gene. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. This transducer domain is homologous to t
Probab=99.96 E-value=4.3e-29 Score=253.31 Aligned_cols=121 Identities=19% Similarity=0.305 Sum_probs=109.3
Q ss_pred EEEEEEeecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEEEeecCC
Q psy13360 613 NIDVSMQWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPDP 692 (1161)
Q Consensus 613 ~veva~~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~P 692 (1161)
.||||++|+++ +++++||||+|+|++||||++||+++|+++|++|+++.+ | .+.+++++|||+||++||+|+++||
T Consensus 32 ~veva~~~s~~-~~~~~SFvN~I~T~~GGTHv~g~~~~lt~~i~~~~~kk~--k-~~~~i~~~dire~l~~vvs~~i~~P 107 (153)
T cd03481 32 RWEVAVALSDG-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVVKKKN--K-GGINVKPFQVKNHLWIFVNCLIENP 107 (153)
T ss_pred cEEEEEEEcCC-CcEEEEEECCcCCCCCCchHHHHHHHHHHHHHHHHHHcC--C-CCCCcCHHHHhcCeEEEEEEecCCC
Confidence 59999999986 789999999999999999999999999999999998754 3 2468999999999999999999999
Q ss_pred CcccccccccccccccchhHHHHHHHHHHHHhhCchhHHHHHHHHHHHHH
Q psy13360 693 KFNSQTKNKLVSSEVRKPVEEIIIKTLFDFLQENPGESKLICEKIIEAAR 742 (1161)
Q Consensus 693 ~FegQTK~kL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ 742 (1161)
+|+||||++|+|++.+......+.+.|..|+.++ .|+++++.+|+
T Consensus 108 ~FegQTK~kL~s~~~~~~~~~~~~~~~~~~~~k~-----~ii~~i~~~a~ 152 (153)
T cd03481 108 SFDSQTKETLTTKPKSFGSKCELSEKFLKKAVKS-----GIVESVLSWAK 152 (153)
T ss_pred ccCCcccccccCcccccccccccCHHHHHHHHHc-----hHHHHHHHHHc
Confidence 9999999999999865556668999999999987 68999998764
No 37
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.88 E-value=2.1e-21 Score=239.89 Aligned_cols=285 Identities=19% Similarity=0.250 Sum_probs=201.8
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC-
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK- 452 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~- 452 (1161)
..+..+|+|+|+||+| || |+.|.|+++.+| +|+|.|||+|||.+..+. +++ .|+++|+..
T Consensus 21 ~~~~svvkElveNsiD---Ag-at~I~v~i~~~g~~~i~V~DnG~Gi~~~~~~~------------~~~-~~~tsKi~~~ 83 (617)
T PRK00095 21 ERPASVVKELVENALD---AG-ATRIDIEIEEGGLKLIRVRDNGCGISKEDLAL------------ALA-RHATSKIASL 83 (617)
T ss_pred cCHHHHHHHHHHHHHh---CC-CCEEEEEEEeCCeEEEEEEEcCCCCCHHHHHH------------Hhh-ccCCCCCCCh
Confidence 4689999999999999 56 899999999888 899999999999987654 343 799999976
Q ss_pred -Ccee-eecccccchhhHhhhhccEEEEEEEeC--CEEEEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEEE
Q psy13360 453 -NSYK-ISGGLHGIGLSCVNGLSRFLQLTINRN--KKIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFW 528 (1161)
Q Consensus 453 -~~yk-~sgGlhGvG~svvNalS~~~~V~v~r~--g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~ 528 (1161)
+-|. .|.|++|.|+++++++| +++|+++++ +..|++.|++| .++. .......+||+|+++
T Consensus 84 ~dl~~~~t~GfrGeAL~sI~~vs-~l~i~s~~~~~~~~~~~~~~~G------------~~~~---~~~~~~~~GT~V~v~ 147 (617)
T PRK00095 84 DDLEAIRTLGFRGEALPSIASVS-RLTLTSRTADAAEGWQIVYEGG------------EIVE---VKPAAHPVGTTIEVR 147 (617)
T ss_pred hHhhccccCCcchhHHHhhhhce-EEEEEEecCCCCceEEEEecCC------------cCcc---eecccCCCCCEEEec
Confidence 3344 68999999999999999 799999986 56799999998 3322 122234689999997
Q ss_pred ------eCccccc-cCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeC--CchhhhhhhhhcCCcccCCceEE
Q psy13360 529 ------VDEKIFS-NIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFK--GGTSGFVSYINKSKLVVHPTIFQ 599 (1161)
Q Consensus 529 ------PD~~iF~-~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~--~Gi~~fv~~l~~~~~~~~~~~~~ 599 (1161)
|++.+|- ....++..|.++++.+|++|||++|.|.++. +..|++. +++.+.+..+-.. ... +..+.
T Consensus 148 ~LF~n~P~Rrkflk~~~~e~~~i~~~v~~~Al~~p~i~f~l~~~~---~~~~~~~~~~~~~~~i~~i~g~-~~~-~~l~~ 222 (617)
T PRK00095 148 DLFFNTPARRKFLKSEKTELGHIDDVVNRLALAHPDVAFTLTHNG---KLVLQTRGAGQLLQRLAAILGR-EFA-ENALP 222 (617)
T ss_pred hhhccCcHHHHhccCcHHHHHHHHHHHHHHhhcCCCcEEEEEECC---EEEEEeCCCCCHHHHHHHHhCH-HhH-hheEE
Confidence 9999994 4567788999999999999999999999874 3467777 4566666655422 211 34556
Q ss_pred EeeccccccCCceEEE--EEE-eecCCCcceeeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhh
Q psy13360 600 AIGNKISEKKNNINID--VSM-QWNNSYNENILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGED 676 (1161)
Q Consensus 600 ~~~~~~~~~~~~~~ve--va~-~~~~~~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~d 676 (1161)
++.+. +++.++ ++. .|+.+....++.|||+.++.. ..+..++.++...+ +.+.
T Consensus 223 ~~~~~-----~~~~i~g~is~p~~~~~~~~~~~~fvN~R~v~~-----~~l~~ai~~~y~~~------~~~~-------- 278 (617)
T PRK00095 223 IDAEH-----GDLRLSGYVGLPTLSRANRDYQYLFVNGRYVRD-----KLLNHAIRQAYHDL------LPRG-------- 278 (617)
T ss_pred EeccC-----CCEEEEEEEeCcccccCCCcceEEEECCcEecC-----HHHHHHHHHHHHHh------ccCC--------
Confidence 65554 557777 444 455555567899999999863 33334443333222 1111
Q ss_pred HhcceEEEEEEeecCCCcc---cccccccccccccchhHHHHHHHHHHHHhh
Q psy13360 677 IREGLTCVLSIKIPDPKFN---SQTKNKLVSSEVRKPVEEIIIKTLFDFLQE 725 (1161)
Q Consensus 677 iregL~~vvsv~i~~P~Fe---gQTK~kL~n~~v~~~v~~~v~~~l~~~l~~ 725 (1161)
..-.+|+++.+|.-.+| ..+|...--.. ...+...+.+.+..+|.+
T Consensus 279 --~~P~~~l~i~~~~~~~DvNvhP~K~ev~f~~-e~~i~~~i~~~i~~~l~~ 327 (617)
T PRK00095 279 --RYPAFVLFLELDPHQVDVNVHPAKHEVRFRD-ERLVHDLIVQAIQEALAQ 327 (617)
T ss_pred --CCcEEEEEEEeChHhcccccCCCcCEEEeCC-HHHHHHHHHHHHHHHHhc
Confidence 12278899998866666 44454433322 234445556666666643
No 38
>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....
Probab=99.87 E-value=1.2e-21 Score=192.87 Aligned_cols=120 Identities=37% Similarity=0.629 Sum_probs=107.5
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||| .|+|++|+++|+.++++++++++.|+|+||+|++++++|+|+|||+++++++++++....++|+++|||+.|.++
T Consensus 1 Mkf--~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~i~~~i~~~~~~~~G~~~v~ak~l~~i 78 (120)
T PF00712_consen 1 MKF--TINKEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEISIRTTIPAEIEEEEGSILVPAKKLFDI 78 (120)
T ss_dssp EEE--EEEHHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEETEEEEE-EEEEEEHHHHHHH
T ss_pred CEE--EEEHHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEEEEEEEeceeecCCeEEEEEhHHHHHH
Confidence 899 456999999999999999999999999999999999999999999999999999997754789999999999999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCcc
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMT 122 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~ 122 (1161)
+|+||+++.|+++.+++.+.|++|+++|+|+++++++||.+|
T Consensus 79 vk~lp~~~~I~i~~~~~~l~I~~~~~~f~l~~~~~~dfP~lp 120 (120)
T PF00712_consen 79 VKKLPDDEEITIEVEENKLTIKSGKSRFKLPTLDAEDFPELP 120 (120)
T ss_dssp HHHSSSTSEEEEEEETTEEEEEETTEEEEEE-BEGGGS----
T ss_pred HHhCCCCCeEEEEEeCCEEEEEECCEEEEEcCCCHHHcCCCC
Confidence 999999448999999999999999999999999999999986
No 39
>cd00140 beta_clamp Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric ring formed by PCNA (found in eukaryotes and archaea) and the processivity factor (found in bacteriophages T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds.
Probab=99.86 E-value=1.6e-20 Score=219.68 Aligned_cols=204 Identities=18% Similarity=0.247 Sum_probs=178.0
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|.+++..|.++|++|.+++++++++|+|+||+|++.++.|.++||||||++...++++. ..+++.++||++.+.++.|
T Consensus 2 ~~~i~~~~l~~~i~~~~~~~~~~~~~p~L~gvl~e~~~~~l~~~atd~~~~~~~~~~~~~-~~~~g~~~vp~k~l~~i~k 80 (365)
T cd00140 2 KFTINREALLEALQKVSRAIESRNTIPILSNVLIEASDGGLTLTATDLEISIKTTIPAEE-VEEEGSVTVPAKKLLDIVR 80 (365)
T ss_pred EEEEEHHHHHHHHHHHHhHhCCCCChhHhcCEEEEEECCEEEEEEecceEEEEEEEecee-cccCeEEEEEhHHHHHHHH
Confidence 589999999999999999999999999999999999999999999999999999988763 2346799999999999999
Q ss_pred hhcCCCCcEEEEEeCcEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC-c----c
Q psy13360 210 LLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK-L----K 283 (1161)
Q Consensus 210 lL~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~-~----~ 283 (1161)
.+++ ++|.+...++++.|++++..+.+++++ ++||+|+++ +....+++++.+|.++|+|++.+++++ . +
T Consensus 81 ~l~~--~~v~i~~~~~~l~i~~g~~~~~~~~~~~~~fP~~~~~---~~~~~~~i~~~~l~~~l~~v~~~~~~~~~~~~l~ 155 (365)
T cd00140 81 KLPD--EEVTLETEENRLTIKSGKSRFSLNTLPAEEFPELPEI---ENGSSFTIPASELKELIKKTAFAVSTDETRPILN 155 (365)
T ss_pred hCCC--CcEEEEEcCCEEEEEECcEEEEEcCCCHHHCCCCCCC---CCCcEEEECHHHHHHHHhhEEEEecCccCcccce
Confidence 9984 579999999999999999999999998 699999998 456799999999999999999887653 3 5
Q ss_pred eEEEEEeCCEEEEEEEcCCccccceeeeeee-eCCccceeeechhhhh--hcccC--cccccc
Q psy13360 284 GVRLVIKPNYLKITVSSSNREKASEELEINY-NGKDKNFIKFLIKIML--LKNKN--SYDIQD 341 (1161)
Q Consensus 284 ~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~-~Ge~~~ii~fn~~yLl--L~~~~--~d~i~l 341 (1161)
+|.|+++++.|+++++|++. .+...+++.. .+++.. +.|+.+||. ++.++ ++.|.+
T Consensus 156 gI~~~~~~~~l~l~atD~~~-~~~~~~~~~~~~~~~~~-~~i~~~~l~~l~k~l~~~~~~v~i 216 (365)
T cd00140 156 GVLLEIEDNKLRAVATDGHR-LALREIELESGAEEDFN-VIVPRKTLNELLKLLEDDDEEVEI 216 (365)
T ss_pred EEEEEEECCEEEEEEEcCce-EEEEEeecCCCCccCce-EEEechHHHHHHHhccCCCCcEEE
Confidence 89999999999999999864 2344444443 467777 899999997 78876 667766
No 40
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=99.85 E-value=7.4e-21 Score=186.23 Aligned_cols=116 Identities=36% Similarity=0.609 Sum_probs=104.2
Q ss_pred EEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhh
Q psy13360 132 TLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLL 211 (1161)
Q Consensus 132 ~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL 211 (1161)
+|+++.|.++|++|.+|++.+++||+|+||+|+++++.|+++|||||||++.+.+++...+.+.+++||++.+.+|.+++
T Consensus 1 ~i~~~~l~~~i~~v~fa~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIp~k~l~~l~k~l 80 (116)
T PF02767_consen 1 QIPAKELKEAIKKVAFAASKDESRPILNGVLFEIENNKLRLVATDGHRLAVREIELDEENEDEFSFIIPAKALKELKKLL 80 (116)
T ss_dssp EEEHHHHHHHHHHHGGGS-SSTTSGGGGEEEEEEETTEEEEEEEESSEEEEEEEEEEEECESEEEEEEEHHHHHHHHHHS
T ss_pred CcCHHHHHHHHhheeEEEecCCCCceeeeEEEEEECCEEEEEEeCCceEEEEEEecCcccccceEEEEechHHHHHhhhc
Confidence 48899999999999999999999999999999999999999999999999999998876554689999999999999999
Q ss_pred cCCCCcEEEEEeCcEEEEEECcEEEEEeecCCCCCC
Q psy13360 212 ENKENPVELKISNNQIKIIFSNIEIISKLIDGKFLD 247 (1161)
Q Consensus 212 ~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~g~fPd 247 (1161)
++.++.|+|.++++++.|+++++.+.+|+++|+|||
T Consensus 81 ~~~~~~v~i~~~~~~i~f~~~~~~~~srli~g~yPd 116 (116)
T PF02767_consen 81 SDEDEEVEISISDNQIIFKFDNIEITSRLIDGEYPD 116 (116)
T ss_dssp STTSSEEEEEEESSEEEEEESSEEEEEE-BSS----
T ss_pred ccCCceEEEEEcCCEEEEEECCEEEEEEEecccCCC
Confidence 876678999999999999999999999999999997
No 41
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=99.80 E-value=2.3e-18 Score=191.00 Aligned_cols=191 Identities=13% Similarity=0.194 Sum_probs=162.3
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCC------cceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSS------CSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~------~~~viIP~k~L~eL 207 (1161)
++..|+++++... .+..+++|++.+++++++||||||+|...+.++....+ +..+.+|.+.+.++
T Consensus 8 ~~~~lk~i~~~i~---------~l~~~v~~~~~~~~l~~~atD~~Rla~~~~~~~~~~f~~~~~~~~~~~~v~l~~l~~i 78 (247)
T PRK01115 8 DAKDFKYIIDAIS---------KLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKIGVDLEDLKKI 78 (247)
T ss_pred chHHHHHHHHHHH---------HHhceEEEEECCCcEEEEEECCccEEEEEEEeCHHhCccEecCCCeEEEEEHHHHHHH
Confidence 4455666555543 37789999999999999999999999999988643221 23477888888888
Q ss_pred HhhhcCCCCcEEEEE--eCcEEEEEECc---EEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc
Q psy13360 208 QRLLENKENPVELKI--SNNQIKIIFSN---IEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL 282 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~--~~~~l~f~~~~---~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~ 282 (1161)
++.+.+ ++.+.|.+ +++++.|.+++ .+|.+||++|+||+ .+++|.+++..+.+++.+|.++++|++.+++
T Consensus 79 l~~~~~-~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~Lieg~~p~-~~v~p~~~~~~i~~~~~~l~~~~~r~~~~~~--- 153 (247)
T PRK01115 79 LKRAKK-GDKLELELDEEENKLKITFGGEKTREFSLPLLDVSSEE-PPEPNLELPVKAVILGDDLKDAIKDAELVSD--- 153 (247)
T ss_pred HhhCCC-CCEEEEEEcCCCCEEEEEEecCcEEEEEEEeeccCCCC-CCCCCCcccEEEEEEHHHHHHHHHHHHhcCC---
Confidence 887743 45799999 67999999999 99999999999999 9999999999999999999999999999874
Q ss_pred ceEEEEEeCCEEEEEEEcCCccccceeeee------eeeC-Cccceeeechhhhh--hcccCc-cccccc
Q psy13360 283 KGVRLVIKPNYLKITVSSSNREKASEELEI------NYNG-KDKNFIKFLIKIML--LKNKNS-YDIQDT 342 (1161)
Q Consensus 283 ~~V~l~~~~~~L~isa~d~~~g~~~E~i~~------~~~G-e~~~ii~fn~~yLl--L~~~~~-d~i~l~ 342 (1161)
.|.|.++++.+++++.+ + |.+.+++++ +++| ++.+ ++||.+||+ |++++. ++|.+.
T Consensus 154 -~v~i~~~~~~l~lsa~~-~-g~a~~~i~~~~~~~~~~~g~e~~~-i~fn~~YL~d~lk~~~~~~~V~l~ 219 (247)
T PRK01115 154 -HIELEADEDKFYIEAEG-E-GEDEVELSLDSGPLIELSVEEPAK-SSYSLDYLKDMVKATSASDEVTIE 219 (247)
T ss_pred -eEEEEEeCCEEEEEEEe-C-CceEEEEecCCCceEEEEecCcee-EEEhHHHHHHhhccccCCCeEEEE
Confidence 49999999999999988 5 999999985 4899 8888 999999998 999985 788883
No 42
>PRK05643 DNA polymerase III subunit beta; Validated
Probab=99.80 E-value=7.5e-18 Score=197.63 Aligned_cols=218 Identities=14% Similarity=0.241 Sum_probs=183.3
Q ss_pred EEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeeccc-CCceEEEEechhHHHHHhc
Q psy13360 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYG-NSSINIIVAARKFIDILRS 83 (1161)
Q Consensus 5 v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~-~~~G~v~V~ak~l~~Ivk~ 83 (1161)
++++++.|.++|+.+..+++++++.|+|+||+|++++++|++.|||+...+.+.++.+.. .++|.++||++.|.+++|.
T Consensus 129 ~~i~~~~l~~~i~~v~~a~~~~~~~piL~gi~~~~~~~~l~l~aTD~~rl~~~~~~~~~~~~~~~~~~vp~k~l~ei~k~ 208 (367)
T PRK05643 129 FTLPQKTLKRLIEKTQFAMSTQETRYYLNGVLLEIEGNELRAVATDGHRLAVRKLELEEGSLGDFSVIIPRKTLLELQKL 208 (367)
T ss_pred EEECHHHHHHHHhheeEEeecCCccccccEEEEEEeCCEEEEEEeccceeEEEEecccCCcccCceEEEchHHHHHHHHh
Confidence 367899999999999999999999999999999999999999999999999988876532 2478999999999999999
Q ss_pred CCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccC--CCCcceEEEEcHHHHHHHHHhhcccccccccccceeeE
Q psy13360 84 LPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTL--NSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGL 161 (1161)
Q Consensus 84 Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~--~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV 161 (1161)
+++++.|.+..+++++.+++|+.+|.++.++ .+||+++. +.+....+.++...|.++++++.++ ++++ .+||
T Consensus 209 l~~~~~v~i~~~~~~~~~~~~~~~~~~~li~-g~yP~~~~~ip~~~~~~~~i~~~~L~~~i~rv~~~-~~~~----~~~i 282 (367)
T PRK05643 209 LDDEEPVEIFISDNQILFEFGNTIFTSKLID-GKFPDYRRVIPKEFDKKLTVDRKELLQALERASIL-SNEK----SRGV 282 (367)
T ss_pred cCCCCcEEEEEeCCEEEEEECCEEEEEEEee-ecCCChhhhCCCCCCEEEEEEHHHHHHHHHHHHHH-hcCC----CceE
Confidence 9865469998888999999999999999996 56999742 2234678999999999999999998 3333 2789
Q ss_pred EEEEECCEEEEEEecceEE-EEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcE--EEEEE
Q psy13360 162 LLSFQKKNIIAVSSDGHRL-TYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQ--IKIIF 231 (1161)
Q Consensus 162 ~~~~~~~~L~lvATDg~RL-a~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~--l~f~~ 231 (1161)
+|+++++.|+++|||+++. +...++++.. .++..+.+|+++|.++++.++ +++|.+.+++.. +++..
T Consensus 283 ~l~~~~~~l~~~a~~~~~g~a~~~i~~~~~-g~~~~i~~n~~yL~d~l~~~~--~~~v~i~~~~~~~p~~i~~ 352 (367)
T PRK05643 283 KLSLSEGQLKISANNPEQGEAEEELEVEYS-GEELEIGFNVKYLLDVLKALD--SEEVRLSFNDANSPFLIRP 352 (367)
T ss_pred EEEEeCCEEEEEEECCCCCcEEEEEEEEec-CCcEEEEEcHHHHHHHHhcCC--CCEEEEEECCCCCCEEEEc
Confidence 9999999999999999984 6666665432 335799999999999999986 346888887753 45544
No 43
>TIGR00663 dnan DNA polymerase III, beta subunit. University).
Probab=99.79 E-value=2.7e-18 Score=201.38 Aligned_cols=197 Identities=15% Similarity=0.190 Sum_probs=164.1
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEe-cCCCCCCcceEEEehhhHHHHH
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVN-IDKKFSSCSDIIIPRKTVFTLQ 208 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~-~~~~~~~~~~viIP~k~L~eL~ 208 (1161)
+|.|++..|.++|++|.+++++++++|+|+||+|++.++.|+++|||++|++...++ .+ .+++++++||++.+.++.
T Consensus 2 k~~i~~~~L~~~l~~v~~~i~~~~~~piL~gvlle~~~~~l~l~atD~~~~~~~~~~~~~--~~~~g~~~vp~k~l~ei~ 79 (367)
T TIGR00663 2 KFIIERDDLLKELSKVQRVLSNRPTIPILSNILLEVKDDKLTITATDLDISLESQIFTIN--SEQEGSVTINAKKFLDIV 79 (367)
T ss_pred EEEEEHHHHHHHHHHHHhHhcCCCchhhhcCEEEEEECCEEEEEEECCceEEEEEEeccc--cccCeEEEEEhHHHHHHH
Confidence 589999999999999999999999999999999999999999999999999999884 43 334579999999999999
Q ss_pred hhhcCCCCcEEEEEeCcEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc-----
Q psy13360 209 RLLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL----- 282 (1161)
Q Consensus 209 klL~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~----- 282 (1161)
|.|+ +++|++...++++.|.+++..|.+++++ ++||+|+.+.| ...+++++.+|.++|+|+.++++++.
T Consensus 80 k~l~--~~~i~i~~~~~~l~i~~~~~~~~~~~l~~~~fP~~~~~~~---~~~~~i~~~~l~~~i~~v~~a~~~~~~r~~L 154 (367)
T TIGR00663 80 RALP--DSKITLEVKNDKLAITSEKSRFKLPTLSAEEFPNLPTIEE---GVSIEIPSDVLKEAINQTAFAAGEDETRPVL 154 (367)
T ss_pred HhCC--CCceEEEEcCCEEEEEECcEEEEecCCCHHHCCCCCCcCC---CcEEEECHHHHHHHHhhEEEEEecCCCCccc
Confidence 9998 3479999999999999999999999998 69999999865 56889999999999999999987654
Q ss_pred ceEEEEEeCCEEEEEEEcCC-ccccceeeeeeeeCCccceeeechhhhh--hcccC
Q psy13360 283 KGVRLVIKPNYLKITVSSSN-REKASEELEINYNGKDKNFIKFLIKIML--LKNKN 335 (1161)
Q Consensus 283 ~~V~l~~~~~~L~isa~d~~-~g~~~E~i~~~~~Ge~~~ii~fn~~yLl--L~~~~ 335 (1161)
++|.|+++++.|+++++|+. .+..+..++.. ..++.. +.+..+.|. .+.++
T Consensus 155 ~gi~~~~~~~~l~~~atDg~RLa~~~~~~~~~-~~~~~~-~iiP~k~l~el~~~l~ 208 (367)
T TIGR00663 155 NGVLIEQKGKTLLLVATDGHRLAVCKLKSEVS-DEEDFS-VIIPAKALNELLKLLS 208 (367)
T ss_pred ceEEEEEeCCEEEEEEecchheEEEeccccCC-CCccce-EEEecHHHHHHHHHhc
Confidence 58999999999999999987 44332222111 112334 556677665 44443
No 44
>PRK14945 DNA polymerase III subunit beta; Provisional
Probab=99.79 E-value=2e-17 Score=193.60 Aligned_cols=217 Identities=11% Similarity=0.159 Sum_probs=186.7
Q ss_pred EEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHHHhcC
Q psy13360 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSL 84 (1161)
Q Consensus 5 v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~Ivk~L 84 (1161)
+.+++++|.++|+.+..+++++++.|+|+||++++++++|+++|||+...+.+.++++. .++|.++||+|.|.+++|.+
T Consensus 125 ~~i~~~~L~~~i~~v~~avs~~~~~piL~gv~l~~~~~~l~lvATDg~rla~~~~~~~~-~~~~~~iip~k~l~el~k~l 203 (362)
T PRK14945 125 VRLSAGELAKALTHVRYAASNEEFQAIFRGVKLEHSPQGLRAVASDGYRLAIYDLPASQ-GQGRKLVIPARSADELVRVL 203 (362)
T ss_pred EEECHHHHHHHHhhEEEEEecccchhheeeEEEEEeCCEEEEEEEccceEEEEEeccCC-CCCceEEEEHHHHHHHHHhc
Confidence 46789999999999999999999999999999999999999999999999999888754 35799999999999999999
Q ss_pred CCCccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCC-C-CcceEEEEcHHHHHHHHHhhccccccc-ccccceeeE
Q psy13360 85 PETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLN-S-KYDFEFTLSQKTLKCILNMVYFSIAQQ-DIRYYLNGL 161 (1161)
Q Consensus 85 p~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~-~-~~~~~~~i~~~~L~~aI~~v~~a~s~~-~trpiL~GV 161 (1161)
+++++|.+..+++++.+++|+.+|++.+++ .+||+++.. + +....+.++...|.++|+++.++++.+ ..+ |
T Consensus 204 ~~~~~v~i~~~~~~i~~~~~~~~~~~~lid-g~fP~~~~vip~~~~~~v~i~~~~L~~~l~r~~~~~~~~~~~~-----v 277 (362)
T PRK14945 204 KDGDEASLALGEGVLTLTTGGVRMNLKLME-GEFPDYERVIPQDFKLQVTLPAEALREAVNRVAVLSDRNANNR-----V 277 (362)
T ss_pred CCCCcEEEEEcCCEEEEEECCEEEEEEeec-ccCCChhhhCCCCCCEEEEEEHHHHHHHHHHHhhhhccCCCcc-----E
Confidence 975468888888899999999999999998 579998632 2 335789999999999999999998765 333 8
Q ss_pred EEEEECCEEEEEEecceEEEEEEEecCCCCC-CcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEEEEE
Q psy13360 162 LLSFQKKNIIAVSSDGHRLTYYQVNIDKKFS-SCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIKIIF 231 (1161)
Q Consensus 162 ~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~-~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~--~l~f~~ 231 (1161)
.|++++|.|+++|+|++|++...++++...+ ++..+.+..++|.+.++.+. + +|.+.+.+. -++|+.
T Consensus 278 ~l~~~~~~l~~~a~~~~g~a~~~i~~~~~G~~~~~~i~fN~~yl~d~L~~~~--~-~v~l~~~~~~~p~~i~~ 347 (362)
T PRK14945 278 ELLVAEGRLRLTAEGDYGRGQEELAVTQEGSEPAMALAYNARYLLDALAPIE--G-DARLGFSGPTSPSVLRS 347 (362)
T ss_pred EEEEECCEEEEEecCCCceEEEEEEEEeecCCCCEEEEECHHHHHHHHHhCC--C-cEEEEECCCCCCEEEEe
Confidence 9999999999999999999999888764432 25899999999999999885 2 488888764 355544
No 45
>PRK14943 DNA polymerase III subunit beta; Provisional
Probab=99.77 E-value=8.1e-18 Score=197.75 Aligned_cols=203 Identities=13% Similarity=0.137 Sum_probs=162.1
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|+|+++.|.++|++|.+++++++++|+|+||+|+++++.|+++|||+++....+++++.. ++++++||++.+.++.|
T Consensus 2 k~~i~~~~L~~~l~~v~~~v~~~~~~piL~gill~~~~~~l~l~aTD~~~~~~~~~~~~~~--~~g~~~vpak~l~ei~k 79 (374)
T PRK14943 2 KFKINKDHFLNGLRQVLNVVSSKTTMPILSNVLIEAENGQISLTTTNLDLGIRCVIKANVL--REGTVTLPVKKLATIVR 79 (374)
T ss_pred EEEEEHHHHHHHHHHHHhHhCCCCChHHhcCEEEEEECCEEEEEEECccEEEEEEEEeeec--cCeEEEEEhHHHHHHHH
Confidence 5899999999999999999999999999999999999999999999999988888776533 35799999999999999
Q ss_pred hhcCCCCcEEEEEe-CcEEEEEECcEEEEEe-ecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc-----
Q psy13360 210 LLENKENPVELKIS-NNQIKIIFSNIEIISK-LIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL----- 282 (1161)
Q Consensus 210 lL~~~~~~V~i~~~-~~~l~f~~~~~~~~~r-li~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~----- 282 (1161)
.|++ ++|.+... ++++.|++++..|... +.+++||++..+ +....+.+++++|.++|+|+.++++.+.
T Consensus 80 ~l~~--~~i~i~~~~~~~~~i~~~~~~~~l~~l~~~~fP~~p~~---~~~~~~~i~~~~l~~~i~~v~~a~s~~~~~~~L 154 (374)
T PRK14943 80 ELPE--AEVQVDANQNNQAKVESGGSQFKIMGIPAEEFPPLPSF---EQATVFQLEQSELRDMLKSVEYAQSTDETRYIL 154 (374)
T ss_pred hCCC--CceEEEEcCCCeEEEEECCEEEEEccCCHHHCCCCCCC---CCCcEEEECHHHHHHHHhhEeEEeccCcCCcce
Confidence 9984 47888886 6789999999999966 556999995442 5667899999999999999999876533
Q ss_pred ceEEEEEeCCEEEEEEEcCCcc---ccceeeeeeeeCCccceeeechhhhhhccc-Ccccccc
Q psy13360 283 KGVRLVIKPNYLKITVSSSNRE---KASEELEINYNGKDKNFIKFLIKIMLLKNK-NSYDIQD 341 (1161)
Q Consensus 283 ~~V~l~~~~~~L~isa~d~~~g---~~~E~i~~~~~Ge~~~ii~fn~~yLlL~~~-~~d~i~l 341 (1161)
++|.|+++++.|+++++|++.. ......++..+|+.+- .+.+..+|+ +.+ ++++|.+
T Consensus 155 ~gv~l~~~~~~l~l~aTDg~rla~~~~~~~~~~~~~~~~iv-p~k~l~~l~-~~l~~~~~V~i 215 (374)
T PRK14943 155 NGVYFNFRDGKLTLVATDGRRLALAETELEFPEDQAGDAIL-PAKTVGELR-RLLDKGGKLKI 215 (374)
T ss_pred EEEEEEEeCCEEEEEEecchhEEEEEeccCCCCCcCceEEE-ehhHHHHHH-HhCCCCCcEEE
Confidence 4899999999999999998743 2222223333344333 666666654 222 3445655
No 46
>smart00480 POL3Bc DNA polymerase III beta subunit.
Probab=99.75 E-value=1.3e-16 Score=185.72 Aligned_cols=217 Identities=15% Similarity=0.279 Sum_probs=180.3
Q ss_pred EEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHHHhcC
Q psy13360 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDILRSL 84 (1161)
Q Consensus 5 v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~Ivk~L 84 (1161)
++++++.|.++|+.+..+++++.+.|+|+||++++++++|++.|||+...+.++++++...++|.++||+|.|.+++|.|
T Consensus 111 ~~i~~~~L~~~i~~v~~a~s~~~~~piL~Gi~~~~~~~~l~lvATDg~rla~~~~~~~~~~~~~~~ivP~k~l~el~k~l 190 (345)
T smart00480 111 FELPTKLLKEGIEKTAFAVSTDETRPVLNGVNLEISNGELRLVATDGHRLAVREIKLESEEDDFSVIIPRKSLLELNKLL 190 (345)
T ss_pred EEECHHHHHHHHhhEEEEEecCCCcceeeEEEEEEECCEEEEEEEcCceEEEEEeccCCCCCcceEEEehHHHHHHHHhc
Confidence 47789999999999999999999999999999999999999999999999988887654334589999999999999999
Q ss_pred CC-CccEEEEEeCcEEEEEECcEEEEEccCCCCCCCCccCC--CCcceEEEEcHHHHHHHHHhhcccccccccccceeeE
Q psy13360 85 PE-TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPIMTLN--SKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLNGL 161 (1161)
Q Consensus 85 p~-~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~~~~~--~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV 161 (1161)
++ ++.|++..+++++.+++|+.+|.++.+++ +||++... .+....+.++...|.++|+++.++++ + + ++||
T Consensus 191 ~~~~~~v~i~~~~~~~~~~~~~~~~~~~li~g-~fP~~~~vip~~~~~~~~i~~~~L~~ai~rv~~~~~--~-~--~~~v 264 (345)
T smart00480 191 TDNEELVEIFISSNQILFETGNVIFTSRLIDG-EFPDYKRVIPKEFETKLTVNRKELKEALKRVALLAN--E-K--NRSV 264 (345)
T ss_pred cCCCCcEEEEEeCCEEEEEECCEEEEEEEeee-cCCCchhhCCCCCCEEEEEEHHHHHHHHHHHhhhhc--C-C--CceE
Confidence 86 34699988889999999999999999974 69998532 23467899999999999999999884 2 2 6899
Q ss_pred EEEEECCEEEEEEecceEEEEE-EEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcE--EEEE
Q psy13360 162 LLSFQKKNIIAVSSDGHRLTYY-QVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQ--IKII 230 (1161)
Q Consensus 162 ~~~~~~~~L~lvATDg~RLa~~-~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~--l~f~ 230 (1161)
+|+++++.|+++|||+...... .++.+.. .++..+.+++++|.+.++.+.+ +.|.+.+.+.. ++|+
T Consensus 265 ~l~~~~~~l~~~a~d~~~g~~~e~i~~~~~-g~~~~i~fN~~yL~d~l~~~~~--~~v~l~~~~~~~p~~i~ 333 (345)
T smart00480 265 KLTLEEGQLKLTANSPEVGEAEEEVDVDYE-GEDLEIAFNPKYLLDALKALKS--EEIELKFTDSSSPFLIS 333 (345)
T ss_pred EEEEeCCEEEEEEcCCccceEEEEEEEEec-CCcEEEEECHHHHHHHHhcCCC--CEEEEEECCCCCCEEEE
Confidence 9999999999999998764322 3443322 2357999999999999999853 46888877643 4444
No 47
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.68 E-value=1.4e-16 Score=188.11 Aligned_cols=184 Identities=24% Similarity=0.320 Sum_probs=146.9
Q ss_pred hhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhc-CCCCCeEEEEEec-C-C--cEEEEECCCcccccccc
Q psy13360 352 IQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESL-AGYCTKINVTIYS-D-N--SISISDNGRGIPIDIKI 426 (1161)
Q Consensus 352 i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~~-d-g--sisV~DnGrGIPv~~~~ 426 (1161)
.+.++.-|..+|++.|- |-.+...+|+++++|+|+||+|.+. .|....|.|.+.. + + .|+|.|||.|||.+..+
T Consensus 4 ~~~~s~aEFF~kN~~~~-Gf~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~DNG~GIp~edl~ 82 (488)
T TIGR01052 4 FREMSVAEFFRKNKHML-GYSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEYIP 82 (488)
T ss_pred ccccCHHHHHHhCCccc-cccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEECCCCCCHHHHH
Confidence 35567789999999997 8877767999999999999999986 4666789998875 2 2 69999999999999887
Q ss_pred CCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccE-----EEEEEEeCCEEE--EEEEE------c
Q psy13360 427 DDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRF-----LQLTINRNKKIH--YMEFR------Y 493 (1161)
Q Consensus 427 ~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~-----~~V~v~r~g~~~--~q~f~------~ 493 (1161)
. +|+.+|+|+||... ..+.|++|+|+++++++|+. ++|+++++|..+ +++|. .
T Consensus 83 ~------------iF~rf~~tsK~~~~--~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id~~~n~ 148 (488)
T TIGR01052 83 K------------VFGKMLAGSKFHRI--IQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKIDVQKNE 148 (488)
T ss_pred h------------hhhhccccCccccc--cccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEecccccC
Confidence 6 89999999999753 56789999999999999986 899999888765 77774 3
Q ss_pred CccccccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecc
Q psy13360 494 GVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDER 566 (1161)
Q Consensus 494 G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r 566 (1161)
| ...... ..+....+||+|+++|+.... .+....+.++|+.+|++||+++|+|.+..
T Consensus 149 G------------~i~~~~-~~~~~~~~GT~V~v~f~~~~~---r~~k~~i~e~l~~~Al~nP~~~i~l~~~~ 205 (488)
T TIGR01052 149 G------------EIVEKG-EWNKPGWRGTRIELEFKGVSY---RRSKQGVYEYLRRTAVANPHAKIVLVDPD 205 (488)
T ss_pred C------------eeccee-ecCCCCCCceEEEEEECCcee---eccHHHHHHHHHHHHhhCCCeEEEEEeCC
Confidence 4 333322 233222479999999666432 23457899999999999999999999864
No 48
>PRK07761 DNA polymerase III subunit beta; Validated
Probab=99.66 E-value=9.5e-15 Score=171.90 Aligned_cols=215 Identities=15% Similarity=0.200 Sum_probs=172.3
Q ss_pred EccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEec-ceeEEEE--EeeecccCCceEEEEechhHHHHHh
Q psy13360 6 NTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTD-TEVQITT--YTAVGYGNSSINIIVAARKFIDILR 82 (1161)
Q Consensus 6 ~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD-~e~~i~~--~i~a~~~~~~G~v~V~ak~l~~Ivk 82 (1161)
.++++.|.++|+.+..+++++.+.|+|+||+++++++.|++.||| ..+++.. ..+.. .+++|+++||+|.|.+++|
T Consensus 126 ~i~~~~L~~~i~~v~~a~s~~~~~piL~gV~l~~~~~~L~l~ATDg~rLa~~~~~~~~~~-~~~~~~~iIP~k~l~ei~k 204 (376)
T PRK07761 126 TVDADAFAEAVSQVAVAAGRDDTLPMLTGVRVEIEGDTVTLAATDRYRLAVRELTWKPAS-PDISAAALVPARTLSDTAK 204 (376)
T ss_pred EECHHHHHHHHhhEeEEEEcccchhhhceEEEEEeCCEEEEEEECCceEEEEEeccCCCC-CCcceeEEEEhHHHHHHHH
Confidence 678999999999999999999999999999999999999999999 5666653 22222 2347999999999999999
Q ss_pred cCCCCccEEEEEe-----CcEEEEEECcEEEEEccCCCCCCCCccCC--CCcceEEEEcHHHHHHHHHhhcccccccccc
Q psy13360 83 SLPETEKVTIYIE-----NKHMFIKSGKSKFTLQTLDAKEYPIMTLN--SKYDFEFTLSQKTLKCILNMVYFSIAQQDIR 155 (1161)
Q Consensus 83 ~Lp~~~~I~ie~~-----~~~l~I~sG~~~~~l~~~~~edfP~~~~~--~~~~~~~~i~~~~L~~aI~~v~~a~s~~~tr 155 (1161)
.+++++.+++... ++++.+.+|+.+|.++++++ +||+++.. .+....+.++...|.++|+++.++++.+
T Consensus 205 ~l~~~~~v~i~~~~~~~~~~~i~~~~~~~~~~~~li~g-~fP~~~~vip~~~~~~~~i~~~~L~~~l~r~~~~~~~~--- 280 (376)
T PRK07761 205 SLGSGGNVSIALSTGVGGEGLIGFEGGGRRTTTRLLDG-EFPKVRRLFPDEHPAVAVVETAPLIEAIKRVALVAERN--- 280 (376)
T ss_pred hcCCCCcEEEEEecCcCCCCEEEEEECCEEEEEEEecc-cCCChHhhCCCCCCEEEEEEHHHHHHHHHHHHHHhcCC---
Confidence 9997656899886 77999999999999999988 99998632 2334689999999999999999997432
Q ss_pred cceeeEEEEEECCEEEEEEecceEE-EEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcE--EEEEE
Q psy13360 156 YYLNGLLLSFQKKNIIAVSSDGHRL-TYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQ--IKIIF 231 (1161)
Q Consensus 156 piL~GV~~~~~~~~L~lvATDg~RL-a~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~--l~f~~ 231 (1161)
.+|+|+++++.|++.+.+...- +.-.++++.. .++..+.+.+++|.+.++.++. +.|.+.+.+.. ++|+.
T Consensus 281 ---~~v~l~~~~~~l~l~~~~~~~G~~~e~i~~~~~-Ge~~~i~fN~~yl~d~L~~~~~--~~v~l~~~~~~~p~~i~~ 353 (376)
T PRK07761 281 ---APVRLEFSDGQLTLSAGGGDDAQASEALEADLT-GEDLTIAFNPQYLLDGLSALHT--PRVRFGFTTPSKPALLTG 353 (376)
T ss_pred ---ceEEEEEeCCEEEEEEcCCCcceEEEEEEEEec-CCcEEEEECHHHHHHHHhcCCC--CeEEEEECCCCCCEEEec
Confidence 3699999999999988764432 2333444322 2357999999999999999863 46888877642 55543
No 49
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=99.64 E-value=1.1e-14 Score=160.99 Aligned_cols=190 Identities=16% Similarity=0.156 Sum_probs=156.8
Q ss_pred HHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCC------CcceEEEehhhHHHHH
Q psy13360 135 QKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFS------SCSDIIIPRKTVFTLQ 208 (1161)
Q Consensus 135 ~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~------~~~~viIP~k~L~eL~ 208 (1161)
.+.|.++++.+. .+++|++|++.+++|+++|||++|++...+.++...- .+..+.||.+.+.++.
