Query gi|254780306|ref|YP_003064719.1| DNA topoisomerase I [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 837
No_of_seqs 331 out of 2557
Neff 6.3
Searched_HMMs 39220
Date Sun May 29 16:09:09 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780306.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK09138 DNA topoisomerase I; 100.0 0 0 2202.1 72.4 833 1-835 1-838 (887)
2 PRK07941 DNA topoisomerase I; 100.0 0 0 2015.4 68.6 814 2-835 10-901 (933)
3 PRK07561 DNA topoisomerase I; 100.0 0 0 2009.3 67.1 790 2-836 3-846 (878)
4 PRK08780 DNA topoisomerase III 100.0 0 0 1921.4 67.0 748 2-833 4-760 (783)
5 PRK06599 DNA topoisomerase I; 100.0 0 0 1910.7 68.0 761 1-769 1-772 (776)
6 TIGR01051 topA_bact DNA topois 100.0 0 0 1744.4 38.9 632 3-639 1-687 (688)
7 PRK06319 DNA topoisomerase I/S 100.0 0 0 1608.7 57.5 701 2-743 4-725 (864)
8 PRK09137 DNA topoisomerase I; 100.0 0 0 1553.6 61.8 703 2-744 3-713 (761)
9 PRK09001 DNA topoisomerase I; 100.0 0 0 1551.4 60.3 602 2-642 4-644 (869)
10 PRK05582 DNA topoisomerase I; 100.0 0 0 1509.5 58.6 680 1-737 1-684 (692)
11 PRK08413 consensus 100.0 0 0 1511.6 57.0 718 1-806 2-723 (733)
12 PRK08938 DNA topoisomerase I; 100.0 0 0 1495.0 59.8 676 2-738 5-683 (692)
13 PRK05823 consensus 100.0 0 0 1419.9 52.2 641 2-674 4-669 (691)
14 COG0550 TopA Topoisomerase IA 100.0 0 0 1333.6 49.2 550 1-575 1-557 (570)
15 PRK08620 DNA topoisomerase III 100.0 0 0 1314.2 55.1 615 1-680 2-673 (726)
16 PRK08174 DNA topoisomerase III 100.0 0 0 1297.9 54.0 599 1-646 1-657 (670)
17 PRK07141 DNA topoisomerase I; 100.0 0 0 1300.3 50.2 592 2-643 4-606 (622)
18 PRK07220 DNA topoisomerase I; 100.0 0 0 1278.9 54.5 614 1-668 1-648 (740)
19 PRK07219 DNA topoisomerase I; 100.0 0 0 1268.5 56.3 660 1-744 4-701 (769)
20 PRK07726 DNA topoisomerase III 100.0 0 0 1173.4 53.4 598 1-640 1-664 (716)
21 PRK09401 reverse gyrase; Revie 100.0 0 0 1187.2 42.1 513 2-570 602-1174(1176)
22 PRK08173 DNA topoisomerase III 100.0 0 0 1153.2 54.6 698 2-766 4-783 (857)
23 PRK09031 DNA topoisomerase III 100.0 0 0 1156.3 51.4 550 1-574 1-610 (649)
24 PRK05776 DNA topoisomerase III 100.0 0 0 1153.4 49.3 561 3-611 11-611 (675)
25 TIGR01056 topB DNA topoisomera 100.0 0 0 1026.6 42.2 593 1-634 3-667 (755)
26 TIGR01057 topA_arch DNA topois 100.0 0 0 1017.6 40.6 585 5-633 1-637 (637)
27 pfam01131 Topoisom_bac DNA top 100.0 0 0 856.1 33.5 397 130-559 2-403 (403)
28 KOG1956 consensus 100.0 0 0 825.6 38.5 678 2-770 3-740 (758)
29 COG1110 Reverse gyrase [DNA re 100.0 0 0 835.8 31.5 506 3-567 620-1185(1187)
30 cd00186 TOP1Ac DNA Topoisomera 100.0 0 0 824.3 31.1 375 132-568 1-380 (381)
31 TIGR01054 rgy reverse gyrase; 100.0 0 0 778.7 21.5 521 3-565 661-1840(1843)
32 smart00437 TOP1Ac Bacterial DN 100.0 0 0 549.2 20.7 255 248-520 1-259 (259)
33 COG1754 Uncharacterized C-term 100.0 0 0 519.6 18.5 247 583-835 4-258 (298)
34 KOG1957 consensus 100.0 0 0 407.3 10.7 478 3-561 5-528 (555)
35 cd03363 TOPRIM_TopoIA_TopoI TO 100.0 2.3E-37 5.9E-42 299.5 14.6 122 1-127 1-123 (123)
36 cd03361 TOPRIM_TopoIA_RevGyr T 100.0 6.8E-36 1.7E-40 288.5 13.5 122 2-127 2-170 (170)
37 PRK07941 DNA topoisomerase I; 100.0 6E-33 1.5E-37 266.4 13.6 161 659-834 638-833 (933)
38 PRK07561 DNA topoisomerase I; 100.0 8.7E-32 2.2E-36 257.7 13.7 161 659-834 602-780 (878)
39 PRK06599 DNA topoisomerase I; 100.0 3.5E-31 9E-36 253.1 14.6 163 657-836 599-771 (776)
40 cd01028 TOPRIM_TopoIA TOPRIM_T 100.0 1.1E-30 2.8E-35 249.4 15.0 123 1-127 1-142 (142)
41 cd03362 TOPRIM_TopoIA_TopoIII 100.0 1.6E-30 4E-35 248.2 14.8 124 1-127 1-151 (151)
42 PRK09138 DNA topoisomerase I; 100.0 7.2E-30 1.8E-34 243.3 12.6 158 657-835 604-771 (887)
43 smart00436 TOP1Bc Bacterial DN 100.0 6.4E-29 1.6E-33 236.1 10.0 88 107-194 1-89 (89)
44 PRK08780 DNA topoisomerase III 99.9 5.5E-27 1.4E-31 221.6 12.2 165 601-775 590-770 (783)
45 COG1754 Uncharacterized C-term 99.9 2.8E-27 7E-32 223.9 9.5 164 601-770 77-261 (298)
46 LOAD_Toprim consensus 99.9 3.1E-25 8E-30 208.4 11.6 98 1-128 1-98 (98)
47 pfam01751 Toprim Toprim domain 99.5 2E-13 5E-18 119.9 10.0 89 1-113 1-89 (89)
48 smart00493 TOPRIM topoisomeras 99.4 7E-13 1.8E-17 115.7 8.8 74 1-99 1-74 (76)
49 PRK09137 DNA topoisomerase I; 99.3 2.9E-11 7.5E-16 103.6 9.1 113 601-743 638-754 (761)
50 PRK08413 consensus 99.3 3.7E-11 9.6E-16 102.8 8.9 107 602-737 613-722 (733)
51 PRK06319 DNA topoisomerase I/S 99.2 5.3E-11 1.3E-15 101.6 6.9 80 602-687 645-726 (864)
52 PRK08938 DNA topoisomerase I; 99.1 9.3E-11 2.4E-15 99.8 5.4 67 602-680 617-683 (692)
53 PRK07219 DNA topoisomerase I; 99.0 4.6E-09 1.2E-13 87.1 11.0 113 601-743 631-746 (769)
54 PRK05582 DNA topoisomerase I; 99.0 6E-10 1.5E-14 93.7 4.4 106 657-805 575-684 (692)
55 PRK09001 DNA topoisomerase I; 98.8 1.5E-08 3.9E-13 83.2 5.6 146 602-764 664-815 (869)
56 pfam01396 zf-C4_Topoisom Topoi 98.4 1.3E-07 3.2E-12 76.2 2.5 38 602-641 1-38 (39)
57 PRK05823 consensus 98.3 3.7E-07 9.4E-12 72.8 1.9 76 657-745 603-684 (691)
58 COG0551 TopA Zn-finger domain 98.2 3.8E-06 9.6E-11 65.2 6.4 66 597-673 12-79 (140)
59 cd00188 TOPRIM Topoisomerase-p 97.9 0.0002 5.1E-09 52.2 9.6 72 2-98 2-73 (83)
60 PRK08620 DNA topoisomerase III 97.4 0.0004 1E-08 50.0 6.1 61 657-737 611-672 (726)
61 COG0551 TopA Zn-finger domain 97.3 0.00024 6E-09 51.7 3.8 72 600-684 58-130 (140)
62 PRK00076 recR recombination pr 96.9 0.013 3.3E-07 38.6 9.2 64 61-128 122-195 (197)
63 PRK13844 recombination protein 96.8 0.019 4.8E-07 37.4 9.4 62 62-128 127-198 (200)
64 COG0353 RecR Recombinational D 96.7 0.041 1E-06 34.9 10.8 86 3-111 82-171 (198)
65 COG4026 Uncharacterized protei 96.6 0.039 1E-06 35.1 10.0 80 3-112 10-94 (290)
66 TIGR00615 recR recombination p 96.2 0.029 7.4E-07 36.0 7.4 102 3-138 85-195 (205)
67 cd01025 TOPRIM_recR TOPRIM_rec 96.1 0.057 1.4E-06 33.8 8.4 87 2-111 2-92 (112)
68 PRK07220 DNA topoisomerase I; 95.8 0.018 4.5E-07 37.6 4.8 114 373-506 198-312 (740)
69 TIGR01051 topA_bact DNA topois 95.8 0.0072 1.8E-07 40.6 2.7 103 373-477 188-306 (688)
70 PRK05776 DNA topoisomerase III 94.6 0.13 3.4E-06 31.0 6.3 113 375-506 205-319 (675)
71 COG1658 Small primase-like pro 93.9 0.17 4.5E-06 30.2 5.6 68 59-127 43-119 (127)
72 cd01027 TOPRIM_RNase_M5_like T 93.8 0.45 1.1E-05 27.1 7.6 68 2-97 3-70 (81)
73 PRK07141 DNA topoisomerase I; 93.7 0.23 6E-06 29.2 6.1 58 444-505 233-294 (622)
74 pfam01131 Topoisom_bac DNA top 93.6 0.26 6.6E-06 28.9 6.0 57 449-506 101-158 (403)
75 PRK09031 DNA topoisomerase III 93.1 0.43 1.1E-05 27.3 6.6 56 449-505 270-327 (649)
76 smart00437 TOP1Ac Bacterial DN 93.0 0.34 8.6E-06 28.0 5.9 93 172-269 123-219 (259)
77 cd00186 TOP1Ac DNA Topoisomera 92.4 0.43 1.1E-05 27.3 5.8 52 453-505 69-121 (381)
78 PRK08174 DNA topoisomerase III 92.3 0.16 4.2E-06 30.4 3.6 123 373-505 193-318 (670)
79 TIGR01057 topA_arch DNA topois 91.4 0.75 1.9E-05 25.4 6.1 56 410-478 234-289 (637)
80 pfam01396 zf-C4_Topoisom Topoi 91.1 0.18 4.7E-06 30.0 2.7 26 713-738 1-26 (39)
81 PRK07726 DNA topoisomerase III 90.9 0.81 2.1E-05 25.2 5.8 117 374-506 202-320 (716)
82 PRK04031 DNA primase; Provisio 88.6 1 2.7E-05 24.4 4.9 37 305-341 132-168 (420)
83 TIGR02044 CueR Cu(I)-responsiv 82.1 1.2 3E-05 23.9 2.7 41 268-320 5-48 (127)
84 PRK10046 dpiA two-component re 79.3 2.6 6.7E-05 21.3 3.6 80 1-85 5-92 (225)
85 KOG1956 consensus 77.1 0.024 6.2E-07 36.6 -7.3 355 343-832 350-734 (758)
86 KOG1502 consensus 76.9 5.2 0.00013 19.1 5.9 89 17-117 25-131 (327)
87 PTZ00150 phosphoglucomutase; P 75.6 5.6 0.00014 18.9 5.9 15 552-566 449-463 (593)
88 COG0358 DnaG DNA primase (bact 75.2 5.7 0.00015 18.8 5.1 16 75-90 55-70 (568)
89 pfam09653 consensus 74.4 2 5E-05 22.3 1.9 49 260-319 16-64 (75)
90 cd01029 TOPRIM_primases TOPRIM 73.6 6.2 0.00016 18.5 6.1 68 2-98 2-69 (79)
91 TIGR01562 FdhE formate dehydro 73.0 2.8 7.1E-05 21.1 2.4 29 602-630 188-220 (312)
92 TIGR02173 cyt_kin_arch cytidyl 71.2 2.6 6.5E-05 21.4 1.9 71 9-92 14-86 (173)
93 smart00529 HTH_DTXR Helix-turn 71.2 6.6 0.00017 18.3 3.9 40 482-522 8-48 (96)
94 pfam09151 DUF1936 Domain of un 66.4 3.4 8.8E-05 20.5 1.7 32 603-635 2-34 (36)
95 cd03364 TOPRIM_DnaG_primases T 66.4 8.7 0.00022 17.4 7.1 69 2-99 2-70 (79)
96 PRK03902 manganese transport t 64.9 9.2 0.00023 17.2 4.0 42 481-523 30-72 (142)
97 COG0068 HypF Hydrogenase matur 64.6 7.3 0.00019 18.0 3.1 18 473-490 577-594 (750)
98 PRK11050 manganese transport r 63.4 9.8 0.00025 17.1 4.0 39 483-522 64-103 (155)
99 pfam09526 DUF2387 Probable met 62.5 8.1 0.00021 17.7 3.0 42 602-646 8-49 (61)
100 PRK08208 coproporphyrinogen II 62.2 6.8 0.00017 18.2 2.5 45 493-540 386-430 (436)
101 PRK06294 coproporphyrinogen II 62.1 3.5 8.9E-05 20.4 1.1 41 492-535 333-373 (374)
102 smart00347 HTH_MARR helix_turn 61.8 5.6 0.00014 18.9 2.1 50 471-524 25-81 (101)
103 PRK08599 coproporphyrinogen II 60.9 4.1 0.0001 19.9 1.2 43 482-524 327-369 (377)
104 PRK05660 coproporphyrinogen II 60.5 5 0.00013 19.2 1.6 40 484-524 332-371 (378)
105 pfam06969 HemN_C HemN C-termin 59.4 8.1 0.00021 17.7 2.5 54 466-519 54-118 (118)
106 PRK08166 NADH dehydrogenase su 59.2 4.5 0.00011 19.6 1.2 13 137-149 154-166 (858)
107 TIGR00314 cdhA CO dehydrogenas 59.0 3.3 8.4E-05 20.6 0.5 21 816-836 749-769 (795)
108 pfam07848 PaaX PaaX-like prote 58.1 8.2 0.00021 17.6 2.4 38 469-507 19-56 (70)
109 PRK08629 coproporphyrinogen II 57.4 5 0.00013 19.2 1.2 41 483-523 359-399 (424)
110 TIGR01700 PNPH purine nucleosi 57.0 8.1 0.00021 17.7 2.2 34 652-702 42-76 (259)
111 PRK08949 consensus 56.9 5.6 0.00014 18.9 1.4 41 483-524 331-371 (378)
112 PRK05799 coproporphyrinogen II 55.9 5.3 0.00013 19.1 1.1 42 483-524 327-368 (374)
113 COG1675 TFA1 Transcription ini 55.8 8.3 0.00021 17.6 2.1 31 268-306 37-67 (176)
114 PRK08898 coproporphyrinogen II 55.8 6.9 0.00018 18.2 1.7 35 490-524 353-387 (393)
115 KOG2767 consensus 55.6 5.1 0.00013 19.2 1.0 33 471-504 262-294 (400)
116 TIGR02349 DnaJ_bact chaperone 55.6 7.8 0.0002 17.8 1.9 46 597-642 183-229 (386)
117 TIGR01296 asd_B aspartate-semi 54.8 12 0.00031 16.3 2.8 101 160-293 32-148 (350)
118 PRK09129 NADH dehydrogenase su 54.7 4.7 0.00012 19.5 0.7 11 77-87 97-107 (777)
119 PRK07860 NADH dehydrogenase su 54.7 8.4 0.00022 17.5 2.0 17 135-151 165-181 (809)
120 COG1846 MarR Transcriptional r 54.4 14 0.00035 16.0 4.0 41 483-524 46-93 (126)
121 smart00532 LIGANc Ligase N fam 54.0 5.7 0.00014 18.8 1.0 27 604-635 401-427 (441)
122 TIGR00757 RNaseEG ribonuclease 53.7 13 0.00034 16.0 2.9 44 511-559 373-417 (464)
123 PRK02362 ski2-like helicase; P 51.6 15 0.00038 15.7 5.0 48 493-547 469-516 (736)
124 PRK09130 NADH dehydrogenase su 51.2 14 0.00036 15.9 2.7 16 816-831 663-678 (680)
125 TIGR01973 NuoG NADH-quinone ox 51.2 10 0.00027 16.8 2.0 27 532-558 453-482 (715)
126 PRK04017 hypothetical protein; 50.8 15 0.00039 15.6 5.1 42 60-101 52-94 (132)
127 KOG2324 consensus 49.8 12 0.00031 16.4 2.1 17 660-676 287-303 (457)
128 TIGR02390 RNA_pol_rpoA1 DNA-di 49.7 16 0.00041 15.5 6.2 15 113-127 180-194 (901)
129 PRK06266 transcription initiat 49.0 14 0.00037 15.8 2.4 29 270-306 43-71 (178)
130 COG0466 Lon ATP-dependent Lon 48.4 15 0.00038 15.7 2.4 26 55-80 29-55 (782)
131 pfam01726 LexA_DNA_bind LexA D 47.8 15 0.00039 15.6 2.4 30 480-509 32-61 (65)
132 TIGR00763 lon ATP-dependent pr 47.7 17 0.00042 15.3 2.6 17 502-518 598-619 (941)
133 PRK00574 gltX glutamyl-tRNA sy 47.7 7.5 0.00019 17.9 0.8 70 162-261 15-84 (489)
134 TIGR00354 polC DNA polymerase 47.3 9.3 0.00024 17.2 1.2 136 39-191 26-175 (1173)
135 COG2512 Predicted membrane-ass 47.1 17 0.00043 15.3 2.5 37 469-509 209-245 (258)
136 PRK08807 consensus 46.4 12 0.0003 16.4 1.7 41 483-524 339-379 (385)
137 pfam02002 TFIIE_alpha TFIIE al 46.3 15 0.00037 15.7 2.1 31 268-306 32-62 (105)
138 PRK10569 NAD(P)H-dependent FMN 46.3 18 0.00045 15.1 5.0 68 1-80 1-75 (191)
139 PRK11512 DNA-binding transcrip 45.8 4.7 0.00012 19.5 -0.5 48 471-522 55-109 (144)
140 TIGR00993 3a0901s04IAP86 chlor 45.5 9.3 0.00024 17.2 1.0 114 10-138 136-273 (772)
141 TIGR01591 Fdh-alpha formate de 45.3 13 0.00034 16.1 1.7 82 229-331 180-270 (694)
142 KOG0994 consensus 44.8 19 0.00048 14.9 3.2 26 263-288 930-955 (1758)
143 PRK03573 transcriptional regul 44.6 19 0.00048 14.9 8.2 51 471-525 47-104 (144)
144 PRK09058 coproporphyrinogen II 44.6 3.5 8.9E-05 20.4 -1.3 43 483-525 385-427 (447)
145 COG1568 Predicted methyltransf 44.3 17 0.00044 15.2 2.2 11 512-522 275-285 (354)
146 COG3383 Uncharacterized anaero 44.1 19 0.00049 14.9 2.5 39 513-553 596-650 (978)
147 cd01916 ACS_1 Acetyl-CoA synth 44.0 8.1 0.00021 17.7 0.5 12 623-634 469-480 (731)
148 pfam01978 TrmB Sugar-specific 43.7 13 0.00033 16.1 1.5 20 270-289 29-48 (68)
149 pfam10557 Cullin_Nedd8 Cullin 43.5 20 0.0005 14.8 2.6 13 495-507 51-63 (68)