T Consensus 6 ~~~l~~~~~~l~---------~i~~~v~~~~~~~gl~~~a~d~~r~~~~~~~l~~~~F~~y~~~~~~~~~i~~k~l~~~l 76 (248)
T cd00577 6 AKLLKKIVDALS---------KLVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKIL 76 (248)
T ss_pred hHHHHHHHHHHH---------HHhcEEeEEECCCceEEEEEcCCcEEEEEEEechhhCeEEecCCceEEEEEHHHHHHHH
Confidence 455666666654 4568999999999999999999999999888765321 3468999999999999
Q ss_pred hhhcCCCCcEEEEEeCc-E--EEEEEC----cEEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC
Q psy13360 209 RLLENKENPVELKISNN-Q--IKIIFS----NIEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK 281 (1161)
Q Consensus 209 klL~~~~~~V~i~~~~~-~--l~f~~~----~~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~ 281 (1161)
+.+.+ .+.+.+.++++ . +.|..+ ...+.+++++++||+|.. +|.+++..+.++++.|.++++|+..+++
T Consensus 77 k~~~~-~~~v~i~~~~~~~l~i~~~~~~~~~~~~~~~~li~~~~~~~~~-~~~~~~~~i~i~~~~L~~~i~~~~~~~~-- 152 (248)
T cd00577 77 KCAGN-EDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDIDSEQLPI-PELEYDATVTLPSDELKDIVRDLESISD-- 152 (248)
T ss_pred hhCCC-CCEEEEEecCCCeEEEEEEcCCCceEEEEEEEccccCcccCCC-CCCceeEEEEEEHHHHHHHHHHHHHcCC--
Confidence 99965 56799999988 4 455555 578999999999999999 8889999999999999999999999852
Q ss_pred cceEEEEEeCCEEEEEEEcCCccccceeeee-e-------eeCCccceeeechhhhh--hcccC-cccccc
Q psy13360 282 LKGVRLVIKPNYLKITVSSSNREKASEELEI-N-------YNGKDKNFIKFLIKIML--LKNKN-SYDIQD 341 (1161)
Q Consensus 282 ~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~-~-------~~Ge~~~ii~fn~~yLl--L~~~~-~d~i~l 341 (1161)
.|.+.++++.+++++.+ +.|.+.+++.. . ..|++.. +.||.+||+ +++++ ++.|.+
T Consensus 153 --~i~i~~~~~~l~lss~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~fn~~yL~~~l~~~~~s~~v~i 219 (248)
T cd00577 153 --SVTISASKDGFKFSAEG-ELGGASVTLLPKDSDLLVTIECSEPVS-STYSLKYLKDFTKAAPLSDKVTL 219 (248)
T ss_pred --EEEEEEcCCEEEEEEee-cCCceEEEEecCCCCceEEEEeCCceE-EEEhHHHHHHHhhhcccCCeEEE
Confidence 49999999999998887 44555554433 3 4799999 999999998 99997 888877
No 50
>PRK14940 DNA polymerase III subunit beta; Provisional
Probab=99.60 E-value=3e-14 Score=166.90 Aligned_cols=203 Identities=13% Similarity=0.103 Sum_probs=161.8
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|.|+.+.|.++|..+..+++++.+.|+|.||+|+++++.|+++|||+.......++.+. .+++.++||++.+.++.|
T Consensus 2 kf~i~k~~l~~~l~~v~~~v~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~i--~e~G~v~v~ak~l~~ivk 79 (367)
T PRK14940 2 KILCEKEALLKEISIAQEIISTKKALSILSNVLLAAQDGSLTIKATDTKVSFETSIPVNI--LAEGSTTVFCDKFVGILS 79 (367)
T ss_pred EEEEEHHHHHHHHHHHHhhccCCCchHHhcCEEEEEECCEEEEEEECCceEEEEEEEeee--ccCeEEEEEhHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999888888877543 446799999999999999
Q ss_pred hhcCCCCcEEEEEeCcEEEEEE--CcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc----
Q psy13360 210 LLENKENPVELKISNNQIKIIF--SNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL---- 282 (1161)
Q Consensus 210 lL~~~~~~V~i~~~~~~l~f~~--~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~---- 282 (1161)
-|++ +.|.+...++++.+++ ++..|....++ .+||.+... +....++++..+|.++|+++..+++.+.
T Consensus 80 ~lp~--~~i~~~~~~~~l~I~~~~~~~~f~l~~~~~~~fP~~~~~---~~~~~~~i~~~~L~~~i~~v~~a~s~~~~rpi 154 (367)
T PRK14940 80 SLPT--GEIELELCDEQLVITPPNKKISFQLKTISHESFPCFPEN---EGGVSFAIPTKDLREMINQTIFAVSDDETRYF 154 (367)
T ss_pred hCCC--CceEEEEcCCEEEEEEcCCceEEEEccCChHHCCCCCCC---CCCeEEEECHHHHHHHHhhEeEEEcCCCCCce
Confidence 9985 3799999888999999 56889888777 789987654 3456899999999999999999876554
Q ss_pred -ceEEEEEeCCEEEEEEEcCC-ccccceeeeeeeeCCccceeeechhhhh-hccc--Ccccccc
Q psy13360 283 -KGVRLVIKPNYLKITVSSSN-REKASEELEINYNGKDKNFIKFLIKIML-LKNK--NSYDIQD 341 (1161)
Q Consensus 283 -~~V~l~~~~~~L~isa~d~~-~g~~~E~i~~~~~Ge~~~ii~fn~~yLl-L~~~--~~d~i~l 341 (1161)
++|.|+++++.|+++|+|+. .+..+..++.... +... +-+-+++|. |+.+ +++++.+
T Consensus 155 L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~-~~~~-viiP~k~l~~l~kll~~~~~v~i 216 (367)
T PRK14940 155 MNGVYVEFQYGNIICVATDGRRLAYIKKKGESSPQ-EFSG-VIVPPKILGIINKKLSPEGNVTL 216 (367)
T ss_pred eEEEEEEEeCCEEEEEEEcCceEEEEEeccCCCcc-ccce-EEEcHHHHHHHHHhcCCCCcEEE
Confidence 68999999999999999987 4444333332211 1123 445566554 4433 4445555
No 51
>PRK14941 DNA polymerase III subunit beta; Provisional
Probab=99.60 E-value=6.6e-14 Score=164.50 Aligned_cols=214 Identities=15% Similarity=0.174 Sum_probs=172.5
Q ss_pred EEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecc-cCCceEEEEechhHHHHHhc
Q psy13360 5 VNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGY-GNSSINIIVAARKFIDILRS 83 (1161)
Q Consensus 5 v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~-~~~~G~v~V~ak~l~~Ivk~ 83 (1161)
++++++.|.++|+.+..+++.+.+.|+|.||++++++++|++.|||+...+.+.++.+. ...+|+++||+|.| +.+++
T Consensus 131 ~~i~~~~L~~~i~~v~~a~s~~~~rpiL~Gv~l~~~~~~l~lvATDg~Rla~~~~~~~~~~~~~~~~iiP~k~l-~el~k 209 (374)
T PRK14941 131 LDLETSELLDLIQKTIFACSVDGMRPAMMGVLFELEGNTITAVSTDGHRLVRCRKNSSVGVEEKQKIVVPARVL-SILQK 209 (374)
T ss_pred EEECHHHHHHHHhheeEEEecccchhhhceEEEEEeCCEEEEEEecCeeEEEEEecccCCccccceEEechHHH-HHHHH
Confidence 47889999999999999999999999999999999999999999999999998876532 23468999999999 56667
Q ss_pred CCCCccEEEEEe--CcEEEEEECcEEEEEccCCCCCCCCccCC--CCcceEEEEcHHHHHHHHHhhccccccccccccee
Q psy13360 84 LPETEKVTIYIE--NKHMFIKSGKSKFTLQTLDAKEYPIMTLN--SKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYYLN 159 (1161)
Q Consensus 84 Lp~~~~I~ie~~--~~~l~I~sG~~~~~l~~~~~edfP~~~~~--~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpiL~ 159 (1161)
+++++++.+... ++++.+++|+.+|. ..+..++||+++.. .+....+.++...|.++|+++..+++. .
T Consensus 210 ll~~~~v~i~~~~~~~~i~~~~~~~~~~-s~Li~g~fPdy~~viP~~~~~~i~i~~~~L~~al~rv~~~~~~-------~ 281 (374)
T PRK14941 210 LAQHETVTMSIDSERRFVRFICGNVVLD-AALIVEPYPNYEAVIPVENDKKLVINRSNIYDSVKRVGRFSSI-------G 281 (374)
T ss_pred hCCCCceEEEEEcCCCEEEEEECCEEEE-EEEEeecCCCccccCCCCCCEEEEEeHHHHHHHHHHHHHHccC-------C
Confidence 765435777765 57899999999999 67778899998742 244678999999999999999998874 3
Q ss_pred eEEEEEECCEEEEEEecceEE--EEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcE--EEEE
Q psy13360 160 GLLLSFQKKNIIAVSSDGHRL--TYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQ--IKII 230 (1161)
Q Consensus 160 GV~~~~~~~~L~lvATDg~RL--a~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~--l~f~ 230 (1161)
+|.|.++++.|++.|.+.... +.-.++++.. .++.++...+++|.+.++.+.+ ++|.+.+.+.. ++|+
T Consensus 282 ~v~~~~~~~~l~l~~~~~~~g~~~~e~i~~~~~-G~~~~I~fN~~yl~d~L~~~~~--~~v~l~~~~~~~p~~i~ 353 (374)
T PRK14941 282 DIKISVEGSVLKVMAENTNEGESAQEELPCSYT-GEDITIGFNSKFIEAALAHLDE--EEIIIELSSPTTAVIFK 353 (374)
T ss_pred ceEEEEECCEEEEEEECcccccceEEEEEeEeC-CCcEEEEEcHHHHHHHHhcCCC--CEEEEEECCCCCCEEEe
Confidence 588999999999999875443 3444555432 2368999999999999999853 46888876643 4444
No 52
>PRK14944 DNA polymerase III subunit beta; Provisional
Probab=99.55 E-value=2.8e-13 Score=158.96 Aligned_cols=173 Identities=16% Similarity=0.223 Sum_probs=147.8
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecC-CCCCCcceEEEehhhHHHHH
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNID-KKFSSCSDIIIPRKTVFTLQ 208 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~-~~~~~~~~viIP~k~L~eL~ 208 (1161)
+|+|+.+.|.++|..+..+++.+.+.|+|+||+|+++++.|+++|||+..-....++.+ ....+++.++||++.+.++.
T Consensus 2 kf~i~k~~L~~~l~~v~~~v~~k~~~piL~~ili~a~~~~l~l~atD~ei~i~~~i~~~~~~v~e~G~v~v~ak~l~~iv 81 (375)
T PRK14944 2 YLEINKDIFLEQLLKIQKILPQKTFFPIFNALKIQTKKNFLILEANNGNIAIKIEIKDESLKIKKEGKIACLGRYFIEII 81 (375)
T ss_pred EEEEeHHHHHHHHHHHHhHhcCCCCchhhcCEEEEEECCEEEEEEECccEEEEEEEeCCcceeecceEEEEehHhHHHHH
Confidence 58999999999999999999999999999999999999999999999987777777653 22445689999999999999
Q ss_pred hhhcCCCCcEEEEEe-CcEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc----
Q psy13360 209 RLLENKENPVELKIS-NNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL---- 282 (1161)
Q Consensus 209 klL~~~~~~V~i~~~-~~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~---- 282 (1161)
|-|++ +.|.+... ++.+.+++++..|....++ .+||.+.... +....+.++...|.++|+++.++++.+.
T Consensus 82 k~Lp~--~~I~~~~~~~~~l~I~s~~s~f~L~~~~~~~fP~~~~~~--~~~~~~~i~~~~l~~~i~~t~fa~s~de~r~~ 157 (375)
T PRK14944 82 KKIND--SLIKMTVMENNFLVIKTEFCEYKLKLMDLCNFLELDFFF--EKKEFFEIKTHFFKKIIKEINISTSKNEKRPI 157 (375)
T ss_pred HhCCC--CcEEEEEcCCCEEEEEECcEEEEEcCCCHHHCCCCCccc--CcCeEEEECHHHHHHHHhheeEEEccccCccc
Confidence 99985 37888875 4689999999999999887 7899775422 3446889999999999999999876543
Q ss_pred -ceEEEEEeCCEEEEEEEcCC-cccc
Q psy13360 283 -KGVRLVIKPNYLKITVSSSN-REKA 306 (1161)
Q Consensus 283 -~~V~l~~~~~~L~isa~d~~-~g~~ 306 (1161)
+||.|++.++.|+++|+|+. .+..
T Consensus 158 L~Gv~~~~~~~~l~~vATDghRLa~~ 183 (375)
T PRK14944 158 LTGLNLIYQKNLLKALATDSFRMSQK 183 (375)
T ss_pred eeEEEEEEECCEEEEEEEccceeEEE
Confidence 78999999999999999987 4443
No 53
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.54 E-value=2.2e-13 Score=156.16 Aligned_cols=257 Identities=19% Similarity=0.192 Sum_probs=163.8
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC-
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK- 452 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~- 452 (1161)
..+..++.|+|+||+|.. ++.|.|.+..++ +|+|.|||.|||.+..+. + +..|+++|+.+
T Consensus 21 ~~~~~~l~eLi~Na~dA~----a~~I~i~~~~~~~~~i~V~DnG~Gi~~~~l~~------------~-~~~~~tsk~~~~ 83 (312)
T TIGR00585 21 ERPASVVKELVENSLDAG----ATRIDVEIEEGGLKLIEVSDNGSGIDKEDLPL------------A-CERHATSKIQSF 83 (312)
T ss_pred hhHHHHHHHHHHHHHHCC----CCEEEEEEEeCCEEEEEEEecCCCCCHHHHHH------------H-hhCCCcCCCCCh
Confidence 458899999999999943 578999998766 699999999999886654 2 34667777754
Q ss_pred --CceeeecccccchhhHhhhhccEEEEEEEe---CCEEEEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEE
Q psy13360 453 --NSYKISGGLHGIGLSCVNGLSRFLQLTINR---NKKIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHF 527 (1161)
Q Consensus 453 --~~yk~sgGlhGvG~svvNalS~~~~V~v~r---~g~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F 527 (1161)
.....+-|++|+|++..+++| +++|+++. ++..|++. .+| ...... .+...++||+|++
T Consensus 84 ~~~~~~~~~G~rG~al~si~~~s-~~~i~S~~~~~~~~~~~~~-~~g------------~~~~~~--~~~~~~~GTtV~v 147 (312)
T TIGR00585 84 EDLERIETLGFRGEALASISSVS-RLTITTKTSAADGLAWQAL-LEG------------GMIEEI--KPAPRPVGTTVEV 147 (312)
T ss_pred hHhhcccccCccchHHHHHHhhC-cEEEEEeecCCCcceEEEE-ECC------------CcCccc--ccccCCCccEEEE
Confidence 245578899999999999999 79999875 34556666 556 222221 2334579999999
Q ss_pred E------eCccccc-cCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeCCc---hhhh-hhhhhcCCcccCCc
Q psy13360 528 W------VDEKIFS-NIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFKGG---TSGF-VSYINKSKLVVHPT 596 (1161)
Q Consensus 528 ~------PD~~iF~-~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~~G---i~~f-v~~l~~~~~~~~~~ 596 (1161)
. |++..|- .....++.+..+++.+|.++|++++.+.+.. +.......+| +.+. +..+-... ....
T Consensus 148 ~~lf~n~p~r~~~~~~~~~~~~~i~~~l~~~al~~p~i~f~l~~~~--~~~~~~~~~~~~~~~~~~i~~v~G~~--~~~~ 223 (312)
T TIGR00585 148 RDLFYNLPVRRKFLKSPKKEFRKILDLLNRYALIHPDVSFSLTHDG--KKVLQLSTKPNQSLKERRIRSVFGTA--VLSK 223 (312)
T ss_pred chhhccCchhhhhccCcHHHHHHHHHHHHHHhhcCCCeEEEEEECC--EEEEEEcCCCCCCHHHHHHHHHhChH--hHhh
Confidence 8 9998874 3345677899999999999999999999863 2222222222 3332 22221111 1111
Q ss_pred eEEEe-eccccccCCceEEEEEEeecC---CCcce-eeeeecccccCCCCchhHHHHHHHHHHHHHHHHHhccccccccc
Q psy13360 597 IFQAI-GNKISEKKNNINIDVSMQWNN---SYNEN-ILCFTNNILQVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIE 671 (1161)
Q Consensus 597 ~~~~~-~~~~~~~~~~~~veva~~~~~---~~~e~-~~SFvN~I~T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~ 671 (1161)
.+.+. .+. +++.++.-+.-.. +.... ++-|||+=+-.. . .|.++|++..+.. ..+.
T Consensus 224 l~~~~~~~~-----~~~~v~G~is~p~~~~~~~~~~q~ifvNgR~v~~-----~----~l~k~I~~~y~~~--~~~~--- 284 (312)
T TIGR00585 224 LFPLLEWED-----GDLQLEGFISEPNVTRSRRSGWQFLFINGRPVEL-----K----LLLKAIREVYHEY--LPKG--- 284 (312)
T ss_pred ceeeecccC-----CCEEEEEEEcCcccccCCCCcceEEEECCcEecc-----h----HHHHHHHHHHHHh--ccCC---
Confidence 22332 122 4566654443211 11113 799999866321 2 2555555433321 1111
Q ss_pred CChhhHhcceEEEEEEeecCCCcc
Q psy13360 672 IIGEDIREGLTCVLSIKIPDPKFN 695 (1161)
Q Consensus 672 ~~~~diregL~~vvsv~i~~P~Fe 695 (1161)
..-.+++++.+|.-..|
T Consensus 285 -------~~P~~vL~i~~p~~~iD 301 (312)
T TIGR00585 285 -------QYPVFVLNLEIDPELVD 301 (312)
T ss_pred -------CCcEEEEEEEEChHHcc
Confidence 13388999998866665
No 54
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.54 E-value=8.6e-15 Score=165.48 Aligned_cols=191 Identities=22% Similarity=0.258 Sum_probs=144.7
Q ss_pred chhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhc-CCCCCeEEEEEecCC----cEEEEECCCcccccc
Q psy13360 350 SSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESL-AGYCTKINVTIYSDN----SISISDNGRGIPIDI 424 (1161)
Q Consensus 350 ~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~~dg----sisV~DnGrGIPv~~ 424 (1161)
...+.++..|..||++.|- |-++..++|...|+|+|+||+|.+- +|-...|.|.|..-| .|.|+|||.|||.+.
T Consensus 10 e~~re~SvAEFF~kNk~ml-Gf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~ 88 (538)
T COG1389 10 EKFRELSVAEFFRKNKEML-GFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQ 88 (538)
T ss_pred hhhhhcCHHHHHHhCHHhc-CCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhH
Confidence 3477889999999999997 9998889999999999999999996 799999999998743 799999999999999
Q ss_pred ccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEE-----EEEEEeC--CEEEEEEEEcCccc
Q psy13360 425 KIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFL-----QLTINRN--KKIHYMEFRYGVLQ 497 (1161)
Q Consensus 425 ~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~-----~V~v~r~--g~~~~q~f~~G~~~ 497 (1161)
.|+ |||++++|+||+ ..+.|-|..|+|+|.+-.+|+.. .|.+... ++.|.+.-.-+.
T Consensus 89 IPk------------vFGk~LygSKfh--~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~-- 152 (538)
T COG1389 89 IPK------------VFGKMLYGSKFH--RNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDV-- 152 (538)
T ss_pred hHH------------HHHHHhccchhh--hhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecC--
Confidence 998 999999999997 45789999999999999999654 3444433 556665554431
Q ss_pred cccccccCCccc--cCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecc
Q psy13360 498 NRIIKTINGISV--SPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDER 566 (1161)
Q Consensus 498 ~~~~~~~~~~~~--~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r 566 (1161)
+...|. ..-........+||+|...-.-...... ..-+...|+.+|..||..+|.|.|--
T Consensus 153 ------~kNEp~Iv~r~~~~~~~~~hGT~Vel~~~~~~~~~~---~qgi~eYlkrtaiinPhA~I~l~dPd 214 (538)
T COG1389 153 ------QKNEPEIVERGEVENPGGWHGTRVELELKGVWYRAK---RQGIYEYLKRTAIINPHARIVLKDPD 214 (538)
T ss_pred ------CCCcchhhhcccccCCCCCCceEEEEEecccchhhc---ccCHHHHHHHHhhcCCceEEEEECCC
Confidence 111221 1101111124589999987333222111 11267788999999999999999864
No 55
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.51 E-value=4.5e-14 Score=168.77 Aligned_cols=189 Identities=22% Similarity=0.332 Sum_probs=141.6
Q ss_pred hhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhc-CCCCCeEEEEEecC----C--cEEEEECCCccccc
Q psy13360 351 SIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESL-AGYCTKINVTIYSD----N--SISISDNGRGIPID 423 (1161)
Q Consensus 351 ~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~~d----g--sisV~DnGrGIPv~ 423 (1161)
+.+.++.-|..+|++.|. |-.+..++|.+++.|+|+||+|..- .|....|.|.+..+ + .|+|.|||.|||.+
T Consensus 11 ~~~~~s~aEfF~kn~~~~-gf~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e 89 (535)
T PRK04184 11 KFREISVAEFFEKNKELL-GFDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPE 89 (535)
T ss_pred hhhhCCHHHHHHhCccce-eecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHH
Confidence 477788899999999998 5544447899999999999999875 35666888888742 2 58999999999998
Q ss_pred cccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccE-----EEEEEEeCCE--EEEEEEEcCcc
Q psy13360 424 IKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRF-----LQLTINRNKK--IHYMEFRYGVL 496 (1161)
Q Consensus 424 ~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~-----~~V~v~r~g~--~~~q~f~~G~~ 496 (1161)
..+. +|+.+++|+||... ..+.|.+|+|+++++.+|+. +.|++..++. .|..++.-...
T Consensus 90 ~l~~------------iF~~f~~~SK~~~~--~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~ 155 (535)
T PRK04184 90 EIPK------------VFGKLLYGSKFHNL--RQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTK 155 (535)
T ss_pred HHHH------------Hhhhhhcccccccc--ccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEeccc
Confidence 8876 88999999998653 35668899999999999974 6777776543 57777742100
Q ss_pred ccccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeec
Q psy13360 497 QNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDE 565 (1161)
Q Consensus 497 ~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~ 565 (1161)
+| .+..... ........+||+|++.++...+. ....+..+++.+|++||+++|+|.+-
T Consensus 156 kn------~g~i~~~-~~~~~~~~~GT~V~V~l~~~~~~----~~~~I~e~i~r~Al~nP~~~~~l~~~ 213 (535)
T PRK04184 156 KN------EPIILER-EEVDWDRWHGTRVELEIEGDWYR----AKQRIYEYLKRTAIVNPHARITFKDP 213 (535)
T ss_pred cc------CCeeccc-cccCCCCCCCEEEEEEECCcChh----hHHHHHHHHHHHHHhCCCeEEEEEeC
Confidence 00 0011111 11122356899999998776652 26789999999999999999999964
No 56
>PRK14942 DNA polymerase III subunit beta; Provisional
Probab=99.48 E-value=9.6e-13 Score=154.33 Aligned_cols=172 Identities=11% Similarity=0.076 Sum_probs=145.0
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|+++.+.|.++|..|..+++.+.+.|+|.||+|+++++.|+++|||+..-...+++.. .++++.++||++.+.++.|
T Consensus 2 kf~i~k~~L~~~l~~v~~~i~~k~~~pIL~~ili~a~~~~l~l~atD~ei~i~~~i~~~--i~e~G~~~vpak~l~eivr 79 (373)
T PRK14942 2 KIKVNTSEFLKAIHAVEGVISVREIKSILSNLKIEAEEKEVFLSATDLEISIKTSVPAT--VGQKGTASLPAKQLSSFFK 79 (373)
T ss_pred EEEEEHHHHHHHHHHHHhhcCCCCCchhhcCEEEEEECCEEEEEEECCCeEEEEEEeee--eccCeEEEEEhHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999988777777743 3446799999999999999
Q ss_pred hhcCCCCcEEEEEe---CcEEEEEE--Cc--EEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC
Q psy13360 210 LLENKENPVELKIS---NNQIKIIF--SN--IEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK 281 (1161)
Q Consensus 210 lL~~~~~~V~i~~~---~~~l~f~~--~~--~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~ 281 (1161)
.|++++..+++..+ ++.+.+++ +. ..|....++ .+||.+..+ +....+.++...|.++|+++.++++.+
T Consensus 80 ~lp~~~~~i~~~~~~~~~~~~~I~~~~~~~~~~f~l~~~~~~dfP~~~~~---~~~~~~~i~~~~L~~~i~~t~fa~s~d 156 (373)
T PRK14942 80 TIHFETTLLSLEESDSESSIVYITDASGKNDYKSKISGMDAEEIKTISKV---DESQVSSFPSQLINDMIRKTSYAIAHE 156 (373)
T ss_pred hCCCCCceEEEEEccCCCCEEEEEECCCCCccEEEEccCCHHHCCCCCCC---CCceEEEECHHHHHHHHhhEeEEEecc
Confidence 99864446888873 35677864 63 488888777 789988754 345678999999999999999987655
Q ss_pred c-----ceEEEEEeCCEEEEEEEcCC-cccc
Q psy13360 282 L-----KGVRLVIKPNYLKITVSSSN-REKA 306 (1161)
Q Consensus 282 ~-----~~V~l~~~~~~L~isa~d~~-~g~~ 306 (1161)
. ++|.|++.++.|+++|+|+. .+..
T Consensus 157 e~R~~L~Gv~~~~~~~~l~~vATDg~RLa~~ 187 (373)
T PRK14942 157 DQRFIFNGLYMIPDGTKLIFVGTDGRRLCKI 187 (373)
T ss_pred ccchhheeEEEEEeCCEEEEEEechHHeEEE
Confidence 4 78999999999999999976 4433
No 57
>PRK14946 DNA polymerase III subunit beta; Provisional
Probab=99.47 E-value=1.6e-12 Score=151.89 Aligned_cols=166 Identities=13% Similarity=0.269 Sum_probs=144.2
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecC--CCCCCcceEEEehhhHHHH
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNID--KKFSSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~--~~~~~~~~viIP~k~L~eL 207 (1161)
+|.|+.+.|.++|..+..++++ .+.|+|+||+++++++.|+++|||+..-....++.. ...++++.++||++.+.++
T Consensus 2 kf~i~k~~L~~~l~~v~~~v~~-~~~~iL~~iliea~~~~l~l~atD~ei~i~~~i~~~~~~~i~e~G~~~v~ak~l~eI 80 (366)
T PRK14946 2 KFTIEKEIIEKQIERMQSAILN-NGNSPLSGFFLKLTRSGLFIISTNSELSYKSFINKKDLIEINDVGSCLIDGVFLKNI 80 (366)
T ss_pred EEEEEHHHHHHHHHHHHhhcCC-CCCcccccEEEEEECCeEEEEEECCcEEEEEEEeCCcCceeccCeEEEEEcHHHHHH
Confidence 6899999999999999999988 566899999999999999999999988888887741 1334568999999999999
Q ss_pred HhhhcCCCCcEEEEEeCcEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc----
Q psy13360 208 QRLLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL---- 282 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~---- 282 (1161)
.|-|++ .|++...++++.++++...|....++ .+||.+... +....+.++..+|.++++++.++++.+.
T Consensus 81 vk~lp~---~I~~~~~~~~l~I~s~~s~f~l~~~~~~~fP~~~~~---~~~~~~~i~~~~l~~~i~kt~fA~s~de~r~~ 154 (366)
T PRK14946 81 IKKSDN---QISFELIGSELKVFWEDAQFSKTLRDSSFFPEINFE---QKGIKLTVNAKNLKRAIKNTAFATTNNPNQPI 154 (366)
T ss_pred HHcCCC---cEEEEEeCCEEEEEECceEEEEcCCCHHHCCCCCcc---cCCcEEEECHHHHHHHHhhEEEEEeCCCCccc
Confidence 999974 38998888889999999999999887 789987653 3456889999999999999999876543
Q ss_pred -ceEEEEEeCCEEEEEEEcCC
Q psy13360 283 -KGVRLVIKPNYLKITVSSSN 302 (1161)
Q Consensus 283 -~~V~l~~~~~~L~isa~d~~ 302 (1161)
++|.|+++++.|+++|+|+.
T Consensus 155 L~Gv~~~~~~~~l~~vATDg~ 175 (366)
T PRK14946 155 LSAINLKSEDNFLHFSATDTI 175 (366)
T ss_pred ceEEEEEEeCCEEEEEEecch
Confidence 68999999999999999975
No 58
>PRK06673 DNA polymerase III subunit beta; Validated
Probab=99.46 E-value=1.8e-12 Score=152.42 Aligned_cols=170 Identities=15% Similarity=0.232 Sum_probs=145.2
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCC------CCCcceEEEehhh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKT 203 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~------~~~~~~viIP~k~ 203 (1161)
+|.|+.+.|.++|..|..+++++.+.|+|+||+|+++++.|+++|||+..-....+++... ..+++.++||++.
T Consensus 2 kf~i~k~~L~~~L~~v~~~i~~k~~~piL~~ill~a~~~~l~l~atD~e~~i~~~i~~~~~~~~~~~i~~~G~v~v~ak~ 81 (376)
T PRK06673 2 EFIVNHKHFTQALSEVSKAISTKAIIPILSGIKITADQSGITLIASNSNIFIEKFIPSAIDDEQITTILQAGTIVVPAKY 81 (376)
T ss_pred EEEEEHHHHHHHHHHHHHHhCCCCCchhhcCEEEEEcCCeEEEEEECCcEEEEEEEecccccccccccccCEEEEEEhHH
Confidence 6899999999999999999999999999999999999999999999998777777765432 1245899999999
Q ss_pred HHHHHhhhcCCCCcEEEEEe-CcEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCC
Q psy13360 204 VFTLQRLLENKENPVELKIS-NNQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDK 281 (1161)
Q Consensus 204 L~eL~klL~~~~~~V~i~~~-~~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~ 281 (1161)
+.++.|-|++ + +.+... ++++.+++++..|....++ .+||.+... +....+.++..+|.++|+++.++++.+
T Consensus 82 l~~ivk~lp~-~--i~~~~~~~~~l~I~~~~~~f~l~~~~~~dfP~~~~~---~~~~~~~i~~~~L~~~i~kt~fA~s~~ 155 (376)
T PRK06673 82 FIEIIKKMPS-D--IVIKSKNEQTITIQSGEITLNLNGFPANEFPNVPQI---DDHTEIQIETKQLIDAFKQTVFAVAKN 155 (376)
T ss_pred HHHHHHcCCC-C--cEEEECCCCEEEEEECCEEEEEcCCCHHHCCCCCCC---CCCceEEECHHHHHHHHhhEeEEEecC
Confidence 9999999985 2 667654 5578899999999999887 789987654 345688999999999999999987654
Q ss_pred c-----ceEEEEEeCCEEEEEEEcCC-ccc
Q psy13360 282 L-----KGVRLVIKPNYLKITVSSSN-REK 305 (1161)
Q Consensus 282 ~-----~~V~l~~~~~~L~isa~d~~-~g~ 305 (1161)
. +||.|++.++.++++++|+. .+.
T Consensus 156 e~r~~L~Gv~l~~~~~~l~~vaTDg~RLA~ 185 (376)
T PRK06673 156 ESRPVLTGVHIELDHNKLICAATDSHRLAI 185 (376)
T ss_pred CCChhceeEEEEEeCCEEEEEEecCceEEE
Confidence 3 78999999999999999976 443
No 59
>PRK14947 DNA polymerase III subunit beta; Provisional
Probab=99.46 E-value=1.6e-12 Score=153.01 Aligned_cols=166 Identities=13% Similarity=0.087 Sum_probs=143.9
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|.|+.+.|.++|..+..+++++.+.|+|+||+|+++++.|+++|||+..-....+++.. +++++++||++.+.++.|
T Consensus 2 kf~i~k~~l~~~L~~v~~~i~~k~~~pIL~~ili~a~~~~L~l~atD~ei~i~~~i~~~i--~e~G~~~v~ak~l~divk 79 (384)
T PRK14947 2 YLKVNKEDVIDGLQKAANIIPAKTGAAYLRTIWLKAEDGTLSIMSTDSNIEFRGTYPAEV--TEPGLAGVQGRAFVDLVR 79 (384)
T ss_pred EEEEEHHHHHHHHHHHHhhhCCCCcchhhcCEEEEEECCEEEEEEECCcEEEEEEEeeee--ccCeEEEEEhHHHHHHHH
Confidence 589999999999999999999999999999999999999999999999888888877543 346799999999999999
Q ss_pred hhcCCCCcEEEEEeC--cEEEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc----
Q psy13360 210 LLENKENPVELKISN--NQIKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL---- 282 (1161)
Q Consensus 210 lL~~~~~~V~i~~~~--~~l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~---- 282 (1161)
-|+++ .|.+..++ +++.+++++..|....++ .+||.+..+ +....++++...|.++|+++.++++.+.
T Consensus 80 ~lp~~--~i~i~~~~~~~~l~I~~g~s~f~l~~~~~~~fP~~~~~---~~~~~~~i~~~~L~~~i~~t~fA~s~de~r~~ 154 (384)
T PRK14947 80 KLPPG--EITLKLDASSGNLLIEQGRRKYKLPVNDPSWFQNFSAF---PAEGAVVWSGDFLQELIDRIAFCISDEDAMEA 154 (384)
T ss_pred hCCCC--ceEEEEeCCCCEEEEEECCeEEEEcCCCHHHCCCCCCC---CCCcEEEECHHHHHHHHhheeeEeeccchhhh
Confidence 99853 68888764 479999999999999887 689988764 2346789999999999999999886654
Q ss_pred -ceEEEEEe-CCEEEEEEEcCC
Q psy13360 283 -KGVRLVIK-PNYLKITVSSSN 302 (1161)
Q Consensus 283 -~~V~l~~~-~~~L~isa~d~~ 302 (1161)
++|.|++. ++.|+++|+|+.
T Consensus 155 L~Gv~~~~~~~~~l~~vATDg~ 176 (384)
T PRK14947 155 IACLKIKPVADNAIEVCGLNGH 176 (384)
T ss_pred hceEEEEEcCCCEEEEEEcCcc
Confidence 68999974 578999999975
No 60
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.45 E-value=2.4e-13 Score=165.24 Aligned_cols=190 Identities=26% Similarity=0.310 Sum_probs=136.9
Q ss_pred chhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhc-CCCCCeEEEEEecCC----cEEEEECCCcccccc
Q psy13360 350 SSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESL-AGYCTKINVTIYSDN----SISISDNGRGIPIDI 424 (1161)
Q Consensus 350 ~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~-~g~~~~I~V~i~~dg----sisV~DnGrGIPv~~ 424 (1161)
.+.+..+..|..+|+..|+ |..+...+|++++.|+|+||+|... .|....|.|.+..++ .|+|.|||+|||.+.
T Consensus 10 ~~~~~~S~aEFF~kNk~~l-Gf~~~~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DNG~GIp~e~ 88 (659)
T PRK14867 10 DEFKEHSISEFFRKNKHML-GYSGKLRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDNGPGIPPEF 88 (659)
T ss_pred HHHHHhHHHHHHhhCCeee-echhHHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEeeCeeCCHHH
Confidence 3456677889999999997 6666556899999999999999885 355668999997643 399999999999988
Q ss_pred ccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccEE-----EEEEE-eCCEEEEEEEEcCcccc
Q psy13360 425 KIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFL-----QLTIN-RNKKIHYMEFRYGVLQN 498 (1161)
Q Consensus 425 ~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~-----~V~v~-r~g~~~~q~f~~G~~~~ 498 (1161)
.+. +|..+|+|+||.. +..|.|.+|.|++++.++|+.. .++++ .+|..|.+.+.-..
T Consensus 89 l~~------------iFerF~atSK~~~--~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i--- 151 (659)
T PRK14867 89 VPK------------VFGKMLAGSKMHR--LIQSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSV--- 151 (659)
T ss_pred Hhh------------hhccccccCcccc--eeccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEe---
Confidence 776 8999999999964 4688899999999999999874 56655 35666666654320
Q ss_pred ccccccCCccccCcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeec
Q psy13360 499 RIIKTINGISVSPIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDE 565 (1161)
Q Consensus 499 ~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~ 565 (1161)
++..+..... + ......+||+|+|.-. ..|-+.. .. .+...++.+|..||++.|+|.+.
T Consensus 152 ---~~n~G~I~~~-~-~~~~~~~GT~Ie~~V~-dLFynR~-E~-~i~e~l~r~ALanP~i~f~l~~~ 210 (659)
T PRK14867 152 ---EKNEGDIVSH-K-VREGFWRGTRVEGEFK-EVTYNRR-EQ-GPFEYLRRISLSTPHAKITLKDP 210 (659)
T ss_pred ---cccCCeeccc-c-cCCCCCCCcEEEEEEe-eceechh-hH-HHHHHHHHHHHhCCCcEEEEEeC
Confidence 0000122211 0 1122468999995210 1221111 11 27999999999999999999876
No 61
>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....
Probab=99.38 E-value=1.2e-12 Score=129.17 Aligned_cols=93 Identities=34% Similarity=0.522 Sum_probs=85.2
Q ss_pred cccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCccceeeechhh
Q psy13360 249 KYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEINYNGKDKNFIKFLIKI 328 (1161)
Q Consensus 249 ~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~~~ii~fn~~y 328 (1161)
++++|.++...++++|++|++||+|++++++++.+.|.|++++++|++++.+++.|.++|+++|.+.|+++. ++||++|
T Consensus 1 ~~viP~~~~~~i~i~r~~L~~al~Rv~~~~~~~~~~v~l~~~~~~l~l~~~~~~~g~~~e~i~~~~~g~~~~-i~fN~~y 79 (121)
T PF02768_consen 1 RRVIPTEFETSITIDRKELLDALKRVSIISSEKNNPVKLSFSDNQLTLSSQSSEIGEAEEEIPIEYEGEPLE-IAFNPKY 79 (121)
T ss_dssp GGGS-SSESEEEEEEHHHHHHHHHHHHHHHTTTTGEEEEEEETTEEEEEEEETTTEEEEEEEE-EEEES-EE-EEEEHHH
T ss_pred CccCCCCCCEEEEEEHHHHHHHHHHHHHHhhcCCceEEEEEECCEEEEEEcCCCCceEEEEEeeeecCCceE-EEECHHH
Confidence 579999999999999999999999999999988899999999999999999999999999999999999999 9999999
Q ss_pred hh--hcccCccccccc
Q psy13360 329 ML--LKNKNSYDIQDT 342 (1161)
Q Consensus 329 Ll--L~~~~~d~i~l~ 342 (1161)
|+ |+++++++|+|+
T Consensus 80 L~d~L~~~~~~~V~l~ 95 (121)
T PF02768_consen 80 LLDALKAIDGEEVTLE 95 (121)
T ss_dssp HHHHHHCC-SSEEEEE
T ss_pred HHHHHhhcCCCEEEEE
Confidence 98 999999999883
No 62
>PF00712 DNA_pol3_beta: DNA polymerase III beta subunit, N-terminal domain; InterPro: IPR022634 This entry describes the N-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AWA_C 1VPK_A 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D ....
Probab=99.32 E-value=2.4e-11 Score=119.90 Aligned_cols=117 Identities=15% Similarity=0.277 Sum_probs=103.3
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|.++.+.|.++|+.+..+++++.+.|+|+||+|+++++.|+++|||........++.... .++++++||++.+.++.|
T Consensus 2 kf~i~k~~L~~~l~~v~~~i~~k~~~piL~~ili~a~~~~l~l~atD~e~~i~~~i~~~~~-~~~G~~~v~ak~l~~ivk 80 (120)
T PF00712_consen 2 KFTINKEELLKALSKVSKVIPSKSTIPILSNILIEAKDNKLTLTATDLEISIRTTIPAEIE-EEEGSILVPAKKLFDIVK 80 (120)
T ss_dssp EEEEEHHHHHHHHHHHHTCSSSSSSSGGGGEEEEEEETTEEEEEEE-SSEEEEEEEETEEE-EE-EEEEEEHHHHHHHHH
T ss_pred EEEEEHHHHHHHHHHHHhhhCCCCChHHhccEEEEEeCCEEEEEEEcCeEEEEEEEeceee-cCCeEEEEEhHHHHHHHH
Confidence 6899999999999999999999999999999999999999999999999999999887765 246799999999999999
Q ss_pred hhcCCCCcEEEEEeCcEEEEEECcEEEEEeecC-CCCCCc
Q psy13360 210 LLENKENPVELKISNNQIKIIFSNIEIISKLID-GKFLDY 248 (1161)
Q Consensus 210 lL~~~~~~V~i~~~~~~l~f~~~~~~~~~rli~-g~fPdy 248 (1161)
.|++ ++.|++..+++.+.+.+++..|....++ .+||.+
T Consensus 81 ~lp~-~~~I~i~~~~~~l~I~~~~~~f~l~~~~~~dfP~l 119 (120)
T PF00712_consen 81 KLPD-DEEITIEVEENKLTIKSGKSRFKLPTLDAEDFPEL 119 (120)
T ss_dssp HSSS-TSEEEEEEETTEEEEEETTEEEEEE-BEGGGS---
T ss_pred hCCC-CCeEEEEEeCCEEEEEECCEEEEEcCCCHHHcCCC
Confidence 9986 4689999999999999999999999877 899975
No 63
>COG0592 DnaN DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]
Probab=99.18 E-value=1.2e-09 Score=128.00 Aligned_cols=192 Identities=16% Similarity=0.200 Sum_probs=153.4
Q ss_pred EEEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHh
Q psy13360 130 EFTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQR 209 (1161)
Q Consensus 130 ~~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~k 209 (1161)
+|.|..+.|.++|+.+..+++++.+.|+|+||++++++++|.+.|||..--....++.. ....+++++|++.+.++.+
T Consensus 2 k~~i~r~~l~~~l~~~~~~v~~r~~~pil~~vli~~~~~~l~~~~td~ei~~~~~i~~~--v~~~g~~~v~~k~l~dii~ 79 (364)
T COG0592 2 KFSIERENLLKALQLVSRIVESRPTIPILSNVLIEAKENGLTLTGTDLEISLEARIPAE--VEAEGEVAVPAKKLLDIIS 79 (364)
T ss_pred EEEEEHHHHHHHHHHHHhhccCCCCChhhhcEEEEEECCeEEEEEecceEEEEEEEEEE--EecceeEEEEhHHHHHHHH
Confidence 58899999999999999999999999999999999999999999999888888888776 4456799999999999999
Q ss_pred hhcCCCCcEEEEEeCcE-EEEEECcEEEEEeecC-CCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCc-----
Q psy13360 210 LLENKENPVELKISNNQ-IKIIFSNIEIISKLID-GKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKL----- 282 (1161)
Q Consensus 210 lL~~~~~~V~i~~~~~~-l~f~~~~~~~~~rli~-g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~----- 282 (1161)
-|++ +..+.+..++.. ..+..+...|....++ ..||+|+..-+ ...+.++.+.|.++++|+....+...