150 TIGR00334 primaseG_like primas 43.1 20 0.0005 14.8 5.5 71 58-129 34-111 (176)
151 PRK00941 acetyl-CoA decarbonyl 42.6 8.7 0.00022 17.4 0.5 12 623-634 506-517 (779)
152 TIGR00014 arsC arsenate reduct 42.3 11 0.00029 16.6 1.0 53 229-291 14-67 (114)
153 TIGR02647 DNA conserved hypoth 42.1 20 0.00052 14.6 2.8 36 275-320 31-66 (77)
154 PRK08332 ribonucleotide-diphos 42.0 14 0.00037 15.8 1.5 40 48-88 399-438 (1748)
155 PRK07379 coproporphyrinogen II 41.6 21 0.00053 14.6 2.8 42 483-524 345-387 (399)
156 PRK10787 DNA-binding ATP-depen 41.5 21 0.00053 14.6 2.4 28 57-84 32-59 (784)
157 KOG1168 consensus 41.3 21 0.00053 14.6 2.6 11 165-175 34-44 (385)
158 TIGR01697 PNPH-PUNA-XAPA inosi 41.0 18 0.00045 15.1 1.8 84 654-763 48-161 (266)
159 TIGR02431 pcaR_pcaU beta-ketoa 40.9 18 0.00046 15.1 1.9 20 268-287 29-51 (252)
160 TIGR00575 dnlj DNA ligase, NAD 40.5 15 0.00039 15.6 1.5 37 259-305 238-277 (706)
161 pfam11279 DUF3080 Protein of u 40.2 21 0.00053 14.6 2.1 51 121-182 33-84 (315)
162 COG0272 Lig NAD-dependent DNA 39.8 16 0.0004 15.5 1.4 64 56-126 5-75 (667)
163 PRK09194 prolyl-tRNA synthetas 39.8 20 0.00052 14.7 2.0 43 788-832 525-567 (570)
164 COG5252 Uncharacterized conser 39.3 22 0.00057 14.3 3.8 20 694-713 190-211 (299)
165 pfam09339 HTH_IclR IclR helix- 39.2 14 0.00036 15.8 1.2 20 270-289 25-44 (52)
166 PRK13347 coproporphyrinogen II 39.2 8.3 0.00021 17.6 -0.0 36 494-529 404-439 (453)
167 TIGR01503 MthylAspMut_E methyl 38.5 22 0.00055 14.4 2.0 27 364-391 291-318 (481)
168 COG1321 TroR Mn-dependent tran 37.6 24 0.0006 14.2 3.9 38 482-520 33-71 (154)
169 TIGR00781 ccoO cytochrome c ox 37.4 17 0.00044 15.2 1.4 20 696-715 143-163 (234)
170 PRK09057 coproporphyrinogen II 37.3 21 0.00054 14.5 1.8 33 492-524 342-375 (381)
171 TIGR03129 one_C_dehyd_B formyl 36.8 16 0.00041 15.5 1.1 13 819-831 407-419 (421)
172 PRK07956 ligA NAD-dependent DN 36.3 15 0.00039 15.6 0.9 26 56-81 3-29 (668)
173 smart00346 HTH_ICLR helix_turn 36.1 25 0.00064 14.0 4.4 50 259-320 20-70 (91)
174 KOG0976 consensus 35.6 16 0.00041 15.4 1.0 22 484-505 653-674 (1265)
175 TIGR02639 ClpA ATP-dependent C 35.4 26 0.00065 13.9 3.9 52 270-336 362-422 (774)
176 KOG2337 consensus 35.4 26 0.00065 13.9 3.7 15 226-240 96-110 (669)
177 TIGR01405 polC_Gram_pos DNA po 35.2 22 0.00055 14.5 1.6 71 58-128 56-131 (1264)
178 PRK03564 formate dehydrogenase 35.0 26 0.00066 13.9 5.3 31 599-629 184-217 (307)
179 PRK11517 transcriptional regul 34.8 26 0.00067 13.8 3.6 29 1-29 1-31 (223)
180 pfam09395 consensus 34.7 26 0.00067 13.8 2.7 46 510-559 4-49 (77)
181 TIGR01381 E1_like_apg7 E1-like 34.6 26 0.00067 13.8 4.2 27 448-476 300-326 (689)
182 pfam09538 FYDLN_acid Protein o 34.6 23 0.00057 14.3 1.6 15 601-615 8-22 (104)
183 PRK08115 ribonucleotide-diphos 34.4 24 0.00062 14.1 1.7 62 686-757 730-792 (857)
184 pfam02327 BChl_A Bacteriochlor 34.3 26 0.00068 13.8 3.3 45 517-563 133-177 (357)
185 pfam10872 DUF2740 Protein of u 33.8 27 0.00069 13.7 2.0 28 367-394 3-31 (48)
186 pfam04606 Ogr_Delta Ogr/Delta- 33.0 23 0.00057 14.3 1.4 35 604-639 1-39 (47)
187 TIGR01158 SUI1_rel translation 32.3 26 0.00066 13.9 1.6 29 668-707 42-70 (111)
188 cd05569 PTS_IIB_fructose PTS_I 32.3 28 0.00073 13.6 3.6 41 67-129 49-89 (96)
189 TIGR01208 rmlA_long glucose-1- 32.2 19 0.00049 14.9 0.9 51 648-704 274-325 (361)
190 PRK10163 DNA-binding transcrip 31.6 29 0.00074 13.5 2.3 44 259-314 40-84 (271)
191 TIGR01579 MiaB-like-C MiaB-lik 31.5 29 0.00074 13.5 6.3 31 58-88 54-84 (492)
192 TIGR01743 purR_Bsub pur operon 31.4 29 0.00075 13.5 2.3 45 27-76 52-96 (269)
193 TIGR02164 torA trimethylamine- 30.9 30 0.00076 13.4 4.8 19 229-247 251-269 (847)
194 PRK08665 ribonucleotide-diphos 30.9 30 0.00076 13.4 4.7 89 58-155 28-124 (733)
195 pfam12387 Peptidase_C74 Pestiv 30.6 20 0.00052 14.6 0.8 16 490-505 85-100 (200)
196 PRK10811 rne ribonuclease E; R 30.3 21 0.00053 14.6 0.8 39 59-97 148-189 (1063)
197 TIGR01617 arsC_related conserv 29.8 27 0.0007 13.7 1.3 59 692-765 30-89 (122)
198 COG4337 Uncharacterized protei 29.6 24 0.00062 14.1 1.1 50 109-158 45-104 (206)
199 cd03765 proteasome_beta_bacter 29.5 31 0.0008 13.2 3.4 52 653-709 125-178 (236)
200 cd01304 FMDH_A Formylmethanofu 29.4 32 0.0008 13.2 2.0 29 474-502 212-251 (541)
201 pfam11834 DUF3354 Domain of un 29.4 15 0.00039 15.6 0.0 22 258-279 24-45 (69)
202 pfam09664 DUF2399 Protein of u 29.4 32 0.00081 13.2 8.2 68 3-95 22-90 (155)
203 pfam01325 Fe_dep_repress Iron 29.3 32 0.00081 13.2 1.9 29 269-305 26-54 (58)
204 PRK03353 ribB 3,4-dihydroxy-2- 29.0 32 0.00082 13.2 2.7 27 60-86 14-40 (217)
205 PRK00009 phosphoenolpyruvate c 28.8 32 0.00082 13.1 2.6 14 508-521 638-651 (916)
206 PRK05583 ribosomal protein L7A 28.7 32 0.00082 13.1 5.0 78 57-147 21-98 (104)
207 PRK09318 bifunctional 3,4-dihy 28.7 32 0.00083 13.1 2.0 23 63-86 2-24 (387)
208 smart00661 RPOL9 RNA polymeras 28.7 32 0.00083 13.1 2.4 33 604-641 2-34 (52)
209 PRK10336 DNA-binding transcrip 27.9 33 0.00085 13.0 3.6 28 1-28 1-30 (219)
210 COG0765 HisM ABC-type amino ac 27.4 34 0.00087 13.0 2.2 24 265-288 121-147 (222)
211 cd02755 MopB_Thiosulfate-R-lik 27.2 27 0.00068 13.8 0.9 41 274-322 37-86 (454)
212 PRK00215 LexA repressor; Valid 27.1 34 0.00088 12.9 2.5 32 478-509 28-59 (204)
213 PRK09880 L-idonate 5-dehydroge 27.1 23 0.00059 14.2 0.6 74 485-560 243-316 (343)
214 COG3058 FdhE Uncharacterized p 26.5 35 0.0009 12.9 4.5 30 600-629 183-216 (308)
215 PRK10427 putative fructose-lik 26.5 35 0.0009 12.9 3.3 42 67-129 53-94 (114)
216 COG0635 HemN Coproporphyrinoge 26.2 36 0.00091 12.8 1.6 58 470-527 340-408 (416)
217 PRK05978 hypothetical protein; 26.0 23 0.00059 14.2 0.4 11 603-613 35-45 (149)
218 PRK10430 DNA-binding transcrip 25.2 37 0.00094 12.7 5.4 80 1-85 2-91 (239)
219 PTZ00093 nucleoside diphosphat 25.2 37 0.00094 12.7 2.8 82 228-337 17-103 (149)
220 PRK09836 DNA-binding transcrip 25.2 37 0.00094 12.7 3.7 29 1-29 1-31 (226)
221 cd03366 TOPRIM_TopoIIA_GyrB TO 25.0 37 0.00095 12.7 3.0 78 2-95 2-95 (114)
222 TIGR00091 TIGR00091 tRNA (guan 24.8 33 0.00084 13.1 1.0 39 275-322 125-163 (216)
223 KOG0978 consensus 24.6 28 0.0007 13.7 0.6 10 601-610 642-651 (698)
224 TIGR01993 Pyr-5-nucltdase pyri 24.6 38 0.00097 12.6 3.2 43 263-307 24-67 (205)
225 TIGR01384 TFS_arch transcripti 24.5 27 0.00069 13.7 0.5 30 605-641 3-34 (111)
226 PRK10474 putative fructose-lik 24.4 38 0.00098 12.6 3.9 42 67-129 34-75 (88)
227 COG1710 Uncharacterized protei 24.3 38 0.00098 12.6 2.6 11 74-84 30-40 (139)
228 pfam08063 PADR1 PADR1 (NUC008) 24.2 33 0.00084 13.1 0.9 29 603-636 15-47 (55)
229 PRK09464 pdhR transcriptional 24.2 39 0.00098 12.6 1.9 25 480-505 41-65 (254)
230 TIGR01302 IMP_dehydrog inosine 24.2 39 0.00098 12.6 1.3 20 273-292 93-112 (476)
231 PRK01792 ribB 3,4-dihydroxy-2- 24.1 39 0.00099 12.6 3.4 53 57-128 11-63 (214)
232 TIGR01828 pyru_phos_dikin pyru 23.6 34 0.00085 13.0 0.9 40 259-312 354-397 (920)
233 cd01943 MAK32 MAK32 kinase. M 23.6 39 0.001 12.5 3.3 12 665-676 228-239 (328)
234 COG3120 Uncharacterized protei 23.6 40 0.001 12.5 2.2 12 82-93 22-33 (149)
235 PHA00626 hypothetical protein 23.6 29 0.00073 13.5 0.5 13 604-616 2-14 (59)
236 PRK00135 scpB segregation and 23.5 40 0.001 12.5 2.1 21 493-513 113-133 (182)
237 pfam04864 Alliinase_C Allinase 23.5 18 0.00047 15.0 -0.5 28 260-287 190-217 (363)
238 pfam04475 DUF555 Protein of un 23.5 40 0.001 12.5 1.8 39 569-612 19-57 (102)
239 COG1799 Uncharacterized protei 23.5 40 0.001 12.5 1.4 30 120-149 90-121 (167)
240 PRK02888 nitrous-oxide reducta 23.4 40 0.001 12.5 2.8 36 259-310 100-136 (637)
241 COG0108 RibB 3,4-dihydroxy-2-b 23.4 40 0.001 12.5 2.8 27 61-87 5-31 (203)
242 cd04728 ThiG Thiazole synthase 23.3 26 0.00066 13.9 0.3 27 204-236 5-31 (248)
243 TIGR02041 CysI sulfite reducta 23.1 14 0.00035 16.0 -1.2 97 624-763 423-525 (550)
244 COG4904 Uncharacterized protei 23.0 40 0.001 12.4 4.0 69 485-564 3-78 (174)
245 PRK05773 3,4-dihydroxy-2-butan 23.0 41 0.001 12.4 2.7 49 62-129 4-52 (218)
246 PRK11122 artM arginine transpo 22.8 41 0.001 12.4 2.6 23 265-287 120-144 (222)
247 cd02750 MopB_Nitrate-R-NarG-li 22.6 29 0.00074 13.5 0.4 11 279-289 53-63 (461)
248 KOG3347 consensus 22.5 37 0.00094 12.7 0.9 16 536-551 152-167 (176)
249 PRK06582 coproporphyrinogen II 22.4 42 0.0011 12.3 1.4 32 492-524 353-384 (390)
250 KOG1643 consensus 22.2 42 0.0011 12.3 2.8 26 375-401 182-207 (247)
251 PRK09508 leuO leucine transcri 22.2 37 0.00095 12.7 0.9 47 473-520 36-85 (314)
252 PRK13532 nitrate reductase; Pr 22.1 39 0.001 12.5 1.0 21 268-289 340-360 (828)
253 pfam03833 PolC_DP2 DNA polymer 22.0 42 0.0011 12.3 1.3 41 447-487 395-435 (852)
254 PRK10816 DNA-binding transcrip 22.0 42 0.0011 12.3 3.7 29 1-29 1-31 (223)
255 PRK09954 hypothetical protein; 21.9 42 0.0011 12.3 1.8 23 266-288 20-42 (362)
256 PRK09249 coproporphyrinogen II 21.8 28 0.00073 13.6 0.2 44 483-526 392-438 (456)
257 TIGR02315 ABC_phnC phosphonate 21.8 43 0.0011 12.2 1.6 29 104-132 117-145 (253)
258 cd04157 Arl6 Arl6 subfamily. 21.8 43 0.0011 12.2 5.3 75 50-125 72-157 (162)
259 TIGR01968 minD_bact septum sit 21.7 43 0.0011 12.2 2.3 33 694-727 189-221 (272)
260 PRK11062 nhaR transcriptional 21.6 40 0.001 12.5 0.9 52 474-526 19-73 (296)
261 TIGR02655 circ_KaiC circadian 21.4 43 0.0011 12.2 1.1 73 63-149 74-151 (484)
262 PRK00910 ribB 3,4-dihydroxy-2- 21.4 44 0.0011 12.2 2.8 27 60-86 15-41 (218)
263 pfam01047 MarR MarR family. Th 21.4 44 0.0011 12.2 2.0 22 487-508 30-51 (59)
264 KOG0114 consensus 21.3 44 0.0011 12.2 1.5 17 138-154 68-84 (124)
265 KOG3139 consensus 21.2 44 0.0011 12.2 1.4 39 268-313 111-154 (165)
266 KOG1973 consensus 21.2 44 0.0011 12.2 1.9 27 596-634 215-241 (274)
267 PRK11123 arginine transporter 21.2 44 0.0011 12.2 2.4 25 264-288 132-159 (238)
268 pfam08772 NOB1_Zn_bind Nin one 21.0 43 0.0011 12.2 1.0 16 601-616 23-38 (73)
269 COG0055 AtpD F0F1-type ATP syn 21.0 44 0.0011 12.1 1.9 28 476-504 263-290 (468)
270 COG1339 Transcriptional regula 21.0 44 0.0011 12.1 2.0 31 267-305 23-53 (214)
271 COG1217 TypA Predicted membran 20.9 44 0.0011 12.1 1.1 16 748-763 558-573 (603)
272 TIGR01084 mutY A/G-specific ad 20.9 44 0.0011 12.1 1.6 30 483-513 124-153 (297)
273 pfam08576 DUF1764 Eukaryotic p 20.7 24 0.00062 14.1 -0.3 18 471-488 65-82 (98)
274 PRK09986 DNA-binding transcrip 20.4 45 0.0012 12.0 1.8 17 504-520 38-54 (278)
275 TIGR00100 hypA hydrogenase nic 20.4 45 0.0012 12.0 1.5 15 538-552 49-63 (128)
276 COG2022 ThiG Uncharacterized e 20.4 23 0.0006 14.2 -0.5 23 351-374 63-85 (262)
277 TIGR02169 SMC_prok_A chromosom 20.4 46 0.0012 12.0 3.4 81 59-151 563-653 (1202)
278 pfam03965 Pencillinase_R Penic 20.2 46 0.0012 12.0 3.9 77 472-563 19-97 (115)
279 cd03365 TOPRIM_TopoIIA TOPRIM_ 20.1 46 0.0012 12.0 3.1 25 71-95 76-100 (120)
No 1
>PRK09138 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=2202.08 Aligned_cols=833 Identities=58% Similarity=0.993 Sum_probs=806.1
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCC
Q ss_conf 91899779047877887508998999942511007865578676667440688776548999999999870998999469
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD 80 (837)
|||||||||+|||||++|||++|.|+||+|||||||.++++|||+++|+|.|+++++++++|+.|++++|+||+||||||
T Consensus 1 M~LvIVESPaKaktI~kyLG~~y~V~AS~GHirDLp~k~~~vd~~~~f~~~y~i~~~k~k~v~~lk~~~K~ad~v~LATD 80 (887)
T PRK09138 1 MNVVVVESPAKAKTINKYLGSDYKVLASFGHVRDLPAKDGSVDPDEDFAMSWEVDSKSAKRLKDIAKALKGADGLILATD 80 (887)
T ss_pred CCEEEEECCHHHHHHHHHCCCCCEEEECCCCHHCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECCC
T ss_conf 95899947388889998559898899616704318865585566888646789898657999999999837998998889
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHC
Q ss_conf 97025799999999975512578871699998037989999998622646989999999999989874011378988641
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKL 160 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~ 160 (837)
||||||+|||||+++|+.+..+++++|+||||||||++||++||+|||++|++||+||+|||+|||||||+|||+|||++
T Consensus 81 pDREGEaIawhl~e~L~~k~~l~~~~vkRi~F~EITk~AI~~Al~npr~id~~LV~Aq~aRRilDrLvGf~lSp~Lwrkl 160 (887)
T PRK09138 81 PDREGEAISWHVLEVLRKKKALKDKPVERVVFNAITKSAVTDAMANPRDIDQPLVDAYLARRALDYLVGFTLSPVLWRKL 160 (887)
T ss_pred CCCCHHHHHHHHHHHHCHHCCCCCCCEEEEEEECCCHHHHHHHHHCHHHCCHHHHHHHHHHHHHHEEECCEECHHHHHHC
T ss_conf 98341899999999856110478885368999365999999999591521888899999999987133613169999744
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCC
Q ss_conf 46765342268999999999999641376544001223315799654223310358330331011356667776420015
Q gi|254780306|r 161 PGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA 240 (837)
Q Consensus 161 ~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~ 240 (837)
++++||||||||||+||||||+||++|+|++||+|.+.|...++..|.|+|...++++++++++.++++|+.+.+.+++.
T Consensus 161 ~~~~SAGRVQSpaLrLIveRE~EI~~F~p~~Yw~i~a~~~~~~g~~f~a~l~~~~gkk~~k~~i~~~~eA~~~~~~l~~~ 240 (887)
T PRK09138 161 PGARSAGRVQSVALRLVCDREAEIERFVPREYWSVAALLATPRGDEFEARLTGLDGKKLDKLDIGNGEEAEAAKAALEAA 240 (887)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEEEEEEECCEECCCCCCCCHHHHHHHHHHHHCC
T ss_conf 78987651077889999984999985165436999999965889735799986267011546677889999999986069
Q ss_pred CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf 63010000233222468521037999998876088899999999876213556721224553147554444305689999
Q gi|254780306|r 241 TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVR 320 (837)
Q Consensus 241 ~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r 320 (837)
.++|.+|++|+.+++||+||+||||||+||++|||||++||++||+|||+++++|++.||||||||||++||++++..+|
T Consensus 241 ~~~V~~ve~K~~kr~Pp~PFtTSTLQQeAs~kLGfSa~~TM~iAQ~LYEg~~~~~~~~GlITYmRTDS~~lS~eai~~ar 320 (887)
T PRK09138 241 TFKVASVEAKPAKRNPPPPFTTSTLQQEASRKLGFSASRTMQIAQRLYEGVDIGGETVGLITYMRTDGVQMAPEAITAAR 320 (887)
T ss_pred CEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCHHHHHHHH
T ss_conf 75999983342245899996467999999987199899999999999751235777505898614762201899999999
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEE
Q ss_conf 76552001123763111125566688777652477302346400000199999999999999999985222110010013
Q gi|254780306|r 321 RSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVN 400 (837)
Q Consensus 321 ~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~ 400 (837)
++|.+.||.+|+|++||.|++|++||||||||||||++.++|+.+...|+.||++||+|||+|||||||+||++++++|+
T Consensus 321 ~~I~~~yG~~ylp~~pr~y~~K~knaQEAHEAIRPTd~~~~P~~~~~~L~~de~kLY~LIwkRtlASQM~~A~~e~ttv~ 400 (887)
T PRK09138 321 DAIGERFGAAYVPEKPRFYSTKAKNAQEAHEAIRPTDFSRRPADVRRFLDADQARLYELIWKRTIASQMESAELERTTVD 400 (887)
T ss_pred HHHHHHHCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHCCHHHEEEEEEE
T ss_conf 99998636332753230102345567667577236565558788740289889999999999999974464233789999
Q ss_pred EEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHH
Q ss_conf 67740796399999874880588567632677763210010148864568821100110111234643101789987433
Q gi|254780306|r 401 IIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM 480 (837)
Q Consensus 401 i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~m 480 (837)
|.+..+...+.|+|+|++++|+||++||.++.+++.+++++..||.|++|+.+.+.++.+.||+|+||+||||||||++|
T Consensus 401 i~~~~~~~~~~f~AsG~vi~f~Gfl~vY~e~~d~~~~de~~~~LP~l~~Gd~l~~~~i~~~q~~TkPP~RYTEASLVk~m 480 (887)
T PRK09138 401 IEAKDGGRQAGLRATGQVVKFDGFLAVYQEGRDDDDDDEDSRRLPAMSEGEALAREKVAATQHFTEPPPRYSEASLVKRM 480 (887)
T ss_pred EEECCCCCEEEEEEEEEEEEECCEEEEECCCCCCCCCCCHHHCCCCCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHH
T ss_conf 99468871589999768997678188650456664321011028765568765676777567765899988989999999
Q ss_pred HHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 21025665515789999973220221477122201142000022336655689889999999999986260134789999
Q gi|254780306|r 481 EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHE 560 (837)
Q Consensus 481 E~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~ 560 (837)
|++|||||||||+||+||++|+||.+++++|+||++|++|++||++||+++|||+|||+||++||+||+|+.+|.+||++
T Consensus 481 Ee~GIGRPSTYAsII~tL~~R~YV~~~~~~l~Pt~~G~~V~~fL~~~F~~~vdy~FTA~mE~~LD~Ia~G~~~w~~~l~~ 560 (887)
T PRK09138 481 EELGIGRPSTYASILQTLRDREYVRIDKRRLIPEDKGRLVTAFLESFFERYVEYDFTADLEEKLDRISDGELDWKQVLRD 560 (887)
T ss_pred HHCCCCCCCHHHHHHHHHHHCCCEEEECCEECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 97699986317999998871787983098766407589999999986355409175899999888987687428999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 86767665576677556667765567664102455556766114334677731368715776111234343233321001
Q gi|254780306|r 561 FWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLT 640 (837)
Q Consensus 561 Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~ 640 (837)
||.+|+..++++.++.+.++++.+++.+++++|+...++.+.+.||.|+.|.|.++. ||||+|+||||||+|+|++++.
T Consensus 561 Fy~~f~~~v~~~~~~~~~~v~~~l~~~l~~~~f~~~~d~~d~r~cp~c~~g~l~l~~-gk~G~figcsnypec~~t~~l~ 639 (887)
T PRK09138 561 FWRDFSAAVDETKELRVTEVLDALDEELAPHIFPPREDGSDPRICPTCGTGRLSLKL-GKFGAFVGCSNYPECRYTRQLS 639 (887)
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEC-CCCCCCCCCCCCCCCCCCCCCC
T ss_conf 976333444112111167787777765443216754467776336678887368870-5765666567886443555578
Q ss_pred CCCCC-CCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECC----CCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCC
Q ss_conf 22100-00123442014689999669998269742277348----87776133789988425489999998615255157
Q gi|254780306|r 641 SNPQD-IPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGD----GKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGI 715 (837)
Q Consensus 641 ~~~~~-~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge----~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~ 715 (837)
....+ .....+++.||+||+||++|++|.||||||||+|+ .+||||+|||+++++++||||+|++||||||+||.
T Consensus 640 ~~~~~~~~~~~~~r~LG~dP~tg~~v~~k~GrfGpyvq~G~~~~~~~kpk~asl~k~~~~~~itle~Al~LlsLPr~lG~ 719 (887)
T PRK09138 640 ADGGEEAAASDDPKVLGKDPETGEEVTLRSGRFGPYVQLGEATAEGKKPKRASLPKGWSPADVDLEKALALLSLPREVGK 719 (887)
T ss_pred CCCCCCHHCCCCCCEEECCCCCCCEEEEEECCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCHHHCC
T ss_conf 87542011245783320079999758997047777586168764445754467889998010689999999817485389
Q ss_pred CCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCCCCCEEEEE
Q ss_conf 77898749991158765261678111248877514357999999998365113443445443201026789898469960
Q gi|254780306|r 716 HPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEGGSITVHN 795 (837)
Q Consensus 716 ~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~~~~i~i~~ 795 (837)
|||+|++|+|++|||||||+|+++|+||++++++|+|+||+|++||++++..+++ +..+..|+|+||+||+|++|+|++
T Consensus 720 hpe~g~~I~a~~GrfGPYv~~~~~~~sl~~~~~~~~i~l~~A~~lia~~~~~~~~-~~~~~~~lk~lg~~p~~~~v~v~~ 798 (887)
T PRK09138 720 HPETGKPISAGIGRYGPYVKHGGTYANLEKVDDVFTIGLNRAVTLLAEKQAGGGR-GRGAAAPLKTLGDHPDGGPVTVRD 798 (887)
T ss_pred CCCCCCEEEECCCCCCCCEEECCEEECCCCCCCCEEECHHHHHHHHHHHHHCCCC-CCCCCCHHHHCCCCCCCCEEEEEC
T ss_conf 9789978998158876648889998268998986251699999999612103555-545443022237799998258845
Q ss_pred CCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHHHHC
Q ss_conf 6854525367888756578896778999999999877726
Q gi|254780306|r 796 GRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKKQK 835 (837)
Q Consensus 796 GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~li~~k~~k 835 (837)
|||||||+||++||+|||+.|||+||+|+|++||++|++|
T Consensus 799 Gr~GpYv~~g~~Na~lpk~~~~e~~tle~a~~ll~~k~ak 838 (887)
T PRK09138 799 GRYGPYVNWGKVNATLPKGKDPEAVTLEEALALIAEKAAK 838 (887)
T ss_pred CCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHHHHC
T ss_conf 8876507638478625899982128899999999987622
No 2
>PRK07941 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=2015.43 Aligned_cols=814 Identities=36% Similarity=0.598 Sum_probs=727.6
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCC--------------CCCCCCCCCCCEEEEECCCHHHHHHHHHH
Q ss_conf 1899779047877887508998999942511007865--------------57867666744068877654899999999
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAK--------------KGSVLPEKEFEMIWNIDPSSQKHLQNIIH 67 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~--------------~~~v~~~~~f~p~y~v~~~~kk~~~~i~~ 67 (837)
+|||||||+|||||++|||++|+|+||+|||||||.+ .+|||++++|.|.|+++++++++|+.|++
T Consensus 10 ~LVIVESPaKaktI~kyLG~~y~V~aS~GHIrDLp~~~~~v~~~~k~~~~~~~gvd~~~~f~p~y~v~~~kkk~v~~Lk~ 89 (933)
T PRK07941 10 RLVIVESPTKARKIAPYLGSNYIVESSRGHIRDLPRAAADVPAKYKSEPWARLGVNVDADFEPLYIVSPDKKSTVAELKG 89 (933)
T ss_pred EEEEEECCHHHHHHHHHCCCCCEEEECCCEEEECCCCCCCCCCHHCCCCHHHCCCCCCCCCCEEEEECCCHHHHHHHHHH
T ss_conf 49999182888899986598989996167601777775656410024530003315577850677889657999999999
Q ss_pred HHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 98709989994699702579999999997551257887169999803798999999862264698999999999998987
Q gi|254780306|r 68 AVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYL 147 (837)
Q Consensus 68 ~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~l 147 (837)
++|+||+||||||||||||+|||||+++|+. +.||+||||||||++||++||+|||++|++||+||+|||+||||
T Consensus 90 ~~k~ad~V~lATDpDREGEaIawhl~e~lk~-----~~~vkRv~F~EITk~AI~~Al~npr~id~~LV~Aq~aRRilDrL 164 (933)
T PRK07941 90 LLKDVDELYLATDGDREGEAIAWHLLETLKP-----RVPVKRMVFHEITEPAILAAAENPRDLDIDLVDAQETRRILDRL 164 (933)
T ss_pred HHHCCCEEEECCCCCCCCHHHHHHHHHHHCC-----CCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 9965998998989972404999999998389-----98747899926899999999858300169899999999999988
Q ss_pred HHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCC------CEEEEEEEEECCEEECC
Q ss_conf 401137898864146765342268999999999999641376544001223315799------65422331035833033
Q gi|254780306|r 148 VGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRN------DKFTAHLTDFNGQRIEK 221 (837)
Q Consensus 148 vG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~------~~f~a~l~~~~~~~~~~ 221 (837)
|||+|||+||++++++|||||||||||+||||||+||++|+|++||+|.+.|....+ ..|.++|..++++++..
T Consensus 165 vGf~lSp~Lw~k~~~~LSAGRVQSpaLrLIVeRE~EI~~F~p~~Yw~i~a~~~~~~~~~~~~~~~f~a~l~~~~g~~~~~ 244 (933)
T PRK07941 165 YGYEVSPVLWKKVAPKLSAGRVQSVATRIIVQRERERMAFRSADYWDISAELDASVSDPAAAPPTFTARLTSVDGRRVAT 244 (933)
T ss_pred HHHHHCHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCEEEEC
T ss_conf 64613699998626787563635478999998699998268855047999984255543246753589987436755301
Q ss_pred ---------------CCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf ---------------10113566677764200156301000023322246852103799999887608889999999987
Q gi|254780306|r 222 ---------------KSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQK 286 (837)
Q Consensus 222 ---------------~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~ 286 (837)
..+.|+++|+++.+.|++..++|.+|++|+.+++||+||+||||||+||++|||||++||+|||+
T Consensus 245 g~dfd~~~~l~~~~~~~~~de~~A~~~~~~l~~~~~~V~~ve~K~~~r~P~pPFtTSTLQQeAsrkLgfSa~~TM~iAQ~ 324 (933)
T PRK07941 245 GRDFDSLGTLRKADEVLVLDEARATALAAGLQGAQLSVASVEEKPYTRRPYAPFMTSTLQQEAGRKLRFSSERTMSIAQR 324 (933)
T ss_pred CCCCCCHHHHCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf 45555200002332011268999999999722796389988743435689899767999999987379699999999999
Q ss_pred HHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE-CCCCCCHH
Q ss_conf 62135567212245531475544443056899997655200112376311112556668877765247730-23464000
Q gi|254780306|r 287 LYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPND-FDFLPSKM 365 (837)
Q Consensus 287 LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~-~~~~p~~~ 365 (837)
||| .||||||||||++||++++..+|++|..+||++|++..+|.|++|++||||||||||||+ ...+|+.+
T Consensus 325 LYE--------~GlITYmRTDS~~LS~eai~~ar~~I~~~yG~~yl~~~~r~~~~k~knaQeAHEAIRPT~~~~~tp~~l 396 (933)
T PRK07941 325 LYE--------NGYITYMRTDSTTLSESAINAARTQARQLYGEEYVAPSPRQYTRKVKNAQEAHEAIRPAGETFATPGQL 396 (933)
T ss_pred HHH--------CCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf 984--------774654047876269999999999999743511268551122235567644565503463011688887
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEE-CCCEEEEEEEEEEEECCCHHHHHCCCCCCCC---CCHHH
Q ss_conf 0019999999999999999998522211001001367740-7963999998748805885676326777632---10010
Q gi|254780306|r 366 KQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATY-NDQIGHLRTTGSLLCFDGFLKVWENQYDQEK---NSEED 441 (837)
Q Consensus 366 ~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~-~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~---~~~~~ 441 (837)
...|+.||++||+|||+|||||||+||++++++|.|.... ....+.|+|+|++++|+||+++|.+..+++. .++.+
T Consensus 397 ~~~L~~de~kLY~LIwkRtlASqM~~A~~~~~~v~i~~~~~~~~~~~F~asG~~i~f~Gfl~vY~e~~~~~~~~~~d~~e 476 (933)
T PRK07941 397 HRQLDGDEFRLYELIWQRTVASQMADARGTTLSLRITGTAKGGEEVVFSASGRTITFPGFLKAYVETVDELAGGEADDAE 476 (933)
T ss_pred HCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECCCCCCEEEEEEEEEEEEECCEEEEEECCCCCCCCCCCCCHH
T ss_conf 40368889999999999988753551104799999960257774179999667999888878850346532244433212
Q ss_pred CCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHC
Q ss_conf 14886456882110011011123464310178998743321025665515789999973220221477122201142000
Q gi|254780306|r 442 ILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVT 521 (837)
Q Consensus 442 ~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~ 521 (837)
..||.|++|+.+.+.++.+.+|+|+||+|||||||||+||++|||||||||+||+||++|+||.+++++|+||++|++|+
T Consensus 477 ~~LP~l~~G~~l~~~~i~~~~~~TkPP~RYTEASLVk~MEe~GIGRPSTYAsII~tL~~R~YV~~~~~~l~Pt~~G~~V~ 556 (933)
T PRK07941 477 SRLPNLTQGQRLDAVELTPDGHSTNPPARYTEASLVKALEELGIGRPSTYSSIIKTIQDRGYVHKKGSALVPSWVAFAVV 556 (933)
T ss_pred HCCCCCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCEEECCCCEECCHHHHHHHH
T ss_conf 10876666871001343411257689999888999999996699987128999999874535842587657547799999
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 02233665568988999999999998626013478999986767665576677556667765567664102455556766
Q gi|254780306|r 522 AFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNED 601 (837)
Q Consensus 522 ~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~ 601 (837)
+||++||++||||+|||+||++||+||+|+.+|.+||++||++|...+.+.... ...+.+.+...+... ... ....
T Consensus 557 ~fL~~~F~~~vdy~FTa~mE~~LD~Ia~G~~~w~~~l~~Fy~~~~~~~~~~~~~-~~~l~~~~~~~~~~i-d~~--~~~~ 632 (933)
T PRK07941 557 GLLEQHFGRLVDYDFTAAMEDELDEIAAGNERRTNWLNNFYFGGDHGVADSVAR-SGGLKKLVGVNLEGI-DAR--EVNS 632 (933)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHH-HHHHHHHHHHHHCCC-CHH--HCCC
T ss_conf 999998887748521689997652663596068999999864665440244543-222788765211005-765--5057
Q ss_pred CEECCCCCCCCEEEEEECCCCCCC----CCCCCCCCCCCCCCCC---CCCC---------CCCCCCCCCCCCCCCCCCEE
Q ss_conf 114334677731368715776111----2343432333210012---2100---------00123442014689999669
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFV----GCTNYPECKYTRQLTS---NPQD---------IPEMKESVLLGNDLETKESV 665 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~Fi----gCSnyPeCk~t~~l~~---~~~~---------~~~~~~~~~LG~dP~~G~~I 665 (837)
...|+.|....+.++ .||||+|+ +|+++++|++++.... .+.+ .....++++||.||++|++|
T Consensus 633 ~~~~~~~~g~~l~~r-~gk~G~f~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~r~LG~dP~tg~~V 711 (933)
T PRK07941 633 IKLFDDAEGRPVYVR-VGRNGPYLERMVGTGDDGEPEPQRANLPDSLTPDELTLEVAEKLFATPQEGRELGVDPETGHEI 711 (933)
T ss_pred CCCCCCCCCCEEEEE-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCEE
T ss_conf 656666789754786-1577664000247688886430215678666865343777888750567897223589999868
Q ss_pred EEEECCCCCEE--EECCC-------------------CCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEE
Q ss_conf 99826974227--73488-------------------7776133789988425489999998615255157778987499
Q gi|254780306|r 666 TLRSGRFGLYV--QRGDG-------------------KDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNII 724 (837)
Q Consensus 666 ~lk~GryGpYv--q~Ge~-------------------~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~ 724 (837)
+||.||||||| |+|+. +||||+||||++++++||||+||+||+|||+||.||++|++|+
T Consensus 712 ~lk~GryGpyv~~~~~e~~~~~~~~~~~~~~~~~~~~~Kpk~asl~k~~~~~~itLe~Al~LlsLPR~lG~hPe~g~~I~ 791 (933)
T PRK07941 712 VAKEGRFGPYVTEVLPEPEEDGAAAKTAAKKKKKETGPKPRTGSLLRSMDLQTVTLEDALKLLSLPRVVGVDPASGEEIT 791 (933)
T ss_pred EEECCCCCCEEEEECCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHCCCCCCCCEEE
T ss_conf 99417987724200477520000001101134433467877566789998020689999999708463189978998799
Q ss_pred EEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEECCCCCEEE
Q ss_conf 911587652616781112488775143579999999983651134434454432010267898-9846996068545253
Q gi|254780306|r 725 AGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNGRYGPYLH 803 (837)
Q Consensus 725 ~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~GryGpYi~ 803 (837)
|++|||||||+|+++|+||++++++|+|+||+||+||+++|..++ +.++.+++|+||+||+ |++|+|++|||||||+
T Consensus 792 a~~GrfGPYlk~~~~~~sL~~~~~~~~I~l~~Av~li~~~k~~~~--~~~~~~~lk~lg~~p~~~~~i~v~~GryGpYv~ 869 (933)
T PRK07941 792 AQNGRYGPYLKRGTDSRSLATEEQIFTITLDEALKIYAEPKRRGR--QAAAAPPLRELGDDPVSGKPMVIKDGRFGPYVT 869 (933)
T ss_pred ECCCCCCCCCCCCCEEECCCCCCCCEECCHHHHHHHHHCHHHCCC--CCCCCCHHHHCCCCCCCCCCEEEECCCCCCEEE
T ss_conf 756788766640883431698887512389999999955433376--533443154448998899816994588743076
Q ss_pred ECCEEEECCCCCCHHHCCHHHHHHHHHHHHHC
Q ss_conf 67888756578896778999999999877726
Q gi|254780306|r 804 WKKINASLSKEESPDTVDLEKALKILNIKKQK 835 (837)
Q Consensus 804 ~gk~Na~ipk~~~~e~lt~e~a~~li~~k~~k 835 (837)
||++||+|||+.|||+||||+|++||++|+||
T Consensus 870 ~gk~Na~lpk~~~pe~ltle~a~~Li~~k~ak 901 (933)
T PRK07941 870 DGETNASLRKGDDVESITDARASELLADRRAR 901 (933)
T ss_pred ECCEEECCCCCCCHHHCCHHHHHHHHHHHHHC
T ss_conf 48688516998982128999999999998732
No 3
>PRK07561 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=2009.33 Aligned_cols=790 Identities=40% Similarity=0.647 Sum_probs=715.4
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCC--------------CCCCCCCCCCCEEEEECCCHHHHHHHHHH
Q ss_conf 1899779047877887508998999942511007865--------------57867666744068877654899999999
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAK--------------KGSVLPEKEFEMIWNIDPSSQKHLQNIIH 67 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~--------------~~~v~~~~~f~p~y~v~~~~kk~~~~i~~ 67 (837)
+|||||||+|||||++|||++|.|+||+|||||||.+ .+|||++++|.|.|+++++++++|+.|++
T Consensus 3 ~LVIVESPaKaktI~kyLG~~y~V~AS~GHirDLp~~~~~vp~~~k~~~~~~~gvd~~~~f~p~y~i~~~kkk~v~~Lk~ 82 (878)
T PRK07561 3 TLVIVESPTKARTIRNFLPKGYRVEASMGHVRDLPNSASEIPAAVKGEKWANLGVNVEADFEPLYVVPKDKKKVVKELKD 82 (878)
T ss_pred CEEEEECCHHHHHHHHHCCCCCEEEEECCCHHCCCCCCCCCCCHHCCCCHHHCCCCCCCCCCEEEEECCCHHHHHHHHHH
T ss_conf 48999373888999986698979996066152057764557401112303105435588952677868768999999999
Q ss_pred HHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 98709989994699702579999999997551257887169999803798999999862264698999999999998987
Q gi|254780306|r 68 AVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYL 147 (837)
Q Consensus 68 ~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~l 147 (837)
++|+||+||||||||||||+|||||+++|+. +.+|+|+||||||++||++||+|||++|++||+||+|||+||||
T Consensus 83 ~~k~ad~V~lATDpDREGEaIawhl~e~l~~-----~~~vkRi~F~EITk~AI~~Ai~npr~id~~LV~Aq~aRRilDrl 157 (878)
T PRK07561 83 ALKGADELLLATDEDREGESISWHLLQLLKP-----KVPTKRMVFHEITKEAIQKALDNTREIDMELVHAQETRRILDRL 157 (878)
T ss_pred HHHCCCEEEECCCCCCCCHHHHHHHHHHHCC-----CCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 9857998998889971406999999998489-----99706899946899999999968541688889999999998864
Q ss_pred HHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEEC-------
Q ss_conf 4011378988641467653422689999999999996413765440012233157996542233103583303-------
Q gi|254780306|r 148 VGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIE------- 220 (837)
Q Consensus 148 vG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~------- 220 (837)
|||+|||+||++++++|||||||||||+||||||+||++|+|++||+|.+.|.. ++..|.|+|.+++++++.