T Consensus 80 ~L~d-e~~~~~~~~~~~~~~i~~~~s~f~l~~lp~e~Fp~~~~~~~---~~~~~l~~~~Lk~ii~~~~fa~~~~e~~~~l 155 (364)
T COG0592 80 KLPD-EAVFLVTEDGISLLAVDSGKSAFVLLTLPAEDFPEYPVDEE---EVEFGLPTELLKKIIKRTKFADSLLETRYEL 155 (364)
T ss_pred hCCC-CceEEEEecCCceEEEecCceEEEcCCCCHHHCCCCCCCCc---CceEEecHHHHHHHHhheeecccchhhhhhc
Confidence 9986 334455555555 8899999999988777 89999977543 37799999999999999999876532
Q ss_pred ceEEEEEeCCEEEEEEEcCCccccceeeeeeeeCCccceeeechhhh
Q psy13360 283 KGVRLVIKPNYLKITVSSSNREKASEELEINYNGKDKNFIKFLIKIM 329 (1161)
Q Consensus 283 ~~V~l~~~~~~L~isa~d~~~g~~~E~i~~~~~Ge~~~ii~fn~~yL 329 (1161)
++|.|.+.++.++..++++. .-+..+++.....++.. +....+-+
T Consensus 156 ngv~~~i~~~~l~~vatd~~-rla~~~~~~~~~~~~~~-viIp~k~l 200 (364)
T COG0592 156 NGVLLEIEGTKLRLVATDGH-RLAVEELEIPELEEDAS-VIIPAKTL 200 (364)
T ss_pred ccEEEEEECCEEEEEEECCc-eEEEEEeccccCCCCcc-EEEEhhHH
Confidence 68999999999999999954 22333333332233334 44444444
No 64
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.12 E-value=3.6e-10 Score=137.78 Aligned_cols=196 Identities=24% Similarity=0.263 Sum_probs=140.8
Q ss_pred hhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcC-CCCCeEEEEEecCC---cEEEEECCCcccccccc
Q psy13360 351 SIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLA-GYCTKINVTIYSDN---SISISDNGRGIPIDIKI 426 (1161)
Q Consensus 351 ~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~-g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~ 426 (1161)
+.+.++--|.+.|++.|+--+.+. ..|..++.|+|+||+|.+-. |....|.|.+..++ .|+|.|||.|||-+..+
T Consensus 21 ~~~~iS~aEfF~kN~~~lgfD~d~-r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDNG~GIp~EdLp 99 (795)
T PRK14868 21 SQREISIAEFFEKNKHMLGFDSGA-RGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQIP 99 (795)
T ss_pred hccccceeeecccCcceeeccCCH-HHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEcCCCCCHHHHH
Confidence 556677888999999888556554 68999999999999998753 22336888887654 58999999999998777
Q ss_pred CCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhccE-----EEEEEEeCCE--E--EEEEEEcCccc
Q psy13360 427 DDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRF-----LQLTINRNKK--I--HYMEFRYGVLQ 497 (1161)
Q Consensus 427 ~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~-----~~V~v~r~g~--~--~~q~f~~G~~~ 497 (1161)
. +|..++.++||.... .+-|..|.|++++-++|.. +.|+++.++. . |.+....| .
T Consensus 100 ~------------IFerf~~tSKf~~~~--~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~g--k 163 (795)
T PRK14868 100 K------------VFGKLLYGSRFHARE--QSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTD--T 163 (795)
T ss_pred H------------Hhhhhcccccccccc--cCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecC--C
Confidence 6 899899899986532 4567899999999999975 6787765442 2 35555444 0
Q ss_pred cccccccCCcccc-CcEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhhccCCCcEEEEeecccceEEEEEeC
Q psy13360 498 NRIIKTINGISVS-PIKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDERIKKKEIFEFK 576 (1161)
Q Consensus 498 ~~~~~~~~~~~~~-~~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~~~~~~f~~~ 576 (1161)
| .|.- ..........+||+|+.. +|.+.. -...+...++.+|..||.++|.|.+.+ ..|.|+
T Consensus 164 N--------ep~I~~~~~~~~~~~~GT~IeV~----Lf~N~p-AR~kI~eyl~r~Al~nP~a~f~l~~~~----~~~~~~ 226 (795)
T PRK14868 164 N--------EPEISVEETTTWDRPHGTRIELE----MEANMR-ARQQLHDYIKHTAVVNPHARIELREPD----ESLKFE 226 (795)
T ss_pred C--------ccceecceecccCCCCceEEEEE----EEccCc-hhhhHHHHHHHHHhhCCCeEEEEEECC----EEEEec
Confidence 1 2210 011122235789999986 565431 234489999999999999999999872 347776
Q ss_pred Cchh
Q psy13360 577 GGTS 580 (1161)
Q Consensus 577 ~Gi~ 580 (1161)
.+..
T Consensus 227 r~t~ 230 (795)
T PRK14868 227 RATD 230 (795)
T ss_pred cccc
Confidence 5543
No 65
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.11 E-value=2.9e-10 Score=140.87 Aligned_cols=157 Identities=18% Similarity=0.229 Sum_probs=120.3
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC-
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN- 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~- 453 (1161)
...-.|+|+|+||+|.. +++|.|.+...| .|.|.|||.||+.+..+- ...-||.||..+.
T Consensus 23 rPaSVVKELVENSlDAG----At~I~I~ve~gG~~~I~V~DNG~Gi~~~Dl~l-------------a~~rHaTSKI~~~~ 85 (638)
T COG0323 23 RPASVVKELVENSLDAG----ATRIDIEVEGGGLKLIRVRDNGSGIDKEDLPL-------------ALLRHATSKIASLE 85 (638)
T ss_pred cHHHHHHHHHhcccccC----CCEEEEEEccCCccEEEEEECCCCCCHHHHHH-------------HHhhhccccCCchh
Confidence 45778999999999976 899999999877 699999999999887753 4568999997554
Q ss_pred --ceeeecccccchhhHhhhhccEEEEEEEe-CCEEEEEEEEcC-ccccccccccCCccccCcEEeccCCCCCcEEEEE-
Q psy13360 454 --SYKISGGLHGIGLSCVNGLSRFLQLTINR-NKKIHYMEFRYG-VLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFW- 528 (1161)
Q Consensus 454 --~yk~sgGlhGvG~svvNalS~~~~V~v~r-~g~~~~q~f~~G-~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~- 528 (1161)
.-..|-|+.|..++..-.+| +++++++. +...+.|.+-.| . ..+ .+.....+.||+|...
T Consensus 86 DL~~I~TlGFRGEAL~SIasVs-rlti~Srt~~~~~~~~~~~~g~~-----------~~~---~~~p~a~~~GTtVeV~d 150 (638)
T COG0323 86 DLFRIRTLGFRGEALASIASVS-RLTITSRTAEASEGTQIYAEGGG-----------MEV---TVKPAAHPVGTTVEVRD 150 (638)
T ss_pred HHHHhhccCccHHHHHHHHhhh-eeEEEeecCCcCceEEEEecCCc-----------ccc---cccCCCCCCCCEEEehH
Confidence 34579999999999999999 78888874 434555555554 1 111 1222334569999964
Q ss_pred -----eCccccc-cCCCCHHHHHHHHHhhhccCCCcEEEEeec
Q psy13360 529 -----VDEKIFS-NIEFHYEILKKRIRELSFLNNGVCITLIDE 565 (1161)
Q Consensus 529 -----PD~~iF~-~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~ 565 (1161)
|-+..|- ...-++..|..-++.+|..+|.+.++|...
T Consensus 151 LF~NtPaRrKflks~~~E~~~i~~vv~r~ALahp~I~F~l~~~ 193 (638)
T COG0323 151 LFYNTPARRKFLKSEKTEFGHITELINRYALAHPDISFSLSHN 193 (638)
T ss_pred hhccChHHHHhhcccHHHHHHHHHHHHHHHhcCCCeEEEEEEC
Confidence 6666663 334567789999999999999999999876
No 66
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=99.03 E-value=2.4e-11 Score=150.99 Aligned_cols=81 Identities=11% Similarity=0.047 Sum_probs=70.4
Q ss_pred CCeEEEeccccccceeeecCHHHHHHHHHHhcc--------CCceeeEEecCCCCChhhhh-hhccCcCceeEEEeeecc
Q psy13360 1056 KGVIIQKSIGEKIKKYTANNFYKIINYLRNEAE--------NMVIKQRYKGLGEMNPGQLW-ETTMNPMIRCLLKVKIKD 1126 (1161)
Q Consensus 1056 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~iqr~KGLGEmn~~qlw-ettm~p~~r~l~~v~~~d 1126 (1161)
|-+++.+| . +...+.|-.|+-+|+.+.+. .+..||| ||||||||+||| ||||||.+|+|+||.++|
T Consensus 534 PLykv~~g--k--~~~y~~~~~e~~~~l~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~r~~~~~~~~~ 608 (756)
T PRK14939 534 PLYKVKKG--K--QEQYLKDDEALDDYLIELALEGATLHLADGPAISG-EALEKLVKEYRAVRKIIDRLERRYPRAVLEA 608 (756)
T ss_pred cEEEEecC--C--eeEecCCHHHHHHHHHHhCcCCceeecCCCCcccH-HHHHHHHHHHHHHHHHHhHHhccccHHHHHH
Confidence 33777665 3 46678999999999998753 4577999 999999999999 999999999999999999
Q ss_pred HHHHHHHHHHhcCCC
Q psy13360 1127 AISADKIFMTLMGDN 1141 (1161)
Q Consensus 1127 ~~~a~~~~~~lmg~~ 1141 (1161)
+.+|+.+|+.|||+.
T Consensus 609 ~~~~~~~~~~~~~~~ 623 (756)
T PRK14939 609 LIYAPALDLDDLADE 623 (756)
T ss_pred HHhccccchhhhcch
Confidence 999999999999954
No 67
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=98.99 E-value=4.4e-10 Score=107.21 Aligned_cols=98 Identities=26% Similarity=0.309 Sum_probs=87.9
Q ss_pred eEEEEeccCCCcccccccCCcceEeeccCCccccccccchhH-HhccHhHHHHHHHhCCCCCCCCCcccccccceEEEee
Q psy13360 781 ELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEK-IILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMT 859 (1161)
Q Consensus 781 eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~k-i~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimt 859 (1161)
||+||||+|+..+..++.+...+.++|+.|+++|....+... ..+++.++.|.+.+ .+|+.|||+|
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~-------------~~~~~iiiat 67 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLL-------------KKADEIIIAT 67 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHH-------------HSCSEEEEEC
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHh-------------hhccEeeecC
Confidence 699999999999999999988899999999999999876655 88889999999988 4699999999
Q ss_pred cCCCCChhhHHHHHHHHHHhcHhhhhcCcEEEEc
Q psy13360 860 DADIDGAHIRALLLTFFYRKMPKLIEYGYIYIAQ 893 (1161)
Q Consensus 860 DaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~ 893 (1161)
|+|.+|.||...++.++...+|.+ .+++|+-.
T Consensus 68 D~D~EGe~Ia~~i~~~~~~~~~~~--~~R~~~~~ 99 (100)
T PF01751_consen 68 DPDREGELIAWEIIELLGKNNPKL--IKRVWFSS 99 (100)
T ss_dssp -SSHHHHHHHHHHHHHHHHHSHHH--TTEEEEES
T ss_pred CCChHHHHHHHHHHHHHhHhCCCc--CCEEEEec
Confidence 999999999999999999999999 77787643
No 68
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=98.91 E-value=3.4e-08 Score=96.82 Aligned_cols=113 Identities=20% Similarity=0.326 Sum_probs=94.9
Q ss_pred ccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCC-ceEEEEechhHHHHHhcCC
Q psy13360 7 TEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNS-SINIIVAARKFIDILRSLP 85 (1161)
Q Consensus 7 i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~-~G~v~V~ak~l~~Ivk~Lp 85 (1161)
++.+.|.+++..+.-+++.....|+|.||+++.++++|.+.|||+..-...+.+...... +..++||+|.+.++.|-++
T Consensus 2 i~~~~l~~~i~~v~fa~s~d~~r~~L~Gv~~~~~~~~l~~vATDg~RLa~~~~~~~~~~~~~~~~iIp~k~l~~l~k~l~ 81 (116)
T PF02767_consen 2 IPAKELKEAIKKVAFAASKDESRPILNGVLFEIENNKLRLVATDGHRLAVREIELDEENEDEFSFIIPAKALKELKKLLS 81 (116)
T ss_dssp EEHHHHHHHHHHHGGGS-SSTTSGGGGEEEEEEETTEEEEEEEESSEEEEEEEEEEEECESEEEEEEEHHHHHHHHHHSS
T ss_pred cCHHHHHHHHhheeEEEecCCCCceeeeEEEEEECCEEEEEEeCCceEEEEEEecCcccccceEEEEechHHHHHhhhcc
Confidence 568899999999999999999999999999999999999999999887777777654322 4799999999999999999
Q ss_pred C-CccEEEEEeCcEEEEEECcEEEEEccCCCCCCCC
Q psy13360 86 E-TEKVTIYIENKHMFIKSGKSKFTLQTLDAKEYPI 120 (1161)
Q Consensus 86 ~-~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edfP~ 120 (1161)
+ ++.|++...++++.+++++..+....++ .+||+
T Consensus 82 ~~~~~v~i~~~~~~i~f~~~~~~~~srli~-g~yPd 116 (116)
T PF02767_consen 82 DEDEEVEISISDNQIIFKFDNIEITSRLID-GEYPD 116 (116)
T ss_dssp TTSSEEEEEEESSEEEEEESSEEEEEE-BS-S----
T ss_pred cCCceEEEEEcCCEEEEEECCEEEEEEEec-ccCCC
Confidence 8 4589999999999999999999988885 45885
No 69
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=98.74 E-value=4.3e-06 Score=93.02 Aligned_cols=202 Identities=10% Similarity=0.092 Sum_probs=148.0
Q ss_pred cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecc-------cCCceEEEEechhHHHH
Q psy13360 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGY-------GNSSINIIVAARKFIDI 80 (1161)
Q Consensus 8 ~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~-------~~~~G~v~V~ak~l~~I 80 (1161)
+.+.|.+.++.+.. +..++++++.+++|++.|||+...+...+.... +..+..+.+|.+.|.++
T Consensus 8 ~~~~lk~i~~~i~~---------l~~~v~~~~~~~~l~~~atD~~Rla~~~~~~~~~~f~~~~~~~~~~~~v~l~~l~~i 78 (247)
T PRK01115 8 DAKDFKYIIDAISK---------LVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKIGVDLEDLKKI 78 (247)
T ss_pred chHHHHHHHHHHHH---------HhceEEEEECCCcEEEEEECCccEEEEEEEeCHHhCccEecCCCeEEEEEHHHHHHH
Confidence 45566666766664 458899999999999999999877766655421 11244588999999999
Q ss_pred HhcCCCCccEEEEE--eCcEEEEEECc---EEEEEccCCCCCCCCccCC-CCcceEEEEcHHHHHHHHHhhccccccccc
Q psy13360 81 LRSLPETEKVTIYI--ENKHMFIKSGK---SKFTLQTLDAKEYPIMTLN-SKYDFEFTLSQKTLKCILNMVYFSIAQQDI 154 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~--~~~~l~I~sG~---~~~~l~~~~~edfP~~~~~-~~~~~~~~i~~~~L~~aI~~v~~a~s~~~t 154 (1161)
++.+.+++.+++.. +++++.+..++ ..|.++.+++ +||+.... .+....+.++...|.++++++...+.
T Consensus 79 l~~~~~~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~Lieg-~~p~~~v~p~~~~~~i~~~~~~l~~~~~r~~~~~~---- 153 (247)
T PRK01115 79 LKRAKKGDKLELELDEEENKLKITFGGEKTREFSLPLLDV-SSEEPPEPNLELPVKAVILGDDLKDAIKDAELVSD---- 153 (247)
T ss_pred HhhCCCCCEEEEEEcCCCCEEEEEEecCcEEEEEEEeecc-CCCCCCCCCCcccEEEEEEHHHHHHHHHHHHhcCC----
Confidence 99985554789988 56899999999 8999998875 47874322 24567999999999999999986542
Q ss_pred ccceeeEEEEEECCEEEEEEecceEEEEEEEecCC------CCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCcE-E
Q psy13360 155 RYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDK------KFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNNQ-I 227 (1161)
Q Consensus 155 rpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~------~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~-l 227 (1161)
.|.|+++++.+++.|.+. --+...++.+. ..+++..+....++|.+.++.++. .+.|.+.++++. +
T Consensus 154 -----~v~i~~~~~~l~lsa~~~-g~a~~~i~~~~~~~~~~~g~e~~~i~fn~~YL~d~lk~~~~-~~~V~l~~~~~~P~ 226 (247)
T PRK01115 154 -----HIELEADEDKFYIEAEGE-GEDEVELSLDSGPLIELSVEEPAKSSYSLDYLKDMVKATSA-SDEVTIEFGSDMPL 226 (247)
T ss_pred -----eEEEEEeCCEEEEEEEeC-CceEEEEecCCCceEEEEecCceeEEEhHHHHHHhhccccC-CCeEEEEECCCCCE
Confidence 399999999999988773 22333333221 111357899999999999998864 346888876543 3
Q ss_pred EEE
Q psy13360 228 KII 230 (1161)
Q Consensus 228 ~f~ 230 (1161)
.++
T Consensus 227 ~l~ 229 (247)
T PRK01115 227 KLE 229 (247)
T ss_pred EEE
Confidence 444
No 70
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=98.57 E-value=2.5e-08 Score=96.35 Aligned_cols=86 Identities=36% Similarity=0.496 Sum_probs=66.2
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
..|+++++|+++||+|.+..+ ..|.|.+..++ +|+|+|||.|||.+..+. +|..+.++.+
T Consensus 4 ~~l~~il~~ll~Na~~~~~~~--~~I~i~~~~~~~~~~i~i~d~G~gi~~~~l~~------------~~~~~~~~~~--- 66 (111)
T PF02518_consen 4 DRLRQILSELLDNAIKHSPEG--GKIDITIEEDDDHLSIEISDNGVGIPPEELEK------------LFEPFFTSDK--- 66 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT--SEEEEEEEEETTEEEEEEEESSSSTTHHHHHH------------HCSTTSHSSS---
T ss_pred HHHHHHHHHHHHHHHHHhcCC--CEEEEEEEEecCeEEEEEEecccccccccccc------------chhhcccccc---
Confidence 468999999999999999876 78999988752 799999999999976654 4444555444
Q ss_pred CceeeecccccchhhHhhhhccEEEEEE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTI 480 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v 480 (1161)
+.+.. +-||+|+++++.+++.+..++
T Consensus 67 ~~~~~--~g~GlGL~~~~~~~~~~~g~l 92 (111)
T PF02518_consen 67 SETSI--SGHGLGLYIVKQIAERHGGEL 92 (111)
T ss_dssp SSGGS--SSSSHHHHHHHHHHHHTTEEE
T ss_pred ccccc--CCCChHHHHHHHHHHHCCCEE
Confidence 22222 239999999999998876653
No 71
>KOG1978|consensus
Probab=98.57 E-value=1.2e-07 Score=113.62 Aligned_cols=172 Identities=23% Similarity=0.311 Sum_probs=124.4
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCC---C
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGK---F 450 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~k---f 450 (1161)
.+|.-.|+|+|+||+|+. |+.|.|.+...| +|+|.|||-||.....+ .++.-|..+| |
T Consensus 19 ~sl~sAVKELvENSiDAG----AT~I~I~~kdyG~d~IEV~DNG~GI~~~n~~-------------~l~lkh~TSKi~~f 81 (672)
T KOG1978|consen 19 TSLVSAVKELVENSIDAG----ATAIDIKVKDYGSDSIEVSDNGSGISATDFE-------------GLALKHTTSKIVSF 81 (672)
T ss_pred ccHHHHHHHHHhcCcccC----CceeeEecCCCCcceEEEecCCCCCCccchh-------------hhhhhhhhhcccch
Confidence 468889999999999977 899999998766 79999999999765442 2677777777 7
Q ss_pred CCCceeeecccccchhhHhhhhccEEEEEEEeCCEE-EEEEEEc-CccccccccccCCccccCcEEeccCCCCCcEEEEE
Q psy13360 451 NKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKI-HYMEFRY-GVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFW 528 (1161)
Q Consensus 451 d~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~-~~q~f~~-G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~ 528 (1161)
.|-....|-|++|..+|..+|+|.-...+...+-.+ .+..|.+ | ... .........||+|...
T Consensus 82 ~Dl~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~~vgt~l~~Dh~G------------~I~---~k~~~ar~~GTTV~v~ 146 (672)
T KOG1978|consen 82 ADLAVLFTLGFRGEALSSLCALGDVMISTRSHSAKVGTRLVYDHDG------------HII---QKKPVARGRGTTVMVR 146 (672)
T ss_pred hhhhhhhhhhhHHHHHHhhhhccceEEEEeeccCccceeEEEccCC------------cee---eeccccCCCCCEEEHh
Confidence 777788999999999999999998887776644333 5566654 3 111 2334456889999964
Q ss_pred eCccccccC-----------CCCHHHHHHHHHhhhccCCCcEEEEeeccc-ceEEEEEeCCchhhh
Q psy13360 529 VDEKIFSNI-----------EFHYEILKKRIRELSFLNNGVCITLIDERI-KKKEIFEFKGGTSGF 582 (1161)
Q Consensus 529 PD~~iF~~~-----------~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~-~~~~~f~~~~Gi~~f 582 (1161)
+.|.+. .=.++.+..-++.+|.+++|+++.....-. +++..-...+|-.+-
T Consensus 147 ---~LF~tLPVR~kef~r~~Kref~k~i~li~~y~li~~~ir~~~~n~t~~~~k~iil~t~~~~~~ 209 (672)
T KOG1978|consen 147 ---QLFSTLPVRRKEFQRNIKRKFVKLISLIQAYALISTAIKFLVSNSTLAGKKNIILKTGGYGSD 209 (672)
T ss_pred ---hhcccCCCchHHhhcchhhhhhhHHhhHHHHHhhcccceeeeeeccccCCceeEEecCCcchH
Confidence 344332 235667889999999999999998776543 222333344454443
No 72
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch
Probab=98.53 E-value=2e-07 Score=89.25 Aligned_cols=98 Identities=28% Similarity=0.461 Sum_probs=76.9
Q ss_pred hhhhhhhcCCcccCCceEEEeeccccccCCceEEEEEEeecCC---CcceeeeeecccccCCCCchhHHHHHHHHHHHHH
Q psy13360 581 GFVSYINKSKLVVHPTIFQAIGNKISEKKNNINIDVSMQWNNS---YNENILCFTNNILQVDGGTHLTGLRSGITRAINK 657 (1161)
Q Consensus 581 ~fv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~veva~~~~~~---~~e~~~SFvN~I~T~~GGtHv~g~~~alt~~in~ 657 (1161)
+++..+...+. .+.++.++.+. .++.++++++|.+. ....+++|||+.++..||+|..++.+++.+.++
T Consensus 3 ~~i~~~~g~~~--~~~~~~~~~~~-----~~~~v~g~l~~~~~~~~~~~~~~~fvN~r~v~~~~~~~~~i~~~~~~~~~- 74 (107)
T cd00329 3 DRLAEILGDKV--ADKLIYVEGES-----DGFRVEGAISYPDSGRSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN- 74 (107)
T ss_pred hHHHHHhCHHh--HhhcEEEeccC-----CCEEEEEEEeCCccCcccCCcEEEEEcCeEEcCCHHHHHHHHHHHHHHhc-
Confidence 44544443322 23456666554 56889999999875 466789999999998899999999999988764
Q ss_pred HHHHhcccccccccCChhhHhcceEEEEEEeecC--CCcc-ccccccc
Q psy13360 658 YIEENEFLKKSKIEIIGEDIREGLTCVLSIKIPD--PKFN-SQTKNKL 702 (1161)
Q Consensus 658 ~~~~~~l~Kk~~~~~~~~diregL~~vvsv~i~~--P~Fe-gQTK~kL 702 (1161)
+++.+....++|+++++. |.|. +|||+++
T Consensus 75 ----------------~~~~~~~p~~vl~i~~~~~~~d~nv~p~K~~v 106 (107)
T cd00329 75 ----------------GDDVRRYPVAVLSLKIPPSLVDVNVHPTKEEV 106 (107)
T ss_pred ----------------ccCCCCCCEEEEEEEeChHHeeeCCCCCcccc
Confidence 566788899999999999 9999 9999876
No 73
>cd00577 PCNA Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].
Probab=98.45 E-value=3.7e-05 Score=85.05 Aligned_cols=198 Identities=14% Similarity=0.159 Sum_probs=142.9
Q ss_pred cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeeccc-------CCceEEEEechhHHHH
Q psy13360 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYG-------NSSINIIVAARKFIDI 80 (1161)
Q Consensus 8 ~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~-------~~~G~v~V~ak~l~~I 80 (1161)
+-+.|.++++.+.++. .+++++..+++|++.|+|+...+.+.+..... ..+..+.||.+.|.++
T Consensus 5 ~~~~l~~~~~~l~~i~---------~~v~~~~~~~gl~~~a~d~~r~~~~~~~l~~~~F~~y~~~~~~~~~i~~k~l~~~ 75 (248)
T cd00577 5 NAKLLKKIVDALSKLV---------DEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRCDEEISLGVNLKSLLKI 75 (248)
T ss_pred chHHHHHHHHHHHHHh---------cEEeEEECCCceEEEEEcCCcEEEEEEEechhhCeEEecCCceEEEEEHHHHHHH
Confidence 3556777777776554 78999999999999999998766655543221 1346899999999999
Q ss_pred HhcCCCCccEEEEEeCc---EEEEEEC----cEEEEEccCCCCCCCCccC-CCCcceEEEEcHHHHHHHHHhhccccccc
Q psy13360 81 LRSLPETEKVTIYIENK---HMFIKSG----KSKFTLQTLDAKEYPIMTL-NSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~---~l~I~sG----~~~~~l~~~~~edfP~~~~-~~~~~~~~~i~~~~L~~aI~~v~~a~s~~ 152 (1161)
+|.+...+.+.+...++ .+.+.++ ...|.++.++. +||+... ..+....+.++...|.++++++....
T Consensus 76 lk~~~~~~~v~i~~~~~~~l~i~~~~~~~~~~~~~~~~li~~-~~~~~~~~~~~~~~~i~i~~~~L~~~i~~~~~~~--- 151 (248)
T cd00577 76 LKCAGNEDCVTLRADDEDPLKILFESSKGDVTSEFSLKLMDI-DSEQLPIPELEYDATVTLPSDELKDIVRDLESIS--- 151 (248)
T ss_pred HhhCCCCCEEEEEecCCCeEEEEEEcCCCceEEEEEEEcccc-CcccCCCCCCceeEEEEEEHHHHHHHHHHHHHcC---
Confidence 99998666788887766 4455555 57788888765 5777653 23446789999999999999998663
Q ss_pred ccccceeeEEEEEECCEEEEEEecceEEEEEEEecCC-------CCCCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc
Q psy13360 153 DIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDK-------KFSSCSDIIIPRKTVFTLQRLLENKENPVELKISNN 225 (1161)
Q Consensus 153 ~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~-------~~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~ 225 (1161)
..|.|.++++.+++.+....--+........ ...++..+....+.|.++.+.++. .++|.|.+++.
T Consensus 152 ------~~i~i~~~~~~l~lss~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fn~~yL~~~l~~~~~-s~~v~i~~~~~ 224 (248)
T cd00577 152 ------DSVTISASKDGFKFSAEGELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGSD 224 (248)
T ss_pred ------CEEEEEEcCCEEEEEEeecCCceEEEEecCCCCceEEEEeCCceEEEEhHHHHHHHhhhccc-CCeEEEEEcCC
Confidence 2389999999888866553222222222221 123467899999999999999863 34688888765
No 74
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B ....
Probab=98.43 E-value=3.3e-08 Score=99.88 Aligned_cols=98 Identities=24% Similarity=0.324 Sum_probs=69.7
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecC----CcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSD----NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~d----gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
+.+++.|+|+||+|.. ++.|.|.|+.+ ..|.|.|||.|||.+.... +..+..++|..+
T Consensus 3 ~~~al~ElI~Ns~DA~----a~~I~I~i~~~~~~~~~i~I~DnG~Gm~~~~l~~-------------~~~~g~s~k~~~- 64 (137)
T PF13589_consen 3 PEDALRELIDNSIDAG----ATNIKISIDEDKKGERYIVIEDNGEGMSREDLES-------------FFRIGRSSKKSE- 64 (137)
T ss_dssp CTHHHHHHHHHHHHHH----HHHEEEEEEEETTTTTEEEEEESSS---HHHHHH-------------HTTCHHTHHHHH-
T ss_pred HHHHHHHHHHHHHHcc----CCEEEEEEEcCCCCCcEEEEEECCcCCCHHHHHH-------------hccccCCCCCch-
Confidence 3789999999999966 67899999976 4899999999999886543 224555555321
Q ss_pred ceeeecccccch-hhHhhhhccEEEEEEEeCCEEEEEEEEc
Q psy13360 454 SYKISGGLHGIG-LSCVNGLSRFLQLTINRNKKIHYMEFRY 493 (1161)
Q Consensus 454 ~yk~sgGlhGvG-~svvNalS~~~~V~v~r~g~~~~q~f~~ 493 (1161)
.-..+-|.+|+| ...+.+++..++|.++..|.....+|..
T Consensus 65 ~~~~~~G~~G~G~k~A~~~~~~~~~v~S~~~~~~~~~~~~~ 105 (137)
T PF13589_consen 65 KDRQSIGRFGIGLKLAIFSLGDRVEVISKTNGESFTYTIDY 105 (137)
T ss_dssp HHGGGGGGGTSGCGGGGGGTEEEEEEEEESTTSSSEEEEEE
T ss_pred hhhhcCCCcceEHHHHHHHhcCEEEEEEEECCCCcEEEEEE
Confidence 123468999999 5567889999999999876544444433
No 75
>PRK05218 heat shock protein 90; Provisional
Probab=98.28 E-value=3.6e-05 Score=95.98 Aligned_cols=157 Identities=20% Similarity=0.222 Sum_probs=98.4
Q ss_pred cchhHHhHHHhhHhhhc--------------CCCCCeEEEEEecCC-cEEEEECCCccccccccCCCCCCCCcceEEEEe
Q psy13360 378 LHHFVFEILDNAIDESL--------------AGYCTKINVTIYSDN-SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMT 442 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~--------------~g~~~~I~V~i~~dg-sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t 442 (1161)
-...++|+|.||.|... .+.-..|.|.++.+| .|+|.|||.||..+.... .++
T Consensus 27 ~~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~~i~I~DnG~GMt~eel~~------------~l~ 94 (613)
T PRK05218 27 KEIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEARTLTISDNGIGMTREEVIE------------NLG 94 (613)
T ss_pred chHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCCeEEEEECCCCCCHHHHHH------------HHH
Confidence 36678999999999853 122347888887764 799999999999876543 122
Q ss_pred eecccC------CCCC--CceeeecccccchhhHhhhhccEEEEEEEeCC---EEEEEEEEcCccccccccccCCccccC
Q psy13360 443 ELHAGG------KFNK--NSYKISGGLHGIGLSCVNGLSRFLQLTINRNK---KIHYMEFRYGVLQNRIIKTINGISVSP 511 (1161)
Q Consensus 443 ~l~ag~------kfd~--~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g---~~~~q~f~~G~~~~~~~~~~~~~~~~~ 511 (1161)
+.-.+| +..+ ..-.-.-|..|+|.-.+=+++.+++|.+++.| ..|......| .. ..
T Consensus 95 ~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~va~~v~V~Sr~~~~~~~~~~w~~~g~------------~~-~~ 161 (613)
T PRK05218 95 TIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGE------------GE-YT 161 (613)
T ss_pred hhccccchhHHHHhhcccccccccccccCcCchhhhhccCEEEEEEcCCCCCCceEEEEEeCC------------ce-eE
Confidence 222222 2211 11124568999999998889999999998755 3455555544 11 11
Q ss_pred cEEeccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhh-ccCCCcEEEEee
Q psy13360 512 IKIIGDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELS-FLNNGVCITLID 564 (1161)
Q Consensus 512 ~~~~g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA-~lnpgl~i~l~d 564 (1161)
+...+ ...+||+|+..+.++- ..-++...|...++.+| |+ +.-|.+++
T Consensus 162 i~~~~-~~~~GT~I~l~Lk~~~--~e~~e~~~i~~li~kys~~l--~~PI~~~~ 210 (613)
T PRK05218 162 IEEIE-KEERGTEITLHLKEDE--DEFLDEWRIRSIIKKYSDFI--PVPIKLEK 210 (613)
T ss_pred EeECC-CCCCCcEEEEEECcch--hhhcCHHHHHHHHHHHHhcC--CCCEEEec
Confidence 11111 1368999998754431 11146777888888888 33 22355544
No 76
>KOG1979|consensus
Probab=98.20 E-value=2.2e-06 Score=100.53 Aligned_cols=153 Identities=22% Similarity=0.297 Sum_probs=112.2
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCC---CCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGK---FNK 452 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~k---fd~ 452 (1161)
....++|+|.||+|.. ++.|.|.+..+| -+.|.|||.||--+..| +++.-++.+| |.|
T Consensus 28 P~NAlKEliENSLDA~----ST~I~V~vk~GGLKLlQisDnG~GI~reDl~-------------ilCeRftTSKL~kFED 90 (694)
T KOG1979|consen 28 PVNALKELIENSLDAN----STSIDVLVKDGGLKLLQISDNGSGIRREDLP-------------ILCERFTTSKLTKFED 90 (694)
T ss_pred hHHHHHHHHhccccCC----CceEEEEEecCCeEEEEEecCCCccchhhhH-------------HHHHHhhhhhcchhHH
Confidence 4667899999999966 789999998777 47899999999876664 4677888766 666
Q ss_pred CceeeecccccchhhHhhhhccEEEEEEE-eCCEE-EEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEEEeC
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTIN-RNKKI-HYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFWVD 530 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v~-r~g~~-~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~PD 530 (1161)
-.--.|=|+.|..++..--.. +..|+++ ++|+. |+..|.+|.| ..++ .++..+.||.|+..
T Consensus 91 L~~lsTyGFRGEALASiShVA-~VtV~TK~~~~~cayrasY~DGkm------------~~~p--KpcAgk~GT~I~ve-- 153 (694)
T KOG1979|consen 91 LFSLSTYGFRGEALASISHVA-HVTVTTKTAEGKCAYRASYRDGKM------------IATP--KPCAGKQGTIITVE-- 153 (694)
T ss_pred HHhhhhcCccHHHHhhhhhee-EEEEEEeecCceeeeEEEeecccc------------ccCC--CCccCCCceEEEeh--
Confidence 655667799999999876666 4445554 45554 9999999943 2222 23456889999965
Q ss_pred ccccc----------cCCCCHHHHHHHHHhhhccCCCcEEEEeec
Q psy13360 531 EKIFS----------NIEFHYEILKKRIRELSFLNNGVCITLIDE 565 (1161)
Q Consensus 531 ~~iF~----------~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~ 565 (1161)
..|= +..=++..|..-+-.+|.-||++.+.+.-.
T Consensus 154 -dLFYN~~~Rrkal~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~ 197 (694)
T KOG1979|consen 154 -DLFYNMPTRRKALRNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQ 197 (694)
T ss_pred -HhhccCHHHHHHhcCcHHHHHHHHHHHHHHheeCCCcceEEeec
Confidence 3331 112245568888889999999999988753
No 77
>PHA03383 PCNA-like protein; Provisional
Probab=98.07 E-value=0.00039 Score=77.84 Aligned_cols=192 Identities=15% Similarity=0.241 Sum_probs=141.4
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCC------CCcceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKF------SSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~------~~~~~viIP~k~L~eL 207 (1161)
++..|++++..+... ..-+.|+++++++.+.|.|.-+.+...+.++... +.+..+.|.-..+..+
T Consensus 14 ~a~~~K~iieai~~l---------v~e~~f~~t~~Gi~lqamD~shVaLv~l~L~~~~F~~Y~~d~~~~iGv~~~~l~KI 84 (262)
T PHA03383 14 QGSVIKSLFDVLKEI---------LHDVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEYHCDQTYEIGVNVSNMFKL 84 (262)
T ss_pred chHHHHHHHHHHHHH---------hceEEEEECCCcEEEEEECCCcEEEEEEEeCHHhCceEecCCceEEEEEHHHHHHH
Confidence 567788777777543 4559999999999999999999999988877532 2334677888888888
Q ss_pred HhhhcCCCCcEEEEE---eCcEEEEEECc------EEEEEeecCCCCCCccccccC-CcceEEEEeHHHHHHHHHHhhcc
Q psy13360 208 QRLLENKENPVELKI---SNNQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISII 277 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~---~~~~l~f~~~~------~~~~~rli~g~fPdy~~vip~-~~~~~i~v~r~~L~~aL~Rv~~~ 277 (1161)
+|...+ ++.+.+.. +++.+.|.+++ ..|..++++.+-+.+. +|. +++..++++..+|.++++-+..+
T Consensus 85 Lk~a~~-~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidi~~e~l~--iP~~e~~~~v~m~s~~f~~i~kdl~~i 161 (262)
T PHA03383 85 LRTAGS-HDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLIEIDSSRIE--VPDVEFDTIIILPSNYFQRLCRDMSNI 161 (262)
T ss_pred HhccCC-CCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEEEccccCcccCC--CCCCCccEEEEEEHHHHHHHHHHHHHc
Confidence 887754 56788875 34567666643 5699999998776652 355 88999999999999999999998
Q ss_pred ccCCcceEEEEEeCCEEEEEE---EcCCccccceeee------e-eeeCCccceeeechhhhh--hcccC-ccccccc
Q psy13360 278 SNDKLKGVRLVIKPNYLKITV---SSSNREKASEELE------I-NYNGKDKNFIKFLIKIML--LKNKN-SYDIQDT 342 (1161)
Q Consensus 278 s~~~~~~V~l~~~~~~L~isa---~d~~~g~~~E~i~------~-~~~Ge~~~ii~fn~~yLl--L~~~~-~d~i~l~ 342 (1161)
.+. |.+..+++.+.+++ +.++.|.++..+. + ....++.+ ..|..+||. .++.. ++.|++.
T Consensus 162 gD~----v~i~~~~~~v~f~~~~~~~Gd~~~~~~~~~~~~~~~v~~~~~~~~~-~~ysl~YL~~~~Ka~~ls~~V~i~ 234 (262)
T PHA03383 162 TDD----LEITKKGKEVSFRSDYTCVTDFASQETIIGDSDNGQITCNESPDYT-GKFSLKYLTSFTKASGMSSSVEIY 234 (262)
T ss_pred CCe----EEEEEeCCEEEEEEcccccccccceEEEecCCCCCceEEecCCceE-EEEeHHHHHHhhccccCCCeEEEE
Confidence 744 88888999999984 3345665544431 1 12345566 899999986 55543 6777773
No 78
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.89 E-value=0.0016 Score=73.17 Aligned_cols=190 Identities=15% Similarity=0.189 Sum_probs=137.6
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~------~~~~~~viIP~k~L~eL 207 (1161)
++..|+++++.+.. +..-+.|.+++++|.+.|.|..+.+...+.++.. .+++..+-|+-..|..+
T Consensus 8 ~a~~~k~i~eai~~---------lv~e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~~gv~l~~l~ki 78 (259)
T TIGR00590 8 QASLLKKILEAIKD---------LVNDANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTYRCDRNLALGVNLTSLSKI 78 (259)
T ss_pred cHHHHHHHHHHHHH---------HhceeeEEECCCeEEEEEEcCCcEEEEEEEcCHHhCceEecCCceEEEEEHHHHHHH
Confidence 34667777766643 3455899999999999999999999998887742 23345788999999999
Q ss_pred HhhhcCCCCcEEEEEeC--cEEEEEECc------EEEEEeecCCCCCCccccccC-CcceEEEEeHHHHHHHHHHhhccc
Q psy13360 208 QRLLENKENPVELKISN--NQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISIIS 278 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~~~--~~l~f~~~~------~~~~~rli~g~fPdy~~vip~-~~~~~i~v~r~~L~~aL~Rv~~~s 278 (1161)
+|.... ++.+.+..++ +.+.|.+++ ..|..++++.+-+.+ -+|. +++..++++..+|.++++-+..+.
T Consensus 79 Lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l--~iP~~e~~~~v~m~s~~f~~~~kdl~~v~ 155 (259)
T TIGR00590 79 LKCANN-EDIVTLKAEDNADTLILVFESPKQDKISDYELKLMDIDVEHL--GIPEQEYDCVVEMPSSEFARICRDLSQFS 155 (259)
T ss_pred HhccCC-CCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEEeeecccccC--CCCCCceeEEEEEEHHHHHHHHHHHHHcC
Confidence 998865 5668887655 567665542 458888988655443 2344 688999999999999999999875
Q ss_pred cCCcceEEEEEeCCEEEEEEEcCCccccceeeee-----------eee-CCccceeeechhhhh--hcccC-cccccc
Q psy13360 279 NDKLKGVRLVIKPNYLKITVSSSNREKASEELEI-----------NYN-GKDKNFIKFLIKIML--LKNKN-SYDIQD 341 (1161)
Q Consensus 279 ~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~-----------~~~-Ge~~~ii~fn~~yLl--L~~~~-~d~i~l 341 (1161)
+ .|.+..+++.+++++.+ +.|.++-.+.. +++ .++.. ..|..+||. .+... ++.|.+
T Consensus 156 d----~v~i~~~~~~~~f~~~G-d~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~y~l~YL~~~~Ka~~ls~~V~l 227 (259)
T TIGR00590 156 D----SVVISCTKEGVKFSAKG-DIGSGNVKLKQTSDTDKEEEAVTIEMKEPVT-LTFAIKYLNLFTKATPLSDRVTL 227 (259)
T ss_pred C----EEEEEEeCCEEEEEEEe-cccEEEEEEecCCCCCCCcceEEEEecCcee-eeeeHHHHHHhhhhccCCCeEEE
Confidence 3 38889999999999876 55655544432 222 23445 789999986 55443 566766
No 79
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=97.87 E-value=0.0018 Score=72.73 Aligned_cols=190 Identities=13% Similarity=0.147 Sum_probs=137.1
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCC------CCcceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKF------SSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~------~~~~~viIP~k~L~eL 207 (1161)
++..|+++++.....+ .=+.|++++++|.+.|.|..+.+...+.++... +.+..+-|.-..+..+
T Consensus 8 ~a~~~k~i~~ai~~lv---------de~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~eY~~d~~~~~gv~l~~l~ki 78 (263)
T PLN00057 8 QGSLLKKVLEAIKDLV---------SDANFDCSETGLSLQAMDSSHVALVALLLRADGFEHYRCDRNLSMGINLANMSKI 78 (263)
T ss_pred chHHHHHHHHHHHHHh---------heeEEEEcCCeEEEEEEcCCcEEEEEEEeChhcCeEEecCCceEEEEEHHHHHHH
Confidence 3466777776665443 448999999999999999999999988877531 2345688999999999
Q ss_pred HhhhcCCCCcEEEEEeC--cEEEEEECc------EEEEEeecCCCCCCccccccC-CcceEEEEeHHHHHHHHHHhhccc
Q psy13360 208 QRLLENKENPVELKISN--NQIKIIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISIIS 278 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~~~--~~l~f~~~~------~~~~~rli~g~fPdy~~vip~-~~~~~i~v~r~~L~~aL~Rv~~~s 278 (1161)
++.... ++.+.+..++ +.+.|.+++ ..|..++++.+-+.++ +|. +++..+.++..+|.++++-+..++
T Consensus 79 Lk~~~~-~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~--iP~~e~~~~v~m~s~~f~~~~kdl~~vs 155 (263)
T PLN00057 79 LKCAGN-DDIITIKADDGGDTVTFMFESPKQDRISDFELKLMDIDSEHLG--IPETEYSAIVRMPSAEFQRICKDLSSIG 155 (263)
T ss_pred HhccCC-CCEEEEEecCCCCEEEEEEEcCCCceEEEEEEEeeecCcccCC--CCCCceeEEEEEEHHHHHHHHHHHHHcC
Confidence 888764 5568887654 456665543 4588899997655442 344 788999999999999999999875
Q ss_pred cCCcceEEEEEeCCEEEEEEEcCCccccceeee-----------eee-eCCccceeeechhhhh--hcccC-cccccc
Q psy13360 279 NDKLKGVRLVIKPNYLKITVSSSNREKASEELE-----------INY-NGKDKNFIKFLIKIML--LKNKN-SYDIQD 341 (1161)
Q Consensus 279 ~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~-----------~~~-~Ge~~~ii~fn~~yLl--L~~~~-~d~i~l 341 (1161)
+ .|.+..+++.+++++.+ +.|.+.-.+. +.+ ..++.. ..|..+||. .++.. ++.|.+
T Consensus 156 d----~v~i~~~~~~~~f~~~G-d~g~~~~~l~~~~~~~~~~~~~~i~~~e~~~-~~y~l~YL~~~~Ka~~ls~~V~i 227 (263)
T PLN00057 156 D----TVVISVTKEGVKFSTSG-DIGTANIVLRQNTTVDKPEEKTVIEMQEPVS-LTFALRYLNSFTKATPLSDTVTL 227 (263)
T ss_pred C----EEEEEEeCCEEEEEEEe-cCcEEEEEEecCCCCCCccceEEEEecCceE-EEEhHHHHHHhhccccCCCeEEE
Confidence 3 48889999999999876 5555443332 112 234455 889999986 55543 566766
No 80
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=97.85 E-value=0.0017 Score=73.10 Aligned_cols=190 Identities=15% Similarity=0.198 Sum_probs=138.6
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCCC------CCcceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKF------SSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~------~~~~~viIP~k~L~eL 207 (1161)
++..|++++..+.. ++.=+.|.++++++.+.|.|.-+.+...+.++... +.+..+-|....+..+
T Consensus 8 ~a~~~K~i~eal~~---------lv~e~~f~~t~~Gi~lqamD~shVaLv~l~l~~~~FeeY~cd~~~~lGvn~~~l~KI 78 (275)
T PTZ00113 8 NASVLRRLFECIKD---------LVSDGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHYRCDRERALGINIASVTKV 78 (275)
T ss_pred cHHHHHHHHHHHHH---------HhceEEEEECCCeEEEEEECCCcEEEEEEEeCHHhCeEEecCCCcEEEEEHHHHHHH
Confidence 44677777766653 45669999999999999999999999988876532 2345788998888888
Q ss_pred HhhhcCCCCcEEEEEe--CcEEEEEECc------EEEEEeecCCCCCCccccccC---CcceEEEEeHHHHHHHHHHhhc
Q psy13360 208 QRLLENKENPVELKIS--NNQIKIIFSN------IEIISKLIDGKFLDYKYVISN---KYEKSFLVNRNKLLRSLQRISI 276 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~~--~~~l~f~~~~------~~~~~rli~g~fPdy~~vip~---~~~~~i~v~r~~L~~aL~Rv~~ 276 (1161)
+|...+ ++.+++..+ ++.+.|.+++ ..|..++++.+-+.+ =+|. +++..++++..+|.++++-+..
T Consensus 79 Lk~~~~-~D~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~di~~e~~--~iPe~~~e~~~~v~m~s~~f~~i~rdl~~ 155 (275)
T PTZ00113 79 FKLCSN-NDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMSIEQDAL--SIPENEEGFDAEVTLSSKELTNICRQMNE 155 (275)
T ss_pred HHhCCC-CCEEEEEEcCCCCEEEEEEEcCCCceEEEEEEEccccCcccc--CCCCCCCCccEEEEEEHHHHHHHHHHHHH
Confidence 888754 567888763 4567776654 348899998654333 2443 5899999999999999999999
Q ss_pred cccCCcceEEEEEeCCEEEEEEEcCCccccceeee-------------eeeeCCccceeeechhhhh--hcccC-ccccc
Q psy13360 277 ISNDKLKGVRLVIKPNYLKITVSSSNREKASEELE-------------INYNGKDKNFIKFLIKIML--LKNKN-SYDIQ 340 (1161)
Q Consensus 277 ~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~-------------~~~~Ge~~~ii~fn~~yLl--L~~~~-~d~i~ 340 (1161)
+.+. |.+..+++.+++++.+ +.|.++-.+. ++. .++.. ..|..+||. .++.. ++.|+
T Consensus 156 vgd~----V~i~~~~~~v~f~a~G-d~g~~~i~l~~~~~~~~~~~~~~~~v-~~~~~-~~ysl~YL~~f~Ka~~ls~~V~ 228 (275)
T PTZ00113 156 FSDT----VKIEIDSNSIKFTTQG-DLGDGEVVLKPRPPTSEDDCGVTIKV-RKPIK-QSYATKYLNMFAKSGCLSDVVT 228 (275)
T ss_pred cCCE----EEEEEeCCEEEEEEec-cCcEEEEEEecCCCCCCccceEEEEe-cCcee-eEEhHHHHHHhhccccCCCeEE
Confidence 9743 8889999999999775 6666554442 221 23445 889999986 55543 57777
Q ss_pred cc
Q psy13360 341 DT 342 (1161)
Q Consensus 341 l~ 342 (1161)
+.
T Consensus 229 l~ 230 (275)
T PTZ00113 229 LG 230 (275)
T ss_pred EE
Confidence 73
No 81
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=97.79 E-value=0.0026 Score=71.36 Aligned_cols=193 Identities=11% Similarity=0.191 Sum_probs=138.4
Q ss_pred EEEcHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCC------CCCcceEEEehhhH
Q psy13360 131 FTLSQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTV 204 (1161)
Q Consensus 131 ~~i~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~------~~~~~~viIP~k~L 204 (1161)
..+++..|++++..+.. +..=+.|+++++++.+.|.|.-+.+...+.++.. .+.+..+-|.-..+
T Consensus 4 a~~~a~~lK~i~eai~~---------lv~e~~f~~~e~Gi~lqAmD~shVaLV~l~L~~~~Fe~Y~cd~~~~lGinl~~l 74 (264)
T PTZ00483 4 CRLDGMFLRRLFETLKD---------ICTDVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLYRCDKPCVLGLNISFM 74 (264)
T ss_pred EEEeHHHHHHHHHHHHH---------HhheeEEEECCCcEEEEEECCCcEEEEEEEcCHHhCeEEecCCCeEEEEEHHHH
Confidence 34567778777777653 4456999999999999999999999998887743 12334678998888
Q ss_pred HHHHhhhcCCCCcEEEEEe--C--cEEEEEE-Cc----------EEEEEeecCCCCCCccccccC-CcceEEEEeHHHHH
Q psy13360 205 FTLQRLLENKENPVELKIS--N--NQIKIIF-SN----------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLL 268 (1161)
Q Consensus 205 ~eL~klL~~~~~~V~i~~~--~--~~l~f~~-~~----------~~~~~rli~g~fPdy~~vip~-~~~~~i~v~r~~L~ 268 (1161)
..++|...+ ++.+++... + ..+.+.. +. ..|..+|++-+-+.+ -+|. +++..++++..+|.
T Consensus 75 ~KiLk~a~~-~D~l~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~f~l~Lidi~~e~l--~iP~~e~~~~v~m~s~~f~ 151 (264)
T PTZ00483 75 LKILSVVKE-KSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLEAQVKLINVQREHL--EIPQCEYHCKCVMNSKKFQ 151 (264)
T ss_pred HHHHhhcCC-CCEEEEEeccCCCCceEEEEEeccccccccccceEEEEEEccccCcccC--CCCCCCccEEEEEEHHHHH
Confidence 888888765 556877632 2 2233322 11 259999999765544 2444 88999999999999
Q ss_pred HHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeee-------eeeeCCccceeeechhhhh--hcccC-ccc
Q psy13360 269 RSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELE-------INYNGKDKNFIKFLIKIML--LKNKN-SYD 338 (1161)
Q Consensus 269 ~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~-------~~~~Ge~~~ii~fn~~yLl--L~~~~-~d~ 338 (1161)
++++=++.+++. |.+..+++++++++.+ +.|.+.-.+. ++ ..++.. ..|..+||. .++.. ++.
T Consensus 152 ~i~kdl~~vsD~----v~i~~~~~~v~f~a~G-d~~~~~~~l~~~~~~v~~~-~~~~v~-~~fsl~YL~~f~Ka~~lsd~ 224 (264)
T PTZ00483 152 EFAKYLHSIGDT----VSISMKKDEMRLETEG-EGIKASKQFHNDVGDVRVT-STESLS-QEFATRYLVLFSKATSLADE 224 (264)
T ss_pred HHHHHHHHcCCE----EEEEEECCEEEEEEee-cCcEEEEEEccCCCceEEE-ecCcch-heehHHHHHHhhccccCCCe
Confidence 999999999744 8889999999999876 5665554432 22 234555 789999976 55543 677
Q ss_pred cccc
Q psy13360 339 IQDT 342 (1161)
Q Consensus 339 i~l~ 342 (1161)
|++.
T Consensus 225 V~i~ 228 (264)
T PTZ00483 225 VSIN 228 (264)
T ss_pred EEEE
Confidence 7773
No 82
>TIGR00590 pcna proliferating cell nuclear antigen (pcna). All proteins in this family for which functions are known form sliding DNA clamps that are used in DNA replication processes. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.79 E-value=0.0082 Score=67.44 Aligned_cols=202 Identities=12% Similarity=0.129 Sum_probs=133.6
Q ss_pred HHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEE--Eeeecc-----cCCceEEEEechhHHHHH
Q psy13360 9 KNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITT--YTAVGY-----GNSSINIIVAARKFIDIL 81 (1161)
Q Consensus 9 k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~--~i~a~~-----~~~~G~v~V~ak~l~~Iv 81 (1161)
...|.+.+..+..++ ..+.|++.+++|.+.|.|..-.+.. .++.+. ++.+-.+.|+-..|.+++
T Consensus 9 a~~~k~i~eai~~lv---------~e~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~~gv~l~~l~kiL 79 (259)
T TIGR00590 9 ASLLKKILEAIKDLV---------NDANFDCSESGISLQAMDSSHVSLVSLTLRSEGFDTYRCDRNLALGVNLTSLSKIL 79 (259)
T ss_pred HHHHHHHHHHHHHHh---------ceeeEEECCCeEEEEEEcCCcEEEEEEEcCHHhCceEecCCceEEEEEHHHHHHHH
Confidence 356777777777665 6788999999999999997654443 444321 234457899999999999
Q ss_pred hcCCCCccEEEEEe--CcEEEEEECc------EEEEEccCCC-CCCCCccCCCCcceEEEEcHHHHHHHHHhhccccccc
Q psy13360 82 RSLPETEKVTIYIE--NKHMFIKSGK------SKFTLQTLDA-KEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQ 152 (1161)
Q Consensus 82 k~Lp~~~~I~ie~~--~~~l~I~sG~------~~~~l~~~~~-edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~ 152 (1161)
|....++.++++.+ ++.+.|..+. .+|+|+.++. .+-+.+|.. +....+.++++.|.++++.... ++..
T Consensus 80 k~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~-e~~~~v~m~s~~f~~~~kdl~~-v~d~ 157 (259)
T TIGR00590 80 KCANNEDIVTLKAEDNADTLILVFESPKQDKISDYELKLMDIDVEHLGIPEQ-EYDCVVEMPSSEFARICRDLSQ-FSDS 157 (259)
T ss_pred hccCCCCEEEEEecCCCCEEEEEEEcCCCCeEEEEEEEeeecccccCCCCCC-ceeEEEEEEHHHHHHHHHHHHH-cCCE
Confidence 99998777888754 4677775432 4599998876 333444543 3578899999999999999863 3321
Q ss_pred ccccceeeEEEEEECCEEEEEEecceE-EEEEEEecCC-----------CCCCcceEEEehhhHHHHHhhhcCCCCcEEE
Q psy13360 153 DIRYYLNGLLLSFQKKNIIAVSSDGHR-LTYYQVNIDK-----------KFSSCSDIIIPRKTVFTLQRLLENKENPVEL 220 (1161)
Q Consensus 153 ~trpiL~GV~~~~~~~~L~lvATDg~R-La~~~i~~~~-----------~~~~~~~viIP~k~L~eL~klL~~~~~~V~i 220 (1161)
|.|..+++.+.+.|.- .. -+...++... ...++.....+.+.|..+.|..+- ...|+|
T Consensus 158 --------v~i~~~~~~~~f~~~G-d~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~y~l~YL~~~~Ka~~l-s~~V~l 227 (259)
T TIGR00590 158 --------VVISCTKEGVKFSAKG-DIGSGNVKLKQTSDTDKEEEAVTIEMKEPVTLTFAIKYLNLFTKATPL-SDRVTL 227 (259)
T ss_pred --------EEEEEeCCEEEEEEEe-cccEEEEEEecCCCCCCCcceEEEEecCceeeeeeHHHHHHhhhhccC-CCeEEE
Confidence 5566666666655532 11 0111111110 111234566788889999887653 457999
Q ss_pred EEeCcE---EEEEE
Q psy13360 221 KISNNQ---IKIIF 231 (1161)
Q Consensus 221 ~~~~~~---l~f~~ 231 (1161)
.++.+. +.|..
T Consensus 228 ~~~~~~Pl~l~y~i 241 (259)
T TIGR00590 228 SMSNDVPLVVEYKI 241 (259)
T ss_pred EEcCCCCEEEEEEe
Confidence 998876 44444
No 83
>PRK14083 HSP90 family protein; Provisional
Probab=97.78 E-value=4.9e-05 Score=94.00 Aligned_cols=159 Identities=19% Similarity=0.232 Sum_probs=101.8
Q ss_pred cchhHHhHHHhhHhhhcC------CCCCeEEEEE-ec-CCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCC
Q psy13360 378 LHHFVFEILDNAIDESLA------GYCTKINVTI-YS-DNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGK 449 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~------g~~~~I~V~i-~~-dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~k 449 (1161)
-.+.+.|+|.||.|.... +....|.|++ +. .+.++|.|||.|++.+.... .++.+-+++|
T Consensus 24 ~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~d~~~~~l~I~DnGiGmt~eel~~------------~l~~ig~S~k 91 (601)
T PRK14083 24 PRVYVRELLQNAVDAITARRALDPTAPGRIRIELTDAGGGTLIVEDNGIGLTEEEVHE------------FLATIGRSSK 91 (601)
T ss_pred cHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEccCCCcEEEEEeCCCCCCHHHHHH------------HHhhhccchh
Confidence 478899999999998643 1234788988 44 46899999999999876654 4555556666
Q ss_pred CCCC---ceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEEEEc-CccccccccccCCccccCcEEe-ccCCCCCcE
Q psy13360 450 FNKN---SYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYMEFRY-GVLQNRIIKTINGISVSPIKII-GDTNKQGTK 524 (1161)
Q Consensus 450 fd~~---~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~f~~-G~~~~~~~~~~~~~~~~~~~~~-g~~~~~GT~ 524 (1161)
-+.. .-.--.|..|||...+=++++..+|.++..|......|+. | ...-.+... +....+||+
T Consensus 92 ~~~~~~~~~~~~IG~FGIGf~S~F~vad~v~V~Tr~~~~~~~~~W~~~~------------~g~y~i~~~~~~~~~~GT~ 159 (601)
T PRK14083 92 RDENLGFARNDFLGQFGIGLLSCFLVADEIVVVSRSAKDGPAVEWRGKA------------DGTYSVRKLETERAEPGTT 159 (601)
T ss_pred hhhhhcccccccccccccceEEEEEecCEEEEEeccCCCCceEEEEECC------------CCceEEEeCCCCCCCCCCE
Confidence 4321 1112459999999999999999999987753223334432 2 111111111 234579999
Q ss_pred EEEEe--CccccccCCCCHHHHHHHHHhhhccCCCcEEEEeec
Q psy13360 525 IHFWV--DEKIFSNIEFHYEILKKRIRELSFLNNGVCITLIDE 565 (1161)
Q Consensus 525 V~F~P--D~~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~ 565 (1161)
|+..+ |..-| ++.+.+.+-++.++-.- ..-|+++++
T Consensus 160 I~L~l~~d~~~~----~~~~~i~~li~~ys~~i-~~pI~l~~~ 197 (601)
T PRK14083 160 VYLRPRPDAEEW----LERETVEELAKKYGSLL-PVPIRVEGE 197 (601)
T ss_pred EEEEecCchhhh----ccHHHHHHHHHHHhccC-CCCcccCCc
Confidence 99885 33333 45666776666665322 345666653
No 84
>PTZ00113 proliferating cell nuclear antigen; Provisional
Probab=97.76 E-value=0.011 Score=66.57 Aligned_cols=210 Identities=12% Similarity=0.072 Sum_probs=136.0
Q ss_pred eEEEc-cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEE--EEeeecc-----cCCceEEEEec
Q psy13360 3 LVVNT-EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQIT--TYTAVGY-----GNSSINIIVAA 74 (1161)
Q Consensus 3 ~~v~i-~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~--~~i~a~~-----~~~~G~v~V~a 74 (1161)
|.+.+ +...|.+++..+..++ ..+.|++.+++|.+.|.|..-..- ..++.+. ++.+-++.|+-
T Consensus 2 fea~~~~a~~~K~i~eal~~lv---------~e~~f~~t~~Gi~lqamD~shVaLv~l~l~~~~FeeY~cd~~~~lGvn~ 72 (275)
T PTZ00113 2 LEAKLNNASVLRRLFECIKDLV---------SDGNIDFDETGLKLQALDGNHVALVHLKLHDSGFSHYRCDRERALGINI 72 (275)
T ss_pred eEEEeccHHHHHHHHHHHHHHh---------ceEEEEECCCeEEEEEECCCcEEEEEEEeCHHhCeEEecCCCcEEEEEH
Confidence 33344 3467777788887666 678899999999999999753332 3444432 33455788999
Q ss_pred hhHHHHHhcCCCCccEEEEE--eCcEEEEEECc------EEEEEccCCCCC-CCCccCCC-CcceEEEEcHHHHHHHHHh
Q psy13360 75 RKFIDILRSLPETEKVTIYI--ENKHMFIKSGK------SKFTLQTLDAKE-YPIMTLNS-KYDFEFTLSQKTLKCILNM 144 (1161)
Q Consensus 75 k~l~~Ivk~Lp~~~~I~ie~--~~~~l~I~sG~------~~~~l~~~~~ed-fP~~~~~~-~~~~~~~i~~~~L~~aI~~ 144 (1161)
..|..|+|....++.++++. +++.+.|...+ ++|.++.++.+. -+.+|... +....+.+++..|+++++.
T Consensus 73 ~~l~KILk~~~~~D~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~L~di~~e~~~iPe~~~e~~~~v~m~s~~f~~i~rd 152 (275)
T PTZ00113 73 ASVTKVFKLCSNNDSVLIQSEEDKDNINFVFENNVEDKVSSFSLKLMSIEQDALSIPENEEGFDAEVTLSSKELTNICRQ 152 (275)
T ss_pred HHHHHHHHhCCCCCEEEEEEcCCCCEEEEEEEcCCCceEEEEEEEccccCccccCCCCCCCCccEEEEEEHHHHHHHHHH
Confidence 99999999999887899875 35677776543 348888887643 23455431 4578899999999999998
Q ss_pred hcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecC-----------CCCCCcceEEEehhhHHHHHhhhcC
Q psy13360 145 VYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNID-----------KKFSSCSDIIIPRKTVFTLQRLLEN 213 (1161)
Q Consensus 145 v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~-----------~~~~~~~~viIP~k~L~eL~klL~~ 213 (1161)
....-.. |-|.++++.+.+.|.--.--+...+... -..+++.....+.++|..+.|.-+-
T Consensus 153 l~~vgd~---------V~i~~~~~~v~f~a~Gd~g~~~i~l~~~~~~~~~~~~~~~~v~~~~~~~ysl~YL~~f~Ka~~l 223 (275)
T PTZ00113 153 MNEFSDT---------VKIEIDSNSIKFTTQGDLGDGEVVLKPRPPTSEDDCGVTIKVRKPIKQSYATKYLNMFAKSGCL 223 (275)
T ss_pred HHHcCCE---------EEEEEeCCEEEEEEeccCcEEEEEEecCCCCCCccceEEEEecCceeeEEhHHHHHHhhccccC
Confidence 7543321 5555555555555431111111111100 0112334678889999999886543
Q ss_pred CCCcEEEEEeCcE---EEEEE
Q psy13360 214 KENPVELKISNNQ---IKIIF 231 (1161)
Q Consensus 214 ~~~~V~i~~~~~~---l~f~~ 231 (1161)
.+.|+|+++.+. +.|..
T Consensus 224 -s~~V~l~l~~d~Pl~ley~i 243 (275)
T PTZ00113 224 -SDVVTLGLSDNRPIEVKYEI 243 (275)
T ss_pred -CCeEEEEEcCCCCEEEEEEe
Confidence 457999998875 44555
No 85
>PLN00057 proliferating cell nuclear antigen; Provisional
Probab=97.73 E-value=0.012 Score=66.29 Aligned_cols=203 Identities=11% Similarity=0.134 Sum_probs=135.4
Q ss_pred cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEE--Eeeecc-----cCCceEEEEechhHHHH
Q psy13360 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITT--YTAVGY-----GNSSINIIVAARKFIDI 80 (1161)
Q Consensus 8 ~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~--~i~a~~-----~~~~G~v~V~ak~l~~I 80 (1161)
+.+.|.+.+..+..++ ..+.|++.+++|.+.|.|..-.+.. .++.+. ++.+-.+.|+-..|..+
T Consensus 8 ~a~~~k~i~~ai~~lv---------de~~~~~t~~Gi~~~amD~s~Valv~l~l~~~~F~eY~~d~~~~~gv~l~~l~ki 78 (263)
T PLN00057 8 QGSLLKKVLEAIKDLV---------SDANFDCSETGLSLQAMDSSHVALVALLLRADGFEHYRCDRNLSMGINLANMSKI 78 (263)
T ss_pred chHHHHHHHHHHHHHh---------heeEEEEcCCeEEEEEEcCCcEEEEEEEeChhcCeEEecCCceEEEEEHHHHHHH
Confidence 3467777787777766 6688999999999999998755543 344321 23345788999999999
Q ss_pred HhcCCCCccEEEEEe--CcEEEEEECc------EEEEEccCCC-CCCCCccCCCCcceEEEEcHHHHHHHHHhhcccccc
Q psy13360 81 LRSLPETEKVTIYIE--NKHMFIKSGK------SKFTLQTLDA-KEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQ 151 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~--~~~l~I~sG~------~~~~l~~~~~-edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~ 151 (1161)
+|....++.++++.+ ++.+.|..+. .+|+|+.++. .+-+.+|.. +....+.++++.|.++++.... ++.
T Consensus 79 Lk~~~~~d~l~l~~~~~~~~l~i~~~~~~~~~~~~f~l~l~d~~~e~l~iP~~-e~~~~v~m~s~~f~~~~kdl~~-vsd 156 (263)
T PLN00057 79 LKCAGNDDIITIKADDGGDTVTFMFESPKQDRISDFELKLMDIDSEHLGIPET-EYSAIVRMPSAEFQRICKDLSS-IGD 156 (263)
T ss_pred HhccCCCCEEEEEecCCCCEEEEEEEcCCCceEEEEEEEeeecCcccCCCCCC-ceeEEEEEEHHHHHHHHHHHHH-cCC
Confidence 999998778888754 4677775433 4599999877 333444443 4578899999999999999863 332
Q ss_pred cccccceeeEEEEEECCEEEEEEec-ceEEEEEEEecCC-----------CCCCcceEEEehhhHHHHHhhhcCCCCcEE
Q psy13360 152 QDIRYYLNGLLLSFQKKNIIAVSSD-GHRLTYYQVNIDK-----------KFSSCSDIIIPRKTVFTLQRLLENKENPVE 219 (1161)
Q Consensus 152 ~~trpiL~GV~~~~~~~~L~lvATD-g~RLa~~~i~~~~-----------~~~~~~~viIP~k~L~eL~klL~~~~~~V~ 219 (1161)
-|.|+.+++.+.+.|.- .-. +...++... ...++.....+.+.|..+.|..+- .+.|+
T Consensus 157 --------~v~i~~~~~~~~f~~~Gd~g~-~~~~l~~~~~~~~~~~~~~i~~~e~~~~~y~l~YL~~~~Ka~~l-s~~V~ 226 (263)
T PLN00057 157 --------TVVISVTKEGVKFSTSGDIGT-ANIVLRQNTTVDKPEEKTVIEMQEPVSLTFALRYLNSFTKATPL-SDTVT 226 (263)
T ss_pred --------EEEEEEeCCEEEEEEEecCcE-EEEEEecCCCCCCccceEEEEecCceEEEEhHHHHHHhhccccC-CCeEE
Confidence 25566666666555542 111 111111010 112234677888889999887653 45799
Q ss_pred EEEeCcE---EEEEE
Q psy13360 220 LKISNNQ---IKIIF 231 (1161)
Q Consensus 220 i~~~~~~---l~f~~ 231 (1161)
|+++.+. +.|..
T Consensus 227 i~~~~~~Pl~l~y~l 241 (263)
T PLN00057 227 LSLSKELPVVVEYKI 241 (263)
T ss_pred EEEcCCCCEEEEEEe
Confidence 9998876 44555
No 86
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
Probab=97.57 E-value=0.00016 Score=66.63 Aligned_cols=85 Identities=27% Similarity=0.451 Sum_probs=58.4
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|.+++.|+++||++.... ....|.|.+..++ .|.|.|+|+|+|....+. .+..+ ....
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~~~~v~i~d~g~g~~~~~~~~------------~~~~~------~~~~ 61 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGDHLEIRVEDNGPGIPEEDLER------------IFERF------SDGS 61 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCCEEEEEEEeCCCCCCHHHHHH------------Hhhhh------hcCC
Confidence 568999999999988764 2356777777653 588999999998765543 11111 1122
Q ss_pred eeeecccccchhhHhhhhcc----EEEEEEE
Q psy13360 455 YKISGGLHGIGLSCVNGLSR----FLQLTIN 481 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~----~~~V~v~ 481 (1161)
.+...+.+|.|+++++.++. .|.+...
T Consensus 62 ~~~~~~~~g~gl~~~~~~~~~~~g~~~~~~~ 92 (103)
T cd00075 62 RSRKGGGTGLGLSIVKKLVELHGGRIEVESE 92 (103)
T ss_pred CCCCCCccccCHHHHHHHHHHcCCEEEEEeC
Confidence 33455679999999999998 4555443
No 87
>PHA03383 PCNA-like protein; Provisional
Probab=97.46 E-value=0.036 Score=62.28 Aligned_cols=203 Identities=11% Similarity=0.073 Sum_probs=135.1
Q ss_pred cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEE--EEeeecc-----cCCceEEEEechhHHHH
Q psy13360 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQIT--TYTAVGY-----GNSSINIIVAARKFIDI 80 (1161)
Q Consensus 8 ~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~--~~i~a~~-----~~~~G~v~V~ak~l~~I 80 (1161)
+...|.+.++.++.++ ..+.+++.+++|.+.|.|..-..- ..++.+. ++.+-++.|+-..|..|
T Consensus 14 ~a~~~K~iieai~~lv---------~e~~f~~t~~Gi~lqamD~shVaLv~l~L~~~~F~~Y~~d~~~~iGv~~~~l~KI 84 (262)
T PHA03383 14 QGSVIKSLFDVLKEIL---------HDVNIFFRPTGVYISALDGAKVSLVHMKLDAESFEEYHCDQTYEIGVNVSNMFKL 84 (262)
T ss_pred chHHHHHHHHHHHHHh---------ceEEEEECCCcEEEEEECCCcEEEEEEEeCHHhCceEecCCceEEEEEHHHHHHH
Confidence 5667778888887766 678899999999999999754333 3444422 33444688999999999
Q ss_pred HhcCCCCccEEEEE---eCcEEEEEECc------EEEEEccCCCCC-CCCccCCCCcceEEEEcHHHHHHHHHhhccccc
Q psy13360 81 LRSLPETEKVTIYI---ENKHMFIKSGK------SKFTLQTLDAKE-YPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIA 150 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~---~~~~l~I~sG~------~~~~l~~~~~ed-fP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s 150 (1161)
+|....++.++++. +++.+.|...+ ++|+|+.++.+. -+.+|.. +....+.++++.|+++++.....-.
T Consensus 85 Lk~a~~~D~l~l~~~~~~~~~l~i~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~-e~~~~v~m~s~~f~~i~kdl~~igD 163 (262)
T PHA03383 85 LRTAGSHDSILFRYLKNSPHFLEITIQNFEKNSLTKFQLKLIEIDSSRIEVPDV-EFDTIIILPSNYFQRLCRDMSNITD 163 (262)
T ss_pred HhccCCCCEEEEEecCCCCCEEEEEEEeCCCCcEEEEEEEccccCcccCCCCCC-CccEEEEEEHHHHHHHHHHHHHcCC
Confidence 99999887889874 35577765432 579999886643 1223332 4678999999999999998854321
Q ss_pred ccccccceeeEEEEEECCEEEEEE---ecceEEEEEEEecCC--------CCCCcceEEEehhhHHHHHhhhcCCCCcEE
Q psy13360 151 QQDIRYYLNGLLLSFQKKNIIAVS---SDGHRLTYYQVNIDK--------KFSSCSDIIIPRKTVFTLQRLLENKENPVE 219 (1161)
Q Consensus 151 ~~~trpiL~GV~~~~~~~~L~lvA---TDg~RLa~~~i~~~~--------~~~~~~~viIP~k~L~eL~klL~~~~~~V~ 219 (1161)
-|.|..+++.+.+.+ +.|.. ....+.+.. ...++.....+.++|..+.|..+- .+.|+
T Consensus 164 ---------~v~i~~~~~~v~f~~~~~~~Gd~-~~~~~~~~~~~~~~v~~~~~~~~~~~ysl~YL~~~~Ka~~l-s~~V~ 232 (262)
T PHA03383 164 ---------DLEITKKGKEVSFRSDYTCVTDF-ASQETIIGDSDNGQITCNESPDYTGKFSLKYLTSFTKASGM-SSSVE 232 (262)
T ss_pred ---------eEEEEEeCCEEEEEEcccccccc-cceEEEecCCCCCceEEecCCceEEEEeHHHHHHhhccccC-CCeEE
Confidence 266666677777663 33332 111111100 012234678888999999986543 45799
Q ss_pred EEEeCcE---EEEEE
Q psy13360 220 LKISNNQ---IKIIF 231 (1161)
Q Consensus 220 i~~~~~~---l~f~~ 231 (1161)
|+++.+. +.|..
T Consensus 233 i~l~~d~Pl~ley~i 247 (262)
T PHA03383 233 IYLKESNPLILKYNV 247 (262)
T ss_pred EEEcCCCCEEEEEEe
Confidence 9988775 44444
No 88
>PTZ00483 proliferating cell nuclear antigen; Provisional
Probab=97.42 E-value=0.039 Score=61.99 Aligned_cols=207 Identities=7% Similarity=0.070 Sum_probs=126.3
Q ss_pred eEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEE--EEeeecc-----cCCceEEEEech
Q psy13360 3 LVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQIT--TYTAVGY-----GNSSINIIVAAR 75 (1161)
Q Consensus 3 ~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~--~~i~a~~-----~~~~G~v~V~ak 75 (1161)
|...++...|.+.+..++.++ ..+.|++.+++|.+.|.|..-..- ..++.+. ++.+-++.|+-.
T Consensus 2 fea~~~a~~lK~i~eai~~lv---------~e~~f~~~e~Gi~lqAmD~shVaLV~l~L~~~~Fe~Y~cd~~~~lGinl~ 72 (264)
T PTZ00483 2 FECRLDGMFLRRLFETLKDIC---------TDVSIDCSENGLKMQAMDNSHISLIHLNLAPDFFQLYRCDKPCVLGLNIS 72 (264)
T ss_pred eEEEEeHHHHHHHHHHHHHHh---------heeEEEECCCcEEEEEECCCcEEEEEEEcCHHhCeEEecCCCeEEEEEHH
Confidence 445556677777788887666 678899999999999999754333 3444321 334446889999
Q ss_pred hHHHHHhcCCCCccEEEEE-e---CcEEEEEE-Cc----------EEEEEccCCCCC-CCCccCCCCcceEEEEcHHHHH
Q psy13360 76 KFIDILRSLPETEKVTIYI-E---NKHMFIKS-GK----------SKFTLQTLDAKE-YPIMTLNSKYDFEFTLSQKTLK 139 (1161)
Q Consensus 76 ~l~~Ivk~Lp~~~~I~ie~-~---~~~l~I~s-G~----------~~~~l~~~~~ed-fP~~~~~~~~~~~~~i~~~~L~ 139 (1161)
.|..|+|...+++.++++. + +..+.|+. +. +.|+|+.++.+. -+.+|.. ++...+.+++..|.
T Consensus 73 ~l~KiLk~a~~~D~l~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~f~l~Lidi~~e~l~iP~~-e~~~~v~m~s~~f~ 151 (264)
T PTZ00483 73 FMLKILSVVKEKSTIYLFRGDNTEDPVLNIRIIEEEGQNSLESDSLEAQVKLINVQREHLEIPQC-EYHCKCVMNSKKFQ 151 (264)
T ss_pred HHHHHHhhcCCCCEEEEEeccCCCCceEEEEEeccccccccccceEEEEEEccccCcccCCCCCC-CccEEEEEEHHHHH
Confidence 9999999999887788863 2 23355432 11 258888887643 2344443 46789999999999
Q ss_pred HHHHhhcccccccccccceeeEEEEEECCE--EEEEEecceEEEEEEEecCCCCCCcceEEEehhhHHHHHhhhcCCCCc
Q psy13360 140 CILNMVYFSIAQQDIRYYLNGLLLSFQKKN--IIAVSSDGHRLTYYQVNIDKKFSSCSDIIIPRKTVFTLQRLLENKENP 217 (1161)
Q Consensus 140 ~aI~~v~~a~s~~~trpiL~GV~~~~~~~~--L~lvATDg~RLa~~~i~~~~~~~~~~~viIP~k~L~eL~klL~~~~~~ 217 (1161)
++++.....-..=.-.--=.+|.|..+++. ..+.-+..... ..+.+ +++.....+.++|..+.|..+- .+.
T Consensus 152 ~i~kdl~~vsD~v~i~~~~~~v~f~a~Gd~~~~~~~l~~~~~~--v~~~~----~~~v~~~fsl~YL~~f~Ka~~l-sd~ 224 (264)
T PTZ00483 152 EFAKYLHSIGDTVSISMKKDEMRLETEGEGIKASKQFHNDVGD--VRVTS----TESLSQEFATRYLVLFSKATSL-ADE 224 (264)
T ss_pred HHHHHHHHcCCEEEEEEECCEEEEEEeecCcEEEEEEccCCCc--eEEEe----cCcchheehHHHHHHhhccccC-CCe
Confidence 999987543322000000134555554321 11110000000 11111 1223455688888888886543 457
Q ss_pred EEEEEeCcE
Q psy13360 218 VELKISNNQ 226 (1161)
Q Consensus 218 V~i~~~~~~ 226 (1161)
|+|+++.+.
T Consensus 225 V~i~l~~~~ 233 (264)
T PTZ00483 225 VSINLSAGI 233 (264)
T ss_pred EEEEEcCCC
Confidence 999988775
No 89
>KOG1977|consensus
Probab=97.33 E-value=5.2e-05 Score=90.36 Aligned_cols=161 Identities=18% Similarity=0.276 Sum_probs=108.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-CcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCC---C
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFN---K 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd---~ 452 (1161)
.|..+|.|++-||+|.. ++.|.|.++-. -||.|.|||-|+.-+.... +|.-++.+||. +
T Consensus 21 sla~~VeElv~NSiDA~----At~V~v~V~~~t~sv~ViDdG~G~~rdDl~~-------------lg~ry~TSK~h~~nd 83 (1142)
T KOG1977|consen 21 SLAQCVEELVLNSIDAE----ATCVAVRVNMETFSVQVIDDGFGMGRDDLEK-------------LGNRYFTSKCHSVND 83 (1142)
T ss_pred HHHHHHHHHHhhccccC----ceEEEEEecCceeEEEEEecCCCccHHHHHH-------------HHhhhhhhhceeccc
Confidence 57899999999999966 88999998854 4899999999998775543 56667777773 3
Q ss_pred CceeeecccccchhhHhhhhccEEEEEEEeCCEE---EEEEEEcCccccccccccCCccccCcEEeccCCCCCcEEEEE-
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKI---HYMEFRYGVLQNRIIKTINGISVSPIKIIGDTNKQGTKIHFW- 528 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~---~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~GT~V~F~- 528 (1161)
..---+=|+.|..++.+--.|. ++|.++.-|+. +.-.|..| ....-+.+--.....||+|+..
T Consensus 84 l~~~~tyGfRGeALasIsd~s~-l~v~skkk~r~~~~~~kk~~~g------------s~~~~l~iD~~R~~sGTtVtV~d 150 (1142)
T KOG1977|consen 84 LENPRTYGFRGEALASISDMSS-LVVISKKKNRTMKTFVKKFQSG------------SALKALEIDVTRASSGTTVTVYD 150 (1142)
T ss_pred cccccccccchhhhhhhhhhhh-hhhhhhhcCCchhHHHHHHhcc------------ccceecccccccccCCcEEEeHH
Confidence 3334566999999888777774 33434333321 11122233 2211111111224689999964
Q ss_pred -----eCccccc-cC-CCCHHHHHHHHHhhhccCCCcEEEEeeccc
Q psy13360 529 -----VDEKIFS-NI-EFHYEILKKRIRELSFLNNGVCITLIDERI 567 (1161)
Q Consensus 529 -----PD~~iF~-~~-~~~~~~l~~Rl~elA~lnpgl~i~l~d~r~ 567 (1161)
|=+.++. +. .-.++.|++|+..+|.+.|.+.+.+.+...