T Consensus 158 VGf~lSp~Lw~k~~~~LSAGRVQSpaLrLIveRE~EI~~F~p~~Yw~i~a~~~~-~~~~f~a~l~~~~~~ki~~~~dfd~ 236 (878)
T PRK07561 158 VGYTLSPLLWKKIAWGLSAGRVQSVAVRLLVQRERERRAFKSGSYWDLKAQLEK-DGSPFEAKLTTLGGQRIATGSDFDE 236 (878)
T ss_pred HCCEECHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC-CCCEEEEEEEEECCEEECCCCCCCC
T ss_conf 252405999975178997640189999999998999983587552899999824-8861799997318856403555542
Q ss_pred ---------CCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Q ss_conf ---------31011356667776420015630100002332224685210379999988760888999999998762135
Q gi|254780306|r 221 ---------KKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGI 291 (837)
Q Consensus 221 ---------~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~ 291 (837)
+.++.|+++|+++++.+++..++|.+|++|+.+++||+||+||||||+||++|||||++||++||+|||
T Consensus 237 ~t~~~~~~~~~~~~~e~~A~~~~~~l~~~~~~V~~ve~K~~~r~PppPFtTSTLQQeAs~kLGfSa~~TM~iAQ~LYE-- 314 (878)
T PRK07561 237 STGQLKAGRDVVLLDEEEAKALKERLTGKPWTVSSVEEKPTTRKPVPPFTTSTLQQEANRKLRLSARETMRCAQGLYE-- 314 (878)
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEECCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHH--
T ss_conf 111223454343389999999999842797699998752200379998567999999986159589999999999985--
Q ss_pred CCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCC-CCCHHCCCCC
Q ss_conf 567212245531475544443056899997655200112376311112556668877765247730234-6400000199
Q gi|254780306|r 292 DVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDF-LPSKMKQFLD 370 (837)
Q Consensus 292 ~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~-~p~~~~~~L~ 370 (837)
.||||||||||++||++++..+|++|...||++||++++|.|.+|++||||||||||||+..+ +|++ ..|+
T Consensus 315 ------~GlITYmRTDS~~lS~eai~~~r~~I~~~yG~~yl~~~~r~y~~k~k~aQeAHEAIRPT~~~~~~p~~--~~L~ 386 (878)
T PRK07561 315 ------RGFITYMRTDSVHLSEQAIRAARSCVESMYGKEYLSPQPRQYTTKSKNAQEAHEAIRPAGETFRTPQE--TGLS 386 (878)
T ss_pred ------CCEEEEECCCCCCCCHHHHHHHHHHHHHHCCHHHCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCHHH--CCCC
T ss_conf ------88378864787656999999999999874144227611200035656763561341444522258333--0899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCC--CHHHCCCCCCC
Q ss_conf 9999999999999999852221100100136774079639999987488058856763267776321--00101488645
Q gi|254780306|r 371 SDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKN--SEEDILLPYIS 448 (837)
Q Consensus 371 ~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~--~~~~~~LP~l~ 448 (837)
.+|++||+|||+|||||||+||++++++|.+.+.+ ..|+|+|++++|+||+++|.++.++++. ++++..||.|+
T Consensus 387 ~de~kLY~LIwkRtlASqM~~a~~~~t~v~i~~~~----~~F~asG~~i~f~G~~~vy~e~~dd~~~~~e~~~~~LP~l~ 462 (878)
T PRK07561 387 GRELALYDLIWKRTVASQMAEARLTMISVELSVGD----ALFRASGKRIDFPGFFRAYVEGSDDPDAALEDQEVILPALK 462 (878)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHEEEEEEEEEECC----EEEEEEEEEEEECCEEEEEECCCCCCCCCCCCCCCCCCCCC
T ss_conf 88999999999999986057321789999999288----69999769996178689984156762112232222277657
Q ss_pred CCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCC
Q ss_conf 68821100110111234643101789987433210256655157899999732202214771222011420000223366
Q gi|254780306|r 449 ANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFF 528 (837)
Q Consensus 449 ~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f 528 (837)
+|+.+.+.++.+.+|+|+||+|||||||||+||++|||||||||+||+||++|+||.+++++|+||++|++|++||++||
T Consensus 463 ~Gd~l~~~~i~~~~~~TkPP~RYTEASLVk~MEe~GIGRPSTYAsII~tL~~R~YV~~~~~~l~Pt~~G~~V~~fL~~~F 542 (878)
T PRK07561 463 VGDHPECKSLEALGHETQPPARYTEASLVKTLEKEGIGRPSTYASIIGTIVDRGYAQLRSNALVPTFTAFAVTALLEEHF 542 (878)
T ss_pred CCCCCEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCEECCCCEECCHHHHHHHHHHHHHHH
T ss_conf 89832014666444562799997989999999966999871279999888627878436953353487899999999876
Q ss_pred CCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCC
Q ss_conf 55689889999999999986260134789999867676655766775566677655676641024555567661143346
Q gi|254780306|r 529 SQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPEC 608 (837)
Q Consensus 529 ~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C 608 (837)
+++|||+|||+||+.||+||+|+.+|.+||++||.++...... +.+..+.+ +....+.|+.|
T Consensus 543 ~~~vdy~FTA~mE~~LD~Ia~G~~~w~~~l~~Fy~~~~~~~~~-----v~~~~~~i-------------d~~~~~~~~~~ 604 (878)
T PRK07561 543 PDLVDTSFTARMEQTLDEISTGEVQWLPYLEGFYKGEKGLETQ-----VKKREGDI-------------DPGAARTVDLE 604 (878)
T ss_pred HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCHHH-----HHHHCCCC-------------CHHHCCCCCCC
T ss_conf 7761833079999877688669606899999984788652334-----44300345-------------85441465778
Q ss_pred CCCCEEEEEECCCCCCCCCCCCCC-CCCCCCCCCCCCCC----------CCCCCCCCCCCCCCCCCEEEEEECCCCCEEE
Q ss_conf 777313687157761112343432-33321001221000----------0123442014689999669998269742277
Q gi|254780306|r 609 HTHSLSLKLSSKYGAFVGCTNYPE-CKYTRQLTSNPQDI----------PEMKESVLLGNDLETKESVTLRSGRFGLYVQ 677 (837)
Q Consensus 609 ~~g~L~~k~~gK~G~FigCSnyPe-Ck~t~~l~~~~~~~----------~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq 677 (837)
+ ..+.++ .||||+|++|+++++ |+++.+....+.+. ....++++||.||++|++|+||.||||||||
T Consensus 605 ~-~~~~~r-~gk~G~~i~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~~~~g~r~LG~dP~tg~~V~~k~GryGpyvq 682 (878)
T PRK07561 605 G-LPCVVR-IGRFGPYLEGEREEEPIKASLPQDITPADLDPEQVEQILKQKTEGPEKLGTHPETGEPVYLLFGPYGPYVQ 682 (878)
T ss_pred C-CCCEEE-EECCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCCEEE
T ss_conf 9-862366-41676720210587653102676558654787888776412467873236689999868999358218698
Q ss_pred ECC----CCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEEC-----CEECCCCCCCC
Q ss_conf 348----877761337899884254899999986152551577789874999115876526167-----81112488775
Q gi|254780306|r 678 RGD----GKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHD-----GAYTKLESIEQ 748 (837)
Q Consensus 678 ~Ge----~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~-----~~~~sl~~~~~ 748 (837)
+|+ .+||||+||||++++++||||+||+||||||+||.|||+|++|+|++|||||||+|+ ++|+||+++++
T Consensus 683 lG~~~~~~~Kpk~asl~k~~~~~~itle~Al~LlsLPr~lG~~pe~g~~I~a~~GrfGPY~~~dg~k~g~~~~sl~~~~~ 762 (878)
T PRK07561 683 LGDVTEENPKPKRASLPKGVKPEDVTLEMALGLLSLPRLLGEHPETGGKIQAGLGRFGPYVVHDKGKGEKDYRSLKKEDD 762 (878)
T ss_pred ECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCHHHCCCCCCCCEEEECCCCCCCCEEECCCCCCCCCCCCCCCCC
T ss_conf 04777667787644568999804268999999970757537887899879987678776674047766764145799887
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCCC-CCEEEEECCCCCEEEECCEEEECCCCCCHHHCCHHHHHH
Q ss_conf 1435799999999836511344344544320102678989-846996068545253678887565788967789999999
Q gi|254780306|r 749 VLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEG-GSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALK 827 (837)
Q Consensus 749 ~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~~-~~i~i~~GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~ 827 (837)
+|+||||+||+||+++++.++ .++++++||+||++ ++|+|++|||||||+||++||+|||+.||++||+|+|++
T Consensus 763 ~~~i~l~~Av~lia~~k~~~~-----~~~~lk~lg~~p~~~~~i~v~~GRyGpYv~~gk~na~ipk~~~p~~ltle~a~~ 837 (878)
T PRK07561 763 VLTVDLERALELLAMPKKGRG-----GKTPLKELGKHPEDGEPVQVYDGPYGLYVKHGKVNASLPEGKTAEDITLEEALE 837 (878)
T ss_pred CEEECHHHHHHHHHHHHCCCC-----CCCHHHHCCCCCCCCCCEEEECCCCCEEEEECCEEECCCCCCCHHHCCHHHHHH
T ss_conf 645159999999961321465-----542366628997899835995488610688797885169999834488999999
Q ss_pred HHHHHHHCC
Q ss_conf 998777266
Q gi|254780306|r 828 ILNIKKQKK 836 (837)
Q Consensus 828 li~~k~~kk 836 (837)
||++|++++
T Consensus 838 li~~k~~~~ 846 (878)
T PRK07561 838 LLAEKASSK 846 (878)
T ss_pred HHHHHCCCC
T ss_conf 998424378
No 4
>PRK08780 DNA topoisomerase III; Provisional
Probab=100.00 E-value=0 Score=1921.40 Aligned_cols=748 Identities=42% Similarity=0.730 Sum_probs=699.4
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+|||||||||||||++|||++|.|+||+|||||||+++++|||+++|.|.|+++++++++|+.|++++++||+|||||||
T Consensus 4 ~LVIVESPaKaktI~k~LG~~y~V~as~GHirdL~~k~~~vd~~~~f~~~y~~~~~~~k~v~~lk~~~k~ad~V~lATDp 83 (783)
T PRK08780 4 HLLIVESPAKAKTINKYLGKDFTVLASYGHVRDLVPKEGAVDPDNGFAMRYDLIDKNEKHVEAIAKAAKSADDIYLATDP 83 (783)
T ss_pred CEEEECCHHHHHHHHHHCCCCCEEEEECCCHHHCCCHHCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECCCC
T ss_conf 58998270888999987296979997147463288500473756687557888887078999999998379979989898
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC
Q ss_conf 70257999999999755125788716999980379899999986226469899999999999898740113789886414
Q gi|254780306|r 82 DREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP 161 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~ 161 (837)
|||||+|||||+++|+.++.++++||+|+||||||++||++||+|||++|++||+||+|||++||||||||||+||++++
T Consensus 84 DREGEaIawhl~e~l~~k~~l~~k~vkRi~F~eITk~AI~~A~~npr~id~~Lv~Aq~aRrilDrLvG~~lSp~Lw~k~~ 163 (783)
T PRK08780 84 DREGEAISWHIAEILKERGLLKDKPMQRVVFTEITPRAIKEAMLKPRAIASDLVDAQQARRALDYLVGFNLSPVLWRKVQ 163 (783)
T ss_pred CCCHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCC
T ss_conf 70407999999999544315888863799995569999999995911102778999999998883206230188885256
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCC--
Q ss_conf 676534226899999999999964137654400122331579965422331035833033101135666777642001--
Q gi|254780306|r 162 GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKK-- 239 (837)
Q Consensus 162 ~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~-- 239 (837)
++|||||||||||+||||||+||++|+|++||+|.|.|.. .+..|.++|...++++++++++.+++.|+++...+..
T Consensus 164 ~~lSAGRVQSpaL~LIveRE~EI~~F~p~~Yw~i~a~~~~-~~~~f~akl~~~~~~k~~~~~~~d~~~a~~~~~~l~~~~ 242 (783)
T PRK08780 164 RGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAH-PSQAFNAKLIKLDGQKFEQFTITDGDTAEAARLRIQQAA 242 (783)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC-CCCCEEEEEEEECCEEECCCCCCCHHHHHHHHHHHHHHC
T ss_conf 8866310022888889999999970388544999999824-887358999852783501167899999999999998622
Q ss_pred -CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCC-HHHHHHHHCCCCCCCCCHHHHH
Q ss_conf -56301000023322246852103799999887608889999999987621355672-1224553147554444305689
Q gi|254780306|r 240 -ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNG-EIVGLITYMRTDGVHMSPDALE 317 (837)
Q Consensus 240 -~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~-~~~GlITYpRTDS~~ls~ea~~ 317 (837)
..+.|.+|++++.+++||+||+||||||+||++|||||++||++||+|||++++++ ++.||||||||||++||++++.
T Consensus 243 ~~~~~V~~v~~k~~k~~Pp~PFtTStLQqeAs~kLg~Sak~TM~iAQ~LYE~~~~~~~~~~GlITYmRTDS~~LS~eai~ 322 (783)
T PRK08780 243 QGVLHVTDVASKERKRRPAPPFTTSTLQQEASRKLGFTTRKTMQVAQKLYEGVALGDEGSVGLITYMRTDSVNLSQDALA 322 (783)
T ss_pred CCCEEEEEEEECEECCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCHHHHH
T ss_conf 79659999872201258999977689999999871999999999999997424256777402797347686644889999
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCC
Q ss_conf 99976552001123763111125566688777652477302346400000199999999999999999985222110010
Q gi|254780306|r 318 AVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERT 397 (837)
Q Consensus 318 ~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~ 397 (837)
.++++|...||.+|+|..+|.|++|++||||||||||||++..+|+.+...|++||++||+|||+|||||||+||+++++
T Consensus 323 ~~r~~I~~~~G~~~l~~~~r~y~~k~knaQeAHEAIRPT~~~~~p~~~~~~Ls~de~kLY~LIw~R~lASqm~~A~~~~t 402 (783)
T PRK08780 323 EIRDVIARDYGTASLPDQPNVYTTKSKNAQEAHEAVRPTSALRTPAQVARFLSDDERRLYELIWKRAVACQMIPATLNTV 402 (783)
T ss_pred HHHHHHHHHHCHHHHCCCCHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHCCHHEEEEE
T ss_conf 99999997302544121201202454565346678688610048777613699889999999999999973851268899
Q ss_pred EEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCC--CCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHH
Q ss_conf 01367740796399999874880588567632677763--2100101488645688211001101112346431017899
Q gi|254780306|r 398 TVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQE--KNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESS 475 (837)
Q Consensus 398 ~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~--~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEas 475 (837)
+|.|.+..+ +.|+++|++++|+||++||.++.++. ++++++..||.|++|+.+.+.++.+++|+|+||+||||||
T Consensus 403 ~v~i~~~~~---~~F~asG~~i~f~G~~~vy~e~~d~~~~~~~~~~~~LP~l~~Gd~l~~~~i~~~~~~TkPP~RYTEas 479 (783)
T PRK08780 403 SVDLSAGSE---HVFRATGTTVVVPGFLAVYEEGKDTKSSEDEDEGRKLPLMKEGDNVPLERIVTEQHFTQPPPRYTEAA 479 (783)
T ss_pred EEEEECCCC---CEEEEEEEEEEECCHHHHHHCCCCCCCCCCCHHHCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCHHH
T ss_conf 999983898---58999989998557677642125555411220111277656797767899887667727999879899
Q ss_pred HHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf 87433210256655157899999732202214771222011420000223366556898899999999999862601347
Q gi|254780306|r 476 LIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWK 555 (837)
Q Consensus 476 Lik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~ 555 (837)
||++||++|||||||||+||+||++|+||.+++++|+||++|++|++||++||+++|||+|||+||++||+||+|+.+|.
T Consensus 480 LIk~mEe~GIGRPSTyA~II~tL~~R~YV~~e~k~l~PT~~G~~V~~fL~~~F~~~vd~~FTa~mE~~LD~Ia~G~~~w~ 559 (783)
T PRK08780 480 LVKALEEYGIGRPSTYASIIQTLQFRKYVEMEGRSFRPTDVGRAVSKFLSGHFTRYVDYDFTARLEDDLDAVSRGEAEWI 559 (783)
T ss_pred HHHHHHHCCCCCCCCHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHH
T ss_conf 99999966999744279999888637868961884241289999999999863653582007999987669865972589
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 89999867676655766775566677655676641024555567661143346777313687157761112343432333
Q gi|254780306|r 556 EVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKY 635 (837)
Q Consensus 556 ~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~ 635 (837)
+||++||.+|+..++...+.. .
T Consensus 560 ~~l~~Fy~~f~~~v~~~~~~~-------------------------------------~--------------------- 581 (783)
T PRK08780 560 PLMEKFWGPFKELVEDKKDSL-------------------------------------D--------------------- 581 (783)
T ss_pred HHHHHHHHHHHHHHHHHHHCC-------------------------------------C---------------------
T ss_conf 999999887899887765301-------------------------------------3---------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECC---CCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHH
Q ss_conf 210012210000123442014689999669998269742277348---87776133789988425489999998615255
Q gi|254780306|r 636 TRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGD---GKDAKRCSLPKTWKSDSVDYDKAMSLLSLPRE 712 (837)
Q Consensus 636 t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge---~~kpkr~si~k~~~~~~itle~Al~LLsLPr~ 712 (837)
..+..+.+.||.||+||++|++|.||||||||+|+ .+||+|+|||+++++++||||+|++||+|||.
T Consensus 582 ----------~~~~~~~r~lg~dp~~g~~v~~k~GryGpyvq~g~~~~~~kpk~~sl~~~~~~~~i~le~Al~ll~lPr~ 651 (783)
T PRK08780 582 ----------KTDAGSVRVLGTDPKSGKEVSARIGRFGPMVQIGTVDDEEKPRFASLRPGQSIYSISLEEALELFKMPRA 651 (783)
T ss_pred ----------HHHCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHCCCHH
T ss_conf ----------4443675204889888970599833777767514787566986331799999132789999998705242
Q ss_pred HCCCCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCCCCCEE
Q ss_conf 15777898749991158765261678111248877514357999999998365113443445443201026789898469
Q gi|254780306|r 713 IGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEGGSIT 792 (837)
Q Consensus 713 lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~~~~i~ 792 (837)
||. ++|++|++++|||||||+|+++|+||+++++||+|+||+|++||++++..++. +.+++|| +++|+
T Consensus 652 lG~--~~g~~i~~~~Gr~GpYv~~~~~~~sl~~~~~~~~i~l~~A~~li~~~~~~~~~---------~~~~~~~-~~~i~ 719 (783)
T PRK08780 652 LGE--DKGQDVSVGIGRFGPFARRGSTYVSLKKEDDPYTIDLARAVFLIEEKEEIARN---------RVIKDFE-GSDIQ 719 (783)
T ss_pred HCC--CCCCEEEECCCCCCCCEEECCEEECCCCCCCCEEECHHHHHHHHHHHHHCCCC---------CCCCCCC-CCCEE
T ss_conf 089--99977997768877547579888347999876452799999999703202656---------6666689-99748
Q ss_pred EEECCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHHH
Q ss_conf 96068545253678887565788967789999999998777
Q gi|254780306|r 793 VHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKK 833 (837)
Q Consensus 793 i~~GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~li~~k~ 833 (837)
|++|||||||+||++||+|||+.||++||+|+|++||+++.