T Consensus 151 lfY~lPVRRr~k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~~s 196 (1142)
T KOG1977|consen 151 LFYQLPVRRRLKCMDPRKEFEKIKQRIEAISLMHPSISFSVRNDVS 196 (1142)
T ss_pred hhhcchhhhhhhcCCHHHHHHHHHHHHHHHHhhccceeEEEEeccC
Confidence 4444442 21 335788999999999999999999887654
No 90
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=97.24 E-value=0.00064 Score=85.26 Aligned_cols=154 Identities=22% Similarity=0.294 Sum_probs=91.9
Q ss_pred hhHHhHHHhhHhhhcC------------CCCCeEEEE--EecC-CcEEEEECCCccccccccCCCCCCCCcceEEEEeee
Q psy13360 380 HFVFEILDNAIDESLA------------GYCTKINVT--IYSD-NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTEL 444 (1161)
Q Consensus 380 hlv~EivdNsiDe~~~------------g~~~~I~V~--i~~d-gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l 444 (1161)
-.++|+|.||.|..-. +....+.|. .+.+ ..++|.|||.||+-+.... -+.|..
T Consensus 28 iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~~~~L~I~DnGiGMt~edl~~-----------~LgtIa 96 (701)
T PTZ00272 28 IFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENKTLTVEDNGIGMTKADLVN-----------NLGTIA 96 (701)
T ss_pred HhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCCCCEEEEEECCCCCCHHHHHH-----------Hhhhhh
Confidence 3468999999998521 222344444 4443 4799999999999765543 022333
Q ss_pred cccCC-C----CCCceeeecccccchhhHhhhhccEEEEEEEeCC-EEEEEEEEcCccccccccccCCccccCcEEe-cc
Q psy13360 445 HAGGK-F----NKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNK-KIHYMEFRYGVLQNRIIKTINGISVSPIKII-GD 517 (1161)
Q Consensus 445 ~ag~k-f----d~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~-g~ 517 (1161)
++|.+ | ..+.-....|..|||.-.+=.+++...|+++..+ ..|..+...+ ..-.+... ..
T Consensus 97 ~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fmvad~V~V~Srs~~~~~~~W~s~~~-------------g~y~i~~~~~~ 163 (701)
T PTZ00272 97 RSGTKAFMEALEAGGDMSMIGQFGVGFYSAYLVADRVTVTSKNNSDESYVWESSAG-------------GTFTITSTPES 163 (701)
T ss_pred hcchHHHHHHhhccCCccccCCCCcceEEEEEeccEEEEEEecCCCceEEEEECCC-------------CcEEEEeCCCC
Confidence 44444 2 1111134679999999999999999999887543 3344433222 00111111 11
Q ss_pred CCCCCcEEEEEeCcc--ccccCCCCHHHHHHHHHhhh-ccCCCcEEEEe
Q psy13360 518 TNKQGTKIHFWVDEK--IFSNIEFHYEILKKRIRELS-FLNNGVCITLI 563 (1161)
Q Consensus 518 ~~~~GT~V~F~PD~~--iF~~~~~~~~~l~~Rl~elA-~lnpgl~i~l~ 563 (1161)
...+||+|+..+.+. -| ++...|..-++.++ |+. .-|++.
T Consensus 164 ~~~~GT~I~L~Lk~d~~ef----~~~~~i~~li~kYs~fi~--~PI~l~ 206 (701)
T PTZ00272 164 DMKRGTRITLHLKEDQMEY----LEPRRLKELIKKHSEFIG--YDIELM 206 (701)
T ss_pred CCCCCCEEEEEECCchHHh----ccHHHHHHHHHHhccccC--cceEEe
Confidence 236899999775433 33 56677888888877 443 446664
No 91
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.07 E-value=0.00096 Score=62.50 Aligned_cols=83 Identities=30% Similarity=0.408 Sum_probs=57.3
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++.|+++|+++.+..+ ..|.|.+..+ + .+.|.|+|+|++....+. ++...+.+..
T Consensus 5 ~l~~~~~~l~~n~~~~~~~~--~~v~i~~~~~~~~~~i~i~d~g~g~~~~~~~~------------~~~~~~~~~~---- 66 (111)
T smart00387 5 RLRQVLSNLLDNAIKYTPEG--GRITVTLERDGDHLEITVEDNGPGIPPEDLEK------------IFEPFFRTDG---- 66 (111)
T ss_pred HHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEeCCCCCCHHHHHH------------HhcCeEECCC----
Confidence 47889999999999977553 4566776654 2 689999999998765443 2222222211
Q ss_pred ceeeecccccchhhHhhhhccEEEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFLQL 478 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~~V 478 (1161)
.+...+.+|+|+++++.++..+..
T Consensus 67 -~~~~~~~~g~gl~~~~~~~~~~~g 90 (111)
T smart00387 67 -RSRKIGGTGLGLSIVKKLVELHGG 90 (111)
T ss_pred -CCCCCCcccccHHHHHHHHHHcCC
Confidence 123445689999999999987643
No 92
>PF02768 DNA_pol3_beta_3: DNA polymerase III beta subunit, C-terminal domain; InterPro: IPR022635 This entry describes the C-terminal domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3P16_A 3RB9_B 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A 1UNN_B 3Q4J_D 2POL_A ....
Probab=97.05 E-value=0.0066 Score=59.92 Aligned_cols=94 Identities=16% Similarity=0.350 Sum_probs=71.7
Q ss_pred EEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeE-EEEEeeecccCCceEEEEechhHHHHHh
Q psy13360 4 VVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQ-ITTYTAVGYGNSSINIIVAARKFIDILR 82 (1161)
Q Consensus 4 ~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~-i~~~i~a~~~~~~G~v~V~ak~l~~Ivk 82 (1161)
.+.++|.+|+++|++++-+.+.++ ..|.+...+++|++++.+.+.+ ..-.+++....++.++.++++.|.++++
T Consensus 11 ~i~i~r~~L~~al~Rv~~~~~~~~-----~~v~l~~~~~~l~l~~~~~~~g~~~e~i~~~~~g~~~~i~fN~~yL~d~L~ 85 (121)
T PF02768_consen 11 SITIDRKELLDALKRVSIISSEKN-----NPVKLSFSDNQLTLSSQSSEIGEAEEEIPIEYEGEPLEIAFNPKYLLDALK 85 (121)
T ss_dssp EEEEEHHHHHHHHHHHHHHHTTTT-----GEEEEEEETTEEEEEEEETTTEEEEEEEE-EEEES-EEEEEEHHHHHHHHH
T ss_pred EEEEEHHHHHHHHHHHHHHhhcCC-----ceEEEEEECCEEEEEEcCCCCceEEEEEeeeecCCceEEEECHHHHHHHHh
Confidence 467889999999999997776443 5799999999999999876544 4455666544457899999999999999
Q ss_pred cCCCCccEEEEEeC--cEEEEEE
Q psy13360 83 SLPETEKVTIYIEN--KHMFIKS 103 (1161)
Q Consensus 83 ~Lp~~~~I~ie~~~--~~l~I~s 103 (1161)
.++++ .|++...+ .-+.|+.
T Consensus 86 ~~~~~-~V~l~~~~~~~p~~i~~ 107 (121)
T PF02768_consen 86 AIDGE-EVTLEFSDPSSPILITP 107 (121)
T ss_dssp CC-SS-EEEEEESSTTS-EEEEE
T ss_pred hcCCC-EEEEEEcCCCCCEEEEe
Confidence 99986 79998754 3466665
No 93
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=96.61 E-value=0.008 Score=59.29 Aligned_cols=89 Identities=24% Similarity=0.230 Sum_probs=62.3
Q ss_pred cchhHHhHHHhhHhhhcCCCC-CeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYC-TKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~-~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
+.-++.|++.||+..+..+.. ..|.|.+..+. .|+|.|+|.|+|....+. ......
T Consensus 32 ~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~D~G~~~d~~~~~~----~~~~~~---------------- 91 (125)
T PF13581_consen 32 LELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVRDNGPGFDPEQLPQ----PDPWEP---------------- 91 (125)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEEECCCCCChhhccC----cccccC----------------
Confidence 566789999999999976543 56777766543 589999999988765544 110000
Q ss_pred ceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYME 490 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~ 490 (1161)
.....+|.|+.++..|+..+.+ ...+|...+++
T Consensus 92 ---~~~~~~G~Gl~li~~l~D~~~~-~~~~gn~v~l~ 124 (125)
T PF13581_consen 92 ---DSLREGGRGLFLIRSLMDEVDY-REDGGNTVTLR 124 (125)
T ss_pred ---CCCCCCCcCHHHHHHHHcEEEE-ECCCeEEEEEE
Confidence 2234579999999999999988 34455555443
No 94
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=96.46 E-value=0.0091 Score=62.11 Aligned_cols=92 Identities=14% Similarity=0.111 Sum_probs=59.8
Q ss_pred ccchhHHhHHHhhHhhhcCCC-CCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGY-CTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~-~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
.+.-.+.|++.||+..+..+. ...|.|++..++ .|.|.|+|.|+|.+..+. .+. .|..
T Consensus 42 ~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~D~G~g~d~~~~~~------------~~~------p~~~ 103 (161)
T PRK04069 42 DMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVADNGVSFDYETLKS------------KLG------PYDI 103 (161)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEEECCcCCChHHhcc------------ccC------CCCC
Confidence 477789999999999997643 346777776433 689999999998654432 011 1110
Q ss_pred CceeeecccccchhhHhhhhccEEEEEEEeCCEEE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIH 487 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~ 487 (1161)
........-+|.|+.++..|+..+.+.. .+|...
T Consensus 104 ~~~~~~~~~~G~GL~li~~l~d~v~~~~-~~G~~v 137 (161)
T PRK04069 104 SKPIEDLREGGLGLFLIETLMDDVTVYK-DSGVTV 137 (161)
T ss_pred CCcccccCCCceeHHHHHHHHHhEEEEc-CCCcEE
Confidence 0000111235899999999999887763 355443
No 95
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=96.43 E-value=0.0034 Score=77.90 Aligned_cols=100 Identities=25% Similarity=0.325 Sum_probs=70.2
Q ss_pred ccccceeeccceEEeecCCCCcc------chhHHhHHHhhHhhhc--CCCCCeEEEEEecCC---cEEEEECCCcccccc
Q psy13360 356 EGLEAVRKRPEMYIGDTSDGTGL------HHFVFEILDNAIDESL--AGYCTKINVTIYSDN---SISISDNGRGIPIDI 424 (1161)
Q Consensus 356 ~~~e~vrkRP~mYiGs~~~~~gl------~hlv~EivdNsiDe~~--~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~ 424 (1161)
+-+++++||..=|-=.++....| -.|+--++-|-+|+|. ++.+++|.|....++ .++|+|+|+|||.+.
T Consensus 744 ~Al~r~~k~~~~~~i~v~~~~dl~li~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~~~~v~~~V~DeGpGIP~~~ 823 (890)
T COG2205 744 EALQRLRKRFTGHKIVVSVPVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVERENVVFSVIDEGPGIPEGE 823 (890)
T ss_pred HHHHHhhhhcCCceEEEecCCCCceEecCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEEEecceEEEEEEeCCCCCChhH
Confidence 44566666654332122221222 2356667778888887 588999988887654 589999999999887
Q ss_pred ccCCCCCCCCcceEEEEeeecccCCCCCCceeeecccccchhhHhhhhc
Q psy13360 425 KIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLS 473 (1161)
Q Consensus 425 ~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS 473 (1161)
.+. ||-....|+|+++ +.| -|.|+++|-.+=
T Consensus 824 ~~~------------IFD~F~r~~~~~~-----~~G-~GLGLsIc~~iv 854 (890)
T COG2205 824 LER------------IFDKFYRGNKESA-----TRG-VGLGLAICRGIV 854 (890)
T ss_pred HHH------------hhhhhhcCCCCCC-----CCC-ccccHHHHHHHH
Confidence 665 9999999999887 233 488999887664
No 96
>PHA02545 45 sliding clamp; Provisional
Probab=96.29 E-value=0.62 Score=50.32 Aligned_cols=205 Identities=18% Similarity=0.235 Sum_probs=121.3
Q ss_pred CceEEEccHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeecccCCceEEEEechhHHHH
Q psy13360 1 MQLVVNTEKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVGYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 1 Mk~~v~i~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~~~~~~G~v~V~ak~l~~I 80 (1161)
||+ .++-++.|+.-+. |..+|+|. .++.|.=.+-+..+...+.++-+. +.+ -.+-+-..|+.+
T Consensus 1 mkl-----SK~Ti~iLKNFs~---------INpSI~l~-pGn~I~T~s~~~~~yAeAtI~d~f-d~e-~~IYDL~~FLsi 63 (223)
T PHA02545 1 MKL-----SKETIDILKNFST---------INPSIVLK-PGNFIMTKSVNGVIYAEATIEDEF-DSE-FAIYDLNSFLSI 63 (223)
T ss_pred Ccc-----cHHHHHHHHhHhh---------cCCceEec-CCCEEEEEecCceEEEEEeecccc-cce-eeEeeHHHHHHH
Confidence 677 3445556655542 33457766 344444444466666777777544 222 335566779999
Q ss_pred HhcCCCCccEEEEEeCcEEEEEECcEEEEEccCCCCCC--CCcc-CCCCcceEEEEcHHHHHHHHHhhcccccccccccc
Q psy13360 81 LRSLPETEKVTIYIENKHMFIKSGKSKFTLQTLDAKEY--PIMT-LNSKYDFEFTLSQKTLKCILNMVYFSIAQQDIRYY 157 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~~~l~I~sG~~~~~l~~~~~edf--P~~~-~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~trpi 157 (1161)
++.+.++.+|++..+ +.+.|+.|+++.+++..+++-- |.=+ ..|.+...|.+.+++|.+..+.. ... -
T Consensus 64 L~l~~~~aei~~~~~-~~i~i~~~r~ki~~~~ad~~~Iv~P~k~i~~P~~dv~f~L~aedl~ql~kas-~~l-------~ 134 (223)
T PHA02545 64 LSLVGDDAEITFDED-GNIVIRGGRSKIKYPYADPSTIVKPKKRVTFPVADVEFELKAEDLQQLLKAS-RVL-------G 134 (223)
T ss_pred HhccCCCCeeEEccC-ceEEecCCceEEEEecCCCceEecCCcccCCCCccEEEEEcHHHHHHHHHHH-Hhc-------C
Confidence 999875545666433 8999999999999999888633 4322 22345789999999998876654 232 3
Q ss_pred eeeEEEEEECCEEEEEEe--cceEEEE--EEEecCCCCCC--cceEEEehhhHHHHHhhhcCCCCcEEEEEeCcEEEEEE
Q psy13360 158 LNGLLLSFQKKNIIAVSS--DGHRLTY--YQVNIDKKFSS--CSDIIIPRKTVFTLQRLLENKENPVELKISNNQIKIIF 231 (1161)
Q Consensus 158 L~GV~~~~~~~~L~lvAT--Dg~RLa~--~~i~~~~~~~~--~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~~l~f~~ 231 (1161)
+.-+.|...+|.+.+.++ |.--... +.+.+ ++.++ +|.+.+....+ +++++ +-.|.++..+ ...|+.
T Consensus 135 l~dl~~~~~~G~ivi~~~~~~~~~~~sn~ys~~v-ge~~g~~~F~f~~~~~Nm----k~~~g-dY~v~is~~g-~a~F~~ 207 (223)
T PHA02545 135 LDDLAITNIDGKIVINLFNEDDKNDTSNSYSLEV-GEYDGDNEFNFIIKIENM----KLVPG-DYKVSISKKG-AAKFEG 207 (223)
T ss_pred CCeEEEEeeCCEEEEEEEeccCCCCCCCcEEEEe-ecccCCcceEEEEEecee----EecCC-CeEEEEEccc-cceeec
Confidence 555889999999888876 3222221 22222 11222 56777765443 34433 3344443222 345555
Q ss_pred CcEEEEE
Q psy13360 232 SNIEIIS 238 (1161)
Q Consensus 232 ~~~~~~~ 238 (1161)
.+..+..
T Consensus 208 ~~~~Y~I 214 (223)
T PHA02545 208 ENLSYVI 214 (223)
T ss_pred CCeeEEE
Confidence 5544443
No 97
>PTZ00130 heat shock protein 90; Provisional
Probab=96.19 E-value=0.015 Score=73.50 Aligned_cols=158 Identities=23% Similarity=0.245 Sum_probs=94.4
Q ss_pred chhHHhHHHhhHhhhcC------------C--CCCeEEEEEecC-CcEEEEECCCccccccccCCCCCCCCcceEEEEee
Q psy13360 379 HHFVFEILDNAIDESLA------------G--YCTKINVTIYSD-NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTE 443 (1161)
Q Consensus 379 ~hlv~EivdNsiDe~~~------------g--~~~~I~V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~ 443 (1161)
.-.+.|+|.||.|..-. + .--.|.|..+.+ +.++|.|||-|+.-+.... -+.|.
T Consensus 90 eIFLRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~~~tLtI~DnGIGMT~eEl~~-----------nLgTI 158 (814)
T PTZ00130 90 EVFLRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKEKNILSITDTGIGMTKEDLIN-----------NLGTI 158 (814)
T ss_pred CceeehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCCCCEEEEEECCCCCCHHHHHH-----------Hhhhh
Confidence 34468999999998631 1 122566666554 5799999999998765433 02233
Q ss_pred ecccCC-C----CC-CceeeecccccchhhHhhhhccEEEEEEEeCC-EEEEEEEEcCccccccccccCCccccCcEEe-
Q psy13360 444 LHAGGK-F----NK-NSYKISGGLHGIGLSCVNGLSRFLQLTINRNK-KIHYMEFRYGVLQNRIIKTINGISVSPIKII- 515 (1161)
Q Consensus 444 l~ag~k-f----d~-~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~- 515 (1161)
.+.|++ | .. ..-.--.|..|||.-.+=.++...+|.++..| ..|..+. .| ...-.+...
T Consensus 159 A~Sgt~~F~~~l~~~~~~~~lIGQFGVGFYSaFmVAdkV~V~Trs~~~~~~~W~s-~g------------~g~y~I~e~~ 225 (814)
T PTZ00130 159 AKSGTSNFLEAISKSGGDMSLIGQFGVGFYSAFLVADKVIVYTKNNNDEQYIWES-TA------------DAKFTIYKDP 225 (814)
T ss_pred cccccHHHHHHhhccCCCcccccccccchhheeeecCEEEEEEcCCCCceEEEEE-CC------------CCcEEEEECC
Confidence 333322 3 11 11124679999999999999999999988644 3343322 23 111111111
Q ss_pred -ccCCCCCcEEEEEeCccccccCCCCHHHHHHHHHhhh-ccCCCcEEEEee
Q psy13360 516 -GDTNKQGTKIHFWVDEKIFSNIEFHYEILKKRIRELS-FLNNGVCITLID 564 (1161)
Q Consensus 516 -g~~~~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA-~lnpgl~i~l~d 564 (1161)
+.+..+||+|+..+...- ..-++.+.|+.-++.++ |+. .-|++.+
T Consensus 226 ~~~~~~rGT~I~LhLked~--~efl~~~~ik~likkYS~fI~--~PI~l~~ 272 (814)
T PTZ00130 226 RGSTLKRGTRISLHLKEDA--TNLMNDKKLVDLISKYSQFIQ--YPIYLLH 272 (814)
T ss_pred CCCCCCCCcEEEEEECCch--hhhccHHHHHHHHHHhhccCC--CCEEEcc
Confidence 223479999998764321 11257778888888887 443 3466654
No 98
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.0053 Score=74.92 Aligned_cols=160 Identities=19% Similarity=0.237 Sum_probs=90.4
Q ss_pred HHhHHHhhHhhhcC-------C-------CCCeEEEEEecC-CcEEEEECCCccccccccCCCCCC-CCcceEEEEeeec
Q psy13360 382 VFEILDNAIDESLA-------G-------YCTKINVTIYSD-NSISISDNGRGIPIDIKIDDKHKP-KRSAAEIVMTELH 445 (1161)
Q Consensus 382 v~EivdNsiDe~~~-------g-------~~~~I~V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~-~~~~~e~v~t~l~ 445 (1161)
++|+|.||.|.+-. + .--.|+|..++| +.++|.|||-|+.-+..... -++ .+|.-.-.+..++
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kTLtI~DNGIGMT~~Ev~~~-LgTIAkSgT~~F~~~l~ 110 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKTLTISDNGIGMTKDEVIEN-LGTIAKSGTKEFLESLS 110 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccCCEEEEEeCCCCCCHHHHHHH-HHHhhhccHHHHHHHhc
Confidence 58999999998741 1 125688888887 68999999999986644320 000 1111111111122
Q ss_pred ccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCC--EEEEEEEE-cCccccccccccCCccccCcEEeccCCCCC
Q psy13360 446 AGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNK--KIHYMEFR-YGVLQNRIIKTINGISVSPIKIIGDTNKQG 522 (1161)
Q Consensus 446 ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g--~~~~q~f~-~G~~~~~~~~~~~~~~~~~~~~~g~~~~~G 522 (1161)
.+. .| .--.|.-|||.-.+=+++.+.+|.++..| ..| .|+ +| .....+..+.....+|
T Consensus 111 ~~~--~~---~~lIGQFGVGFYSaFmVAdkV~V~T~~~~~~~~~--~W~S~g------------~g~ytv~~~~~~~~~G 171 (623)
T COG0326 111 EDQ--KD---SDLIGQFGVGFYSAFMVADKVTVITRSAGEDEAY--HWESDG------------EGEYTVEDIDKEPRRG 171 (623)
T ss_pred ccc--cc---ccccccccchhhheeeeeeeEEEEeccCCCCcce--EEEEcC------------CCceEEeeccCCCCCC
Confidence 211 11 13469999999999999999999998766 335 564 34 2322333333222259
Q ss_pred cEEEEEeCc--cccccCCCCHHHHHHHHHhhhccCCCcEEEEeecc
Q psy13360 523 TKIHFWVDE--KIFSNIEFHYEILKKRIRELSFLNNGVCITLIDER 566 (1161)
Q Consensus 523 T~V~F~PD~--~iF~~~~~~~~~l~~Rl~elA~lnpgl~i~l~d~r 566 (1161)
|+|+-.+-+ .-| .+...|+.-+..++-. =.+-|.+..++
T Consensus 172 T~I~L~Lk~~e~ef----l~~~rl~~ivkkYSd~-i~~PI~~~~~~ 212 (623)
T COG0326 172 TEITLHLKEEEDEF----LEEWRLREIVKKYSDH-IAYPIYIEGEK 212 (623)
T ss_pred cEEEEEECCchHHH----hhhhHHHHHHHHHhcc-cccceEEeeec
Confidence 999987443 333 2233344444433311 13346666543
No 99
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=95.93 E-value=0.013 Score=70.90 Aligned_cols=81 Identities=11% Similarity=0.235 Sum_probs=52.1
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
+.+++..+|+||+..... ...|.|.+..++ .|+|.|||+|||-+..+. +|...+.+.+ ..
T Consensus 353 l~qvl~nll~NAi~~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~e~~~~------------lf~~~~~~~~---~~ 415 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDS--GGSLHISAEQRDKTLRLTFADSAPGVSDEQLQK------------LFERFYRTEG---SR 415 (466)
T ss_pred HHHHHHHHHHHHHHhCCC--CCEEEEEEEEcCCEEEEEEEecCCCcCHHHHHH------------hccCcccCCC---Cc
Confidence 666777777777776433 346888877543 588999999999775544 4444433221 11
Q ss_pred eeeecccccchhhHhhhhccEE
Q psy13360 455 YKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~~ 476 (1161)
.+ ..|-+|+|++.|..+.+.+
T Consensus 416 ~~-~~~g~GlGL~iv~~i~~~~ 436 (466)
T PRK10549 416 NR-ASGGSGLGLAICLNIVEAH 436 (466)
T ss_pred CC-CCCCCcHHHHHHHHHHHHc
Confidence 12 2234799999998877653
No 100
>TIGR01925 spIIAB anti-sigma F factor. This model describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex. The SpoIIE phosphatase dephosphorylates SpoIIAA.
Probab=95.91 E-value=0.037 Score=55.53 Aligned_cols=81 Identities=16% Similarity=0.183 Sum_probs=51.9
Q ss_pred ccchhHHhHHHhhHhhhcC-CCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLA-GYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~-g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
.+..++.|++.||+..+.. .....|.|.+..+ + .++|.|+|.|||... . +|.....+.
T Consensus 39 ~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~~~~i~I~D~G~gi~~~~--~------------~~~~~~~~~---- 100 (137)
T TIGR01925 39 DIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDHEVYITVRDEGIGIENLE--E------------AREPLYTSK---- 100 (137)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCCEEEEEEEEcCCCcCchh--H------------hhCCCcccC----
Confidence 5788899999999976543 2245788887753 3 488999999998311 1 111111110
Q ss_pred CceeeecccccchhhHhhhhccEEEEE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLT 479 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~ 479 (1161)
-..+.+|.|+++++.+...+.++
T Consensus 101 ----~~~~~~GlGL~lv~~~~~~l~~~ 123 (137)
T TIGR01925 101 ----PELERSGMGFTVMENFMDDVSVD 123 (137)
T ss_pred ----CCCCCCcccHHHHHHhCCcEEEE
Confidence 01235799999999887655444
No 101
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.72 E-value=0.03 Score=61.41 Aligned_cols=96 Identities=21% Similarity=0.362 Sum_probs=67.0
Q ss_pred cceEEeecCCCCccchhHHhHHHhhHhhhcCC-CCCeEEEEEec--CC---cEEEEECCCccccccccCCCCCCCCcceE
Q psy13360 365 PEMYIGDTSDGTGLHHFVFEILDNAIDESLAG-YCTKINVTIYS--DN---SISISDNGRGIPIDIKIDDKHKPKRSAAE 438 (1161)
Q Consensus 365 P~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g-~~~~I~V~i~~--dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e 438 (1161)
|..+++.... -.|--+|.|++.||+-.+--+ ....|.|++.. ++ ..+|||||.|+|++..+
T Consensus 111 ~~~~l~~d~A-~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~~~~~------------ 177 (221)
T COG3920 111 PNVFLDPDTA-VPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPVEAPL------------ 177 (221)
T ss_pred CceEECchhh-HHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEECCCCCCCCCCC------------
Confidence 3355544333 478899999999999988643 45677777775 44 48999999999987331
Q ss_pred EEEeeecccCCCCCCceeeecccccchhhHhhhhc-cEEEEE--EE-eCCEEEEEEEEcC
Q psy13360 439 IVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLS-RFLQLT--IN-RNKKIHYMEFRYG 494 (1161)
Q Consensus 439 ~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS-~~~~V~--v~-r~g~~~~q~f~~G 494 (1161)
..+|+|..+|+.+- +.+.-. .+ .+|-.|.++|...
T Consensus 178 ---------------------~~~g~G~~Lv~~lv~~q~~g~~~~~~~~Gt~~~i~~~~~ 216 (221)
T COG3920 178 ---------------------SRGGFGLQLVERLVPEQLGGELEDERPDGTEFRLRFPLS 216 (221)
T ss_pred ---------------------CCCCcHHHHHHHHHHHHcCCeEEEEcCCCEEEEEEEecc
Confidence 14689999999998 333333 22 3577777777654
No 102
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=95.61 E-value=0.013 Score=72.11 Aligned_cols=76 Identities=24% Similarity=0.320 Sum_probs=54.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++.++++||++....+....|.|++..++ .|+|.|||.|||.+..+. +|...
T Consensus 433 ~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~~~~i~V~D~G~gi~~~~~~~------------iF~~~--------- 491 (542)
T PRK11086 433 ELITILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSDDGPGIAPDEIDA------------IFDKG--------- 491 (542)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCCEEEEEEEECCCCCCHHHHHH------------HHhCC---------
Confidence 377889999999998765444567888887643 588999999999876544 33221
Q ss_pred ceeeecccccchhhHhhhhcc
Q psy13360 454 SYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~ 474 (1161)
|...++-+|+|++.|.-+-+
T Consensus 492 -~~~~~~g~GlGL~iv~~iv~ 511 (542)
T PRK11086 492 -YSTKGSNRGVGLYLVKQSVE 511 (542)
T ss_pred -CccCCCCCcCcHHHHHHHHH
Confidence 11223458999999887764
No 103
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=95.44 E-value=0.028 Score=67.61 Aligned_cols=80 Identities=23% Similarity=0.312 Sum_probs=51.4
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|..++.++++||+..+.+ ...|.|.+..++ .|+|.|||.|||-+..+. +|-..+.+.+=..
T Consensus 354 l~~~~~nll~Nai~~~~~--~~~I~i~~~~~~~~~~i~v~D~G~g~~~~~~~~------------~~~~~~~~~~~~~-- 417 (457)
T TIGR01386 354 FRRAISNLLSNALRHTPD--GGTITVRIERRSDEVRVSVSNPGPGIPPEHLSR------------LFDRFYRVDPARS-- 417 (457)
T ss_pred HHHHHHHHHHHHHHcCCC--CceEEEEEEecCCEEEEEEEeCCCCCCHHHHHH------------hccccccCCcccC--
Confidence 566666777777765432 357999888765 589999999999876544 3333333221100
Q ss_pred eeeecccccchhhHhhhhccE
Q psy13360 455 YKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~ 475 (1161)
...+-+|+|++.+.-+.+.
T Consensus 418 --~~~~g~GlGL~i~~~~~~~ 436 (457)
T TIGR01386 418 --NSGEGTGLGLAIVRSIMEA 436 (457)
T ss_pred --CCCCCccccHHHHHHHHHH
Confidence 1123489999998877654
No 104
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=95.42 E-value=0.088 Score=54.71 Aligned_cols=95 Identities=17% Similarity=0.154 Sum_probs=60.9
Q ss_pred ccchhHHhHHHhhHhhhcCCC-CCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGY-CTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~-~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
.+.-.+.|++.||+..+..+. ...|.|++..+ + .|+|.|+|.|+|....+. .+........-+
T Consensus 42 ~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~~l~i~V~D~G~gfd~~~~~~------------~~~~~~~~~~~~- 108 (159)
T TIGR01924 42 DLKIAVSEACTNAVKHAYKEGENGEIGISFHIYEDRLEIIVSDQGDSFDMDTFKQ------------SLGPYDGSEPID- 108 (159)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCCEEEEEEEEcccccCchhhcc------------ccCCCCCCCCcc-
Confidence 366789999999999887642 35677777653 3 578999999998764432 011000000000
Q ss_pred CceeeecccccchhhHhhhhccEEEEEEEeCCEEEEEE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTINRNKKIHYME 490 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g~~~~q~ 490 (1161)
. ..-+|.|+.++..|+..+.++- .+|...++.
T Consensus 109 -~----~~~~G~GL~Li~~L~D~v~~~~-~~G~~l~l~ 140 (159)
T TIGR01924 109 -D----LREGGLGLFLIETLMDEVEVYE-DSGVTVAMT 140 (159)
T ss_pred -c----CCCCccCHHHHHHhccEEEEEe-CCCEEEEEE
Confidence 1 1125899999999999888874 456544443
No 105
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=95.41 E-value=0.027 Score=69.75 Aligned_cols=81 Identities=23% Similarity=0.369 Sum_probs=56.1
Q ss_pred CccchhHHhHHHhhHhhhcCC--CCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCC
Q psy13360 376 TGLHHFVFEILDNAIDESLAG--YCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKF 450 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g--~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kf 450 (1161)
..|+.++.++++||++.+... ....|.|.+..++ .|+|.|||.|||.+..+. +|...+++ |
T Consensus 431 ~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------iF~~~~~t-k- 496 (545)
T PRK15053 431 TEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQGCGVPESLRDK------------IFEQGVST-R- 496 (545)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCCEEEEEEEeCCCCcCHHHHHH------------HhCCCCCC-C-
Confidence 358899999999999987532 2467888887643 589999999999876544 44333321 1
Q ss_pred CCCceeeecccccchhhHhhhhccE
Q psy13360 451 NKNSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 451 d~~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
-+-. |-||+|++.|.-+.+.
T Consensus 497 ----~~~~-~g~GlGL~ivk~iv~~ 516 (545)
T PRK15053 497 ----ADEP-GEHGIGLYLIASYVTR 516 (545)
T ss_pred ----CCCC-CCceeCHHHHHHHHHH
Confidence 0111 3489999999877643
No 106
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=95.37 E-value=0.016 Score=69.46 Aligned_cols=78 Identities=29% Similarity=0.469 Sum_probs=56.6
Q ss_pred cchhHHhHHHhhHhhhcCCC-CCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGY-CTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~-~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
+-.++--++|||+|...++. ..+|.+.|+.+| -|+|.|+|+|||-+..+. + |+.
T Consensus 428 litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D~G~GI~~~~~~~------------i---------Fe~- 485 (537)
T COG3290 428 LVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVADTGPGIPPEVRDK------------I---------FEK- 485 (537)
T ss_pred HHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEEeCCCCCCChHHHHH------------H---------Hhc-
Confidence 45566789999999998554 478999999876 589999999999775433 1 111
Q ss_pred ceeee-cccccchhhHhhhhccEEE
Q psy13360 454 SYKIS-GGLHGIGLSCVNGLSRFLQ 477 (1161)
Q Consensus 454 ~yk~s-gGlhGvG~svvNalS~~~~ 477 (1161)
.|.+- .+-||+|+.+|-.+-+.+.
T Consensus 486 G~Stk~~~~rGiGL~Lvkq~V~~~~ 510 (537)
T COG3290 486 GVSTKNTGGRGIGLYLVKQLVERLG 510 (537)
T ss_pred CccccCCCCCchhHHHHHHHHHHcC
Confidence 12222 3679999999988776543
No 107
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=95.36 E-value=0.025 Score=68.31 Aligned_cols=80 Identities=25% Similarity=0.335 Sum_probs=55.1
Q ss_pred ccchhHHhHHHhhHhhhcCCC--CCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGY--CTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFN 451 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~--~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd 451 (1161)
-|..++..++.||++..-.+. ...|.|....+ + .++|.|||.|||.+..+. +|....++. -.
T Consensus 387 ~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~D~G~Gi~~~~~~~------------iF~~f~~~~-~~ 453 (494)
T TIGR02938 387 QLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSILDSGPGIPQDLRYK------------VFEPFFTTK-GG 453 (494)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEEeCCCCCCHHHHHH------------hcCCCcccC-CC
Confidence 378899999999998765442 23577766543 3 589999999999887765 555443321 11
Q ss_pred CCceeeecccccchhhHhhhhccE
Q psy13360 452 KNSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 452 ~~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
+.+-.|+|+++|.-+-+.
T Consensus 454 ------~~~G~GlGL~i~~~iv~~ 471 (494)
T TIGR02938 454 ------SRKHIGMGLSVAQEIVAD 471 (494)
T ss_pred ------CCCCCcccHHHHHHHHHH
Confidence 022389999999887753
No 108
>PRK03660 anti-sigma F factor; Provisional
Probab=95.29 E-value=0.1 Score=52.85 Aligned_cols=83 Identities=17% Similarity=0.226 Sum_probs=53.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCC-CeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYC-TKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~-~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
-+--++.|++.||+..+..+.. ..|.|.+..+ + .++|.|+|.|||.... ++...+.+..
T Consensus 39 ~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~~l~i~I~D~G~g~~~~~~--------------~~~~~~~~~~--- 101 (146)
T PRK03660 39 EIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEEELEITVRDEGKGIEDIEE--------------AMQPLYTTKP--- 101 (146)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCCEEEEEEEEccCCCChHHH--------------hhCCCcccCC---
Confidence 4667789999999977654333 5677776643 3 5899999999984211 1111111110
Q ss_pred CceeeecccccchhhHhhhhccEEEEEEE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRFLQLTIN 481 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~~~V~v~ 481 (1161)
..+.+|+|++++..+...+.++..
T Consensus 102 -----~~~~~GlGL~i~~~~~~~i~~~~~ 125 (146)
T PRK03660 102 -----ELERSGMGFTVMESFMDEVEVESE 125 (146)
T ss_pred -----CCCCccccHHHHHHhCCeEEEEec
Confidence 112369999999999887666543
No 109
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=95.23 E-value=0.032 Score=67.29 Aligned_cols=78 Identities=26% Similarity=0.393 Sum_probs=51.1
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++.++|+||+..+ .+.|.|.+..+ + .++|.|||.|||.+..+. +|...+.+.+.
T Consensus 353 ~l~~~l~nli~NA~~~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~~~~~~~~--- 413 (461)
T PRK09470 353 ALASALENIVRNALRYS----HTKIEVAFSVDKDGLTITVDDDGPGVPEEEREQ------------IFRPFYRVDEA--- 413 (461)
T ss_pred HHHHHHHHHHHHHHHhC----CCcEEEEEEEECCEEEEEEEECCCCCCHHHHHH------------hcCCCccCCcc---
Confidence 37888888888888754 24577776643 3 489999999999876554 44444432221
Q ss_pred ceeeecccccchhhHhhhhcc
Q psy13360 454 SYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~ 474 (1161)
..-..+-+|+|++.|+-+-+
T Consensus 414 -~~~~~~g~GlGL~iv~~~v~ 433 (461)
T PRK09470 414 -RDRESGGTGLGLAIVENAIQ 433 (461)
T ss_pred -cCCCCCCcchhHHHHHHHHH
Confidence 11122346999999887664
No 110
>PRK10604 sensor protein RstB; Provisional
Probab=95.11 E-value=0.031 Score=67.43 Aligned_cols=80 Identities=20% Similarity=0.373 Sum_probs=50.5
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC--C-cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD--N-SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d--g-sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-+..++..+|.||+..+ ...|.|++..+ . .|+|.|||.|||.+..+. +|-....+. ..
T Consensus 319 ~l~~vl~NLl~NAik~~----~~~I~I~~~~~~~~~~I~V~D~G~Gi~~e~~~~------------if~~f~r~~---~~ 379 (433)
T PRK10604 319 LMERVLDNLLNNALRYA----HSRVRVSLLLDGNQACLIVEDDGPGIPPEERER------------VFEPFVRLD---PS 379 (433)
T ss_pred HHHHHHHHHHHHHHHhC----CCeEEEEEEEECCEEEEEEEEcCCCCCHHHHhh------------cCCCCccCC---CC
Confidence 36666777777777643 35677776543 2 589999999999876654 444333321 11
Q ss_pred ceeeecccccchhhHhhhhccEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
. ....|-+|+|++.|.-+.+++
T Consensus 380 ~-~~~~~g~GLGL~ivk~i~~~~ 401 (433)
T PRK10604 380 R-DRATGGCGLGLAIVHSIALAM 401 (433)
T ss_pred C-CCCCCCccchHHHHHHHHHHC
Confidence 1 112234799999998777644
No 111
>PRK10364 sensor protein ZraS; Provisional
Probab=95.10 E-value=0.024 Score=68.69 Aligned_cols=75 Identities=25% Similarity=0.349 Sum_probs=51.8
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+++||++.+-. ...|.|.+..++ .|+|.|||.|||.+..+. +|...++
T Consensus 348 ~l~~il~NLl~NA~k~~~~--~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~~~~------- 406 (457)
T PRK10364 348 RLTQVLLNLYLNAIQAIGQ--HGVISVTASESGAGVKISVTDSGKGIAADQLEA------------IFTPYFT------- 406 (457)
T ss_pred HHHHHHHHHHHHHHHhcCC--CCeEEEEEEEeCCeEEEEEEECCCCCCHHHHHH------------HhCcccc-------
Confidence 3777788888888876532 457888877543 589999999999876544 3332221
Q ss_pred ceeeecccccchhhHhhhhccE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~ 475 (1161)
..++-+|+|++.|..+.+.
T Consensus 407 ---~k~~g~GlGL~iv~~~v~~ 425 (457)
T PRK10364 407 ---TKAEGTGLGLAVVHNIVEQ 425 (457)
T ss_pred ---CCCCCCcccHHHHHHHHHH
Confidence 1123489999999988764
No 112
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=94.96 E-value=0.046 Score=65.76 Aligned_cols=82 Identities=23% Similarity=0.263 Sum_probs=54.1
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
.-|.+++..+++||++..-.| ..|.|.+..++ .++|.|||.|||-+..+. +|-......+-
T Consensus 316 ~~l~~vl~NLl~NAik~~~~~--~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~f~~~~~~-- 379 (430)
T PRK11006 316 DQLRSAISNLVYNAVNHTPEG--THITVRWQRVPQGAEFSVEDNGPGIAPEHIPR------------LTERFYRVDKA-- 379 (430)
T ss_pred HHHHHHHHHHHHHHHhcCCCC--CeEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH------------hccCcccccCC--
Confidence 358888999999999876433 45777765542 599999999999876654 34333332211
Q ss_pred CceeeecccccchhhHhhhhccE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
.....|-.|+|+++|..+-+.
T Consensus 380 --~~~~~~G~GLGL~ivk~iv~~ 400 (430)
T PRK11006 380 --RSRQTGGSGLGLAIVKHALSH 400 (430)
T ss_pred --CCCCCCCCchHHHHHHHHHHH
Confidence 111123479999998877653
No 113
>PRK10337 sensor protein QseC; Provisional
Probab=94.90 E-value=0.055 Score=65.22 Aligned_cols=77 Identities=26% Similarity=0.397 Sum_probs=49.5
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCCcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCceee
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDNSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNSYKI 457 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~yk~ 457 (1161)
++.++..+|+||+..+.. ...|.|.+..+ .++|.|||.|||.+..+. +|...+.+.. ..