T Consensus 720 v~~GryGpYv~~gk~na~ipk~~~~~~ltle~a~~li~e~~ 760 (783)
T PRK08780 720 VLNGRFGPYISDGKLNGKIPKDREPASLTLEEVQQLLADTG 760 (783)
T ss_pred EECCCCCCEEEECCEEEECCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 81268864077798995058999800089999999997278
No 5
>PRK06599 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1910.68 Aligned_cols=761 Identities=49% Similarity=0.861 Sum_probs=721.1
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCC
Q ss_conf 91899779047877887508998999942511007865578676667440688776548999999999870998999469
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD 80 (837)
|+|||||||||||||++|||++|.|+||+|||||||.+.++|+|+++|.|.|+++++++++|+.|++++++||+||||||
T Consensus 1 MkLvIvESPsKaktI~k~LG~~y~V~as~GHi~dLp~~~~~v~~~~~f~~~y~~~~~~~k~i~~lk~l~k~ad~V~lATD 80 (776)
T PRK06599 1 MKLVIVESPAKAKTINKYLGDEFKVIASFGHIRDLPSKKGSVLPDENFAMKYDISDKAGKYVDAIVKDAKKAEAVYLATD 80 (776)
T ss_pred CEEEEECCHHHHHHHHHHCCCCCEEEEECCCHHHCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECCC
T ss_conf 90999817389999999709597999713737546765488676778734679897678899999999847998998989
Q ss_pred CCCHHHHHHHHHHHHHHHHCC-CCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHH
Q ss_conf 970257999999999755125-7887169999803798999999862264698999999999998987401137898864
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQKNL-IEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQK 159 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~~~-~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk 159 (837)
||||||+|||||+++|+.+.. .+..+++|+||||||++||++||+|||++|++||+||+|||++|||||||+||+||++
T Consensus 81 pDREGEaIawhi~e~l~~~~~~~~~~~~kRi~f~eITk~AI~~Al~npr~id~~Lv~Aq~aRr~lDrlvG~~lSp~L~~k 160 (776)
T PRK06599 81 PDREGESISWHVAEVIKEKNKVKSDDFFKRVAFNEITKKAIIHAVENPRKLDTNLVNAQQARRALDYLVGFTLSPLLWRK 160 (776)
T ss_pred CCCCHHHHHHHHHHHHCHHCCCCCCCCEEEEEEECCCHHHHHHHHHCCHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 97043699999999856004676777603899933899999999959320177789999999998855337455999974
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf 14676534226899999999999964137654400122331579965422331035833033101135666777642001
Q gi|254780306|r 160 LPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKK 239 (837)
Q Consensus 160 ~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 239 (837)
+++++||||||||||+|||+||+||++|+|++||+|.+.|...++..|.++|.+.++++++++++.++++|+++++.+++
T Consensus 161 ~~~~~SaGRVQSpaL~LIveRE~EI~~F~p~~Yw~v~a~~~~~~~~~f~a~l~~~~~~k~~k~~i~~~~~A~~i~~~l~~ 240 (776)
T PRK06599 161 LPGCKSAGRVQSVALRLICEREDEIERFKSEEYWDISLKMQNSNNELFTAKLTHVNDQKLEKFSIINEKEAKDLTKKLKS 240 (776)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf 37888666310799999998799998358741589999997489964777887516730031565899999999998516
Q ss_pred CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 56301000023322246852103799999887608889999999987621355672122455314755444430568999
Q gi|254780306|r 240 ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAV 319 (837)
Q Consensus 240 ~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~ 319 (837)
+.++|.+|++++.+++||+||+||||||+||++|||||++||+|||+|||++++++++.||||||||||++||++++..+
T Consensus 241 ~~~~V~~v~~k~~k~~Pp~PFtTStLQqeAs~klg~Sak~TM~iAQ~LYE~~~~~~e~~GlITYmRTDS~~LS~e~~~~~ 320 (776)
T PRK06599 241 QKFHVDKIEKKQQKRQPQPPFITSSLQQEAARKLGFSAKKTMQIAQKLYEGVDIGKETIGLITYMRTDGVTLSNDAIADI 320 (776)
T ss_pred CCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCHHHHHHH
T ss_conf 97499998765421279899766899999998718889999999999985155575655258996588861399999999
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEE
Q ss_conf 97655200112376311112556668877765247730234640000019999999999999999998522211001001
Q gi|254780306|r 320 RRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTV 399 (837)
Q Consensus 320 r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v 399 (837)
+++|...||.+|+|..+|.|++|++||||||||||||++..+|+.+...|+.||++||+|||+|||||||++|+++.+++
T Consensus 321 ~~~I~~~~g~~yl~~~~r~~k~k~~naqeAHeAIrPT~~~~~p~~~~~~l~~de~kLY~LI~~R~lAsqm~~a~~~~~~~ 400 (776)
T PRK06599 321 RKLIDKSYGDKYLPSSPRIYKSKVKNAQEAHEAIRPTNITYTPDSLKEKLEKDYYKLYELIWKRTIACQMENVIMDLVVA 400 (776)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHCCCHHEEEEEEE
T ss_conf 99998741254333132001464434535777767877665733543016888999999999999997075016789999
Q ss_pred EEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHH
Q ss_conf 36774079639999987488058856763267776321001014886456882110011011123464310178998743
Q gi|254780306|r 400 NIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKK 479 (837)
Q Consensus 400 ~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~ 479 (837)
.+.+. +..+.|+++|++++|+||++||.+..+++. ++++..||.|++|+.+.+.++.+.+|+|+||+||||||||++
T Consensus 401 ~i~~~--~~~~~~~asg~~i~f~G~~~vy~~~~~~~~-~~~~~~LP~l~~g~~l~~~~i~~~~~~TkPP~RYTEasLVk~ 477 (776)
T PRK06599 401 NLASE--NKEYLAKANGSTIAFDGFYKVYRESVDDEA-EEENKMLPPLKEQEPLKTKEIIPNQHFTEPPPRYSEASLVKK 477 (776)
T ss_pred EEEEC--CCEEEEEEEEEEEEECCCCEECCCCCCCCC-CCHHCCCCCCCCCCCCCEEEEEECCEECCCCCCCCHHHHHHH
T ss_conf 99967--953899998899973650210023355532-101113885336884202455412156279988798999999
Q ss_pred HHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 32102566551578999997322022147712220114200002233665568988999999999998626013478999
Q gi|254780306|r 480 MEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 480 mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
||++|||||||||+||+||++|+||.+++++|+||++|++|++||++||+++|+|+|||+||+.||+||+|+.+|.++|+
T Consensus 478 mE~~GIGRPSTyAsII~tL~~R~YV~~~~k~liPT~~G~~V~~~L~~~F~~ivd~~fTA~mE~~LD~Ia~G~~~w~~~l~ 557 (776)
T PRK06599 478 LEELGIGRPSTYASILSVLQDRKYVALEKKRFIPEELGRLVTVFLVGFFKKYVEYDFTAGLENELDEIAAGKLEWKAALN 557 (776)
T ss_pred HHHCCCCCCCCHHHHHHHHHCCCCEEECCCEECCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf 98569998760567787775378488428430125648999999987553512740568999867898769824999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98676766557667755666776556766410245555676611433467773136871577611123434323332100
Q gi|254780306|r 560 EFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQL 639 (837)
Q Consensus 560 ~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l 639 (837)
+||.+|+..++.+.+..+.++.+.+...+..+.+.... ..+.||+|+.|.|.++. ||||+||||||||+|+|++++
T Consensus 558 ~Fy~~f~~~i~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~cp~c~~g~l~~r~-gk~G~f~~cs~yp~c~~~~~~ 633 (776)
T PRK06599 558 NFWSGFNHNIESVNEQKITEIISYVQKALDYHLFGENK---ESKVCPSCKTGELSLKL-GKFGAFLACSNYPECTFRKSI 633 (776)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCCCCCCCCCEEEEE-CCCCCCCCCCCCCCCCCCCCC
T ss_conf 99876666677777631346777787530211246666---66517878887358960-586574115798666666768
Q ss_pred CCCCCCC-------CCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCCC---CCCCCCCCCCCCHHHCCHHHHHHHHHC
Q ss_conf 1221000-------012344201468999966999826974227734887---776133789988425489999998615
Q gi|254780306|r 640 TSNPQDI-------PEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDGK---DAKRCSLPKTWKSDSVDYDKAMSLLSL 709 (837)
Q Consensus 640 ~~~~~~~-------~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~---kpkr~si~k~~~~~~itle~Al~LLsL 709 (837)
.....+. ....++++||.||+ |.+|++|.||||||||+|+.+ ||||+|||+++++++||||+|++||+|
T Consensus 634 ~~~~~~~~~~~~~~~~~~~~~~lG~d~~-g~~v~~k~GryGpyvq~g~~~~~~kpk~~sl~~~~~~~~itle~Al~ll~l 712 (776)
T PRK06599 634 VSGNDNNENEGEPKAIPNENKVLGTDKD-GVEIYLKKGPYGPYIQLGEQEGKVKPKRSPVPASLNQNDITLEIALKLLSL 712 (776)
T ss_pred CCCCCCCHHHHHHHHCCCCCCCCCCCCC-CCEEEEECCCCCCEEEECCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHHC
T ss_conf 8765640234566633467820242989-998999248886769844777877877567889998323189999999838
Q ss_pred CHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf 255157778987499911587652616781112488775143579999999983651134
Q gi|254780306|r 710 PREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEK 769 (837)
Q Consensus 710 Pr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~ 769 (837)
||+||.||++|++|++++|||||||+|+++|+||++++|+|+||||+||+||++||.+.+
T Consensus 713 Pr~lG~~p~~g~~i~~~~GryGpYvk~~~~~~sl~~~~~~~~i~l~~A~~li~~~k~~~~ 772 (776)
T PRK06599 713 PLKIGIHKDSGEEIMIGYGKFGPYIKYMGKFISIPKKYDFLNLSLDDAMKLIEDNKAKLE 772 (776)
T ss_pred CHHHCCCCCCCCEEEECCCCCCCEEEECCEEEECCCCCCCCCCCHHHHHHHHHHHHHHCH
T ss_conf 373199978997799877788720888998876798888743589999999998876332
No 6
>TIGR01051 topA_bact DNA topoisomerase I; InterPro: IPR005733 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry describes topoisomerase I from bacteria, which is more closely related to archaeal than to eukaryotic topoisomerase I . Topoisomerase I is the major enzyme for relaxing negatively supercoiled DNA, and its presence is balanced by reverse gyrase, which can introduce negative supercoils. Prokaryotic topoisomerase I folds in an unusual way to give 4 distinct domains, enclosing a hole large enough to accommodate a double-stranded DNA segment. A tyrosine at the active site, which lies at the interface of 2 domains, is involved in transient breakage of a DNA strand, and the formation of a covalent protein-DNA intermediate through a 5-phosphotyrosine linkage. The structure reveals a plausible mechanism by which this and related enzymes could catalyse the passage of one DNA strand through a transient break in another strand . Topoisomerase I require Mg2+ as a cofactor for catalysis to take place. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003917 DNA topoisomerase type I activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=1744.40 Aligned_cols=632 Identities=46% Similarity=0.764 Sum_probs=585.3
Q ss_pred EEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCC------------------CCCCCCCCC--CCEEEEECCCHHHHH
Q ss_conf 899779047877887508998999942511007865------------------578676667--440688776548999
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAK------------------KGSVLPEKE--FEMIWNIDPSSQKHL 62 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~------------------~~~v~~~~~--f~p~y~v~~~~kk~~ 62 (837)
|||||||||||||++|||++|.|.||+|||||||.+ .+|||+|++ |+|.|+|+++|++.|
T Consensus 1 LVIVESPAKAKTI~~YLG~~Y~V~aS~GHiRDLP~sa~~~~~~yk~~~rGa~wa~lGvd~e~~~qF~P~Y~~~~~K~~~V 80 (688)
T TIGR01051 1 LVIVESPAKAKTIKKYLGKEYEVEASMGHIRDLPKSASDVPEKYKSQERGALWARLGVDIEKNKQFEPEYVVSKGKKKVV 80 (688)
T ss_pred CEEEECCHHHHHHHHHCCCCCEEEEECCCHHHCCCHHHCCCHHCCCCCCCCEEECCCCCCCCCCCCCCCEEECCCHHHHH
T ss_conf 95872453899998648998689972385221020001044320787343222024543213784165043546144789
Q ss_pred HHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf 99999987099899946997025799999999975512578871699998037989999998622646989999999999
Q gi|254780306|r 63 QNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARR 142 (837)
Q Consensus 63 ~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr 142 (837)
+.|++++++|++||||||+|||||||||||+++|+.+....+.=++||+|||||+.||+.||+|||+||+|||+||+|||
T Consensus 81 ~~L~~lakkA~~~yLAtD~DREGEAIaWHl~~~l~~~~~~~ddf~kR~VFnEIT~~AI~~A~~~PR~ID~~~V~AQ~ARR 160 (688)
T TIGR01051 81 KELKTLAKKADEVYLATDPDREGEAIAWHLAELLKPKLKVKDDFYKRIVFNEITKKAIRAALKNPREIDMNLVNAQQARR 160 (688)
T ss_pred HHHHHHHHHCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCEECCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf 99999987316156404888540258999999807546775643065002476778999998377202435688887765
Q ss_pred HHHHHHHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCC------CCEEEEEEEEECC
Q ss_conf 9898740113789886414676534226899999999999964137654400122331579------9654223310358
Q gi|254780306|r 143 ALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPR------NDKFTAHLTDFNG 216 (837)
Q Consensus 143 ~lD~lvG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~------~~~f~a~l~~~~~ 216 (837)
+|||||||.||||||||+..+||||||||+|||||||||+||+.|||+.||+|.|.+...+ +..|.|+|++.+|
T Consensus 161 iLDRlVGY~lSPlLW~K~~~gLSAGRVQSVAlRLi~~RErEi~~Fvp~~YW~~~~~~~~~~~~~~~~~~~f~A~l~~~~g 240 (688)
T TIGR01051 161 ILDRLVGYKLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEEYWTVDAKLEAKNNQKVACKETFEALLTEVNG 240 (688)
T ss_pred HHCEEEEEEECHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCHHHHCCCCEEEEECC
T ss_conf 62122210575347731236787760565567677754789861688611798999645666311111046321241247
Q ss_pred EEECCCC----------------HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf 3303310----------------113566677764200156301000023322246852103799999887608889999
Q gi|254780306|r 217 QRIEKKS----------------ISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHT 280 (837)
Q Consensus 217 ~~~~~~~----------------~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~T 280 (837)
+++.... +.|+.+|.++.+.|++..+.|.++++|+.+++|++||+||||||+|++||||||++|
T Consensus 241 ~kl~~~~~~D~~~g~l~~G~~v~~L~E~~A~~~~~~L~~~~~~V~~~e~K~~~~~P~~PF~TSTLQQeA~~KLGFSa~kT 320 (688)
T TIGR01051 241 KKLKAGSDFDPLTGELRPGKEVVVLNEAEATALKEQLKGEEYVVEEIEKKPKKSRPPPPFTTSTLQQEASRKLGFSAKKT 320 (688)
T ss_pred CCCCCCCCCCCCCCCCCCCCEEEEECHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHCCCCCCHH
T ss_conf 01132124780101268997168818699999998507864799886304330176348335418998877537951026
Q ss_pred HHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCC--CCCCCCCCCCCCCCCCEEEE-E
Q ss_conf 99998762135567212245531475544443056899997655200112376311--11255666887776524773-0
Q gi|254780306|r 281 MRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKP--RIYSSKSKNAQEAHEAIRPN-D 357 (837)
Q Consensus 281 m~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~--r~y~~k~k~aQeAHeAIrPT-~ 357 (837)
|+|||+||||+.++.++.||||||||||++||++|++++|++|..+||++|||.+| |+|++|.||||||||||||| +
T Consensus 321 M~iAQ~LYEGv~~~~~~~G~ITYMRTDS~~lS~~A~~eaR~~I~~~yG~~YL~~~~kLk~y~~k~KnaQeAHEAIRPtG~ 400 (688)
T TIGR01051 321 MMIAQRLYEGVSLGEGTVGLITYMRTDSTRLSNEAVNEARNLIDKNYGKEYLGPKPKLKRYKSKEKNAQEAHEAIRPTGS 400 (688)
T ss_pred HHHHHHHHCCEECCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCHHCCCCCCCCCCHHHCCCCCCCHHHCCCCCCC
T ss_conf 55542331254438955899832863305789999999998888621120378874223102216875001104476431
Q ss_pred CCCCCCHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCC
Q ss_conf 23464000001999---999999999999999852221100100136774079639999987488058856763267776
Q gi|254780306|r 358 FDFLPSKMKQFLDS---DQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQ 434 (837)
Q Consensus 358 ~~~~p~~~~~~L~~---de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~ 434 (837)
+..+|++++..|+. ||++||+|||+|||||||.||+++.++|.|.+..+...+.|+|+|+.+.|+||++||.+..|+
T Consensus 401 ~~~tP~~lk~~L~~PniD~~rLY~LIW~RfVASQM~dA~~~~~~v~l~~~~g~~~~~F~A~g~~~~FdGf~kvy~e~~dd 480 (688)
T TIGR01051 401 VFRTPEELKAELKRPNIDELRLYELIWKRFVASQMADARYDSLSVRLTAEKGSVEVVFKASGRKLLFDGFYKVYVEGSDD 480 (688)
T ss_pred EEECHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCCEEEEEEEECCEEECCHHHHHHHCCCCC
T ss_conf 10174888522377566788888999999887448775326899999861374015897402356455236664127887
Q ss_pred CCC--CHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEE
Q ss_conf 321--001014886456882110011011123464310178998743321025665515789999973220221477122
Q gi|254780306|r 435 EKN--SEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKIL 512 (837)
Q Consensus 435 ~~~--~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~ 512 (837)
+.+ ++.+..||+|++||.+.+.++.+.+|+|+||||||||||||.||++||||||||||||++|||||||.+++++|+
T Consensus 481 ~~~alee~~~~LP~Lk~Gd~~~~~~~~~~~H~T~PPaRYTEASLVK~LE~~GIGRPSTYAsiis~iqdRgYv~~~~k~l~ 560 (688)
T TIGR01051 481 DDEALEEKDRILPPLKEGDAVKLVEVEPNQHFTQPPARYTEASLVKELEELGIGRPSTYASIISTIQDRGYVKLENKRLV 560 (688)
T ss_pred HHHHHCCCCCCCCCCCCCCEEEEEECCCCCCEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCEEEEECCCCC
T ss_conf 16752224577878888862002752314510182798652479999985778899725558867506520330244002
Q ss_pred ECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 20114200002233665568988999999999998626013478999986767665576677556667765567664102
Q gi|254780306|r 513 PQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVI 592 (837)
Q Consensus 513 pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~ 592 (837)
||++|++|+++|++||+++||++|||.||++||+||.|+..|+.||++||.+|...|+........... ....+...