T Consensus 353 l~~vl~Nli~NA~k~~~~--~~~i~i~~~~~-~i~i~D~G~Gi~~~~~~~------------if~~f~~~~~------~~ 411 (449)
T PRK10337 353 LSLLVRNLLDNAIRYSPQ--GSVVDVTLNAR-NFTVRDNGPGVTPEALAR------------IGERFYRPPG------QE 411 (449)
T ss_pred HHHHHHHHHHHHHhhCCC--CCeEEEEEEee-EEEEEECCCCCCHHHHHH------------hcccccCCCC------CC
Confidence 455666666666665432 34688877654 799999999999775544 3433332211 11
Q ss_pred ecccccchhhHhhhhccEE
Q psy13360 458 SGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 458 sgGlhGvG~svvNalS~~~ 476 (1161)
++| +|+|++.|..+.+.+
T Consensus 412 ~~g-~GlGL~iv~~i~~~~ 429 (449)
T PRK10337 412 ATG-SGLGLSIVRRIAKLH 429 (449)
T ss_pred CCc-cchHHHHHHHHHHHc
Confidence 223 899999999888654
No 114
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=94.57 E-value=0.083 Score=61.32 Aligned_cols=75 Identities=24% Similarity=0.342 Sum_probs=50.5
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-------------CcEEEEECCCccccccccCCCCCCCCcceEEEEee
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-------------NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTE 443 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-------------gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~ 443 (1161)
-|.+++..+++||++... .....|.|.+... -.|+|.|||.|||.+..+. +|..
T Consensus 237 ~l~~vl~nLl~NA~~~~~-~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~------------iF~~ 303 (348)
T PRK11073 237 QIEQVLLNIVRNALQALG-PEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDT------------LFYP 303 (348)
T ss_pred HHHHHHHHHHHHHHHHhc-cCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHHhh------------ccCC
Confidence 588888899999988653 3345677765331 1488999999999876543 3433
Q ss_pred ecccCCCCCCceeeecccccchhhHhhhhcc
Q psy13360 444 LHAGGKFNKNSYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 444 l~ag~kfd~~~yk~sgGlhGvG~svvNalS~ 474 (1161)
.++ ...+-+|+|++++.-+-+
T Consensus 304 ~~~----------~~~~g~GlGL~i~~~iv~ 324 (348)
T PRK11073 304 MVS----------GREGGTGLGLSIARNLID 324 (348)
T ss_pred ccc----------CCCCCccCCHHHHHHHHH
Confidence 222 112347999999887765
No 115
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=94.57 E-value=0.062 Score=64.88 Aligned_cols=80 Identities=26% Similarity=0.319 Sum_probs=51.1
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|.+++.+++.||+..+ +....|.|++..+ + .|+|+|||.|||.+..+. +|.........+
T Consensus 369 l~~vl~nli~Na~~~~--~~~~~i~i~~~~~~~~~~i~i~D~G~Gi~~~~~~~------------i~~~~~~~~~~~--- 431 (475)
T PRK11100 369 LRQALGNLLDNAIDFS--PEGGTITLSAEVDGEQVALSVEDQGPGIPDYALPR------------IFERFYSLPRPA--- 431 (475)
T ss_pred HHHHHHHHHHHHHHhC--CCCCEEEEEEEEcCCEEEEEEEECCCCCCHHHHHH------------HHHHHccCCCCC---
Confidence 6677777778877754 2345788888754 3 599999999999765443 333322221111
Q ss_pred eeeecccccchhhHhhhhccEE
Q psy13360 455 YKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~~ 476 (1161)
...+-+|+|+..|+-+.+.+
T Consensus 432 --~~~~~~GlGL~i~~~~~~~~ 451 (475)
T PRK11100 432 --NGRKSTGLGLAFVREVARLH 451 (475)
T ss_pred --CCCCCcchhHHHHHHHHHHC
Confidence 11234799999999887543
No 116
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=94.41 E-value=0.073 Score=63.83 Aligned_cols=77 Identities=18% Similarity=0.289 Sum_probs=49.9
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|..++..+++||+..+ ...|.|++..++ .|+|.|||.|||.+..+. +|...+.+.. .
T Consensus 332 l~~il~NLl~NA~k~~----~~~i~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------~~~~f~~~~~----~ 391 (435)
T PRK09467 332 IKRALANLVVNAARYG----NGWIKVSSGTEGKRAWFQVEDDGPGIPPEQLKH------------LFQPFTRGDS----A 391 (435)
T ss_pred HHHHHHHHHHHHHHhC----CCeEEEEEEecCCEEEEEEEecCCCcCHHHHHH------------hcCCcccCCC----C
Confidence 5666677777776543 356888877654 599999999999765543 3333322211 1
Q ss_pred eeeecccccchhhHhhhhccEE
Q psy13360 455 YKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~~ 476 (1161)
. +.+-+|+|++.|..+.+.+
T Consensus 392 -~-~~~g~GlGL~iv~~i~~~~ 411 (435)
T PRK09467 392 -R-GSSGTGLGLAIVKRIVDQH 411 (435)
T ss_pred -C-CCCCeehhHHHHHHHHHHC
Confidence 1 1234899999999888643
No 117
>PRK09303 adaptive-response sensory kinase; Validated
Probab=94.29 E-value=0.054 Score=64.26 Aligned_cols=78 Identities=24% Similarity=0.390 Sum_probs=50.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEe--cCC--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIY--SDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~--~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
-|.+++..+|+||+...-. ...|.|.+. .++ .|+|.|||.|||-+..+. +|........ +
T Consensus 272 ~l~qvl~NLl~NAik~~~~--~~~I~i~~~~~~~~~v~i~V~D~G~GI~~~~~~~------------iF~pf~~~~~-~- 335 (380)
T PRK09303 272 RIRQVLLNLLDNAIKYTPE--GGTITLSMLHRTTQKVQVSICDTGPGIPEEEQER------------IFEDRVRLPR-D- 335 (380)
T ss_pred HHHHHHHHHHHHHHhcCCC--CceEEEEEEecCCCEEEEEEEEcCCCCCHHHHHH------------HccCceeCCC-C-
Confidence 4788888888888876543 346777653 233 489999999999876544 3433332211 1
Q ss_pred CceeeecccccchhhHhhhhcc
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~ 474 (1161)
...+-.|+|+++|.-+.+
T Consensus 336 ----~~~~G~GLGL~i~~~iv~ 353 (380)
T PRK09303 336 ----EGTEGYGIGLSVCRRIVR 353 (380)
T ss_pred ----CCCCcccccHHHHHHHHH
Confidence 111238999999887775
No 118
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=94.25 E-value=0.066 Score=70.83 Aligned_cols=77 Identities=21% Similarity=0.425 Sum_probs=51.8
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+|.||+...-.| .|.|.+..++ .|+|.|||.|||-+..+. +|.....+.
T Consensus 513 ~l~~il~NLl~NAik~~~~g---~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~f~~~~----- 572 (921)
T PRK15347 513 RLRQILVNLLGNAVKFTETG---GIRLRVKRHEQQLCFTVEDTGCGIDIQQQQQ------------IFTPFYQAD----- 572 (921)
T ss_pred HHHHHHHHHHHHHhhcCCCC---CEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH------------HhcCcccCC-----
Confidence 37777888888888754333 4777776543 589999999999876544 443333221
Q ss_pred ceeeecccccchhhHhhhhccEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
...|-.|+|++.|+-+.+.+
T Consensus 573 ---~~~~g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 573 ---THSQGTGLGLTIASSLAKMM 592 (921)
T ss_pred ---CCCCCCchHHHHHHHHHHHc
Confidence 11234799999999887654
No 119
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=94.15 E-value=0.064 Score=70.98 Aligned_cols=77 Identities=18% Similarity=0.277 Sum_probs=51.8
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|..++..+++||+...-. ..|.|.+..++ .|+|.|||.|||.+..+. +|.......
T Consensus 561 ~l~qil~NLl~NAik~~~~---g~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~f~~~~----- 620 (914)
T PRK11466 561 RIRQVITNLLSNALRFTDE---GSIVLRSRTDGEQWLVEVEDSGCGIDPAKLAE------------IFQPFVQVS----- 620 (914)
T ss_pred HHHHHHHHHHHHHHHhCCC---CeEEEEEEEcCCEEEEEEEECCCCCCHHHHHH------------HhchhhcCC-----
Confidence 3777888888888876433 36888776554 589999999999876544 333222110
Q ss_pred ceeeecccccchhhHhhhhccEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
...|-+|+|+++|.-+.+.+
T Consensus 621 ---~~~~g~GLGL~i~~~l~~~~ 640 (914)
T PRK11466 621 ---GKRGGTGLGLTISSRLAQAM 640 (914)
T ss_pred ---CCCCCCcccHHHHHHHHHHc
Confidence 11244799999998887654
No 120
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=94.08 E-value=0.092 Score=61.31 Aligned_cols=77 Identities=19% Similarity=0.292 Sum_probs=48.7
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-+..++..+|+||+..+. ....|.|.+..++ .++|.|||.|||.+..+. +|..... ++
T Consensus 247 ~l~~il~nLi~NA~k~~~--~~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~f~~---~~-- 307 (356)
T PRK10755 247 LLRLLLRNLVENAHRYSP--EGSTITIKLSQEDGGAVLAVEDEGPGIDESKCGE------------LSKAFVR---MD-- 307 (356)
T ss_pred HHHHHHHHHHHHHHhhCC--CCCcEEEEEEEcCCEEEEEEEECCCCCCHHHHHH------------hCCCeEe---CC--
Confidence 356677777777776542 2456888876543 589999999999876544 2222211 11
Q ss_pred ceeeecccccchhhHhhhhccE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~ 475 (1161)
..++-.|.|++.|.-+.+.
T Consensus 308 ---~~~~g~GlGL~i~~~i~~~ 326 (356)
T PRK10755 308 ---SRYGGIGLGLSIVSRITQL 326 (356)
T ss_pred ---CCCCCcCHHHHHHHHHHHH
Confidence 1123468999988777653
No 121
>PRK09835 sensor kinase CusS; Provisional
Probab=93.75 E-value=0.12 Score=62.85 Aligned_cols=81 Identities=19% Similarity=0.202 Sum_probs=50.9
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+++||+..+.. ...|.|.+..+ + .|+|.|||.|||.+..+. +|.....+. ..
T Consensus 375 ~l~~vl~nll~Na~~~~~~--~~~I~i~~~~~~~~~~i~v~d~G~gi~~~~~~~------------if~~f~~~~---~~ 437 (482)
T PRK09835 375 MLRRAISNLLSNALRYTPA--GEAITVRCQEVDHQVQLVVENPGTPIAPEHLPR------------LFDRFYRVD---PS 437 (482)
T ss_pred HHHHHHHHHHHHHHhcCCC--CCeEEEEEEEeCCEEEEEEEECCCCcCHHHHHH------------HhCCcccCC---CC
Confidence 4788888888888876533 34677777653 2 589999999999775543 333332221 11
Q ss_pred ceeeecccccchhhHhhhhccE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~ 475 (1161)
. ....+-+|+|++.|..+-+.
T Consensus 438 ~-~~~~~g~GlGL~i~~~i~~~ 458 (482)
T PRK09835 438 R-QRKGEGSGIGLAIVKSIVVA 458 (482)
T ss_pred C-CCCCCCcchHHHHHHHHHHH
Confidence 1 11223479999988766643
No 122
>KOG1636|consensus
Probab=93.56 E-value=2.4 Score=45.70 Aligned_cols=177 Identities=16% Similarity=0.203 Sum_probs=115.7
Q ss_pred ceeeEEEEEECCEEEEEEecceEEEEEEEecCCCC------CCcceEEEehhhHHHHHhhhcCCCCcEEEEEeCc--EEE
Q psy13360 157 YLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKKF------SSCSDIIIPRKTVFTLQRLLENKENPVELKISNN--QIK 228 (1161)
Q Consensus 157 iL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~~------~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~~~--~l~ 228 (1161)
+.+-..|+.+++++.+.|.|..+.+...+.+.... +.+..+-+.-+.+..++|-..+ ++.+++...++ .+.
T Consensus 22 lV~~a~fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiLkcann-ed~~Tlkaed~~dti~ 100 (260)
T KOG1636|consen 22 LVNDANFDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKILKCANN-EDTVTLKAEDNPDTIT 100 (260)
T ss_pred HHhccCcccccCceEEEEecccceEEEEEEeeccccceeccCCccccccCHHHHHHHHccccC-CCceEEEeecCCceEE
Confidence 44557788888999999999999998888776431 1134566676777777766544 55677776653 444
Q ss_pred EEECc------EEEEEeecCCCCCCccccccC-CcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcC
Q psy13360 229 IIFSN------IEIISKLIDGKFLDYKYVISN-KYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSS 301 (1161)
Q Consensus 229 f~~~~------~~~~~rli~g~fPdy~~vip~-~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~ 301 (1161)
+.+.+ ..+..+|++-+---| =||+ ++...++++..+|....+-++.+++. |.+..+..++.+++++
T Consensus 101 l~fe~~~~dki~dy~lKLmdiD~ehl--~IPe~dy~~~~~mPa~EF~ricrdls~f~Ds----v~I~~tkegv~F~~~G- 173 (260)
T KOG1636|consen 101 LMFESPKQDKIADYELKLMDIDSEHL--GIPEQDYDAVVTMPAGEFSRICRDLSTFSDS----VVISATKEGVKFSAKG- 173 (260)
T ss_pred EEEECCCCCcceeeEEEeeeccHHHc--CCCcccceEEEEccHHHHHHHHHHHhhhcCe----EEEEEecceeEEEecc-
Confidence 44432 456677766432111 1444 78899999999999999998888643 6677777777777666
Q ss_pred Cccccceeee-----------eeee-CCccceeeechhhhh--hccc-Cccccccc
Q psy13360 302 NREKASEELE-----------INYN-GKDKNFIKFLIKIML--LKNK-NSYDIQDT 342 (1161)
Q Consensus 302 ~~g~~~E~i~-----------~~~~-Ge~~~ii~fn~~yLl--L~~~-~~d~i~l~ 342 (1161)
+.|.+.-++. +.++ .+++. ..|-.+||. -++. =+++|+++
T Consensus 174 dig~asi~l~~~~~~d~~e~av~iE~~~pVt-ltfa~kYln~ftKatpLs~rV~ls 228 (260)
T KOG1636|consen 174 DIGTASITLSQCTAVDKPEEAVKIEMNEPVT-LTFALKYLNQFTKATPLSDRVTLS 228 (260)
T ss_pred cccceeEEEccCCCCCCccceEEEEecCcch-hhhHHHHHHHhhccccccceEEEE
Confidence 5565443322 2222 24555 889999976 3333 35677773
No 123
>PRK10815 sensor protein PhoQ; Provisional
Probab=93.48 E-value=0.091 Score=64.54 Aligned_cols=74 Identities=19% Similarity=0.278 Sum_probs=44.9
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|..++..+++||+... ...|.|.+..+ + .|+|.|||.|||.+..+. +|...+.+.
T Consensus 379 l~~vl~NLi~NAik~~----~~~i~I~~~~~~~~v~I~V~D~G~GI~~e~~~~------------iF~~f~~~~------ 436 (485)
T PRK10815 379 FMEVMGNVLDNACKYC----LEFVEISARQTDEHLHIVVEDDGPGIPESKREL------------IFDRGQRAD------ 436 (485)
T ss_pred HHHHHHHHHHHHHHhc----CCcEEEEEEEeCCEEEEEEEECCCCcCHHHHHH------------HhCCcccCC------
Confidence 4555555555555543 23466666543 3 589999999999876544 444322211
Q ss_pred eeeecccccchhhHhhhhccE
Q psy13360 455 YKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~ 475 (1161)
.+.+-+|+|++.|..+.+.
T Consensus 437 --~~~~G~GLGL~Ivk~iv~~ 455 (485)
T PRK10815 437 --TLRPGQGLGLSVAREITEQ 455 (485)
T ss_pred --CCCCCcchhHHHHHHHHHH
Confidence 1112379999999888753
No 124
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=93.07 E-value=0.098 Score=63.45 Aligned_cols=51 Identities=20% Similarity=0.365 Sum_probs=41.6
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKID 427 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~ 427 (1161)
-|.+++--+|.||+|.--...-..|.|.+-.++ .|+|.|||+|||.+..+.
T Consensus 497 RLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~~v~l~VrDnGpGi~~e~~~~ 550 (603)
T COG4191 497 RLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGGQVVLTVRDNGPGIAPEALPH 550 (603)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCeEEEEEccCCCCCCHHHHHh
Confidence 378888889999999665545667999988754 689999999999997766
No 125
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=93.01 E-value=0.14 Score=65.93 Aligned_cols=81 Identities=19% Similarity=0.251 Sum_probs=52.4
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+++||++.... ...|.|.+..++ .|+|.|||.|||.+..+. +|....++..-.
T Consensus 597 ~L~~il~NLI~NAik~s~~--~~~I~I~~~~~~~~v~I~V~D~G~GI~~e~~~~------------IFe~F~t~~~~~-- 660 (703)
T TIGR03785 597 LIAQMLDKLVDNAREFSPE--DGLIEVGLSQNKSHALLTVSNEGPPLPEDMGEQ------------LFDSMVSVRDQG-- 660 (703)
T ss_pred HHHHHHHHHHHHHHHHCCC--CCeEEEEEEEcCCEEEEEEEEcCCCCCHHHHHH------------HhCCCeecCCCC--
Confidence 3677777777777765533 345888877643 589999999999886654 444443322111
Q ss_pred ceeeecccccchhhHhhhhccE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~ 475 (1161)
...++-+|+|+++|.-+.+.
T Consensus 661 --~~~~~g~GLGL~Ivr~Iv~~ 680 (703)
T TIGR03785 661 --AQDQPHLGLGLYIVRLIADF 680 (703)
T ss_pred --CCCCCCccHHHHHHHHHHHH
Confidence 11122479999999888764
No 126
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=92.77 E-value=0.21 Score=61.61 Aligned_cols=44 Identities=20% Similarity=0.400 Sum_probs=33.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccc
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPID 423 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~ 423 (1161)
-+.+++.|+++||+..+- ++.|.|++..++ .++|.|||.|||.+
T Consensus 410 ~L~ril~nlL~NAiKha~---~~~I~I~l~~~~~~i~l~V~DnG~Gi~~~ 456 (495)
T PRK11644 410 TLFRVCQEGLNNIVKHAD---ASAVTLQGWQQDERLMLVIEDDGSGLPPG 456 (495)
T ss_pred HHHHHHHHHHHHHHHhCC---CCEEEEEEEEcCCEEEEEEEECCCCCCcC
Confidence 367788888888887653 356888877543 48999999999853
No 127
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=92.55 E-value=0.17 Score=64.85 Aligned_cols=74 Identities=16% Similarity=0.313 Sum_probs=51.0
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCcccccc-ccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDI-KIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~-~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
-+.+++.++++||++.... ...|.|.+..+ + .|+|.|||.|||-+. .+. +|...+++.
T Consensus 579 ~l~~vl~nLl~NAik~~~~--~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~~i~~~------------lF~pf~~~~---- 640 (679)
T TIGR02916 579 RLERVLGHLVQNALEATPG--EGRVAIRVERECGAARIEIEDSGCGMSPAFIRER------------LFKPFDTTK---- 640 (679)
T ss_pred HHHHHHHHHHHHHHHhCCC--CCcEEEEEEEcCCEEEEEEEEcCCCcChHHHHHh------------cCCCCCCCC----
Confidence 4888999999999987643 34677877753 3 589999999999875 332 333322211
Q ss_pred CceeeecccccchhhHhhhhcc
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~ 474 (1161)
++-+|+|++.+.-+.+
T Consensus 641 ------~~G~GLGL~i~~~iv~ 656 (679)
T TIGR02916 641 ------GAGMGIGVYECRQYVE 656 (679)
T ss_pred ------CCCcchhHHHHHHHHH
Confidence 1347999998887654
No 128
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=92.51 E-value=0.52 Score=48.30 Aligned_cols=82 Identities=24% Similarity=0.248 Sum_probs=57.0
Q ss_pred cchhHHhHHHhhHhhhcCCCC----CeEEEEEecCC-cEEEEECCCccccc-cccCCCCCCCCcceEEEEeeecccCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYC----TKINVTIYSDN-SISISDNGRGIPID-IKIDDKHKPKRSAAEIVMTELHAGGKFN 451 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~----~~I~V~i~~dg-sisV~DnGrGIPv~-~~~~~~~~~~~~~~e~v~t~l~ag~kfd 451 (1161)
+.+.+.|.+.|++-.+.++-. -.|.++++++. .|.|+|.|.||+.- ....
T Consensus 41 l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~~~~~~~~~~~------------------------ 96 (146)
T COG2172 41 LAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGIEDLEESLG------------------------ 96 (146)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeCCCCCCCHHHhcC------------------------
Confidence 677889999999999987443 33444454444 69999999887532 1111
Q ss_pred CCceeeeccc--ccchhhHhhhhccEEEEEEEeCC
Q psy13360 452 KNSYKISGGL--HGIGLSCVNGLSRFLQLTINRNK 484 (1161)
Q Consensus 452 ~~~yk~sgGl--hGvG~svvNalS~~~~V~v~r~g 484 (1161)
.. |...+++ .|+|+.++.-+...|+++...+|
T Consensus 97 ~~-~~~~~~~~~~G~Gl~l~~~~~D~~~~~~~~~~ 130 (146)
T COG2172 97 PG-DTTAEGLQEGGLGLFLAKRLMDEFSYERSEDG 130 (146)
T ss_pred CC-CCCCcccccccccHHHHhhhheeEEEEeccCC
Confidence 11 2333333 58999999999999999877777
No 129
>KOG1636|consensus
Probab=92.35 E-value=12 Score=40.62 Aligned_cols=201 Identities=12% Similarity=0.140 Sum_probs=118.2
Q ss_pred HHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeeec--c-----cCCceEEEEechhHHHHHhc
Q psy13360 11 AILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAVG--Y-----GNSSINIIVAARKFIDILRS 83 (1161)
Q Consensus 11 ~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a~--~-----~~~~G~v~V~ak~l~~Ivk~ 83 (1161)
-|.+.|....-+| ...-|.+.++++.+.|.|.+.-.-+.+... . ++-+-.+.++-+.+..|+|-
T Consensus 11 LlKkIlealkdlV---------~~a~fdcse~GislQaMD~SHValvsl~l~s~~F~~yRCDRnl~lG~~L~slsKiLkc 81 (260)
T KOG1636|consen 11 LLKKILEALKDLV---------NDANFDCSETGISLQAMDSSHVALVSLLLRSEGFEKYRCDRNLSLGMNLKSLSKILKC 81 (260)
T ss_pred HHHHHHHHHHHHH---------hccCcccccCceEEEEecccceEEEEEEeeccccceeccCCccccccCHHHHHHHHcc
Confidence 3444455555444 445577888889999998764433333221 1 22345678899999999999
Q ss_pred CCCCccEEEEEeC--cEE--EEEECc----EEEEEccCCCC-CCCCccCCCCcceEEEEcHHHHHHHHHhhccccccccc
Q psy13360 84 LPETEKVTIYIEN--KHM--FIKSGK----SKFTLQTLDAK-EYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSIAQQDI 154 (1161)
Q Consensus 84 Lp~~~~I~ie~~~--~~l--~I~sG~----~~~~l~~~~~e-dfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~t 154 (1161)
..++..+++..++ ..+ .+.+-+ +.|++..|+.+ ++-.+|.. ++...+++|+.+|.+..+-....-.
T Consensus 82 anned~~Tlkaed~~dti~l~fe~~~~dki~dy~lKLmdiD~ehl~IPe~-dy~~~~~mPa~EF~ricrdls~f~D---- 156 (260)
T KOG1636|consen 82 ANNEDTVTLKAEDNPDTITLMFESPKQDKIADYELKLMDIDSEHLGIPEQ-DYDAVVTMPAGEFSRICRDLSTFSD---- 156 (260)
T ss_pred ccCCCceEEEeecCCceEEEEEECCCCCcceeeEEEeeeccHHHcCCCcc-cceEEEEccHHHHHHHHHHHhhhcC----
Confidence 9988789997653 344 343322 35666666542 45555544 4578899999999999888754432
Q ss_pred ccceeeEEEEEECCEEEEEEecceEEEEEEEecCCC-----------CCCcceEEEehhhHHHHHhhhcCCCCcEEEEEe
Q psy13360 155 RYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK-----------FSSCSDIIIPRKTVFTLQRLLENKENPVELKIS 223 (1161)
Q Consensus 155 rpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~-----------~~~~~~viIP~k~L~eL~klL~~~~~~V~i~~~ 223 (1161)
.|.+.++..++.+.|+=-+--+...+..... ..++....+..|+++.+.|.-|- ..+|.++.+
T Consensus 157 -----sv~I~~tkegv~F~~~Gdig~asi~l~~~~~~d~~e~av~iE~~~pVtltfa~kYln~ftKatpL-s~rV~lsls 230 (260)
T KOG1636|consen 157 -----SVVISATKEGVKFSAKGDIGTASITLSQCTAVDKPEEAVKIEMNEPVTLTFALKYLNQFTKATPL-SDRVTLSLS 230 (260)
T ss_pred -----eEEEEEecceeEEEecccccceeEEEccCCCCCCccceEEEEecCcchhhhHHHHHHHhhccccc-cceEEEEec
Confidence 2444444444444444222222222211111 11134566677888888887553 356888877
Q ss_pred CcE-EEEEE
Q psy13360 224 NNQ-IKIIF 231 (1161)
Q Consensus 224 ~~~-l~f~~ 231 (1161)
... ++|++
T Consensus 231 ~~~P~~vey 239 (260)
T KOG1636|consen 231 SEVPVVVEY 239 (260)
T ss_pred CCCcEEEEE
Confidence 654 45544
No 130
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=92.24 E-value=0.23 Score=65.15 Aligned_cols=75 Identities=19% Similarity=0.383 Sum_probs=50.3
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC---------------C---cEEEEECCCccccccccCCCCCCCCcceE
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD---------------N---SISISDNGRGIPIDIKIDDKHKPKRSAAE 438 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d---------------g---sisV~DnGrGIPv~~~~~~~~~~~~~~~e 438 (1161)
-|.+++..+++||+...-. ...|.|.+..+ + .|+|.|||.|||-+..+.
T Consensus 560 ~L~qvl~NLl~NAik~~~~--~g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~~~----------- 626 (828)
T PRK13837 560 ELQQVLMNLCSNAAQAMDG--AGRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVLPH----------- 626 (828)
T ss_pred HHHHHHHHHHHHHHHHccc--CCeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHHHH-----------
Confidence 4788888888888876543 34566666532 2 589999999999876544
Q ss_pred EEEeeecccCCCCCCceeeecccccchhhHhhhhccE
Q psy13360 439 IVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 439 ~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
+|...+++.+ +-.|+|++.+.-+-+.
T Consensus 627 -iFe~F~~~~~----------~G~GLGL~i~~~iv~~ 652 (828)
T PRK13837 627 -IFEPFFTTRA----------GGTGLGLATVHGIVSA 652 (828)
T ss_pred -hhCCcccCCC----------CCCcchHHHHHHHHHH
Confidence 4443332211 4479999988777654
No 131
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=91.90 E-value=0.2 Score=60.13 Aligned_cols=47 Identities=32% Similarity=0.481 Sum_probs=37.8
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccC
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKID 427 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~ 427 (1161)
+..+|.|.+-|++-.+. ++.|+|+++.. | .++|+|||.|||...+|.
T Consensus 482 lLqIvREAlsNa~KHa~---As~i~V~~~~~~g~~~~~VeDnG~Gi~~~~e~~ 531 (574)
T COG3850 482 LLQIVREALSNAIKHAQ---ASEIKVTVSQNDGQVTLTVEDNGVGIDEAAEPS 531 (574)
T ss_pred HHHHHHHHHHHHHHhcc---cCeEEEEEEecCCeEEEEEeeCCcCCCCccCCC
Confidence 34567899999998886 58899998864 5 689999999999875554
No 132
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=91.73 E-value=0.52 Score=59.07 Aligned_cols=43 Identities=33% Similarity=0.567 Sum_probs=31.6
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPID 423 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~ 423 (1161)
+.+++.|+|.||+-.+. ++.|.|.+..+ + .++|.|||.|||.+
T Consensus 470 l~~il~ell~NA~kha~---a~~i~V~~~~~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 470 LLQIAREALSNALKHAQ---ASEVVVTVAQNQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred HHHHHHHHHHHHHHhCC---CCeEEEEEEEcCCEEEEEEEECCCCCCcc
Confidence 56777788888777653 34688887654 3 58999999999854
No 133
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=91.66 E-value=0.2 Score=56.18 Aligned_cols=47 Identities=30% Similarity=0.500 Sum_probs=37.4
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCcccccccc
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKI 426 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~ 426 (1161)
-+.+++..+++||++... ...|.|.+..++ .++|.|||.|||.+..+
T Consensus 228 ~l~~vl~nLi~NAi~~~~---~~~i~i~~~~~~~~i~i~V~D~G~Gi~~~~~~ 277 (336)
T COG0642 228 RLRQVLVNLLSNAIKYTP---GGEITISVRQDDEQVTISVEDTGPGIPEEELE 277 (336)
T ss_pred HHHHHHHHHHHHHhccCC---CCeEEEEEEecCCeEEEEEEcCCCCCCHHHHH
Confidence 477788888888887664 578999988754 68999999999987643
No 134
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=91.44 E-value=0.26 Score=56.07 Aligned_cols=80 Identities=24% Similarity=0.258 Sum_probs=52.0
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++.+++.||++.... ...|.|.+..+ + .++|.|||.|||.+..+. +|.......+
T Consensus 229 ~l~~vl~nll~Nai~~~~~--~~~i~i~~~~~~~~~~i~i~d~G~gi~~~~~~~------------if~~~~~~~~---- 290 (333)
T TIGR02966 229 ELRSAFSNLVSNAIKYTPE--GGTITVRWRRDGGGAEFSVTDTGIGIAPEHLPR------------LTERFYRVDK---- 290 (333)
T ss_pred HHHHHHHHHHHHhheeCCC--CCeEEEEEEEcCCEEEEEEEecCCCCCHHHHhh------------hccCceecCc----
Confidence 4788889999999876533 35687777643 3 589999999999886654 3333322111
Q ss_pred ceeeecccccchhhHhhhhcc
Q psy13360 454 SYKISGGLHGIGLSCVNGLSR 474 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~ 474 (1161)
......+-.|+|++.++-+.+
T Consensus 291 ~~~~~~~g~glGL~~~~~~~~ 311 (333)
T TIGR02966 291 SRSRDTGGTGLGLAIVKHVLS 311 (333)
T ss_pred ccccCCCCCcccHHHHHHHHH
Confidence 001112336999999887774
No 135
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=91.36 E-value=0.26 Score=65.35 Aligned_cols=81 Identities=23% Similarity=0.365 Sum_probs=51.2
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+|+||+...-.| .|.|.+..+ + .|+|.|+|.|||.+..+. +|........ .
T Consensus 562 ~L~qvl~NLl~NAik~t~~G---~I~I~v~~~~~~l~i~V~DtG~GI~~e~~~~------------lFepF~~~~~---~ 623 (924)
T PRK10841 562 RLQQVISNLLSNAIKFTDTG---CIVLHVRVDGDYLSFRVRDTGVGIPAKEVVR------------LFDPFFQVGT---G 623 (924)
T ss_pred HHHHHHHHHHHHHHhhCCCC---cEEEEEEEeCCEEEEEEEEcCcCCCHHHHHH------------HhcccccCCC---C
Confidence 37788888888888765433 466655543 3 588999999999876544 3433332211 1
Q ss_pred ceeeecccccchhhHhhhhccEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
.....+-.|+|+++|.-+.+.+
T Consensus 624 -~~~~~~GtGLGL~I~k~lv~~~ 645 (924)
T PRK10841 624 -VQRNFQGTGLGLAICEKLINMM 645 (924)
T ss_pred -CCCCCCCeehhHHHHHHHHHHC
Confidence 1112233799999998887543
No 136
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=91.04 E-value=0.45 Score=58.94 Aligned_cols=75 Identities=25% Similarity=0.371 Sum_probs=48.9
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEec--C--CcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYS--D--NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~--d--gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
-|..++.++++||+..+.. ...|.|.+.. + -.|+|.|||+|||.+.... +|-....
T Consensus 500 ~l~~~~~nli~na~~~~~~--~~~i~v~~~~~~~~~~~i~v~D~G~G~~~~~~~~------------~f~~~~~------ 559 (607)
T PRK11360 500 LLKQVLLNILINAVQAISA--RGKIRIRTWQYSDGQVAVSIEDNGCGIDPELLKK------------IFDPFFT------ 559 (607)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCeEEEEEEEcCCCEEEEEEEeCCCCCCHHHHhh------------hcCCcee------
Confidence 3777788888888875433 4467777653 2 2599999999999875533 2222211
Q ss_pred CceeeecccccchhhHhhhhccE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
...+-.|+|+..++-+-+.
T Consensus 560 ----~~~~g~glGL~~~~~~~~~ 578 (607)
T PRK11360 560 ----TKAKGTGLGLALSQRIINA 578 (607)
T ss_pred ----CCCCCCchhHHHHHHHHHH
Confidence 1123479999998877643
No 137
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=91.02 E-value=0.22 Score=55.91 Aligned_cols=72 Identities=28% Similarity=0.452 Sum_probs=49.5
Q ss_pred ccccccccccccCcchhhccccccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCCC-----------CCeEEEE
Q psy13360 336 SYDIQDTQESSYSASSIQILEGLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAGY-----------CTKINVT 404 (1161)
Q Consensus 336 ~d~i~l~~~~~y~~~~i~~L~~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~-----------~~~I~V~ 404 (1161)
.+.|+| ..+||.+- |..| |+.| -|.+.|+-+|-||+... ++. -+-+.++
T Consensus 219 ~~~i~l--~rdYDPSL-------------P~v~-~d~D---qliQv~LNlVrNAaqA~-~~~~~~~g~I~LrTR~~~q~~ 278 (363)
T COG3852 219 ADNVRL--IRDYDPSL-------------PEVL-GDRD---QLIQVFLNLVRNAAQAL-GGRADEGGEIILRTRTGIQLT 278 (363)
T ss_pred CCceEE--eecCCCCC-------------cccc-CCHH---HHHHHHHHHHHHHHHHh-cCCCCCCceEEEEeccceEEE
Confidence 345666 57788773 5566 5554 48999999999999644 321 1235566
Q ss_pred EecC-----CcEEEEECCCccccccccC
Q psy13360 405 IYSD-----NSISISDNGRGIPIDIKID 427 (1161)
Q Consensus 405 i~~d-----gsisV~DnGrGIPv~~~~~ 427 (1161)
|+.. -.+.|.|||+|||-+..+.
T Consensus 279 i~g~r~rl~l~leViDNGPGVP~~L~~~ 306 (363)
T COG3852 279 IAGTRYRLALPLEVIDNGPGVPPDLQDH 306 (363)
T ss_pred ccCceeEeeeeeEEecCCCCCChHHhhh
Confidence 6532 1688999999999987765
No 138
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=90.60 E-value=0.8 Score=60.36 Aligned_cols=89 Identities=24% Similarity=0.322 Sum_probs=56.6
Q ss_pred cceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEec--C--C--cEEEEECCCccccccccCCCCCCCCcceE
Q psy13360 365 PEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYS--D--N--SISISDNGRGIPIDIKIDDKHKPKRSAAE 438 (1161)
Q Consensus 365 P~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~--d--g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e 438 (1161)
|.++.|+. .-|.+++.-+|.||+...-. ..|.|.+.. + + .|+|.|+|.|||-+..+.
T Consensus 556 ~~~v~~D~---~~L~QVL~NLL~NAik~t~~---G~I~I~v~~~~~~~~~l~I~V~DtG~GI~~e~l~~----------- 618 (894)
T PRK10618 556 EQLRIGDR---DALRKILLLLLNYAITTTAY---GKITLEVDQDESSPDRLTIRILDTGAGVSIKELDN----------- 618 (894)
T ss_pred CcEEEecH---HHHHHHHHHHHHHHHHhCCC---CeEEEEEEEccCCCcEEEEEEEECCCCCCHHHHHH-----------
Confidence 34555543 24888899999999875432 356666653 2 2 589999999999886654
Q ss_pred EEEeeecccCCCCCCceeeecccccchhhHhhhhccEE
Q psy13360 439 IVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 439 ~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
+|-........ ...|+-.|+|+++|.-+.+.+
T Consensus 619 -IFePF~t~~~~-----~~~~~GtGLGLaI~k~Lve~~ 650 (894)
T PRK10618 619 -LHFPFLNQTQG-----DRYGKASGLTFFLCNQLCRKL 650 (894)
T ss_pred -hcCccccCCCC-----CCCCCCcChhHHHHHHHHHHc
Confidence 34333322111 112334799999999887654
No 139
>PRK10490 sensor protein KdpD; Provisional
Probab=90.30 E-value=0.38 Score=63.58 Aligned_cols=79 Identities=20% Similarity=0.331 Sum_probs=52.9
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
-|.+++..+|+||+...-. ...|.|.+..++ .|+|.|||.|||-+..+. +|...+.+.+ .
T Consensus 778 ~L~qVL~NLL~NAik~s~~--g~~I~I~~~~~~~~v~I~V~D~G~GI~~e~~~~------------IFepF~~~~~-~-- 840 (895)
T PRK10490 778 LFERVLINLLENAVKYAGA--QAEIGIDAHVEGERLQLDVWDNGPGIPPGQEQL------------IFDKFARGNK-E-- 840 (895)
T ss_pred HHHHHHHHHHHHHHHhCCC--CCeEEEEEEEeCCEEEEEEEECCCCCCHHHHHH------------hcCCCccCCC-C--
Confidence 4778888888888876533 456777776543 589999999999876554 5554443321 1
Q ss_pred ceeeecccccchhhHhhhhccE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~ 475 (1161)
.+.+-+|.|++++..+.+.
T Consensus 841 ---~~~~G~GLGL~Ivk~ive~ 859 (895)
T PRK10490 841 ---SAIPGVGLGLAICRAIVEV 859 (895)
T ss_pred ---CCCCCccHHHHHHHHHHHH
Confidence 1122379999998877754
No 140
>PRK10547 chemotaxis protein CheA; Provisional
Probab=90.24 E-value=0.74 Score=58.44 Aligned_cols=43 Identities=14% Similarity=0.340 Sum_probs=31.6
Q ss_pred HhHHHhhHhhhcC----------CCCCeEEEEEecCC---cEEEEECCCccccccc
Q psy13360 383 FEILDNAIDESLA----------GYCTKINVTIYSDN---SISISDNGRGIPIDIK 425 (1161)
Q Consensus 383 ~EivdNsiDe~~~----------g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~ 425 (1161)
..+|.||+|.... ....+|.|....+| .|+|.|||+|||.+..
T Consensus 391 ~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~~~~~v~I~V~DdG~GId~e~i 446 (670)
T PRK10547 391 THLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQGGNICIEVTDDGAGLNRERI 446 (670)
T ss_pred HHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEEcCCEEEEEEEeCCCCCCHHHH
Confidence 4789999998643 12456888876543 4899999999997643
No 141
>PRK13560 hypothetical protein; Provisional
Probab=90.21 E-value=0.57 Score=60.73 Aligned_cols=46 Identities=24% Similarity=0.479 Sum_probs=35.7
Q ss_pred cchhHHhHHHhhHhhhcCC-CCCeEEEEEecC--C--cEEEEECCCccccc
Q psy13360 378 LHHFVFEILDNAIDESLAG-YCTKINVTIYSD--N--SISISDNGRGIPID 423 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g-~~~~I~V~i~~d--g--sisV~DnGrGIPv~ 423 (1161)
+..++.+++.||+..+..+ ....|.|.+... + .|+|.|||.|||.+
T Consensus 712 ~~~il~NLl~NAik~~~~~~~~~~i~i~~~~~~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 712 CGLIISELLSNALKHAFPDGAAGNIKVEIREQGDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred hHHHHHHHHHHHHHhhccCCCCceEEEEEEEcCCCEEEEEEEeCCCcCCcc
Confidence 4557889999999977643 456788887754 3 48999999999965
No 142
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=89.98 E-value=0.31 Score=64.87 Aligned_cols=88 Identities=20% Similarity=0.413 Sum_probs=56.5
Q ss_pred cceEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEe--cCC--cEEEEECCCccccccccCCCCCCCCcceEEE
Q psy13360 365 PEMYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIY--SDN--SISISDNGRGIPIDIKIDDKHKPKRSAAEIV 440 (1161)
Q Consensus 365 P~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~--~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v 440 (1161)
|..+.|+. .-|..++..+|+||+...-.| .|.|.+. .++ .|+|.|+|.|||-+..+. +
T Consensus 570 ~~~~~~d~---~~l~~il~nLi~NAik~~~~g---~i~i~~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------i 631 (968)
T TIGR02956 570 PNWWQGDG---PRIRQVLINLVGNAIKFTDRG---SVVLRVSLNDDSSLLFEVEDTGCGIAEEEQAT------------L 631 (968)
T ss_pred CceEeeCH---HHHHHHHHHHHHHHHhhCCCC---eEEEEEEEcCCCeEEEEEEeCCCCCCHHHHHH------------H
Confidence 34455543 348889999999999865333 4666654 333 489999999999876544 4
Q ss_pred EeeecccCCCCCCceeeecccccchhhHhhhhccEE
Q psy13360 441 MTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 441 ~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
|.....+. .. ... |-.|+|++.|.-+.+.+
T Consensus 632 f~~f~~~~--~~---~~~-~g~GLGL~i~~~l~~~~ 661 (968)
T TIGR02956 632 FDAFTQAD--GR---RRS-GGTGLGLAISQRLVEAM 661 (968)
T ss_pred HhhhhccC--CC---CCC-CCccHHHHHHHHHHHHc
Confidence 44333322 10 111 34799999998887655
No 143
>cd00188 TOPRIM Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=89.29 E-value=0.89 Score=40.15 Aligned_cols=71 Identities=37% Similarity=0.411 Sum_probs=49.2
Q ss_pred eEEEEeccCCCcccccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeec
Q psy13360 781 ELYIVEGDSAGGSVKQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTD 860 (1161)
Q Consensus 781 eL~ivEGDSA~gsak~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtD 860 (1161)
.++||||++-.-+..+.... ...++++.|+..+ .-...+...++. +.+|+|++|
T Consensus 2 ~viivEg~~d~~~l~~~~~~-~~~~~~~~G~~~~------------~~~~~~~~~~~~-------------~~~v~i~~D 55 (83)
T cd00188 2 KLIIVEGPSDALALAQAGGY-GGAVVALGGHALN------------KTRELLKRLLGE-------------AKEVIIATD 55 (83)
T ss_pred EEEEEecHHHHHHHHHHcCC-CEEEEEEccEEcH------------HHHHHHHHHhcC-------------CCEEEEEcC
Confidence 58999999988777766554 3578899998776 222222222221 679999999
Q ss_pred CCCCChhhHHHHHHHHH
Q psy13360 861 ADIDGAHIRALLLTFFY 877 (1161)
Q Consensus 861 aD~DG~HI~~Llltff~ 877 (1161)
.|..|.++...+.....