T Consensus 561 p~~~g~~V~~~Le~hF~~~Vd~~FTA~ME~~LDeiA~gk~~w~~~L~~Fy~~F~~~v~~~~~~~~a~~~---~~~~~~~~ 637 (688)
T TIGR01051 561 PTELGFAVTDLLEKHFGELVDYDFTAKMEKELDEIAEGKAEWKPVLKNFYTGFSSKVEKVVEQKIALKD---LVERKMRE 637 (688)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHH---HHHHCCCC
T ss_conf 027789999998864264335502376434467885051567999961068603454224543102224---56300013
Q ss_pred CCCCCCCCCCEECCCCCCCCEEEEEECCCC--CCCCCCCCC---CCCCCCCC
Q ss_conf 455556766114334677731368715776--111234343---23332100
Q gi|254780306|r 593 FPPKENNEDSRTCPECHTHSLSLKLSSKYG--AFVGCTNYP---ECKYTRQL 639 (837)
Q Consensus 593 ~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G--~FigCSnyP---eCk~t~~l 639 (837)
........+...||+||. .+.+| .|||| +|++||||| +|+++.++
T Consensus 638 ~~~~~~~~~~~~C~~Cg~-~~~~k-~Gk~Gne~fl~Cs~~P~~~~C~~~~~~ 687 (688)
T TIGR01051 638 IDDKEKEKTSKDCPLCGS-PMVVK-LGKYGNEPFLACSNFPEKEKCKLTKSI 687 (688)
T ss_pred CCCCCCEECCCCCCCCCC-EEEEE-ECCCCCHHHHCCCCCCCCCCCCCCCCC
T ss_conf 311220001443534687-13686-303577254317831570206877788
No 7
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=100.00 E-value=0 Score=1608.66 Aligned_cols=701 Identities=43% Similarity=0.713 Sum_probs=622.6
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+|||||||||||||++|||++|+|+||+|||||||.+.+|||++++|.|.|+++++++++|+.|++++++||.|||||||
T Consensus 4 ~LVIVESPaKAktI~k~LG~~y~V~as~GHirdLp~~~~gvd~~~~f~p~y~~~~~k~k~i~~Lkklak~ad~V~lATDp 83 (864)
T PRK06319 4 SLIIVESPAKIKTLQKLLGEGFIFASSLGHIVDLPAKEFGIDIENDFEPDYQILPDKQEVIRKICKLAKKCDVVYLSPDP 83 (864)
T ss_pred CEEEECCHHHHHHHHHHCCCCCEEEECCCCHHCCCCCCCCCCCCCCCCCCEEECCCHHHHHHHHHHHHHCCCEEEECCCC
T ss_conf 38998480889999997398979995157031089855684757798641167877689999999998469979989889
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC
Q ss_conf 70257999999999755125788716999980379899999986226469899999999999898740113789886414
Q gi|254780306|r 82 DREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP 161 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~ 161 (837)
|||||+|||||+++|. .+++++|+||||||++||++||+|||++|++||+||+|||+||||||||+||+||+++.
T Consensus 84 DREGEaIawhi~~~l~-----~~~~vkRi~F~EITk~AI~~Al~npr~id~~Lv~Aq~aRr~lDrLVG~~lSplL~~k~~ 158 (864)
T PRK06319 84 DREGEAIAWHIANQLP-----KNTKIQRVSFNAITKGAVTEALKHPREIDMALVNAQQARRLLDRIVGYKISPILSRKLQ 158 (864)
T ss_pred CCCHHHHHHHHHHHCC-----CCCCCEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 7152799999999738-----99982589993679999999996852027888999999999997851535499999856
Q ss_pred --CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCC-CCEEEEEEEEECCEEECC-----------CCHHHH
Q ss_conf --676534226899999999999964137654400122331579-965422331035833033-----------101135
Q gi|254780306|r 162 --GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPR-NDKFTAHLTDFNGQRIEK-----------KSISNK 227 (837)
Q Consensus 162 --~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~-~~~f~a~l~~~~~~~~~~-----------~~~~~~ 227 (837)
++|||||||||||+||||||+||++|+|++||+|.+.|.... +..|.|.|...+|+++++ ..+.++
T Consensus 159 ~~~gLSAGRVQSPaL~LIVeRE~EI~~FvP~~Yw~I~a~~~~~~~~~~F~a~l~~~~gkk~~~~~~~~~~~~e~~~i~~~ 238 (864)
T PRK06319 159 RRSGISAGRVQSVALKLVVDREKAIEAFVPVEYWNIRVLLQDPKTQKTFWAHLYSVNGKKWEKEIPEGKTEDEVLLINSK 238 (864)
T ss_pred CCCCCCCCEECCHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCEEEEEEECCCCEECCCCCCCCCCCHHCCCCCH
T ss_conf 67886744302288899999999998258864389999984177774068888501770310024433442100045889
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCH-HHHHHHHCCC
Q ss_conf 666777642001563010000233222468521037999998876088899999999876213556721-2245531475
Q gi|254780306|r 228 KEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGE-IVGLITYMRT 306 (837)
Q Consensus 228 ~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~-~~GlITYpRT 306 (837)
++|+.+++.+++..++|.+|+.|+.+++||+||+||||||+||++|||||++||+|||+||||++++++ +.||||||||
T Consensus 239 ~~a~~i~~~l~~~~~~V~~ve~K~~k~~Pp~PFtTSTLQqeAs~klGfSakkTM~iAQ~LYEgi~l~~~g~~GlITYpRT 318 (864)
T PRK06319 239 EKADHYVELLESASYTVTRVEAKEKRRFAYPPFITSTLQQEASRHFRFSSSRTMNIAQTLYEGVDLDSEGATGLITYMRT 318 (864)
T ss_pred HHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEEECCC
T ss_conf 99999999853798499998742330489899566999999987559899999999999867655577676114752257
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 54444305689999765520011237631111255666887776524773023464000001999999999999999999
Q gi|254780306|r 307 DGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVA 386 (837)
Q Consensus 307 DS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~la 386 (837)
||++||++++..++++|.+.||++|++..+|.|+++ +++||||||||||++..+|+.+...|+.||++||+|||+||||
T Consensus 319 DS~~ls~ea~~~~r~~I~~~~g~~yl~~~~r~~~~k-k~aQdAHEAIRPT~~~~~pe~~~~~Ls~de~kLY~LI~~RflA 397 (864)
T PRK06319 319 DSVRIDPEALKQVREYIQQTFGKEYLPSSPNVYATK-KMAQDAHEAIRPTDINLTPEKLRNKLTDDQFKLYSLIWKRFVA 397 (864)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_conf 874359999999999999876576322256746776-6766788883556755677676410799999999999999999
Q ss_pred HHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCC
Q ss_conf 85222110010013677407963999998748805885676326777632100101488645688211001101112346
Q gi|254780306|r 387 SQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTE 466 (837)
Q Consensus 387 sqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~Tk 466 (837)
|||+||+|++++|.|.+.. .+.|+|+|++++|+||++||.+..+++..++++..||.|++|+.+.+.+++.+||+|+
T Consensus 398 Sqm~~A~~~~~~v~i~~~~---~~~F~asG~~v~f~Gw~~vy~~~~~de~~~~~~~~LP~L~~Gd~l~~~~i~~~q~~Tk 474 (864)
T PRK06319 398 SQMIPAIYDTLAIQITTNK---GIDLRATGSLLKFKGFLAVYEEKRDDEGDEEENIPLPKLHEQDVLIKEEVSAEQAFTK 474 (864)
T ss_pred HHCCHHEEEEEEEEEECCC---CEEEEEEEEEEEECCEEEEECCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECEEECC
T ss_conf 7486223899999997289---7699997789986760477624357522221135688655585533245441300569
Q ss_pred CCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 43101789987433210256655157899999732202214771222011420000223366556898899999999999
Q gi|254780306|r 467 PPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDE 546 (837)
Q Consensus 467 PP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~ 546 (837)
||+||||||||++||+.|||||||||+||+||++|+||.+++++|+||++|++|++||++||++|+|++|||+||++||+
T Consensus 475 PP~RYTEAsLIk~ME~~GIGRPSTyA~II~tL~~R~YV~~e~k~l~PT~lG~~V~~~L~~~f~~ivd~~fTA~mE~~LD~ 554 (864)
T PRK06319 475 PLPRFTEASLVKELEKSGIGRPSTYATIMNKIQSREYTLKENQRLRPTELGKIISQFLETNFPRIMDIGFTALMEDELEL 554 (864)
T ss_pred CCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCEEEECCEECCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 98998889999999717999501069999989867988101988680078999999999864643485317899988999
Q ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCC
Q ss_conf 86260134789999867676655766775566677655676641024555567661143346777313687157761112
Q gi|254780306|r 547 ISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVG 626 (837)
Q Consensus 547 Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~Fig 626 (837)
|++|+.+|.+||++||..|...++.+.+... .. ...+...||+|+.|.+. ++.|++|.|||
T Consensus 555 Ia~G~~~w~~vL~~F~~~f~~~l~~a~~~~~-----------~~-------~~~~~~~Cp~Cg~~~li-k~~gk~g~F~g 615 (864)
T PRK06319 555 IADNKKPWKLLLQEFWEQFLPVVVTAEKEAF-----------IP-------RIVTEIDCPKCHKGKLV-KIWAKNRYFFG 615 (864)
T ss_pred HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHC-----------CC-------CCCCCCCCCCCCCCCEE-EECCCCCCEEE
T ss_conf 9738741999999999999999999986431-----------35-------55556778757887568-87146771210
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCC-CCCCCCCHHHCCHHHHH
Q ss_conf 343432333210012210000123442-0146899996699982697422773488777613-37899884254899999
Q gi|254780306|r 627 CTNYPECKYTRQLTSNPQDIPEMKESV-LLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRC-SLPKTWKSDSVDYDKAM 704 (837)
Q Consensus 627 CSnyPeCk~t~~l~~~~~~~~~~~~~~-~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~-si~k~~~~~~itle~Al 704 (837)
||+||+|+|+.+......+.++...+. .-+.||.||.+|++|.||||.|+-+..-++.|.. +|+|.... .
T Consensus 616 Cs~yP~C~~~~~~~~~~~~~~~~~~~~~~~~~Cp~Cg~~mv~k~gr~G~F~~Cs~YP~Ck~t~~l~k~~~~-~------- 687 (864)
T PRK06319 616 CSEYPECDYKTSEEELTFNKEDYAEDTPWDSPCPLCGGEMKVRHGRFGTFLGCENYPECRGIINIHKKGEE-G------- 687 (864)
T ss_pred CCCCCCCCCCCCHHHCCCCCHHCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC-C-------
T ss_conf 58997656667601104562001457878998767897011313787754316998577897466666777-8-------
Q ss_pred HHHHCCHHH-CCCCC--CCCEEEEEECCCCC-EEEECCEECCC
Q ss_conf 986152551-57778--98749991158765-26167811124
Q gi|254780306|r 705 SLLSLPREI-GIHPE--TQKNIIAGTGKYGY-YLNHDGAYTKL 743 (837)
Q Consensus 705 ~LLsLPr~l-G~~pe--~g~~I~~~~GryGp-Yi~~~~~~~sl 743 (837)
.++.+ ..||. |+..|+.+.+|||- |..|.+ |..+
T Consensus 688 ----~~~~~~v~cp~~~c~g~~v~r~sr~g~~Fygc~~-yP~c 725 (864)
T PRK06319 688 ----IEQEETIPCPAIGCTGHIVKRRSRFNKIFYSCSE-YPEC 725 (864)
T ss_pred ----CCCCCCCCCCCCCCCCEEEEEECCCCCEEECCCC-CCCC
T ss_conf ----7656777689989898688863478984436788-9998
No 8
>PRK09137 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1553.64 Aligned_cols=703 Identities=49% Similarity=0.839 Sum_probs=627.9
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+|||||||||||+|++|||++|+|+||+|||+|||.+.+++|++++|.|.|++++++++||+.|++++++||+|||||||
T Consensus 3 ~LvIvEsPskAk~I~~~LG~~y~V~as~GHi~dL~~~~~~~d~~~~f~p~y~~~~~~kk~i~~lk~l~k~ad~IilAtDp 82 (761)
T PRK09137 3 NLVIVESPAKAKTIEKYLGNDFKVLASYGHVRDLPSKQGSVDPEDDFKMKYQVIERSKKHIDAIKKAAKDADNLYLATDP 82 (761)
T ss_pred EEEEECCHHHHHHHHHHHCCCCEEEEECCCHHHCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECCCC
T ss_conf 49998587999999997194989999835343177645785725598444688964789999999998389989989888
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC
Q ss_conf 70257999999999755125788716999980379899999986226469899999999999898740113789886414
Q gi|254780306|r 82 DREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP 161 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~ 161 (837)
|||||+|||||+++|+......++||+|+||||||++||++||+|||++|++||+||+|||++|||||||+||+||++++
T Consensus 83 DREGE~Ia~~i~~~l~~~~~~~~k~v~Ri~f~eiT~~aI~~A~~np~~~~~~Lv~A~~aR~~lD~lvG~nlS~~l~~~~~ 162 (761)
T PRK09137 83 DREGEAISWHLLEVLKSKRLLKDKKVQRVVFHEITKSAVQDAIANPRDISMDLVDAQQARRALDYLVGFNLSPLLWKKIR 162 (761)
T ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHC
T ss_conf 80500999999999672335799845999980289999999986756256878999999999999976700498886426
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCC-
Q ss_conf 6765342268999999999999641376544001223315799654223310358330331011356667776420015-
Q gi|254780306|r 162 GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA- 240 (837)
Q Consensus 162 ~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~- 240 (837)
.+|||||||||||+|||+||+||++|+|++||+|.+.+.. ++..|.++|...++.+++++++.++++|+++.+.+.+.
T Consensus 163 ~~lSaGRVQTPtL~lIveRE~EI~~F~p~~Yw~i~a~~~~-~~~~f~~~l~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~ 241 (761)
T PRK09137 163 RGLSAGRVQSPALRLICEREIEIEAFEAQEYWTIHADCHK-QKQKFTARLAEFNGEKLEQFDIPNEAQAHELKKALEKDA 241 (761)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEC-CCCEEEEEEEECCCCCHHHCCCCCHHHHHHHHHHHHCCC
T ss_conf 6776574223889999999999971788405899999704-895489999850771621068789999999999984354
Q ss_pred --CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCC-HHHHHHHHCCCCCCCCCHHHHH
Q ss_conf --6301000023322246852103799999887608889999999987621355672-1224553147554444305689
Q gi|254780306|r 241 --TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNG-EIVGLITYMRTDGVHMSPDALE 317 (837)
Q Consensus 241 --~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~-~~~GlITYpRTDS~~ls~ea~~ 317 (837)
.++|.+|++++.+++||+||+||+|||+||++|||||++||+|||+|||+|++++ ++.||||||||||++||++++.
T Consensus 242 ~~~~~V~~v~~k~~k~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~~GlITYpRTDS~~ls~~~~~ 321 (761)
T PRK09137 242 NGFLTVDKITKKKRKRNPAPPFITSTLQQEAARKLGFTAKKTMSTAQKLYEGIDLGNEGAVGLITYMRTDSVNLANEALQ 321 (761)
T ss_pred CCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCCCCCHHHHH
T ss_conf 78639999885144058999987799999999873999999999999986354556666411588505676656899999
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCC
Q ss_conf 99976552001123763111125566688777652477302346400000199999999999999999985222110010
Q gi|254780306|r 318 AVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERT 397 (837)
Q Consensus 318 ~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~ 397 (837)
.++++|..+||.+|++..+|.|+++.+|+|+||||||||++..+|+.+...|++||++||+|||+|||||||+||+|++|
T Consensus 322 ~~~~~i~~~~~~~~~~~~~~~~~~k~~~~q~AHeAI~PT~~~~~p~~~~~~Ls~de~klY~LI~~RflAs~m~~a~~~~t 401 (761)
T PRK09137 322 EIRNYIEAKYGKEYLPAKPRVYKTKSKNAQEAHEAIRPTSANRTPESVKKFLTSDQFKLYSLIWKRTVACQMAEATLDQT 401 (761)
T ss_pred HHHHHHHHHHCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf 99999987402222210675254567898877089288687659888762078778999999999999973850158999
Q ss_pred EEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCC-CCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHH
Q ss_conf 01367740796399999874880588567632677763-21001014886456882110011011123464310178998
Q gi|254780306|r 398 TVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQE-KNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSL 476 (837)
Q Consensus 398 ~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~-~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasL 476 (837)
+|.|.+..+ +.|+++|++++|+||++||.+..+++ .+.+++..||.|++|+.+.+.++.+++|+|+||+|||||||
T Consensus 402 ~v~i~~~~~---~~F~a~g~~~~~~Gw~~vy~~~~~~~~~~~~~~~~lP~l~~g~~~~~~~~~~~~~~TkPP~ryTEasL 478 (761)
T PRK09137 402 SVDIIAGNG---HRFRATGTVIVFAGFLKVYEEGKDDDKEEEEDEKTLPPLEEGEKLKLNDLITEQHFTEPPPRYTEASL 478 (761)
T ss_pred EEEEEECCC---EEEEEEEEEEEECCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHH
T ss_conf 999982797---19999879999867798740225655333322352887789998777688851457589998899999
Q ss_pred HHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf 74332102566551578999997322022147712220114200002233665568988999999999998626013478
Q gi|254780306|r 477 IKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKE 556 (837)
Q Consensus 477 ik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~ 556 (837)
|++||+.|||||||||+||++|++|+||++++++|+||++|+.|+++|.++|++|++++|||+||++||+|++|+.+|.+
T Consensus 479 Ik~ME~~GIGtpsT~A~II~~L~~R~Yv~~~~k~l~pT~lG~~v~~~L~~~f~~iv~~~~Ta~mE~~Ld~Ia~G~~~~~~ 558 (761)
T PRK09137 479 VKALEEYGIGRPSTYASIISTLQQREYVRLDKKRFIPTDVGRIVNKFLTEHFTKYVDYNFTAGLEDELDEIARGEKDWIP 558 (761)
T ss_pred HHHHHHCCCCCCCCHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHHHHHCHHHCCHHHHHHHHHHHHHHHCCCCCHHH
T ss_conf 99997379996236899999897389699659988564679999999988552315966899999988999769960899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCC
Q ss_conf 99998676766557667755666776556766410245555676611433467773136871577611123434323332
Q gi|254780306|r 557 VLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYT 636 (837)
Q Consensus 557 ~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t 636 (837)
||++||..|...++.+.+.... ... ....+...||+|+.. |.++ .|++|.||||||||+|+|+
T Consensus 559 vl~~f~~~f~~~~~~~~~~~~~------------~~~---~~~~~~~~Cp~Cg~~-l~~r-~g~~G~F~~Cs~yP~Ck~t 621 (761)
T PRK09137 559 VLEEFWHPFIELIKEKEEDVSR------------KDV---TTEELDEKCPECGKP-LSIK-LGKRGRFIACTGYPECKYT 621 (761)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------------CCC---CCCCCCCCCCCCCCE-EEEE-ECCCCCEEECCCCCCCCCC
T ss_conf 9999999999999999988754------------236---544457878889982-3899-5587765766798766675
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHH-CC
Q ss_conf 10012210000123442014689999669998269742277348877761337899884254899999986152551-57
Q gi|254780306|r 637 RQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREI-GI 715 (837)
Q Consensus 637 ~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~l-G~ 715 (837)
.++..+....... .+..=..||.||.++.+|.||||.|+.+...++.|... .+. =|... +.
T Consensus 622 ~~~~~~~~~~~~~-~~~~~~~Cp~Cg~~mv~k~gr~G~f~~Cs~yP~Ck~~~--------~~~---------k~~~~~~~ 683 (761)
T PRK09137 622 RNLDEDEEEAAEE-EVVEGRKCPKCGSPLHIKQGRYGKFIGCSNYPECKHME--------PLE---------KPKDTGVT 683 (761)
T ss_pred CCCCCCCCCCCCC-CCCCCCCCCCCCCCEEEEECCCCCEEECCCCCCCCCCC--------CCC---------CCCCCCCC
T ss_conf 7677655555566-65578869889971278614676345337998766777--------666---------76667761
Q ss_pred CCCCCC-EEEEEECCCCC-EEEECCEECCCC
Q ss_conf 778987-49991158765-261678111248
Q gi|254780306|r 716 HPETQK-NIIAGTGKYGY-YLNHDGAYTKLE 744 (837)
Q Consensus 716 ~pe~g~-~I~~~~GryGp-Yi~~~~~~~sl~ 744 (837)
||+||. +|+.+.+|+|. |+.|.+ |..++
T Consensus 684 CP~C~~g~~~~r~~k~Gk~f~gC~~-yp~C~ 713 (761)
T PRK09137 684 CPKCKKGELVEKKSRYGKIFYSCAR-YPKCK 713 (761)
T ss_pred CCCCCCCCEEEEECCCCCCCCCCCC-CCCCC
T ss_conf 9899998777751799994027898-89998
No 9
>PRK09001 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1551.42 Aligned_cols=602 Identities=43% Similarity=0.737 Sum_probs=553.4
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCC----------------------------------CCCCCCCCC
Q ss_conf 1899779047877887508998999942511007865----------------------------------578676667
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAK----------------------------------KGSVLPEKE 47 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~----------------------------------~~~v~~~~~ 47 (837)
.|||||||||||||++|||++|+|+||+|||||||.+ .+||||+++
T Consensus 4 ~LVIVESPaKAKtI~kyLG~~y~V~aS~GHirdLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~lGvDp~~~ 83 (869)
T PRK09001 4 SLVIVESPAKAKTINKYLGNDYVVKSSVGHIRDLPTSGSASKKSAKSTSTKTAKMEKAKKKKKKERQALVNRMGVDPYHG 83 (869)
T ss_pred CEEEECCHHHHHHHHHHCCCCCEEEECCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCC
T ss_conf 29998883999999987198978997167025677655555333221112234444100232101111132237374558
Q ss_pred CCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCC
Q ss_conf 44068877654899999999987099899946997025799999999975512578871699998037989999998622
Q gi|254780306|r 48 FEMIWNIDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 48 f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~ 127 (837)
|.|.|+++++++++|++|++++++||.||||||||||||+|||||.++|+. +..+++|+||||||++||++||+||
T Consensus 84 ~~~~Y~i~~~K~kvv~~Lkklak~ad~V~lATDpDREGEaIAwhl~e~l~~----~~~~~kRv~F~EITk~AI~~A~~np 159 (869)
T PRK09001 84 WKAHYEILPGKEKVVSELKKLAEKADHIYLATDLDREGEAIAWHLREVIGG----DDSRYSRVVFNEITKNAIQQAFEKP 159 (869)
T ss_pred CCEEEEECCCHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCC----CCCCEEEEEEECCCHHHHHHHHHCC
T ss_conf 633468777679999999999856998998987985604999999998658----9997058899348999999998686
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEE
Q ss_conf 64698999999999998987401137898864146765342268999999999999641376544001223315799654
Q gi|254780306|r 128 RDINLDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKF 207 (837)
Q Consensus 128 r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f 207 (837)
|++|+|||+||+|||+|||||||++||+||++++++|||||||||||+||||||+||++|+|++||+|.+.|...++..|
T Consensus 160 ~~id~nlv~Aq~ARrilDrlVG~~lSplLw~k~~~gLSAGRVQSPaL~LIVeRE~EI~~FvPe~YW~I~a~~~~~~~~~~ 239 (869)
T PRK09001 160 GELNIDRVNAQQARRFLDRVVGYMVSPLLWKKIARGLSAGRVQSVAVRLVVEREREIKAFVPEEYWEVHADLTTPKGEAL 239 (869)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCCCCEE
T ss_conf 53454568999999999999878665999986268987630477899999999999972588542589999973788579
Q ss_pred EEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf 22331035833033101135666777642001563010000233222468521037999998876088899999999876
Q gi|254780306|r 208 TAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKL 287 (837)
Q Consensus 208 ~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~L 287 (837)
.+.+...+++. +++.++++|+++++.+++..++|.+++.|+.+++||+||+||||||+||++|||||++||++||+|
T Consensus 240 ~~~~~~~~gk~---f~~~~~~ea~~~~~~lk~~~~~V~~ie~K~~k~~Pp~PF~TStLQqeAs~kLgfSakkTM~iAQ~L 316 (869)
T PRK09001 240 RLEVTHQNGKP---FKPVNEAQTQAAVSLLEKASYSVLEREDKPTSSKPSAPFITSTLQQAASTRLGFGVKKTMMMAQRL 316 (869)
T ss_pred EEEEEECCCCC---CCCCCHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf 99987117870---785789999999998527976999875002135899997789999999987299999999999999
Q ss_pred HCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCC
Q ss_conf 21355672122455314755444430568999976552001123763111125566688777652477302346400000
Q gi|254780306|r 288 YEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQ 367 (837)
Q Consensus 288 YE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~ 367 (837)
||+ ||||||||||++||+++++.+|++|.+.||++|+|..++.|++| +||||||||||||++..+|+.+.+
T Consensus 317 YE~--------GlITYpRTDSt~LS~da~~~~r~~I~~~~G~~ylp~~~~~~~~k-k~aQeAHEAIrPT~v~~~~~~l~~ 387 (869)
T PRK09001 317 YEA--------GYITYMRTDSTNLSQDAVNMVRGYIGDNFGKKYLPEKPNQYSSK-EGAQEAHEAIRPSDVNVKAESLKG 387 (869)
T ss_pred HHC--------CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCHHHHCC
T ss_conf 847--------75667436765369999999999998764576354456546777-676578777224877768133124
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCC
Q ss_conf 19999999999999999998522211001001367740796399999874880588567632677763210010148864
Q gi|254780306|r 368 FLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYI 447 (837)
Q Consensus 368 ~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l 447 (837)
|+.||++||+|||+|||||||+||+|+.|+|++.+.+ +.|+|+|++++|+||++||..... .+++..||.|
T Consensus 388 -l~~D~~kLY~LIwrRflAsqM~~A~~~~t~v~i~~~~----~~Fka~G~~v~f~Gw~~v~~~~~~----~~ed~~LP~l 458 (869)
T PRK09001 388 -MERDAQRLYELIWRQFVACQMTPAQYDSTTLTVKAGD----FELKAKGRILRFDGWTKVMPALRK----GDEDRTLPAV 458 (869)
T ss_pred -CCHHHHHHHHHHHHHHHHHHCCHHHCCEEEEEEECCC----EEEEEEEEEEEECCEEEEECCCCC----CCCCCCCCCC
T ss_conf -7888999999999999998474733307999998188----799997789997884154156657----5312337665
Q ss_pred CCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCC
Q ss_conf 56882110011011123464310178998743321025665515789999973220221477122201142000022336
Q gi|254780306|r 448 SANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENF 527 (837)
Q Consensus 448 ~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~ 527 (837)
++|+.+.+.++.++||+|+||+||||||||++||++|||||||||+||+||++|+||..++++|+||++|+.|+++|.+|
T Consensus 459 ~~Ge~l~~~~i~~~q~~TkPP~RyTEAsLIk~MEk~GIGRPSTYA~II~tI~~RgYV~~e~k~l~pT~lG~~V~~~L~~~ 538 (869)
T PRK09001 459 KVGDALTLVKLDPSQHFTKPPARFSEASLVKELEKRGIGRPSTYASIISTIQDRGYVRVENRRFYAEKMGEIVTDRLEES 538 (869)
T ss_pred CCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEEECCEECCHHHHHHHHHHHHHH
T ss_conf 78998776355532115689999898999999986699974158999988863896994298976015299999999986
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCC
Q ss_conf 65568988999999999998626013478999986767665576677556667765567664102455556766114334
Q gi|254780306|r 528 FSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPE 607 (837)
Q Consensus 528 f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~ 607 (837)
|++||||+|||+||+.||+||+|+.+|.++|++||.+|...++.+.+..... .........+...||+
T Consensus 539 F~~i~d~~FTA~mE~~LD~Ia~G~~~w~~vl~~Fy~~f~~~l~~a~~~~~~~------------~~~~~~~~~t~~~C~~ 606 (869)
T PRK09001 539 FSELMNYDFTARMEDTLDQVANGEAEWKAVLDEFFGDFTQQLEKAEKDPEEG------------GMRPNQMVLTDIDCPT 606 (869)
T ss_pred CCHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC------------CCCCCCCCCCCCCCCC
T ss_conf 5011391557999987789875985299999999999999999997204431------------6633667457863622
Q ss_pred CCCCCEEEEEECCCCCCCCCCCCCC-----CCCCCCCCCC
Q ss_conf 6777313687157761112343432-----3332100122
Q gi|254780306|r 608 CHTHSLSLKLSSKYGAFVGCTNYPE-----CKYTRQLTSN 642 (837)
Q Consensus 608 C~~g~L~~k~~gK~G~FigCSnyPe-----Ck~t~~l~~~ 642 (837)
||.. +.++ .|++|.|+|||+||- |+.|..|...
T Consensus 607 Cg~~-m~ir-~~~~G~Fl~Csgy~~~~k~~ck~t~nl~~~ 644 (869)
T PRK09001 607 CGRK-MGIR-TASTGVFLGCSGYALPPKERCKTTINLVPE 644 (869)
T ss_pred CCCH-HEEE-ECCCCEEEECCCCCCCCHHHHCCCCCCCCH
T ss_conf 4752-3023-268630886269999832320132357855
No 10
>PRK05582 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1509.46 Aligned_cols=680 Identities=45% Similarity=0.746 Sum_probs=608.4
Q ss_pred CC-EEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECC
Q ss_conf 91-89977904787788750899899994251100786557867666744068877654899999999987099899946
Q gi|254780306|r 1 MN-VIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILAT 79 (837)
Q Consensus 1 M~-LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAt 79 (837)
|+ |||||||||||+|++|||++|.|+||+|||+|||.+.+|++++++|.|.|++.+++++|++.|++++++||+|||||
T Consensus 1 Mk~LvIvEkPskAk~Ia~~LG~~y~V~~s~GHl~dL~~~~~g~~~~~~~~P~y~~~~~~~k~i~~lk~l~k~ad~iiiAt 80 (692)
T PRK05582 1 MKNLIIVESPAKAKTIKKYLGKNYEVIASKGHIRDLPKSSLGIDIEDNYTPKYIIIKDKKELVKKIKKLAKKADKIYLAT 80 (692)
T ss_pred CCEEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECC
T ss_conf 98399991879999999970969899952550643676436878777887037877667999999999986599899898
Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHH
Q ss_conf 99702579999999997551257887169999803798999999862264698999999999998987401137898864
Q gi|254780306|r 80 DPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQK 159 (837)
Q Consensus 80 D~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk 159 (837)
|||||||+|||||+++|+. .+.+++|+||||||++||++||+|||++|++||+||+|||++|||||||+||+||++
T Consensus 81 DpDREGE~Ia~~i~~~l~~----~~~~~~Ri~f~eiT~~aI~~Al~n~~~~d~~l~~A~~aR~~~D~lvG~nlSr~l~~~ 156 (692)
T PRK05582 81 DPDREGEAISWHVADALKK----DENELPRIVFNEITKNAIKNALKNPRKIDMNLVNAQQARRILDRLVGYKLSPLLWSK 156 (692)
T ss_pred CCCCCHHHHHHHHHHHHCC----CCCCCEEEEECCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8871232999999999678----888733889837999999999967752368889999999999999999888999998
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf 14676534226899999999999964137654400122331579965422331035833033101135666777642001
Q gi|254780306|r 160 LPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKK 239 (837)
Q Consensus 160 ~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 239 (837)
+.++|||||||||||+|||+||+||++|+|++||+|.+.|... ...|.+.+ .+.+..+.++.++++|+.+++.+++
T Consensus 157 ~~~~lS~GRVQTPtL~lIveRe~eI~~F~p~~y~~i~~~~~~~-~~~~~~~~---~~~~~~~~~~~~~~~A~~i~~~l~~ 232 (692)
T PRK05582 157 IQWGLSAGRVQSAALKLIVDREREIRAFVPEEYWTIDVIFKKD-LKAELIKL---KGKKIKKIEINNEEEAQEIINELKK 232 (692)
T ss_pred HCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECC-CCCEEEEE---CCCCCCCCCCCCHHHHHHHHHHHHC
T ss_conf 6267775630228899999999999825676517999998228-86168885---1554533774999999999999607
Q ss_pred CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 56301000023322246852103799999887608889999999987621355672122455314755444430568999
Q gi|254780306|r 240 ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAV 319 (837)
Q Consensus 240 ~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~ 319 (837)
..++|.+|+.++.+++||+||+||+|||+||++|||||++||++||+|||++++.+++.||||||||||++||++++..+
T Consensus 233 ~~~~V~~v~~k~~k~~Pp~pf~tstLQ~~As~~~g~sa~~Tm~iAQ~LYE~~~~~~~~~glITYpRTDS~~ls~~~~~~~ 312 (692)
T PRK05582 233 ESFVVSIIEKKSKKSNPPPPFTTSTLQQDASNKLGFSPKKTMSIAQQLYEGVEIKGGQMGLITYMRTDSLRISKEAQEEA 312 (692)
T ss_pred CCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCHHHHHHH
T ss_conf 98499998764674479899878999999998729888899999999860433467744138885467654699999999
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEE
Q ss_conf 97655200112376311112556668877765247730234640000019999999999999999998522211001001
Q gi|254780306|r 320 RRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTV 399 (837)
Q Consensus 320 r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v 399 (837)
+++|...||++|++..+|.|+++.+++||||||||||++..+|+.+.+.|++||++||+|||+|||||||+||+|++|+|
T Consensus 313 ~~~i~~~~g~~~l~~~~~~~~~~~k~~qdAH~AI~PT~~~~~p~~~~~~Ls~de~klY~LI~~RflAs~m~~a~~~~t~v 392 (692)
T PRK05582 313 REFIEKNYGKEYLPKKPKVYKTKEKNIQDAHEAIRPTNIEITPEIAKNYLKPDEYKLYTLIWNRFLASQMADAIFETQSI 392 (692)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEE
T ss_conf 99998621143223002334456677777899944467766766765218987889999999999998485323778999
Q ss_pred EEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHH
Q ss_conf 36774079639999987488058856763267776321001014886456882110011011123464310178998743
Q gi|254780306|r 400 NIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKK 479 (837)
Q Consensus 400 ~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~ 479 (837)
.+.+.+ +.|+|+|++++|+||++||....+ +++....||.|++|+.+.+.++.+.+|+|+||+||||||||++
T Consensus 393 ~~~~~~----~~F~a~g~~~~~~Gw~~vy~~~~~---~~~~~~~lP~l~~g~~~~~~~~~~~e~~TkPP~ryTEasLik~ 465 (692)
T PRK05582 393 RFINGK----YKFKASGRKILFDGFYKVYGYDDK---DKELSILLPNLKEGDELKLEKIESNQHFTEPPARYSEASLIKK 465 (692)
T ss_pred EEEECC----EEEEEEEEEEEECCCEEEECCCCC---CCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 999899----889984379998881677525554---4411256887778988667687832567689998799999999
Q ss_pred HHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 32102566551578999997322022147712220114200002233665568988999999999998626013478999
Q gi|254780306|r 480 MEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 480 mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
||+.|||||||||+||++|++|+||++++++|+||++|+.|+++|.++|++|++++|||.||+.||+|++|+.+|.+||+
T Consensus 466 ME~~GIGtpATrA~II~~L~~R~Yv~~~~k~l~pT~~G~~v~~~L~~~f~~i~~~~~Ta~~E~~Ld~I~~G~~~~~~~l~ 545 (692)
T PRK05582 466 LESLGIGRPSTYAPTISTLLSRKYVEREKKQLIPTELGFKVIEILEKHFPQIVDSEFTANMEEKLDEIAEGKADWQEVLK 545 (692)
T ss_pred HHHCCCCCCCCHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHHHHHCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf 98479986045899998887467099409888475799999999988553322854899999999999859877999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98676766557667755666776556766410245555676611433467773136871577611123434323332100
Q gi|254780306|r 560 EFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQL 639 (837)
Q Consensus 560 ~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l 639 (837)
+||..|...++.+....... . .....+...||+|+.. |.++ .|++|.||||||||+|+||.++
T Consensus 546 ~f~~~f~~~i~~~~~~~~~~------------~---~~~~~~~~~Cp~Cg~~-l~~r-~~~~G~F~~Cs~yP~Ck~t~~~ 608 (692)
T PRK05582 546 DFYYPFMEKIEEAKKEIAKQ------------K---VEDKVGERKCPKCGRE-LVIK-HGRYGEFIACSNYPKCKYTKPI 608 (692)
T ss_pred HHHHHHHHHHHHHHHHHHHC------------C---CCCCCCCCCCCCCCCC-CEEE-ECCCCCEEECCCCCCCCCCCCC
T ss_conf 99999999999998654422------------3---4578889877567982-0267-2688962657899878897768
Q ss_pred CCCCCCCCCCCCCCCCC-CCCCCCCEEEEEECCCCCEEEECCCCCCC--CCCCCCCCCHHHCCHHHHHHHHHCCHHHCCC
Q ss_conf 12210000123442014-68999966999826974227734887776--1337899884254899999986152551577
Q gi|254780306|r 640 TSNPQDIPEMKESVLLG-NDLETKESVTLRSGRFGLYVQRGDGKDAK--RCSLPKTWKSDSVDYDKAMSLLSLPREIGIH 716 (837)
Q Consensus 640 ~~~~~~~~~~~~~~~LG-~dP~~G~~I~lk~GryGpYvq~Ge~~kpk--r~si~k~~~~~~itle~Al~LLsLPr~lG~~ 716 (837)
....... ....| .||.||.+|+.|.|++|-+. +|...-|+ +.+- ++.+-..|
T Consensus 609 ~~~~~~~-----~~~~~~~CP~C~~~l~~r~~k~gk~F-~gCs~yp~C~~~~~-------------------~~p~~~~C 663 (692)
T PRK05582 609 EEEEKLA-----SEELDVKCPECGGKIVKRKSKKGKKF-YGCSNYPKCNFISN-------------------YEPSNEKC 663 (692)
T ss_pred CCCCCCC-----CCCCCCCCCCCCCEEEEEECCCCCEE-EECCCCCCCCCCCC-------------------CCCCCCCC
T ss_conf 7644444-----45369979999977478854899989-97489999997738-------------------89999969
Q ss_pred CCCCCEEEEEECCCCCEEEEC
Q ss_conf 789874999115876526167
Q gi|254780306|r 717 PETQKNIIAGTGKYGYYLNHD 737 (837)
Q Consensus 717 pe~g~~I~~~~GryGpYi~~~ 737 (837)
|+||.++....||+|.|+.|.