T Consensus 56 ~D~~g~~~~~~~~~~~~ 72 (83)
T cd00188 56 ADREGEAIALRLLELLK 72 (83)
T ss_pred CChhHHHHHHHHHHHHH
Confidence 99999966665555443
No 144
>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage.; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.
Probab=89.27 E-value=41 Score=37.55 Aligned_cols=204 Identities=14% Similarity=0.187 Sum_probs=112.6
Q ss_pred HHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEecceeEEEEEeee-----------cccCCceEEEEechhHHHH
Q psy13360 12 ILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEVQITTYTAV-----------GYGNSSINIIVAARKFIDI 80 (1161)
Q Consensus 12 L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~~i~~~i~a-----------~~~~~~G~v~V~ak~l~~I 80 (1161)
|.++|+.++++= ..|+|++.+++|.|.|.|...+.-+.+.- ....+.-.+.|+.|.++.+
T Consensus 1 f~ral~~Lskig---------eel~ie~~~~~L~l~avNss~Sa~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~v 71 (252)
T PF04139_consen 1 FARALQCLSKIG---------EELYIEITEDGLSLRAVNSSRSAYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSV 71 (252)
T ss_dssp HHHHHHHHHTT----------SEEEEEEETTEEEEEEE-TTSSEEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHH
T ss_pred CHHHHHHHHhhC---------CeEEEEEcCCeEEEEEECccccEEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhh
Confidence 345566665542 68999999999999999998666544421 1122344778999999999
Q ss_pred HhcCCCC----ccEEEEEe--CcEEEEE--ECcE---EEEEccCCCCCCCCccCCCCcceEEEEcHHHHHHHHHhhcccc
Q psy13360 81 LRSLPET----EKVTIYIE--NKHMFIK--SGKS---KFTLQTLDAKEYPIMTLNSKYDFEFTLSQKTLKCILNMVYFSI 149 (1161)
Q Consensus 81 vk~Lp~~----~~I~ie~~--~~~l~I~--sG~~---~~~l~~~~~edfP~~~~~~~~~~~~~i~~~~L~~aI~~v~~a~ 149 (1161)
.|.+... +.+.+..+ ...+.++ +... +|+|+..+.+.-+..-........+.+++..|.+.+......
T Consensus 72 fr~~~~~~~~Ve~c~i~i~~~~~~L~~~l~c~~gI~Kt~~l~~~~~~~~~a~~d~~~~~n~l~~~~~~l~~~l~~f~~~- 150 (252)
T PF04139_consen 72 FRSLSTLEKNVESCEISIDNDESRLIFQLFCKNGIIKTYNLPYEECESLQAVFDKESCPNYLVISPRLLKDLLDHFPSS- 150 (252)
T ss_dssp HSSCTCCHHCEEEEEEEE-TTSSEEEEEEEEGGGEEEEEEEE-CE---------GGGSSEEEEEEHHHHHHHHTTS-TT-
T ss_pred hccccccccceeEEEEEEcCCCcEEEEEEEeccceEEEEEEEEEeccccccccchhcCCceEEEChHHHHHHHhhcCCC-
Confidence 9976511 13455553 3455443 5433 688887766544333211222568999999999999866432
Q ss_pred cccccccceeeEEEEEECCEEEEEEec-----ceEEEEEEEecCCC------CCCcceEEEehhhHHHHHhhhcCCCCcE
Q psy13360 150 AQQDIRYYLNGLLLSFQKKNIIAVSSD-----GHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTLQRLLENKENPV 218 (1161)
Q Consensus 150 s~~~trpiL~GV~~~~~~~~L~lvATD-----g~RLa~~~i~~~~~------~~~~~~viIP~k~L~eL~klL~~~~~~V 218 (1161)
..=|-+++.++.+.+.+-. .......++.+... ..++.+++++-|-++.++.+...-+.++
T Consensus 151 --------~eeitl~~~~~~v~~~s~~~~~~~~~~~l~t~v~i~~~ef~~~~~~~~~~itF~lKefka~l~~ae~~~~~i 222 (252)
T PF04139_consen 151 --------TEEITLEVTDDKVSFKSYTEEIQDSKQPLSTEVTISTEEFDEYNVQEDTDITFSLKEFKAILSFAESLSLPI 222 (252)
T ss_dssp ----------EEEEEEECTCEEEEEE-----SSS---EEEEEE-GGGSSEEE--TT-EEEEEHHHHHHHHHHHHHTTEEE
T ss_pred --------hhhEEEEecCCEEEEEeecccccccccceEEEEEEehHhcceEEcCCCCEEEEEeHHHHHHHHHHHhcCCcE
Confidence 1225556666655555432 22223333333321 1224589999999999888876545667
Q ss_pred EEEEeC--cEEEEEECc
Q psy13360 219 ELKISN--NQIKIIFSN 233 (1161)
Q Consensus 219 ~i~~~~--~~l~f~~~~ 233 (1161)
.+.++. +=++|+.++
T Consensus 223 ~~~f~~pG~Pi~~~~~~ 239 (252)
T PF04139_consen 223 SIYFDNPGRPILFELEQ 239 (252)
T ss_dssp EEEESSTTS-EEEEEE-
T ss_pred EEEECCCCCcEEEEECC
Confidence 777753 336665543
No 145
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=89.26 E-value=0.39 Score=62.47 Aligned_cols=81 Identities=19% Similarity=0.296 Sum_probs=51.9
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecC--C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSD--N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNK 452 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d--g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~ 452 (1161)
-|.+++..+++||++..-. ..|.|.+..+ + .++|.|||.|||-+..+. +|...+....
T Consensus 398 ~l~qvl~NLl~NAik~~~~---g~v~i~~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------iF~~f~~~~~--- 459 (779)
T PRK11091 398 RLRQILWNLISNAVKFTQQ---GGVTVRVRYEEGDMLTFEVEDSGIGIPEDELDK------------IFAMYYQVKD--- 459 (779)
T ss_pred HHHHHHHHHHHHHHHhCCC---CcEEEEEEEccCCEEEEEEEecCCCCCHHHHHH------------HHHHhhcccC---
Confidence 4889999999999986532 3466665543 2 589999999999876654 4443333210
Q ss_pred CceeeecccccchhhHhhhhccE
Q psy13360 453 NSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 453 ~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
..-...+|-.|+|++.|.-+-+.
T Consensus 460 ~~~~~~~~GtGLGL~i~~~iv~~ 482 (779)
T PRK11091 460 SHGGKPATGTGIGLAVSKRLAQA 482 (779)
T ss_pred CCCCCCCCCcchHHHHHHHHHHH
Confidence 00111134479999998877654
No 146
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=88.13 E-value=0.55 Score=55.40 Aligned_cols=46 Identities=33% Similarity=0.458 Sum_probs=37.4
Q ss_pred CccchhHHhHHHhhHhhhcCCCCCeEEEEEecC-C--cEEEEECCCcccccc
Q psy13360 376 TGLHHFVFEILDNAIDESLAGYCTKINVTIYSD-N--SISISDNGRGIPIDI 424 (1161)
Q Consensus 376 ~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~ 424 (1161)
..|.+++.|.|.|++=.+. ++++.|++..+ + .++|.|||+|.+.+.
T Consensus 278 ~~l~rivQEaltN~~rHa~---A~~v~V~l~~~~~~l~l~V~DnG~Gf~~~~ 326 (365)
T COG4585 278 DALFRIVQEALTNAIRHAQ---ATEVRVTLERTDDELRLEVIDNGVGFDPDK 326 (365)
T ss_pred HHHHHHHHHHHHHHHhccC---CceEEEEEEEcCCEEEEEEEECCcCCCccc
Confidence 3688999999999997664 57888888864 3 689999999999874
No 147
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=88.00 E-value=0.55 Score=62.09 Aligned_cols=81 Identities=22% Similarity=0.333 Sum_probs=47.9
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEec--CC----cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYS--DN----SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFN 451 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~--dg----sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd 451 (1161)
|.+++..+|+||+...-.|. -.|.|.+.. ++ .|+|.|||.|||.+..+. +|-....+.
T Consensus 409 l~~vl~NLl~NAik~~~~g~-v~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------if~~f~~~~--- 472 (919)
T PRK11107 409 LQQIITNLVGNAIKFTESGN-IDILVELRALSNTKVQLEVQIRDTGIGISERQQSQ------------LFQAFRQAD--- 472 (919)
T ss_pred HHHHHHHHHHHHhhcCCCCc-EEEEEEEEecCCCeeEEEEEEEEeCCCcCHHHHHH------------HhhhhccCC---
Confidence 67788888888887553332 133444332 22 489999999999876544 333332211
Q ss_pred CCceeeecccccchhhHhhhhccE
Q psy13360 452 KNSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 452 ~~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
.+.....|-.|+|+++|.-+.+.
T Consensus 473 -~~~~~~~~g~GLGL~i~~~i~~~ 495 (919)
T PRK11107 473 -ASISRRHGGTGLGLVITQKLVNE 495 (919)
T ss_pred -CCCCCCCCCcchhHHHHHHHHHH
Confidence 11111224489999998877653
No 148
>PRK13557 histidine kinase; Provisional
Probab=87.99 E-value=1.1 Score=54.94 Aligned_cols=77 Identities=27% Similarity=0.450 Sum_probs=49.8
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEe----------------cCC--cEEEEECCCccccccccCCCCCCCCcceE
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIY----------------SDN--SISISDNGRGIPIDIKIDDKHKPKRSAAE 438 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~----------------~dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e 438 (1161)
-|.+++..++.||++....+ ..|.|... .++ .|+|.|||.|||.+..+.
T Consensus 277 ~l~~vl~nll~NA~~~~~~~--~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~----------- 343 (540)
T PRK13557 277 QAEVALLNVLINARDAMPEG--GRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILAR----------- 343 (540)
T ss_pred HHHHHHHHHHHHHHHhcccC--CeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHh-----------
Confidence 47888999999999876443 34555443 122 489999999999876554
Q ss_pred EEEeeecccCCCCCCceeeecccccchhhHhhhhccE
Q psy13360 439 IVMTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRF 475 (1161)
Q Consensus 439 ~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~ 475 (1161)
+|...++... .++--|+|++++.-+-+.
T Consensus 344 -if~~~~~~~~--------~~~g~GlGL~i~~~~v~~ 371 (540)
T PRK13557 344 -VMDPFFTTKE--------EGKGTGLGLSMVYGFAKQ 371 (540)
T ss_pred -ccCCCcccCC--------CCCCCCccHHHHHHHHHH
Confidence 4544443211 123358888887665543
No 149
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=87.98 E-value=0.58 Score=57.05 Aligned_cols=80 Identities=30% Similarity=0.407 Sum_probs=54.7
Q ss_pred EEeecCCCCccchhHHhHHHhhHhhhcC-----CCCCeEEEEEec-CC--cEEEEECCCccccccccCCCCCCCCcceEE
Q psy13360 368 YIGDTSDGTGLHHFVFEILDNAIDESLA-----GYCTKINVTIYS-DN--SISISDNGRGIPIDIKIDDKHKPKRSAAEI 439 (1161)
Q Consensus 368 YiGs~~~~~gl~hlv~EivdNsiDe~~~-----g~~~~I~V~i~~-dg--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~ 439 (1161)
.+|.-|. +-|.+.+.-++-||.+..-+ +....|.++++. || .+.|.|||.|.|.+.... +.|-
T Consensus 592 l~~~~D~-~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~r~r--------~~EP 662 (712)
T COG5000 592 LIGMADA-TLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHR--------ALEP 662 (712)
T ss_pred eeeecCH-HHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCCeEEEEEecCCCCCChHHhhh--------hccC
Confidence 4555555 67888889999998876542 223367888775 66 588999999999886533 4555
Q ss_pred EEeeecccCCCCCCceeeecccccchhhHhh
Q psy13360 440 VMTELHAGGKFNKNSYKISGGLHGIGLSCVN 470 (1161)
Q Consensus 440 v~t~l~ag~kfd~~~yk~sgGlhGvG~svvN 470 (1161)
.+|.--.| -|+|+++|-
T Consensus 663 YvTtr~KG--------------TGLGLAiVK 679 (712)
T COG5000 663 YVTTREKG--------------TGLGLAIVK 679 (712)
T ss_pred ceeccccc--------------ccccHHHHH
Confidence 55544333 388888764
No 150
>PF02747 PCNA_C: Proliferating cell nuclear antigen, C-terminal domain; InterPro: IPR022649 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1IZ5_A 1IZ4_A 1GE8_A 1ISQ_A 3A2F_B 1RWZ_A 3P83_A 1RXM_A 1RXZ_A 1SXJ_F ....
Probab=87.80 E-value=3.6 Score=41.13 Aligned_cols=84 Identities=11% Similarity=0.186 Sum_probs=58.4
Q ss_pred ccC-CcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEeCCEEEEEEEcCCccccceeeee-----------eee-CCc
Q psy13360 252 ISN-KYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIKPNYLKITVSSSNREKASEELEI-----------NYN-GKD 318 (1161)
Q Consensus 252 ip~-~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~L~isa~d~~~g~~~E~i~~-----------~~~-Ge~ 318 (1161)
+|. +++..++++..+|.++++-+..+.+ .|.+..+++++.+++.+ +.|.++-.+.- .++ .++
T Consensus 2 iP~~e~~~~v~m~S~~f~~~~kdl~~v~d----~v~i~~~~~~~~f~~~G-d~~~~~v~~~~~~~~~~~~~~~~i~~~~~ 76 (128)
T PF02747_consen 2 IPDLEYDATVTMPSSEFKKICKDLSSVGD----TVTISADKDSVIFSAEG-DIGSAEVEFKETESSEDDEELIEIEVKEP 76 (128)
T ss_dssp ---SS-SEEEEEEHHHHHHHHHHHHTTCS----EEEEEEETTEEEEEEEE-SSEEEEEEEEEEEEETTCTCESEEEESSE
T ss_pred CCCccceEEEEEEHHHHHHHHHHHHhcCC----EEEEEEeCCEEEEEEEe-ccCcEEEEEeeccccccccccceeeeccc
Confidence 344 7889999999999999999999974 38999999999999886 55544322211 111 233
Q ss_pred cceeeechhhhh--hcccC-cccccc
Q psy13360 319 KNFIKFLIKIML--LKNKN-SYDIQD 341 (1161)
Q Consensus 319 ~~ii~fn~~yLl--L~~~~-~d~i~l 341 (1161)
.+ ..|..+||. .+... ++.|+|
T Consensus 77 ~~-~~fsl~YL~~~~Ka~~ls~~V~l 101 (128)
T PF02747_consen 77 VS-SSFSLDYLNDFSKAAPLSDEVTL 101 (128)
T ss_dssp EE-EEEEHHHHHHHGGGGGTTSEEEE
T ss_pred ee-eEEeHHHHHhhhccccCCceEEE
Confidence 44 789999987 55553 677777
No 151
>KOG0787|consensus
Probab=87.63 E-value=0.43 Score=54.93 Aligned_cols=65 Identities=26% Similarity=0.287 Sum_probs=47.9
Q ss_pred cccceeeccceEEeecCCCCccchhHHhHHHhhHhhhcCC-----C-CCeEEEEEec---CCcEEEEECCCcccccccc
Q psy13360 357 GLEAVRKRPEMYIGDTSDGTGLHHFVFEILDNAIDESLAG-----Y-CTKINVTIYS---DNSISISDNGRGIPIDIKI 426 (1161)
Q Consensus 357 ~~e~vrkRP~mYiGs~~~~~gl~hlv~EivdNsiDe~~~g-----~-~~~I~V~i~~---dgsisV~DnGrGIPv~~~~ 426 (1161)
--+|.-++|+.|| + +=|+||+.|++-||.-.-+.- . -..|+|++-. |=+|.|.|-|-|||-+..+
T Consensus 245 i~~~~a~~~~vyv----P-shL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrGGGV~~~~~d 318 (414)
T KOG0787|consen 245 IEGHNALSFTVYV----P-SHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRGGGVPHRDID 318 (414)
T ss_pred ecCcccccCcccc----c-hHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEecCCCCcChhHHH
Confidence 3445556676787 3 569999999999999777641 1 3448888764 4489999999999977554
No 152
>PRK13559 hypothetical protein; Provisional
Probab=87.56 E-value=1.5 Score=51.17 Aligned_cols=46 Identities=20% Similarity=0.234 Sum_probs=33.3
Q ss_pred ccchhHHhHHHhhHhhhc-CCCCCeEEEEE--ec-CC--cEEEEECCCcccc
Q psy13360 377 GLHHFVFEILDNAIDESL-AGYCTKINVTI--YS-DN--SISISDNGRGIPI 422 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~-~g~~~~I~V~i--~~-dg--sisV~DnGrGIPv 422 (1161)
.|..++.|++.||+..+. ......|.|.+ .. ++ .++|.|||.|+|.
T Consensus 267 ~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~~~~i~v~d~G~~~~~ 318 (361)
T PRK13559 267 PLGLVLHELAVNAIKHGALSADQGRISISWKPSPEGAGFRIDWQEQGGPTPP 318 (361)
T ss_pred HHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCCeEEEEEECCCCCCCC
Confidence 478899999999998642 22345788888 33 33 6888999988764
No 153
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=85.07 E-value=1.3 Score=60.69 Aligned_cols=82 Identities=21% Similarity=0.366 Sum_probs=50.3
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEe--cCC----cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCC
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIY--SDN----SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKF 450 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~--~dg----sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kf 450 (1161)
-|.+++..+++||++....|. -.|.+... .++ .|+|.|||.|||.+..+. +|.....+..
T Consensus 828 ~l~qvl~NLl~NAik~~~~g~-i~i~~~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~------------iF~~f~~~~~- 893 (1197)
T PRK09959 828 AFKQVLSNLLSNALKFTTEGA-VKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQQQ------------LFKRYSQTSA- 893 (1197)
T ss_pred HHHHHHHHHHHHHHHhCCCCC-EEEEEEEeeecCCceEEEEEEEEcCCCCCHHHHHH------------hhcccccccc-
Confidence 478888999999998764432 13333221 122 478999999999876544 3433332211
Q ss_pred CCCceeeecccccchhhHhhhhccEEE
Q psy13360 451 NKNSYKISGGLHGIGLSCVNGLSRFLQ 477 (1161)
Q Consensus 451 d~~~yk~sgGlhGvG~svvNalS~~~~ 477 (1161)
. . ..+-+|+|+++|.-+-+.+.
T Consensus 894 ~----~-~~~G~GLGL~i~~~iv~~~g 915 (1197)
T PRK09959 894 G----R-QQTGSGLGLMICKELIKNMQ 915 (1197)
T ss_pred C----C-CCCCcCchHHHHHHHHHHcC
Confidence 0 1 12338999999988775543
No 154
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=84.20 E-value=0.61 Score=53.29 Aligned_cols=91 Identities=25% Similarity=0.374 Sum_probs=56.0
Q ss_pred ceeeccc--eEEeecCCCCccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCccccccccCCCCCCCC
Q psy13360 360 AVRKRPE--MYIGDTSDGTGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDIKIDDKHKPKR 434 (1161)
Q Consensus 360 ~vrkRP~--mYiGs~~~~~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~~~~~~~~~ 434 (1161)
.||+-|+ .|+ ..|. .-+.+.+.-|+.||+-=. .-+.+|.|.+..-+ .|||.|.|-|||-...+.
T Consensus 325 ~vR~~p~~~~~v-eiD~-DK~tQVldNii~NA~KYs--P~Gg~Itv~~~~~~~~v~iSI~D~G~gIPk~d~~~------- 393 (459)
T COG5002 325 FVRDIPKQDIWV-EIDP-DKMTQVLDNIISNALKYS--PDGGRITVSVKQRETWVEISISDQGLGIPKEDLEK------- 393 (459)
T ss_pred HHhcCCCCceEE-EeCh-hHHHHHHHHHHHHHhhcC--CCCCeEEEEEeeeCcEEEEEEccCCCCCCchhHHH-------
Confidence 5677664 343 2222 235555555555555322 33567888877643 599999999999876655
Q ss_pred cceEEEEeeecccCCCCCCceeeecccccchhhHhh
Q psy13360 435 SAAEIVMTELHAGGKFNKNSYKISGGLHGIGLSCVN 470 (1161)
Q Consensus 435 ~~~e~v~t~l~ag~kfd~~~yk~sgGlhGvG~svvN 470 (1161)
||-...-+.| +-.-++|--|.|++.+-
T Consensus 394 -----iFdrfyRvdk----ARsR~~gGTGLGLaIak 420 (459)
T COG5002 394 -----IFDRFYRVDK----ARSRKMGGTGLGLAIAK 420 (459)
T ss_pred -----HHHHHhhhhh----hhhhcCCCCchhHHHHH
Confidence 5555554443 22346677899998765
No 155
>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....
Probab=83.52 E-value=16 Score=36.47 Aligned_cols=82 Identities=10% Similarity=0.142 Sum_probs=62.4
Q ss_pred cHHHHHHHHHhhcccccccccccceeeEEEEEECCEEEEEEecceEEEEEEEecCCC------CCCcceEEEehhhHHHH
Q psy13360 134 SQKTLKCILNMVYFSIAQQDIRYYLNGLLLSFQKKNIIAVSSDGHRLTYYQVNIDKK------FSSCSDIIIPRKTVFTL 207 (1161)
Q Consensus 134 ~~~~L~~aI~~v~~a~s~~~trpiL~GV~~~~~~~~L~lvATDg~RLa~~~i~~~~~------~~~~~~viIP~k~L~eL 207 (1161)
++..|++++...... ..-+.|.++++++.+.|.|..+.+...+.++.. .+.+..+.|+-+.+..+
T Consensus 8 ~a~~~K~i~eal~~l---------v~e~~f~~~~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~igvnl~~l~ki 78 (127)
T PF00705_consen 8 DASLFKKIFEALKDL---------VDEANFEFTEDGISLQAMDPSHVALVDLELPSEAFEEYRCDKELSIGVNLSDLKKI 78 (127)
T ss_dssp SHHHHHHHHHHHTTT---------CSEEEEEEESSEEEEEEE-TTSSEEEEEEEEGGGSSEEEESSSEEEEEEHHHHHHH
T ss_pred chHHHHHHHHHHHHH---------hhEEEEEEccCCEEEEEECCCcEEEEEEEechhcceEEEcCCCEEEEEEHHHHHHH
Confidence 466777777666543 445899999999999999999999988777643 13356899999999999
Q ss_pred HhhhcCCCCcEEEEEeCc
Q psy13360 208 QRLLENKENPVELKISNN 225 (1161)
Q Consensus 208 ~klL~~~~~~V~i~~~~~ 225 (1161)
+|.... ++.+.++.+++
T Consensus 79 Lk~~~~-~D~l~l~~~~~ 95 (127)
T PF00705_consen 79 LKRAKK-DDSLELESDEE 95 (127)
T ss_dssp HTTSST-TSEEEEEEESS
T ss_pred HhhccC-CCEEEEEEeCC
Confidence 988765 45788888764
No 156
>PF00705 PCNA_N: Proliferating cell nuclear antigen, N-terminal domain; InterPro: IPR022648 Proliferating cell nuclear antigen (PCNA), or cyclin, is a non-histone acidic nuclear protein [] that plays a key role in the control of eukaryotic DNA replication []. It acts as a co-factor for DNA polymerase delta, which is responsible for leading strand DNA replication []. The sequence of PCNA is well conserved between plants and animals, indicating a strong selective pressure for structure conservation, and suggesting that this type of DNA replication mechanism is conserved throughout eukaryotes []. In Saccharomyces cerevisiae (Baker's yeast), POL30, is associated with polymerase III, the yeast analog of polymerase delta. Homologues of PCNA have also been identified in the archaea (Euryarchaeota and Crenarchaeota) and in Paramecium bursaria Chlorella virus 1 (PBCV-1) and in nuclear polyhedrosis viruses. ; GO: 0003677 DNA binding, 0030337 DNA polymerase processivity factor activity, 0006275 regulation of DNA replication, 0043626 PCNA complex; PDB: 1U76_E 2ZVK_B 1VYJ_A 1UL1_B 3P87_D 2ZVM_C 2ZVL_A 1AXC_C 3VKX_A 3TBL_B ....
Probab=79.92 E-value=22 Score=35.53 Aligned_cols=85 Identities=11% Similarity=0.128 Sum_probs=62.8
Q ss_pred cHHHHHHHHHHhhccccCCCchhhhccEEEEEECCeEEEEEeccee--EEEEEeeecc-----cCCceEEEEechhHHHH
Q psy13360 8 EKNAILHPLQMVISIVEKKNILPILSNILVCKNSEKISFLSTDTEV--QITTYTAVGY-----GNSSINIIVAARKFIDI 80 (1161)
Q Consensus 8 ~k~~L~~aL~~v~~~v~~k~~~piL~~Iliea~~~~L~ltatD~e~--~i~~~i~a~~-----~~~~G~v~V~ak~l~~I 80 (1161)
+...|.+.+..++.++ ..+.+.+.++++.+.|.|..- -+...+|.+. ++.+-.+.|+-..|..+
T Consensus 8 ~a~~~K~i~eal~~lv---------~e~~f~~~~~Gi~~~amD~s~Valv~l~l~~~~F~~Y~~d~~~~igvnl~~l~ki 78 (127)
T PF00705_consen 8 DASLFKKIFEALKDLV---------DEANFEFTEDGISLQAMDPSHVALVDLELPSEAFEEYRCDKELSIGVNLSDLKKI 78 (127)
T ss_dssp SHHHHHHHHHHHTTTC---------SEEEEEEESSEEEEEEE-TTSSEEEEEEEEGGGSSEEEESSSEEEEEEHHHHHHH
T ss_pred chHHHHHHHHHHHHHh---------hEEEEEEccCCEEEEEECCCcEEEEEEEechhcceEEEcCCCEEEEEEHHHHHHH
Confidence 4556667777777666 568899999999999999863 3345566532 34467999999999999
Q ss_pred HhcCCCCccEEEEEeC--cEEEE
Q psy13360 81 LRSLPETEKVTIYIEN--KHMFI 101 (1161)
Q Consensus 81 vk~Lp~~~~I~ie~~~--~~l~I 101 (1161)
+|....++.++++.++ +.+.|
T Consensus 79 Lk~~~~~D~l~l~~~~~~~~l~i 101 (127)
T PF00705_consen 79 LKRAKKDDSLELESDEEPDKLNI 101 (127)
T ss_dssp HTTSSTTSEEEEEEESSSSEEEE
T ss_pred HhhccCCCEEEEEEeCCCCEEEE
Confidence 9999887778888764 45543
No 157
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=79.43 E-value=2.2 Score=48.98 Aligned_cols=44 Identities=20% Similarity=0.508 Sum_probs=37.7
Q ss_pred ccchhHHhHHHhhHhhhcCCCCCeEEEEEecCCc---EEEEECCCccccc
Q psy13360 377 GLHHFVFEILDNAIDESLAGYCTKINVTIYSDNS---ISISDNGRGIPID 423 (1161)
Q Consensus 377 gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dgs---isV~DnGrGIPv~ 423 (1161)
-|++++.|.+.|-+-.|. ++.|.+.++.++. .+|.|||.|+|.+
T Consensus 410 TLyRl~QE~LNNI~KHA~---AS~V~i~l~~~~e~l~Lei~DdG~Gl~~~ 456 (497)
T COG3851 410 TLYRLCQELLNNICKHAD---ASAVTIQLWQQDERLMLEIEDDGSGLPPG 456 (497)
T ss_pred eHHHHHHHHHHHHHhccc---cceEEEEEeeCCcEEEEEEecCCcCCCCC
Confidence 489999999999988775 4788888888774 6899999999987
No 158
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=76.71 E-value=3.6 Score=46.85 Aligned_cols=67 Identities=24% Similarity=0.324 Sum_probs=44.7
Q ss_pred ccceeeccceEEeecCCC----------CccchhHHhHHHhhHhhhcCCCCCeEEEEEecCC---cEEEEECCCcccccc
Q psy13360 358 LEAVRKRPEMYIGDTSDG----------TGLHHFVFEILDNAIDESLAGYCTKINVTIYSDN---SISISDNGRGIPIDI 424 (1161)
Q Consensus 358 ~e~vrkRP~mYiGs~~~~----------~gl~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg---sisV~DnGrGIPv~~ 424 (1161)
+|..+.||||-|---..+ ..|++++.|.+.|-=-.+ -+++|.|-+..++ ..+|.|||+|.|+..
T Consensus 330 ~~~f~~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErHa---~Atrv~ill~~~~d~vql~vrDnG~GF~~~~ 406 (459)
T COG4564 330 LEDFKERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERHA---GATRVTILLQQMGDMVQLMVRDNGVGFSVKE 406 (459)
T ss_pred HHHhhhccCeEEEEEecCCcccCCcHHHHHHHHHHHHHHHHHHhhc---CCeEEEEEeccCCcceEEEEecCCCCccchh
Confidence 355668999887432211 246666777666643222 3788999888765 578999999999975
Q ss_pred ccC
Q psy13360 425 KID 427 (1161)
Q Consensus 425 ~~~ 427 (1161)
...
T Consensus 407 ~~~ 409 (459)
T COG4564 407 ALQ 409 (459)
T ss_pred hcc
Confidence 543
No 159
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=74.95 E-value=3.9 Score=50.84 Aligned_cols=42 Identities=33% Similarity=0.451 Sum_probs=30.0
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEec--CC--cEEEEECCCcccc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYS--DN--SISISDNGRGIPI 422 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~--dg--sisV~DnGrGIPv 422 (1161)
+.+++.+++.||+..+ ....|.|.+.. ++ .++|.|||+|||-
T Consensus 472 l~qv~~nll~NA~k~~---~~~~i~i~~~~~~~~~~~i~V~D~G~Gi~~ 517 (565)
T PRK10935 472 LLQIIREATLNAIKHA---NASEIAVSCVTNPDGEHTVSIRDDGIGIGE 517 (565)
T ss_pred HHHHHHHHHHHHHhcC---CCCeEEEEEEEcCCCEEEEEEEECCcCcCC
Confidence 4566777777777654 34568787764 34 4899999999994
No 160
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=71.90 E-value=5.4 Score=47.29 Aligned_cols=77 Identities=27% Similarity=0.446 Sum_probs=51.2
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEecCC----cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYSDN----SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~dg----sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
+..++--++.||.|... -++..|.|+...++ .|.|.|||.|-|++..++ .|+ .++.+|
T Consensus 565 ieQVlvNl~~NaldA~~-h~~p~i~~~~~~~~~e~l~i~i~DnGqGwp~~l~dk------------Ll~-PFttsK---- 626 (673)
T COG4192 565 IEQVLVNLIVNALDAST-HFAPWIKLIALGTEQEMLRIAIIDNGQGWPHELVDK------------LLT-PFTTSK---- 626 (673)
T ss_pred HHHHHHHHHHHHHhhhc-cCCceEEEEeecCcccceEEEEecCCCCCchhHHHH------------hcC-Cccccc----
Confidence 56677778888888653 34477888877643 799999999999887765 222 233333
Q ss_pred ceeeecccccchhhHhhhhccEEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFLQ 477 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~~ 477 (1161)
+-| -|.|+|..--+-+.+.
T Consensus 627 ----~vg-LGlGLSIsqSlmeqmq 645 (673)
T COG4192 627 ----EVG-LGLGLSISQSLMEQMQ 645 (673)
T ss_pred ----ccc-cccchhHHHHHHHHhc
Confidence 123 2788887766655443
No 161
>cd00823 TopoIIB_Trans TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI). The sole representative of the Type IIB family is topo VI. Topo VI enzymes are heterotetramers found in archaea and plants. S. shibatae topoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Probab=65.01 E-value=46 Score=34.16 Aligned_cols=80 Identities=20% Similarity=0.361 Sum_probs=52.4
Q ss_pred ceEEEEEEeecCCC----cceeeeeecccc-cCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEE
Q psy13360 611 NINIDVSMQWNNSY----NENILCFTNNIL-QVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVL 685 (1161)
Q Consensus 611 ~~~veva~~~~~~~----~e~~~SFvN~I~-T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vv 685 (1161)
-..||+|+.|-..- .-+++-|+|-|| ..+.|. + ++|+++.+. + -|..+.+..+ ..-+.++|
T Consensus 32 PFiVEagiayGG~~~~~~~~~i~RfANRVPLlf~~g~--c----vit~av~~i----~-W~~Ygi~~~~---~~p~~v~V 97 (151)
T cd00823 32 PFIVEVGIAYGGDIPADEKVELLRFANRVPLLYDAGA--C----VITKAVESI----N-WKRYGLEQPG---QGPLVVLV 97 (151)
T ss_pred CeEEEEeeeecCccCCCCCceEEEEcccCceeecccc--h----HHHHHHHhC----C-hhhcCcCCCC---CCCEEEEE
Confidence 36799999996432 246899999999 345565 2 445555321 1 1122222211 34578899
Q ss_pred EEeecCCCccccccccccc
Q psy13360 686 SIKIPDPKFNSQTKNKLVS 704 (1161)
Q Consensus 686 sv~i~~P~FegQTK~kL~n 704 (1161)
|+--.+--|.|--|+...+
T Consensus 98 hi~St~VPfts~~KeaIad 116 (151)
T cd00823 98 HVASTKVPFTSEGKEAIAD 116 (151)
T ss_pred EEeecCCCcCCcchhhhcC
Confidence 9988888999999999887
No 162
>PF14501 HATPase_c_5: GHKL domain
Probab=62.72 E-value=21 Score=33.67 Aligned_cols=71 Identities=27% Similarity=0.309 Sum_probs=46.4
Q ss_pred cchhHHhHHHhhHhhhcCCC-CCeEEEEEecC-C--cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCC
Q psy13360 378 LHHFVFEILDNAIDESLAGY-CTKINVTIYSD-N--SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKN 453 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~-~~~I~V~i~~d-g--sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~ 453 (1161)
|..++--++|||++++..-. ...|.|.+... | .|+|.+.-.. +. . ++.
T Consensus 6 l~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~~~~i~i~N~~~~---~~--~---------------------~~~-- 57 (100)
T PF14501_consen 6 LCRILGNLLDNAIEACKKYEDKRFISISIREENGFLVIIIENSCEK---EI--E---------------------KLE-- 57 (100)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCCEEEEEEEECCCC---cc--c---------------------ccc--
Confidence 56778889999998887533 66788888763 4 4666766322 10 0 011
Q ss_pred ceeeecccccchhhHhhhhccEE
Q psy13360 454 SYKISGGLHGIGLSCVNGLSRFL 476 (1161)
Q Consensus 454 ~yk~sgGlhGvG~svvNalS~~~ 476 (1161)
..+..++-||+|++.|..+-+.+
T Consensus 58 ~~~~~~~~~G~GL~~v~~i~~~y 80 (100)
T PF14501_consen 58 SSSSKKKGHGIGLKNVKKILEKY 80 (100)
T ss_pred ccccCCCCCCcCHHHHHHHHHHC
Confidence 12345678999999998876544
No 163
>KOG0020|consensus
Probab=62.18 E-value=9.4 Score=45.46 Aligned_cols=159 Identities=20% Similarity=0.246 Sum_probs=87.3
Q ss_pred chhHHhHHHhhHhhhc-----C-------CCCCe--EEEEEecC-CcEEEEECCCccccccccCCCCCCC---CcceEEE
Q psy13360 379 HHFVFEILDNAIDESL-----A-------GYCTK--INVTIYSD-NSISISDNGRGIPIDIKIDDKHKPK---RSAAEIV 440 (1161)
Q Consensus 379 ~hlv~EivdNsiDe~~-----~-------g~~~~--I~V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~~---~~~~e~v 440 (1161)
.-.+.|+|.||-|.-- + |.... |+|..++. .-..|.|.|-|+.-+..-++ -| +|.-.-.
T Consensus 97 eIFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dke~klLhi~DtGiGMT~edLi~N---LGTIAkSGTs~F 173 (785)
T KOG0020|consen 97 EIFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADKEKKLLHITDTGIGMTREDLIKN---LGTIAKSGTSEF 173 (785)
T ss_pred HHHHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEeechhhCeeeEecccCCccHHHHHHh---hhhhhcccHHHH
Confidence 3456899999987541 1 22334 44444443 36899999999975543320 11 0100001
Q ss_pred EeeecccCCCCCCceeeecccccchhhHhhhhccEEEEEEEeCC-EEEEEEEEcCccccccccccCCccccCcEEeccCC
Q psy13360 441 MTELHAGGKFNKNSYKISGGLHGIGLSCVNGLSRFLQLTINRNK-KIHYMEFRYGVLQNRIIKTINGISVSPIKIIGDTN 519 (1161)
Q Consensus 441 ~t~l~ag~kfd~~~yk~sgGlhGvG~svvNalS~~~~V~v~r~g-~~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g~~~ 519 (1161)
+.++...+.-.+ .-.--.|..|||.-.+=.+..+..|+++.+. ..|..+-..+. +..... .-|.+-
T Consensus 174 l~Km~~~~~~~~-~~~dlIGQFGVGFYsAfLVAD~vvVtsKhNdD~QyiWESdan~----------FsvseD--prg~tL 240 (785)
T KOG0020|consen 174 LEKMQDSGDSEG-LMNDLIGQFGVGFYSAFLVADRVVVTSKHNDDSQYIWESDANS----------FSVSED--PRGNTL 240 (785)
T ss_pred HHHhhccccchh-hHHHHHHhcchhhhhhhhhcceEEEEeccCCccceeeeccCcc----------eeeecC--CCCCcc
Confidence 111111111111 1123468899999999999999999987544 33443322231 011111 135566
Q ss_pred CCCcEEEEEeCccccccCCCCHHHHHHHHHhhh-ccC
Q psy13360 520 KQGTKIHFWVDEKIFSNIEFHYEILKKRIRELS-FLN 555 (1161)
Q Consensus 520 ~~GT~V~F~PD~~iF~~~~~~~~~l~~Rl~elA-~ln 555 (1161)
.+||.|+...--+- ..-+..++|+..++.++ |+|
T Consensus 241 ~RGt~ItL~LkeEA--~dyLE~dtlkeLvkkYSqFIN 275 (785)
T KOG0020|consen 241 GRGTEITLYLKEEA--GDYLEEDTLKELVKKYSQFIN 275 (785)
T ss_pred cCccEEEEEehhhh--hhhcchhHHHHHHHHHHHhcC
Confidence 89999998632211 12357888888888887 555
No 164
>PF09239 Topo-VIb_trans: Topoisomerase VI B subunit, transducer; InterPro: IPR015320 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents subunit B of topoisomerase VI, an ATP-dependent type IIB enzyme. Members of this family adopt a structure consisting of a four-stranded beta-sheet backed by three alpha-helices, the last of which is over 50 amino acids long and extends from the body of the protein by several turns. This domain has been proposed to mediate intersubunit communication by structurally transducing signals from the ATP binding and hydrolysis domains to the DNA binding and cleavage domains of the gyrase holoenzyme []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0006265 DNA topological change, 0005694 chromosome; PDB: 2ZBK_F 2HKJ_A 1Z5B_A 1Z5C_B 1MX0_F 1Z5A_A 1MU5_A 1Z59_A 2Q2E_B.
Probab=61.42 E-value=57 Score=33.82 Aligned_cols=79 Identities=19% Similarity=0.327 Sum_probs=48.5
Q ss_pred eEEEEEEeecCC----Ccceeeeeecccc-cCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEEE
Q psy13360 612 INIDVSMQWNNS----YNENILCFTNNIL-QVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVLS 686 (1161)
Q Consensus 612 ~~veva~~~~~~----~~e~~~SFvN~I~-T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vvs 686 (1161)
..||+|+.|-.. -.-.++-|+|-|| ..+.|.- ++|+++.+. +. |..+++ ..+ ..-+.++|+
T Consensus 42 FiVEagiayGG~~~~~~~~~ilRfANRVPLly~~g~c------vit~av~~i----~W-~~Y~l~--~~~-~~p~~v~Vh 107 (160)
T PF09239_consen 42 FIVEAGIAYGGEIPPEGKIEILRFANRVPLLYDQGSC------VITKAVKSI----NW-KRYGLD--QPG-NGPLVVFVH 107 (160)
T ss_dssp EEEEEEEEESTTS-SCSS-EEEEEETTEEE-STGCCS------HHHHHHHHS-----G-CCCT----SSS--CSEEEEEE
T ss_pred EEEEEehhhccCCCCCCCceEEEEccCCceeecCCch------HHHHHHHhC----Cc-hhcCcC--CCC-CCCEEEEEE
Confidence 669999999632 2336899999999 4455553 456666521 11 222222 222 456788999
Q ss_pred EeecCCCccccccccccc
Q psy13360 687 IKIPDPKFNSQTKNKLVS 704 (1161)
Q Consensus 687 v~i~~P~FegQTK~kL~n 704 (1161)
+--.+--|.|--|+....
T Consensus 108 i~ST~VPfts~~KeaIa~ 125 (160)
T PF09239_consen 108 IASTKVPFTSEGKEAIAD 125 (160)
T ss_dssp EEESS--BSSTTSSSB--
T ss_pred EeecccCccccchhhhcC
Confidence 999999999999999883
No 165
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=57.61 E-value=11 Score=46.15 Aligned_cols=46 Identities=28% Similarity=0.417 Sum_probs=33.3
Q ss_pred chhHHhHHHhhHhhhcC--CCCCeEEEEEecC-C--cEEEEECCCcccccc
Q psy13360 379 HHFVFEILDNAIDESLA--GYCTKINVTIYSD-N--SISISDNGRGIPIDI 424 (1161)
Q Consensus 379 ~hlv~EivdNsiDe~~~--g~~~~I~V~i~~d-g--sisV~DnGrGIPv~~ 424 (1161)
--++-=+||||+-.+.. ..+-.|.|.+... + .++|.|||.||.-..
T Consensus 352 ~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~Dng~g~~~~~ 402 (456)
T COG2972 352 KLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDEEK 402 (456)
T ss_pred hHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCCEEEEEEeeCCCCCChhH
Confidence 44566789999988863 3455777777654 4 478999999998543
No 166
>PRK04017 hypothetical protein; Provisional
Probab=56.67 E-value=3.4 Score=41.51 Aligned_cols=29 Identities=28% Similarity=0.393 Sum_probs=25.5
Q ss_pred ccceEEEeecCCCCChhhHHHHHHHHHHh
Q psy13360 851 RYHRIIIMTDADIDGAHIRALLLTFFYRK 879 (1161)
Q Consensus 851 RY~kiiimtDaD~DG~HI~~Llltff~~~ 879 (1161)
.+..|||+||.|-=|..||..|...|..+
T Consensus 64 ~~r~VIILTD~D~~GekIr~~l~~~l~~~ 92 (132)
T PRK04017 64 RGKEVIILTDFDRKGEELAKKLSEYLQGY 92 (132)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhC
Confidence 47789999999999999999998887654
No 167
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=44.32 E-value=21 Score=45.93 Aligned_cols=42 Identities=29% Similarity=0.513 Sum_probs=29.5
Q ss_pred HHHhhHhhhcC--------C--CCCeEEEEEecCC---cEEEEECCCcccccccc
Q psy13360 385 ILDNAIDESLA--------G--YCTKINVTIYSDN---SISISDNGRGIPIDIKI 426 (1161)
Q Consensus 385 ivdNsiDe~~~--------g--~~~~I~V~i~~dg---sisV~DnGrGIPv~~~~ 426 (1161)
+|-||+|+.+. | ...+|.+.-...| .|+|.|||+||..+...
T Consensus 440 LvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ivIev~DDG~Gid~ekI~ 494 (716)
T COG0643 440 LVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGAGIDREKIR 494 (716)
T ss_pred HHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCCeEEEEEeeCCCCCCHHHHH
Confidence 45688888762 3 3456777755443 58999999999887654
No 168
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=42.02 E-value=23 Score=35.45 Aligned_cols=26 Identities=38% Similarity=0.680 Sum_probs=22.2
Q ss_pred cccceEEEeecCCCCChhhHHHHHHH
Q psy13360 850 LRYHRIIIMTDADIDGAHIRALLLTF 875 (1161)
Q Consensus 850 lRY~kiiimtDaD~DG~HI~~Llltf 875 (1161)
++|..|||+||.|.=|.-||--|.-.
T Consensus 53 ~~~k~VIILTD~D~~Ge~Irk~l~~~ 78 (127)
T COG1658 53 QKYKGVIILTDPDRKGERIRKKLKEY 78 (127)
T ss_pred hccCCEEEEeCCCcchHHHHHHHHHH
Confidence 57888999999999999999875433
No 169
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=41.98 E-value=35 Score=41.15 Aligned_cols=45 Identities=22% Similarity=0.432 Sum_probs=30.7
Q ss_pred chhHHhHHHhhHhhhcCCC--CCeEEEEEec-CC--cEEEEECCCccccc
Q psy13360 379 HHFVFEILDNAIDESLAGY--CTKINVTIYS-DN--SISISDNGRGIPID 423 (1161)
Q Consensus 379 ~hlv~EivdNsiDe~~~g~--~~~I~V~i~~-dg--sisV~DnGrGIPv~ 423 (1161)
+-++.=+|+||+-.+...- ...+.|.+.. |+ .|.|+|||+||+-+
T Consensus 458 ~filQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~l~i~VeDng~li~p~ 507 (557)
T COG3275 458 SFILQPLVENAIKHGISQLKDTGRVTISVEKEDADLRIEVEDNGGLIQPD 507 (557)
T ss_pred hhhhhHHHHHHHHhcccchhcCCceEEEEEEeCCeEEEEEecCCCCcCCC
Confidence 3456779999999987531 2234444443 33 68999999999865
No 170
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=38.49 E-value=7.2 Score=35.51 Aligned_cols=19 Identities=26% Similarity=0.359 Sum_probs=14.7
Q ss_pred cceEEEeecCCCCChhhHH
Q psy13360 852 YHRIIIMTDADIDGAHIRA 870 (1161)
Q Consensus 852 Y~kiiimtDaD~DG~HI~~ 870 (1161)
+.+|||++|.|..|--...
T Consensus 46 ~~~Vii~~D~D~~G~~~a~ 64 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQ 64 (81)
T ss_dssp -SEEEEEEESSHHHHHHHH
T ss_pred CceEEEEeCcCHHHHHHHH
Confidence 4899999999999964433
No 171
>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=36.60 E-value=5.8 Score=36.45 Aligned_cols=27 Identities=37% Similarity=0.630 Sum_probs=24.1
Q ss_pred cceEEEeecCCCCChhhHHHHHHHHHH
Q psy13360 852 YHRIIIMTDADIDGAHIRALLLTFFYR 878 (1161)
Q Consensus 852 Y~kiiimtDaD~DG~HI~~Llltff~~ 878 (1161)
+.+|||+||.|-=|..|+.-+...+-.
T Consensus 45 ~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 45 YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 789999999999999999988887744
No 172
>KOG0019|consensus
Probab=31.26 E-value=76 Score=39.46 Aligned_cols=139 Identities=19% Similarity=0.162 Sum_probs=80.9
Q ss_pred CCeEEEEEecC-CcEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCC-C----C-CCceeeecccccchhhHhh
Q psy13360 398 CTKINVTIYSD-NSISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGK-F----N-KNSYKISGGLHGIGLSCVN 470 (1161)
Q Consensus 398 ~~~I~V~i~~d-gsisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~k-f----d-~~~yk~sgGlhGvG~svvN 470 (1161)
--.|.++-+++ +.+++.|.|-|+.-+..... .-|....|+| | . .++-.--.|+-|||.-.+.
T Consensus 90 ~l~I~i~~nk~~~tlti~DtGIGMTk~dLvnn-----------LGTIAkSGtK~Fmealkea~ad~~~IGQFGvGFYSay 158 (656)
T KOG0019|consen 90 ELEIRIITNKDKRTITIQDTGIGMTKEDLVNN-----------LGTIAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAF 158 (656)
T ss_pred ceeEEeccCCCcceEEEEecCCCcCHHHHHhh-----------hhhhhhcccHHHHHHHHhcccchhhhhhcccchhhhh
Confidence 34566666664 68999999999876544431 1233444544 2 1 1222235689999999999
Q ss_pred hhccEEEEEEEeCCE-EEEEEEEcCccccccccccCCccccCcEEec-cCCCCCcEEEEE--eCccccccCCCCHHHHHH
Q psy13360 471 GLSRFLQLTINRNKK-IHYMEFRYGVLQNRIIKTINGISVSPIKIIG-DTNKQGTKIHFW--VDEKIFSNIEFHYEILKK 546 (1161)
Q Consensus 471 alS~~~~V~v~r~g~-~~~q~f~~G~~~~~~~~~~~~~~~~~~~~~g-~~~~~GT~V~F~--PD~~iF~~~~~~~~~l~~ 546 (1161)
...++..|.++.+.. .|..++..|. +- .+.. ..-.+||+|.-. -|.. .-.+.+.|+.
T Consensus 159 lVAdkV~V~tk~~~~e~y~Wes~~~g--------------s~-~v~~~~~~~rGTki~l~lKe~~~----ey~ee~rike 219 (656)
T KOG0019|consen 159 MVADRVVVTTRHPADEGLQWTSNGRG--------------SY-EIAEASGLRTGTKIVIHLKEGDC----EFLEEKRIKE 219 (656)
T ss_pred hhhheeEEeeccCCCcceeeecCCCC--------------ce-EEeeccCccccceEEeeehhhhh----hhccHhHHHH
Confidence 999999999875443 4555554441 11 1111 125789988754 1111 1234555666
Q ss_pred HHHhhhccCCCcEEEEeeccc
Q psy13360 547 RIRELSFLNNGVCITLIDERI 567 (1161)
Q Consensus 547 Rl~elA~lnpgl~i~l~d~r~ 567 (1161)
-+...+. +=|..|+++.++.
T Consensus 220 iVKK~S~-Fv~yPI~l~~ek~ 239 (656)
T KOG0019|consen 220 VVKKYSN-FVSYPIYLNGERV 239 (656)
T ss_pred HHhhccc-cccccchhhhhhh
Confidence 5555543 2356677777763
No 173
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=30.52 E-value=3.7e+02 Score=33.72 Aligned_cols=100 Identities=19% Similarity=0.349 Sum_probs=60.1
Q ss_pred ceEEEEEEeecCCC----cceeeeeecccc-cCCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEE
Q psy13360 611 NINIDVSMQWNNSY----NENILCFTNNIL-QVDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVL 685 (1161)
Q Consensus 611 ~~~veva~~~~~~~----~e~~~SFvN~I~-T~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vv 685 (1161)
-..||+|+.|-..- .-+++-|+|-|| ..+.|.- ++|+++.+. + .|..+++.. =..-+.++|
T Consensus 352 pfiVE~~iayGg~~~~~~~~~i~RfANrvPLl~~~g~~------~~t~~v~~i----~-w~~Y~~~~~---~~~p~~v~v 417 (535)
T PRK04184 352 PFIVEVGIAYGGEIPPDDKPELLRFANRVPLLYDEGSC------VITKAVESI----D-WKRYGIEQP---PQAPLVVLV 417 (535)
T ss_pred CeEEEEEeeecCCCCCCCCceEEEEccCCceeecCCcc------HHHHHHHhC----C-hhhcCcCCC---CCCCEEEEE
Confidence 36799999995332 236899999999 4456643 455555321 1 111222111 112468888
Q ss_pred EEeecCCCccccccccccc-ccccchhHHHH---HHHHHHHHh
Q psy13360 686 SIKIPDPKFNSQTKNKLVS-SEVRKPVEEII---IKTLFDFLQ 724 (1161)
Q Consensus 686 sv~i~~P~FegQTK~kL~n-~~v~~~v~~~v---~~~l~~~l~ 724 (1161)
++--.+--|.|--|+...+ ||+..-++.++ ...|..|+.
T Consensus 418 hi~St~vP~~s~~Ke~ia~~~ei~~ei~~al~~~~r~L~~~l~ 460 (535)
T PRK04184 418 HVASTKVPYTSEGKEAIADVPEIEKEIRLALQEVARKLKKYLS 460 (535)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888899999999986 44444443333 234444544
No 174
>cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general b
Probab=29.47 E-value=43 Score=33.99 Aligned_cols=26 Identities=27% Similarity=0.369 Sum_probs=22.6
Q ss_pred cceEEEeecCCCCChhhHHHHHHHHH
Q psy13360 852 YHRIIIMTDADIDGAHIRALLLTFFY 877 (1161)
Q Consensus 852 Y~kiiimtDaD~DG~HI~~Llltff~ 877 (1161)
...|||+||+|--|-+|--.++.++-
T Consensus 91 ~d~iiiAtD~DrEGE~I~~~i~~~~~ 116 (142)
T cd01028 91 ADEIVLATDPDREGELIAWEILEVLK 116 (142)
T ss_pred CCEEEEcCCCCcchHHHHHHHHHHhC
Confidence 46899999999999999988887763
No 175
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=27.68 E-value=3.8e+02 Score=32.67 Aligned_cols=101 Identities=15% Similarity=0.297 Sum_probs=65.3
Q ss_pred ceEEEEEEeecCC----Ccceeeeeeccccc-CCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhcceEEEE
Q psy13360 611 NINIDVSMQWNNS----YNENILCFTNNILQ-VDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIREGLTCVL 685 (1161)
Q Consensus 611 ~~~veva~~~~~~----~~e~~~SFvN~I~T-~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~diregL~~vv 685 (1161)
-..||+|+.|..+ -.-.+.-|+|-||- .+-|.- ++|+++... + .|.. ++...| --|.++|
T Consensus 356 pFiVEvgiAYGG~i~~~e~~~llRyANrvPLlyd~g~c------v~tk~V~~i----~-WkrY--gl~~~~--aplvvlV 420 (538)
T COG1389 356 PFIVEVGIAYGGNIPGGEKPLLLRYANRVPLLYDAGSC------VITKVVESI----D-WKRY--GLDQPD--APLVVLV 420 (538)
T ss_pred ceEEEEEeeccCCCCCCcchhhhhhcccCceeeecCcc------hhhHhhhhc----c-ceec--CcCCCC--CcEEEEE
Confidence 3679999999642 22357899999983 333432 456666432 1 1222 233333 6689999
Q ss_pred EEeecCCCcccccccccc-cccccchhHHHH---HHHHHHHHhhC
Q psy13360 686 SIKIPDPKFNSQTKNKLV-SSEVRKPVEEII---IKTLFDFLQEN 726 (1161)
Q Consensus 686 sv~i~~P~FegQTK~kL~-n~~v~~~v~~~v---~~~l~~~l~~n 726 (1161)
+|-.+|--|.|--|+... .+++..-+..++ ...|..||.+.
T Consensus 421 hv~St~VPyts~gKqsIa~vpeIe~Eir~Al~evaRkL~~yLsrk 465 (538)
T COG1389 421 HVASTNVPYTSAGKQSIADVPEIENEIRLALMEVARKLKLYLSRK 465 (538)
T ss_pred EecccCCCcCCccchhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999998 555544444433 45677777654
No 176
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=27.64 E-value=25 Score=43.70 Aligned_cols=97 Identities=22% Similarity=0.306 Sum_probs=59.4
Q ss_pred cchhHHhHHHhhHhhhcCCCCCeEEEEEec--CC-cEEEEECCCccccccccCCCCCCCCcceEEEEeeecccCCCCCCc
Q psy13360 378 LHHFVFEILDNAIDESLAGYCTKINVTIYS--DN-SISISDNGRGIPIDIKIDDKHKPKRSAAEIVMTELHAGGKFNKNS 454 (1161)
Q Consensus 378 l~hlv~EivdNsiDe~~~g~~~~I~V~i~~--dg-sisV~DnGrGIPv~~~~~~~~~~~~~~~e~v~t~l~ag~kfd~~~ 454 (1161)
|-.++.-++.||+--...+ ...|.|..+. |. +++|.|||-||....... .=.+|-.||+-..|.
T Consensus 637 l~qv~~NLi~Naik~~~~e-~~~i~I~~~r~ed~~t~sV~dng~Gi~~a~~~r---------iF~iFqRl~s~~~y~--- 703 (750)
T COG4251 637 LGQVFQNLIANAIKFGGPE-NPDIEISAERQEDEWTFSVRDNGIGIDPAYFER---------IFVIFQRLHSRDEYL--- 703 (750)
T ss_pred HHHHHHHHHhhheecCCCC-CCceEEeeeccCCceEEEecCCCCCcCHHHHHH---------HHHHHHhcCchhhhc---
Confidence 3444455555555433222 4778888775 44 689999999997664432 123677888876663
Q ss_pred eeeecccccchhhHhhhhccEEEEEEE-----eCCEEEEEEEEc
Q psy13360 455 YKISGGLHGIGLSCVNGLSRFLQLTIN-----RNKKIHYMEFRY 493 (1161)
Q Consensus 455 yk~sgGlhGvG~svvNalS~~~~V~v~-----r~g~~~~q~f~~ 493 (1161)
| +|.|+..+-.+-+.-...++ -+|..+.++--.
T Consensus 704 -----g-tG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f~lp~ 741 (750)
T COG4251 704 -----G-TGLGLAICKKIAERHQGRIWVESTPGEGSTFYFTLPV 741 (750)
T ss_pred -----C-CCccHHHHHHHHHHhCceEEEeecCCCceeEEEEeec
Confidence 3 79999988877654443332 344444444433
No 177
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=26.44 E-value=1e+02 Score=27.93 Aligned_cols=31 Identities=26% Similarity=0.510 Sum_probs=23.3
Q ss_pred ccchhHHHHHHHHHHHHhhC-chhHHHHHHHHHHHH
Q psy13360 707 VRKPVEEIIIKTLFDFLQEN-PGESKLICEKIIEAA 741 (1161)
Q Consensus 707 v~~~v~~~v~~~l~~~l~~n-~~~~~~i~~~~~~~~ 741 (1161)
+...|...+...|.+||.+| | .++++++...
T Consensus 35 lE~lvremLRPmLkeWLD~nLP----~lVErlVr~E 66 (73)
T PF10691_consen 35 LEDLVREMLRPMLKEWLDENLP----GLVERLVREE 66 (73)
T ss_pred HHHHHHHHHHHHHHHHHHhccH----HHHHHHHHHH
Confidence 55678889999999999999 5 4556555543
No 178
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=25.22 E-value=4e+02 Score=34.23 Aligned_cols=98 Identities=13% Similarity=0.357 Sum_probs=60.7
Q ss_pred eEEEEEEeecCC---C-----cceeeeeeccccc-CCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhc-ce
Q psy13360 612 INIDVSMQWNNS---Y-----NENILCFTNNILQ-VDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIRE-GL 681 (1161)
Q Consensus 612 ~~veva~~~~~~---~-----~e~~~SFvN~I~T-~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~dire-gL 681 (1161)
..||+|+.|-.. - .-+++-|+|-||- .+.|.- ++|+++... +. |..+.. +.-. =+
T Consensus 498 FiVE~giayGG~~~~~~~~~~~~~i~RfANrvPLly~~g~c------~~t~~v~~i----~W-~~Y~l~----~~~~~p~ 562 (659)
T PRK14867 498 FAVEVGLAYGGNAGRQGDEGRKMEIMRFSNHVPLLFDTSGC------GLTNAVKSV----NW-RRYGLR----SDEDAPI 562 (659)
T ss_pred EEEEEeeecCCcCCCCCccCCcceEEEeeccCceeecCccc------HHHHHHHhC----Ch-hhcCcC----CCCCCCE
Confidence 569999999543 1 2268999999994 345542 456665421 11 112221 1122 37
Q ss_pred EEEEEEeecCCCcccccccccc-----cccccchhHHHHH---HHHHHHHh
Q psy13360 682 TCVLSIKIPDPKFNSQTKNKLV-----SSEVRKPVEEIII---KTLFDFLQ 724 (1161)
Q Consensus 682 ~~vvsv~i~~P~FegQTK~kL~-----n~~v~~~v~~~v~---~~l~~~l~ 724 (1161)
+++|++--.+--|.|--|+.+. .||+..-++.++. ..|..|+.
T Consensus 563 ~v~vhv~St~vPfts~~Keaia~~~~~~~eI~~Ei~lAl~~~~r~L~~~l~ 613 (659)
T PRK14867 563 TVFVNLISTHIPYTSAGKQAIACSEEENEEIFNEIRQALMICARELEKYIS 613 (659)
T ss_pred EEEEEEeecCCCCCCccHHHhhccCCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 8899999999999999999998 6666555544443 33444443
No 179
>cd01026 TOPRIM_OLD TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=24.83 E-value=67 Score=30.25 Aligned_cols=59 Identities=31% Similarity=0.468 Sum_probs=39.2
Q ss_pred eEEEEeccCCCcc----cc---cccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccc
Q psy13360 781 ELYIVEGDSAGGS----VK---QGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYH 853 (1161)
Q Consensus 781 eL~ivEGDSA~gs----ak---~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~ 853 (1161)
-.+||||+|=-.. ++ ..++...-.|.|..|| |+..- ..++..+|.
T Consensus 5 ~vIlVEG~tE~~~l~~~~~~~~~~~~~~~i~ii~~gG~--~~~~~-----------~~ll~~~~i--------------- 56 (97)
T cd01026 5 KVILVEGDSEEILLPALAKKLGLDLDEAGISIIPVGGK--NFKPF-----------IKLLNALGI--------------- 56 (97)
T ss_pred eEEEEecHHHHHHHHHHHHHhCCCHHHCCEEEEEeCCc--chHHH-----------HHHHHHcCC---------------
Confidence 3689999997432 11 2234456688888887 65432 345666654
Q ss_pred eEEEeecCCCCChh
Q psy13360 854 RIIIMTDADIDGAH 867 (1161)
Q Consensus 854 kiiimtDaD~DG~H 867 (1161)
++.+++|.|..+.+
T Consensus 57 ~~~vi~D~D~~~~~ 70 (97)
T cd01026 57 PVAVLTDLDAKRNE 70 (97)
T ss_pred CEEEEEeCCCCCCc
Confidence 57889999998876
No 180
>PF02144 Rad1: Repair protein Rad1/Rec1/Rad17; InterPro: IPR003021 REC1 of Ustilago maydis plays a key role in regulating the genetic system of the fungus. REC1 mutants are very sensitive to UV light. Mutation leads to a complex phenotype with alterations in DNA repair, recombination, mutagenesis, meiosis and cell division []. The predicted product of the REC1 gene is a polypeptide of 522 amino acid residues with molecular mass 57kDa. The protein shows 3'--5' exonuclease activity, but only in cells over-expressing REC1 []. While it is distinguishable from the major bacterial nucleases, the protein has certain enzymatic features in common with epsilon, the proof-reading exonuclease subunit of Escherichia coli DNA polymerase III holoenzyme []. The rad1 gene of Schizosaccharomyces pombe comprises three exons and encodes a 37kDa protein that exhibits partial similarity to the REC1 gene of U. maydis []. The two genes share putative functional similarities in their respective organisms.; GO: 0003684 damaged DNA binding, 0008853 exodeoxyribonuclease III activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3G65_B 3GGR_C 3A1J_C.
Probab=24.04 E-value=1.1e+03 Score=26.77 Aligned_cols=216 Identities=15% Similarity=0.121 Sum_probs=113.7
Q ss_pred EEechhHHHHHhcCCCCccEEEEEeCcEEEEEE--CcEEEEEccCCCCCCCCc-----------cCCCCcceEEEEcHHH
Q psy13360 71 IVAARKFIDILRSLPETEKVTIYIENKHMFIKS--GKSKFTLQTLDAKEYPIM-----------TLNSKYDFEFTLSQKT 137 (1161)
Q Consensus 71 ~V~ak~l~~Ivk~Lp~~~~I~ie~~~~~l~I~s--G~~~~~l~~~~~edfP~~-----------~~~~~~~~~~~i~~~~ 137 (1161)
+-+++.|..+++.+.-...++++...+-+.+.. +++---...++.+-|-.. ....+....|.|+=..
T Consensus 6 ~~~~~~l~~lL~~I~~~~~a~v~is~~Gi~~~vE~~~~~qa~a~l~k~LF~~Y~~~~~~~~~~~~~~~~~~~~F~I~L~~ 85 (275)
T PF02144_consen 6 TSNVRHLYQLLKCIAFKNKATVEISEDGIKFTVEDSKSIQASAFLDKSLFSEYTFNPPPDADDDDEEEEDEVSFGINLSA 85 (275)
T ss_dssp ES-THHHHHHHHTT-SSSEEEEEEETTEEEEEEEETTTEEEEEEEEGGGSSEEEE------------SSS-EEEEEEHHH
T ss_pred ECCHHHHHHHHHhcccCCeEEEEEcCCEEEEEEECCcEEEEEEEEChhhceEEEEeccccccccccCCCCceEEEEEhHH
Confidence 447889999999997655677777666555543 332111111222222221 1123346789999999
Q ss_pred HHHHHHhhcccccccccc------------cceeeEEEEEEC--CEEEEEEecceEEEEEEEecC---CC----C---CC
Q psy13360 138 LKCILNMVYFSIAQQDIR------------YYLNGLLLSFQK--KNIIAVSSDGHRLTYYQVNID---KK----F---SS 193 (1161)
Q Consensus 138 L~~aI~~v~~a~s~~~tr------------piL~GV~~~~~~--~~L~lvATDg~RLa~~~i~~~---~~----~---~~ 193 (1161)
|.+.++-........... -....+.|...+ .-|.+.=.|+--...+.+..- .. . .-
T Consensus 86 LlecL~ifg~~~~~~~~~~~~~~~~~~~~~~~~~~~~lsY~g~G~pL~l~led~gv~t~c~i~T~~~~~~~d~~f~~~~~ 165 (275)
T PF02144_consen 86 LLECLNIFGSSDSSSSSSSSGGDPSRNNASGEPTSCRLSYPGEGSPLVLILEDSGVTTTCEIRTYEPDDPLDFPFDRSDV 165 (275)
T ss_dssp HHHHHTTT-SS--TT-----------------EEEEEEEESSSCCEEEEEEEETTEEEEEEEEEE-----------TTTE
T ss_pred HHHHHHHhCCCCCccccccccccccccccccCCceEEEEEcCCCCeEEEEEEeCCEEEEEEEEEecCCcccCcccccccc
Confidence 999998876665533211 111234454433 336666555544444333221 10 0 11
Q ss_pred cceEEEehhhHHHHHhhhcCC-CCcEEEEEeC---cEEEEEECcEEEEEeecCCCCCCccccccC-Cc----ceEEEEeH
Q psy13360 194 CSDIIIPRKTVFTLQRLLENK-ENPVELKISN---NQIKIIFSNIEIISKLIDGKFLDYKYVISN-KY----EKSFLVNR 264 (1161)
Q Consensus 194 ~~~viIP~k~L~eL~klL~~~-~~~V~i~~~~---~~l~f~~~~~~~~~rli~g~fPdy~~vip~-~~----~~~i~v~r 264 (1161)
...+++....|.++..-|... .+.+.|.++. ..+.|...+-.=. ..=+||+-+.++.. +. ......=+
T Consensus 166 ~~kiimks~~L~~al~eL~~~~~~~l~i~~s~~~~p~f~l~s~G~~G~---s~v~fp~~~~~le~f~~~~~~~~~~~~Y~ 242 (275)
T PF02144_consen 166 VNKIIMKSDWLRDALSELDWSNSEELTIYISPPDKPHFRLSSKGPLGS---SKVDFPNDSDVLETFECYDGEEPVISRYK 242 (275)
T ss_dssp EEEEEEEHHHHHHHHHTT-TS-CSEEEEEE-S-SSSSEEEEEEETTEE---EEEEE-TTSTSEEEEEE----S-EEEEEE
T ss_pred eeEEEEEhHHHHHHHHHHhhccCCeEEEEEEeCCCCEEEEEEEcCCCe---EEEEECCCCCceeEEEEeccCceEEEEEe
Confidence 357999999999999988765 5678888887 3555555431111 22357766665533 11 23333345
Q ss_pred HHHHHHHHHhhccccCCcceEEEEEeCCE
Q psy13360 265 NKLLRSLQRISIISNDKLKGVRLVIKPNY 293 (1161)
Q Consensus 265 ~~L~~aL~Rv~~~s~~~~~~V~l~~~~~~ 293 (1161)
-.++..+.|+.-++++ |.+.++.++
T Consensus 243 f~~i~~~~kAl~~ssK----v~ir~d~~G 267 (275)
T PF02144_consen 243 FSLIKKAMKALKISSK----VSIRIDENG 267 (275)
T ss_dssp HHHHCCHHHHHTTSSE----EEEEEESSS
T ss_pred HHHHHHHHHHhhhccE----EEEEeCCCc
Confidence 5666667777777655 667766654
No 181
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=23.93 E-value=5.1e+02 Score=32.12 Aligned_cols=85 Identities=18% Similarity=0.379 Sum_probs=53.7
Q ss_pred eEEEEEEeecCCC----cceeeeeeccccc-CCCCchhHHHHHHHHHHHHHHHHHhcccccccccCChhhHhc-ceEEEE
Q psy13360 612 INIDVSMQWNNSY----NENILCFTNNILQ-VDGGTHLTGLRSGITRAINKYIEENEFLKKSKIEIIGEDIRE-GLTCVL 685 (1161)
Q Consensus 612 ~~veva~~~~~~~----~e~~~SFvN~I~T-~~GGtHv~g~~~alt~~in~~~~~~~l~Kk~~~~~~~~dire-gL~~vv 685 (1161)
..||+|+.|-..- .-+++-|+|-||- .+.|.- ++|+++.+. +. |..+ +. +.-. -+.++|
T Consensus 348 fiVE~~iayGg~~~~~~~~~i~RfaNrvPLl~~~g~~------~~t~~v~~i----~w-~~Y~--~~--~~~~~p~~v~v 412 (488)
T TIGR01052 348 FIVEVGIAYGGNIGRRSEPEILRYANKVPLLYDAGSC------VLTKAVKSI----NW-KRYG--IR--DFPSAPLVVLV 412 (488)
T ss_pred eEEEEeeecCCcCCCCCceeEEEecccCceeeccccc------HHHHHHHhC----Ch-hhcC--CC--CCCCCCEEEEE
Confidence 6799999996431 2358999999994 445543 456655421 11 1111 21 2332 378899
Q ss_pred EEeecCCCccccccccccc-ccccchh
Q psy13360 686 SIKIPDPKFNSQTKNKLVS-SEVRKPV 711 (1161)
Q Consensus 686 sv~i~~P~FegQTK~kL~n-~~v~~~v 711 (1161)
++--.+--|.|--|+...+ ||+..-+
T Consensus 413 hi~St~vPf~s~~Ke~ia~~~ei~~ei 439 (488)
T TIGR01052 413 NLASTNVPYTSTGKQSVADIPEIYNEI 439 (488)
T ss_pred EEeecCCCCCCcchhhhcCCHHHHHHH
Confidence 9988888999999999963 3443333
No 182
>PRK04031 DNA primase; Provisional
Probab=23.56 E-value=1.2e+02 Score=36.12 Aligned_cols=122 Identities=24% Similarity=0.302 Sum_probs=65.4
Q ss_pred HHHHHHHHHhhCchhHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccccCccccCCCCCCCcceEEEEeccC-CCcc
Q psy13360 715 IIKTLFDFLQENPGESKLICEKIIEAARSREAARKTRELTRKKNLIDDIELSTKLADCQEKNPELCELYIVEGDS-AGGS 793 (1161)
Q Consensus 715 v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aa~~a~~~~r~k~~~~~~~lpgKl~dc~~~~~~~~eL~ivEGDS-A~gs 793 (1161)
-++.|..||++.--..+.|++.+-++. |.. +.+- ...-.| +|...=...-++++|||=. .-..
T Consensus 121 Akeil~~~~~e~~~~s~ei~~ev~e~v------r~~-ei~e----yg~ekL-----~Agp~i~k~~~iIVVEG~~DVi~L 184 (408)
T PRK04031 121 AKEILKKWFDEKVPDSKEIIEEVREAV------RVE-EITE----YGPEKL-----PAGPNVDDSDAIIVVEGRADVLNL 184 (408)
T ss_pred HHHHHHHHhhccCccHHHHHHHHHHHh------hhc-ccee----eccccc-----ccCcccccCCeEEEEeCHHHHHHH
Confidence 456788899887556677777664432 211 2221 111223 3444334456899999943 1222
Q ss_pred cccccCCcceEeeccCCccccccccchhHHhccHhHHHHHHHhCCCCCCCCCcccccccceEEEeecCCCCChhhHHHHH
Q psy13360 794 VKQGRDRRFQAVLPLRGKVLNIEKARFEKIILSEQITTLISTLGIGIEQDEFNLEKLRYHRIIIMTDADIDGAHIRALLL 873 (1161)
Q Consensus 794 ak~grdr~~qailPLrGKilNv~ka~~~ki~~n~Ei~~l~~alG~~~~~~~~~~~~lRY~kiiimtDaD~DG~HI~~Lll 873 (1161)
.+.| +.|.+..+|+.+.. + =.+-+|-.+|++++|-|.-|--|+--|+
T Consensus 185 ~~aG-------------------------------i~nvVAt~GT~l~~-~-i~~l~k~~~Vil~~DgD~aGe~I~k~l~ 231 (408)
T PRK04031 185 LRYG-------------------------------IKNAIAVEGTNVPE-T-IIELSKKKTVTAFLDGDRGGELILKELL 231 (408)
T ss_pred Hhcc-------------------------------cceEEEeCCcccHH-H-HHHHhcCCCEEEEECCCHHHHHHHHHHH
Confidence 2222 12233334443321 0 0111235689999999999987755443
Q ss_pred HHHHHhcHhhhhcCcEEEEcCc
Q psy13360 874 TFFYRKMPKLIEYGYIYIAQPP 895 (1161)
Q Consensus 874 tff~~~~p~Li~~g~v~~~~~P 895 (1161)
.. .-+.|++.-|
T Consensus 232 ~v----------~~~d~VaraP 243 (408)
T PRK04031 232 QV----------ADIDYVARAP 243 (408)
T ss_pred hh----------cceeEEecCC
Confidence 31 2267888888
No 183
>PF04139 Rad9: Rad9; InterPro: IPR007268 Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage.; GO: 0006281 DNA repair; PDB: 3GGR_A 3G65_A 3A1J_A.
Probab=22.92 E-value=1.1e+03 Score=26.24 Aligned_cols=195 Identities=11% Similarity=0.201 Sum_probs=104.9
Q ss_pred HHHhcCCCCccEEEEEeCcEEEEEE---CcEEEEEccCCCCCCCCc--cCCCCcceEEEEcHHHHHHHHHhhcccccccc
Q psy13360 79 DILRSLPETEKVTIYIENKHMFIKS---GKSKFTLQTLDAKEYPIM--TLNSKYDFEFTLSQKTLKCILNMVYFSIAQQD 153 (1161)
Q Consensus 79 ~Ivk~Lp~~~~I~ie~~~~~l~I~s---G~~~~~l~~~~~edfP~~--~~~~~~~~~~~i~~~~L~~aI~~v~~a~s~~~ 153 (1161)
.-++++.+ +|.++..++.|.+++ .++.|---.+.+.=|-.. .........+.+..+.+..+++... .
T Consensus 6 ~~Lskige--el~ie~~~~~L~l~avNss~Sa~~~~~F~~~FF~~y~~~~~~~~~~~~~i~~K~~l~vfr~~~------~ 77 (252)
T PF04139_consen 6 QCLSKIGE--ELYIEITEDGLSLRAVNSSRSAYAQFRFSKSFFDKYQADSDSQDSFSCKISMKSLLSVFRSLS------T 77 (252)
T ss_dssp HHHHTT-S--EEEEEEETTEEEEEEE-TTSSEEEEEEETGGGSSEEE--SSSS----EEEEHHHHHHHHSSCT------C
T ss_pred HHHHhhCC--eEEEEEcCCeEEEEEECccccEEEEEEEChHHhhhhcccCCCCCcEEEEEEchhhhhhhcccc------c
Confidence 44566654 599999889888874 333333223333222222 1222335678889888888776221 1
Q ss_pred cccceeeEEEEEEC--CE--EEEEEecceEEEEEEEecCCC------C---CCcceEEEehhhHHHHHhhhcCCCCcEEE
Q psy13360 154 IRYYLNGLLLSFQK--KN--IIAVSSDGHRLTYYQVNIDKK------F---SSCSDIIIPRKTVFTLQRLLENKENPVEL 220 (1161)
Q Consensus 154 trpiL~GV~~~~~~--~~--L~lvATDg~RLa~~~i~~~~~------~---~~~~~viIP~k~L~eL~klL~~~~~~V~i 220 (1161)
.-..+..+.+.+.+ .+ +++....|.. -.+.+++... . .....+.++++.+.++...++...++|++
T Consensus 78 ~~~~Ve~c~i~i~~~~~~L~~~l~c~~gI~-Kt~~l~~~~~~~~~a~~d~~~~~n~l~~~~~~l~~~l~~f~~~~eeitl 156 (252)
T PF04139_consen 78 LEKNVESCEISIDNDESRLIFQLFCKNGII-KTYNLPYEECESLQAVFDKESCPNYLVISPRLLKDLLDHFPSSTEEITL 156 (252)
T ss_dssp CHHCEEEEEEEE-TTSSEEEEEEEEGGGEE-EEEEEE-CE---------GGGSSEEEEEEHHHHHHHHTTS-TT--EEEE
T ss_pred cccceeEEEEEEcCCCcEEEEEEEeccceE-EEEEEEEEeccccccccchhcCCceEEEChHHHHHHHhhcCCChhhEEE
Confidence 11123334444432 22 3333444321 1222222211 0 11358999999999999999876678999
Q ss_pred EEeCcEEEEEEC------c---EEEEEeecCCCCCCccccccCCcceEEEEeHHHHHHHHHHhhccccCCcceEEEEEe
Q psy13360 221 KISNNQIKIIFS------N---IEIISKLIDGKFLDYKYVISNKYEKSFLVNRNKLLRSLQRISIISNDKLKGVRLVIK 290 (1161)
Q Consensus 221 ~~~~~~l~f~~~------~---~~~~~rli~g~fPdy~~vip~~~~~~i~v~r~~L~~aL~Rv~~~s~~~~~~V~l~~~ 290 (1161)
.++.+.+.++.= . ..-...+-..+|-+|.-- .+..+++.-++|+..+.-+..+.. .+.+.|.
T Consensus 157 ~~~~~~v~~~s~~~~~~~~~~~l~t~v~i~~~ef~~~~~~----~~~~itF~lKefka~l~~ae~~~~----~i~~~f~ 227 (252)
T PF04139_consen 157 EVTDDKVSFKSYTEEIQDSKQPLSTEVTISTEEFDEYNVQ----EDTDITFSLKEFKAILSFAESLSL----PISIYFD 227 (252)
T ss_dssp EEECTCEEEEEE-----SSS---EEEEEE-GGGSSEEE------TT-EEEEEHHHHHHHHHHHHHTTE----EEEEEES
T ss_pred EecCCEEEEEeecccccccccceEEEEEEehHhcceEEcC----CCCEEEEEeHHHHHHHHHHHhcCC----cEEEEEC
Confidence 999988876541 1 122222334677666442 238999999999999998886532 3555553
No 184
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=21.49 E-value=5.5e+02 Score=33.50 Aligned_cols=91 Identities=12% Similarity=0.284 Sum_probs=55.8
Q ss_pred ceEEEEEEeecCCC----cceeeeeeccccc-CCCCchhHHHHHHHHHHHHHHH-HHhcccccccccCChhhHhcc-eEE
Q psy13360 611 NINIDVSMQWNNSY----NENILCFTNNILQ-VDGGTHLTGLRSGITRAINKYI-EENEFLKKSKIEIIGEDIREG-LTC 683 (1161)
Q Consensus 611 ~~~veva~~~~~~~----~e~~~SFvN~I~T-~~GGtHv~g~~~alt~~in~~~-~~~~l~Kk~~~~~~~~direg-L~~ 683 (1161)
-..||+|+.|-..- .-.++-|+|-||- .+.|.- ++|+++...- +..|+-. ..|+.+-.| +++
T Consensus 541 PFiVEagiAYGG~~~~~g~~~i~RfANRVPLly~~gac------~iT~~v~~i~Wr~Ygl~q-----~~g~g~p~~P~~v 609 (795)
T PRK14868 541 PFIVEAGIAYGGEIDSEGSVDVMRFANRVPLVYQRGAC------ATTDVVKSIGWRNYGLDQ-----PGGSGLPNGPAVI 609 (795)
T ss_pred CeEEEEEeecCCcCCCCCCceEEEecccCceeeccccc------HHHHHHHhCChhhcCcCC-----CCCCCCCCCCEEE
Confidence 36799999996432 2358999999994 344542 4566554210 1123321 112223333 788
Q ss_pred EEEEeecCCCccccccccccc-ccccchhH
Q psy13360 684 VLSIKIPDPKFNSQTKNKLVS-SEVRKPVE 712 (1161)
Q Consensus 684 vvsv~i~~P~FegQTK~kL~n-~~v~~~v~ 712 (1161)
+|+|--.+--|.|--|+.+.+ ||+..-++
T Consensus 610 ~VhvaST~VPfts~sKeaIA~vpEI~~EI~ 639 (795)
T PRK14868 610 MVHVASTNVPFTSESKDAIANVPEIEDEIE 639 (795)
T ss_pred EEEEeecCCCCCCcchhhhcCCHHHHHHHH
Confidence 999999999999999999964 34443333
No 185
>PF14484 FISNA: Fish-specific NACHT associated domain
Probab=20.53 E-value=55 Score=29.57 Aligned_cols=15 Identities=47% Similarity=0.558 Sum_probs=12.5
Q ss_pred CcceEEEEeccCCCc
Q psy13360 778 ELCELYIVEGDSAGG 792 (1161)
Q Consensus 778 ~~~eL~ivEGDSA~g 792 (1161)
--++||||||+|.+-
T Consensus 29 iYTeLyIteg~~~~v 43 (73)
T PF14484_consen 29 IYTELYITEGGSGEV 43 (73)
T ss_pred hceeeeEeccCCCcc
Confidence 358999999999864
No 186
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=20.17 E-value=74 Score=31.63 Aligned_cols=24 Identities=29% Similarity=0.379 Sum_probs=20.2
Q ss_pred ceEEEeecCCCCChhhHHHHHHHH
Q psy13360 853 HRIIIMTDADIDGAHIRALLLTFF 876 (1161)
Q Consensus 853 ~kiiimtDaD~DG~HI~~Llltff 876 (1161)
.-|||.||+|..|.+|.-.++..+
T Consensus 74 ~eiiiAtD~drEGe~i~~~i~~~~ 97 (123)
T cd03363 74 DEIYLATDPDREGEAIAWHLAEVL 97 (123)
T ss_pred CEEEEcCCCCcchHHHHHHHHHHc
Confidence 369999999999999987666654
Done!