T Consensus 664 p~Cg~~~~~k~~~~~~~~~c~ 684 (692)
T PRK05582 664 PECGSYMVKKESKKGEYLECS 684 (692)
T ss_pred CCCCCHHHEEECCCCCEEECC
T ss_conf 999815704745888878899
No 11
>PRK08413 consensus
Probab=100.00 E-value=0 Score=1511.55 Aligned_cols=718 Identities=41% Similarity=0.655 Sum_probs=634.0
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCC-CCCEEEEECCCHHHHHHHHHHHHHHCCEEEECC
Q ss_conf 9189977904787788750899899994251100786557867666-744068877654899999999987099899946
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEK-EFEMIWNIDPSSQKHLQNIIHAVKSSTILILAT 79 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~-~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAt 79 (837)
.+|||||||||||+|++|||++|.|+||+|||+|||.+.+++++++ .|.|.|+++++++++++.|++++++||+|||||
T Consensus 2 k~LvIvEsPskAk~Ia~~LG~~y~V~as~GHi~dLp~~~~g~~~~~~~~~P~y~~~~~~~k~~k~lk~l~k~ad~vilAt 81 (733)
T PRK08413 2 KNLIIVESPAKAKTIKNFLGKNYEVIASKGHIRDLPKSSFGIKIEEDGFIPEYRISKDHSAIVKEIKELAKKADTIYIAT 81 (733)
T ss_pred CEEEEEECHHHHHHHHHHHCCCCEEEECCCHHHHCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECC
T ss_conf 83999908799999999849397999634604228863359776678723257867768999999999985699899898
Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHH
Q ss_conf 99702579999999997551257887169999803798999999862264698999999999998987401137898864
Q gi|254780306|r 80 DPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQK 159 (837)
Q Consensus 80 D~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk 159 (837)
|||||||+|||||+++|+. ...+++|+||||||++||++||+|||++|++||+||+|||++|||||||+||+||++
T Consensus 82 D~DREGE~Ia~~i~~~l~~----~~~~~~Ri~f~eiT~~aI~~Al~n~~~~d~~l~~A~~aR~~~D~lvG~nlSr~lt~~ 157 (733)
T PRK08413 82 DEDREGEAIGYHIACAIGK----KPESLPRIVFHEITKNAIENALKNPRKIDMDSVNAQQARRLLDRIVGYKLSPLLSSK 157 (733)
T ss_pred CCCCCHHHHHHHHHHHHCC----CCCCCEEEEECCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf 8881531999999998678----998725899726899999999967663435668999999999998483266989998
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCC
Q ss_conf 14676534226899999999999964137654400122331579965422331035833033101135666777642001
Q gi|254780306|r 160 LPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKK 239 (837)
Q Consensus 160 ~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 239 (837)
++++|||||||||||+|||+||+||++|+|++||+|.+.|.. .+.+.+..+++.+.++.++.++++|+++++.+++
T Consensus 158 ~~~~lSaGRVQTPtL~lIveRe~eI~~F~p~~y~~i~a~~~~----~~~~~~~~~~~~~~~k~~~~~~~~a~~i~~~~~~ 233 (733)
T PRK08413 158 IQKGLSAGRVQSAALKIVVDREREIRAFKPLEYFTIDALFEK----DLEAELISYKGKKIEKLSITNEKKAQEIVEELKK 233 (733)
T ss_pred HCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEC----CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHC
T ss_conf 548877650233788999999999972378644899999805----8624899842736110455889999999998608
Q ss_pred CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 56301000023322246852103799999887608889999999987621355672122455314755444430568999
Q gi|254780306|r 240 ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAV 319 (837)
Q Consensus 240 ~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~ 319 (837)
..++|.+|++++.+++||+||+||+|||+||++|||||++||+|||+|||++++..++.||||||||||++||++++..+
T Consensus 234 ~~~~V~~v~~k~~~~~pP~pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~~~~~~~ 313 (733)
T PRK08413 234 ESFIISSIEKKSRKIPTPPPFMTSTLQQSASSLLGFSPKKTMMIAQKLYEGVATPQGVMGVITYMRTDSLNIAKEALEAA 313 (733)
T ss_pred CCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCCCCCCHHHHHHH
T ss_conf 98599998763564379898566999999999809999999999999866456577766434135645432348999999
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEE
Q ss_conf 97655200112376311112556668877765247730234640000019999999999999999998522211001001
Q gi|254780306|r 320 RRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTV 399 (837)
Q Consensus 320 r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v 399 (837)
+++|.+.||.+|++..++.|.++.+++||||||||||++..+|+...+.|++||++||+|||+|||||||+||+|++|+|
T Consensus 314 ~~~i~~~~g~~~l~~~~~~~~~k~k~~q~AH~AI~PT~~~~~p~~~~~~Ls~de~klY~LI~~Rflas~m~~a~~~~t~v 393 (733)
T PRK08413 314 RELIKKDYGKDYLPAKAKVYTTKSKGAQEAHEAIRPTNLDFTPEIAAKYLKPDELKLYTLIYNRFLASQMNDAVFETQNV 393 (733)
T ss_pred HHHHHHHHHHHHCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEE
T ss_conf 99999876776431111424466766522676401565455645654306887878999999999998503540789999
Q ss_pred EEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHH
Q ss_conf 36774079639999987488058856763267776321001014886456882110011011123464310178998743
Q gi|254780306|r 400 NIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKK 479 (837)
Q Consensus 400 ~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~ 479 (837)
.+.+.+ ..|+++|++++|+||++||... +++..||.|++|+.+.+.++++.+|+|+||+||||||||++
T Consensus 394 ~~~~~~----~~F~a~g~~i~~~G~~~v~~~~-------~~d~~lP~l~~g~~~~~~~~~~~~~~TkPP~ryTEasLik~ 462 (733)
T PRK08413 394 FVKSEK----GEFKASGRKLLFDGFYKVYGND-------DKDKLLPNLKEGDPLKLEKIESNQHFTEPPARYSEASLIKK 462 (733)
T ss_pred EEEECC----EEEEEEEEEEEECCEEEEECCC-------CCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 999899----7999999999427766653354-------43443896677986777798844446589899899999999
Q ss_pred HHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 32102566551578999997322022147712220114200002233665568988999999999998626013478999
Q gi|254780306|r 480 MEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 480 mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
||+.|||||||||+||++|++|+||.+++++|+||++|+.|+++|.++|++|++++|||+||+.||+|++|+.+|.+||+
T Consensus 463 ME~~GIGtpATrA~II~~L~~R~Yv~~~~k~l~pT~~G~~v~~~L~~~f~~i~~~~~Ta~~E~~Ld~Ia~G~~~~~~~l~ 542 (733)
T PRK08413 463 LESLGIGRPSTYAPTISLLQSRDYVKIEKKQIIPTESAFKVIEVLEKHFSEIVDSKFTANLEEKLDEIAEDKADWQKVLK 542 (733)
T ss_pred HHCCCCCCCCCHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHHHHHCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf 97089996476889998886267299419778774699999999987560214853799999999999859865999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98676766557667755666776556766410245555676611433467773136871577611123434323332100
Q gi|254780306|r 560 EFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQL 639 (837)
Q Consensus 560 ~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l 639 (837)
+||..|...++.+...... ......+...||+|+. .|.++ .|++|.||||||||+|+|+.++
T Consensus 543 ~f~~~f~~~i~~~~~~~~~----------------~~~~~~~~~~Cp~Cg~-~l~~~-~~r~G~F~~Cs~yP~Ck~t~~~ 604 (733)
T PRK08413 543 DFYYPFMDKIEEGKKNIKS----------------QKVATPTGESCPKCGG-ELVKR-KGRYGEFIACSNFPKCKYSKNT 604 (733)
T ss_pred HHHHHHHHHHHHHHHHHHH----------------CCCCCCCCCCCCCCCC-CCEEE-CCCCCEEEECCCCCCCCCCCCC
T ss_conf 9999999999999754231----------------1245667898743585-41133-1677406842899875554567
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCC-CCCCCCHHHCCHHHHHHHHHCCHHHC-CCC
Q ss_conf 1221000012344201468999966999826974227734887776133-78998842548999999861525515-777
Q gi|254780306|r 640 TSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRCS-LPKTWKSDSVDYDKAMSLLSLPREIG-IHP 717 (837)
Q Consensus 640 ~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~s-i~k~~~~~~itle~Al~LLsLPr~lG-~~p 717 (837)
........ --.+|.||.++.++.||||.|+.....++.++.- ..... .-|...| .||
T Consensus 605 ~~~~~~~~-------~~~c~~cg~~m~~k~gr~g~f~~C~~~p~ck~~~~~~~~~--------------~~~~~~~~~CP 663 (733)
T PRK08413 605 ESENKEAS-------EEVCEKCGGPMVQKFGRNGEFLACSGYPKCKNTKSLKNTP--------------NAKEVIGVKCP 663 (733)
T ss_pred CCCCCCCC-------CCCCCCCCCHHHEEECCCCCEEECCCCCCCCCCCCCCCCC--------------CCCCCCCCCCC
T ss_conf 66543234-------5668767841321205787344347998887741255666--------------76655685689
Q ss_pred CCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEEC
Q ss_conf 8987499911587652616781112488775143579999999983651134434454432010267898-984699606
Q gi|254780306|r 718 ETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNG 796 (837)
Q Consensus 718 e~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~G 796 (837)
+||.+|..+.||+|.|..|.+ |..+.-... .+|.. ...|+ |..+..+.+
T Consensus 664 ~Cgg~l~~r~sk~GkF~gCs~-YP~C~f~~~---------------------------~~P~~--~~Cp~Cg~~~~~~~~ 713 (733)
T PRK08413 664 ECGGEIVERFSRRGKFYGCSN-YPKCNFISN---------------------------YEPIN--KKCEECGYMMVKREY 713 (733)
T ss_pred CCCCEEEEEECCCCCEECCCC-CCCCCCCCC---------------------------CCCCC--CCCCCCCCEEEEEEC
T ss_conf 999989987179997536899-999987677---------------------------89578--968789932089984
Q ss_pred CCCCEEEECC
Q ss_conf 8545253678
Q gi|254780306|r 797 RYGPYLHWKK 806 (837)
Q Consensus 797 ryGpYi~~gk 806 (837)
+.|+++.|-+
T Consensus 714 ~~~~~~~C~~ 723 (733)
T PRK08413 714 RKKEVHECIK 723 (733)
T ss_pred CCCCEEECCC
T ss_conf 7898798999
No 12
>PRK08938 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1494.97 Aligned_cols=676 Identities=38% Similarity=0.656 Sum_probs=605.8
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+|||||||||||+|++|||++|.|+||+|||||||.+.+|||++++|.|.|.++++++++++.|++++|+||+|||||||
T Consensus 5 ~LvIvEsPskAk~I~~~LG~~y~V~as~GHi~dLp~~~~g~d~~~~~~p~y~~~~~k~~~i~~lk~~~k~ad~iilAtD~ 84 (692)
T PRK08938 5 NLVIVESPAKAKTIEKYLGRKYKVVASMGHIRDLPKSQMGVDIENNYEPKYITIRGKGPVIKELKKEAKKAKKVYLASDP 84 (692)
T ss_pred CEEEECCHHHHHHHHHHHCCCCEEEECCCHHHHCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHCCCEEEECCCC
T ss_conf 19998885999999998394979996335174468633685767788536773575689999999998289989989898
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC
Q ss_conf 70257999999999755125788716999980379899999986226469899999999999898740113789886414
Q gi|254780306|r 82 DREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP 161 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~ 161 (837)
|||||+|||||+++|+. ...+++|+||||||++||++||+|||++|++||+||+|||++|||||||+||+||+++.
T Consensus 85 DREGE~Ia~~i~~~l~~----~~~~~~Ri~f~eiT~~aI~~A~~n~r~~d~~l~~A~~aR~~lD~lvG~nlS~~l~~k~~ 160 (692)
T PRK08938 85 DREGEAIAWHLAHILNL----DPSDKNRVVFNEITKDAVKESFKHPRAIDMDLVDAQQARRILDRLVGYSISPILWKKVK 160 (692)
T ss_pred CCCCCHHHHHHHHHHCC----CCCCCEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHC
T ss_conf 71502999999998677----88875378995689999999996766035878999999998748865410889998533
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCC
Q ss_conf 67653422689999999999996413765440012233157996542233103583303310113566677764200156
Q gi|254780306|r 162 GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKAT 241 (837)
Q Consensus 162 ~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~ 241 (837)
.+|||||||||||+|||+||+||++|+|++||+|.+.|.. ++..|.++|...++++ .++.++++|+.+++.+++.+
T Consensus 161 ~~lSaGRVQTPtL~lIveRe~eI~~F~p~~y~~i~a~~~~-~~~~f~a~~~~~~~~~---~~~~~~~~a~~i~~~l~~~~ 236 (692)
T PRK08938 161 KGLSAGRVQSVALKLIIDRENEIKAFKPEEYWTIDGEFKK-GKKKFQASFYGVDGKK---FKLKNNDDVKEVLAKLDGDD 236 (692)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC-CCCEEEEEEEECCCCC---CCCCCHHHHHHHHHHHCCCC
T ss_conf 7877661300789999998999983688433899999980-8941899998348872---57799999999998622898
Q ss_pred CEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCH-HHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf 3010000233222468521037999998876088899999999876213556721-224553147554444305689999
Q gi|254780306|r 242 YSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGE-IVGLITYMRTDGVHMSPDALEAVR 320 (837)
Q Consensus 242 ~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~-~~GlITYpRTDS~~ls~ea~~~~r 320 (837)
++|.+|++++.+++||+||+||+|||+||++|||||++||+|||+||||++++++ +.||||||||||++||++++..++
T Consensus 237 ~~V~~v~~k~~k~~PP~Pf~ts~LQq~As~~lg~sa~kTm~iAQ~LYEg~~~~~~~~~glITYpRTDS~~ls~~~~~~~~ 316 (692)
T PRK08938 237 FEVTKVTKKERKRNPALPFTTSSLQQEAARKLNFRTRKTMMVAQQLYEGIDLGKQGTVGLITYMRTDSTRISPVAQNEAA 316 (692)
T ss_pred EEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCCCCCHHHHHHHH
T ss_conf 69999875034248989975799999999873999899999999987334567656556331147666403899999999
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEE
Q ss_conf 76552001123763111125566688777652477302346400000199999999999999999985222110010013
Q gi|254780306|r 321 RSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVN 400 (837)
Q Consensus 321 ~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~ 400 (837)
++|...||++|++..++.+++ .+|+|+||||||||++..+|+.+...|+.||++||+|||+|||||||+||+|++++|.
T Consensus 317 ~~i~~~~g~~~~~~~~~~~~~-~~~~qdAHeAI~PT~~~~~p~~~~~~Ls~de~klY~LI~~RflAs~m~~a~~~~t~v~ 395 (692)
T PRK08938 317 QYITERYGAEYSKTHKRKVKN-KSGAQDAHEAIRPTSVMRTPESLKKYLTKDQLRLYKLIWERFVASQMTPAVLDTVKVD 395 (692)
T ss_pred HHHHHHHHHHHHCCCCCCCCC-CCCCCCCCCCCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHHHHHCCHHHEEEEEEE
T ss_conf 999987768651215655667-8899688258878665668656541189999999999999999985751116899999
Q ss_pred EEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHH
Q ss_conf 67740796399999874880588567632677763210010148864568821100110111234643101789987433
Q gi|254780306|r 401 IIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM 480 (837)
Q Consensus 401 i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~m 480 (837)
+.+.+ +.|+|+|++++|+||++||.+..+++ +.+++..||.|.+|+.+.+.++++++|+|+||+||||||||++|
T Consensus 396 ~~~~~----~~F~a~g~~i~~~Gw~~vy~~~~~~~-~~~~~~~LP~l~~G~~~~~~~~~~~~~~TkPP~ryTEasLIk~M 470 (692)
T PRK08938 396 LEQNG----VQFRANGSQVKFDGFMKVYVESKDDN-DSEKNKMLPDLEEGDTVKSTDIEPEQHFTQPPPRYTEARLVKTL 470 (692)
T ss_pred EEECC----EEEEEEEEEEEECCCEEEECCCCCCC-CCHHHCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHH
T ss_conf 99599----39999889996331145652445654-31233128656799877666766335426899888999999999
Q ss_pred HHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 21025665515789999973220221477122201142000022336655689889999999999986260134789999
Q gi|254780306|r 481 EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHE 560 (837)
Q Consensus 481 E~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~ 560 (837)
|+.|||||||||+||++|++|+||.+++++|+||++|+.|+++|.++||+|++++|||+||+.||+|++|+.+|.++|++
T Consensus 471 E~~GIGrpsT~A~II~~L~~R~YV~~~~k~l~pT~~G~~v~~~L~~~fp~i~~~~~Ta~~E~~Ld~Ia~G~~~~~~~l~~ 550 (692)
T PRK08938 471 EENGIGRPSTYAPTLDTIQKRYYVKLENKRFVPTELGEIVNELIVEFFPEIVDVEFTANMEGKLDEVEEGKEQWVKVIDE 550 (692)
T ss_pred HHCCCCCCCCHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHHHHHCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 85799971658999999985687994297774536999999999874524349868899999999997697429999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 86767665576677556667765567664102455556766114334677731368715776111234343233321001
Q gi|254780306|r 561 FWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLT 640 (837)
Q Consensus 561 Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~ 640 (837)
||..|...++.+.+... ... .....+...||+|+..++ ++ .|++|.|||||+||+|+++.++.
T Consensus 551 f~~~f~~~l~~a~~~~~------------~~~---~~~~~~~~~Cp~Cg~~l~-~k-~gr~G~F~~Cs~yP~Ck~t~~~~ 613 (692)
T PRK08938 551 FYKPFEKELEKAEEEME------------KIE---IKDEPAGFDCEVCGSPMV-IK-MGRYGKFYACSNFPDCRNTKAIV 613 (692)
T ss_pred HHHHHHHHHHHHHHHHH------------HCC---CCCCCCCCCCCCCCCCCE-EE-ECCCCCEEECCCCCCCCCCCCCC
T ss_conf 99999999999987665------------333---566667898867886006-88-15788433478998888867766
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCC-EEEEEECCCCC-EEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCC
Q ss_conf 22100001234420146899996-69998269742-27734887776133789988425489999998615255157778
Q gi|254780306|r 641 SNPQDIPEMKESVLLGNDLETKE-SVTLRSGRFGL-YVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPE 718 (837)
Q Consensus 641 ~~~~~~~~~~~~~~LG~dP~~G~-~I~lk~GryGp-Yvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe 718 (837)
.. .-..||.||. .|..|.++.|- |.-+...++.++++..+ | +.+.||+
T Consensus 614 ~~-----------~~~~CP~C~~g~l~~r~sk~g~~f~gCs~yp~C~~~~~~~------------------p-~~~~Cp~ 663 (692)
T PRK08938 614 KE-----------IGVTCPKCHKGQVIERKSKKNRIFYGCDRYPECDFVSWDK------------------P-IGRDCPK 663 (692)
T ss_pred CC-----------CCCCCCCCCCCCEEEEECCCCCEEEECCCCCCCCEECCCC------------------C-CCCCCCC
T ss_conf 55-----------6882959999745755147898777489899898316788------------------7-4884999
Q ss_pred CCCEEEEEECCCCCEEEECC
Q ss_conf 98749991158765261678
Q gi|254780306|r 719 TQKNIIAGTGKYGYYLNHDG 738 (837)
Q Consensus 719 ~g~~I~~~~GryGpYi~~~~ 738 (837)
||.+++...||+|.|+.|.+
T Consensus 664 Cg~~~~~~~~~~g~~~~C~n 683 (692)
T PRK08938 664 CGHYLVEKKVKKGKQVQCSN 683 (692)
T ss_pred CCCCCEEEECCCCCEEECCC
T ss_conf 99604268557888797899
No 13
>PRK05823 consensus
Probab=100.00 E-value=0 Score=1419.94 Aligned_cols=641 Identities=39% Similarity=0.652 Sum_probs=553.1
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECC-------------CHHHHHHHHHHH
Q ss_conf 1899779047877887508998999942511007865578676667440688776-------------548999999999
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDP-------------SSQKHLQNIIHA 68 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~-------------~~kk~~~~i~~~ 68 (837)
+|||||||||||+|++|||++|.|+||+|||+|||.+.++++|+ +|.|.|++.+ +++++|+.|+++
T Consensus 4 ~LvIvEsPskAk~Ia~~LG~~y~V~~s~GHl~dL~~~~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~k~~~ik~l~~~ 82 (691)
T PRK05823 4 KLLVIESPNKVKTLQKYLGDDYEIVATVGHIRELVKKNFGFDEA-DYDPKWEIITKKKKANTKKKALLSKKEIIKSIKDK 82 (691)
T ss_pred CEEEECCHHHHHHHHHHCCCCCEEEECCCCHHHCCCCCCCCCHH-HCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 49998686999999997095979997234086578654799955-48854210440145443211345599999999999
Q ss_pred HHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 87099899946997025799999999975512578871699998037989999998622646989999999999989874
Q gi|254780306|r 69 VKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLV 148 (837)
Q Consensus 69 ~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lv 148 (837)
+++||+||||||||||||+|||||+++|+. .++.||+|+||||||++||++||+||+++|++||+||+|||++||||
T Consensus 83 ~k~ad~viiAtD~DREGE~Ia~~i~~~l~~---~~~~~v~R~~f~eiT~~aI~~A~~n~~~~d~~L~~A~~aR~~~D~lv 159 (691)
T PRK05823 83 ASKANNIYLATDPDREGEAISWHVYDVLDE---KDKEKCKRITFNEITKKAVLDALKNPRDIDFNWVQSQFARRILDRLI 159 (691)
T ss_pred HHCCCEEEECCCCCCCHHHHHHHHHHHHHH---CCCCCCEEEEECCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 847998998889971502999999999622---48985069997458999999999677524787899999999999985
Q ss_pred HHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCE-------EEEEEEEECCEEECC
Q ss_conf 0113789886414676534226899999999999964137654400122331579965-------422331035833033
Q gi|254780306|r 149 GFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDK-------FTAHLTDFNGQRIEK 221 (837)
Q Consensus 149 G~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~-------f~a~l~~~~~~~~~~ 221 (837)
|||+||+||+++. ++||||||||||+|||+||+||++|+|++||+|.+.|....... +.+.+..........
T Consensus 160 G~nlSr~l~~~~~-~lS~GRVQTPtL~lIv~Re~eI~~F~p~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (691)
T PRK05823 160 GFKLSRLLKSKLH-ADSAGRVQSVALKFIEEREKEIRSFVPRFWWTLDVILEDNIPLVLRKIDPDLKAYLKFEKDESVSG 238 (691)
T ss_pred HHHHHHHHHHHCC-CCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHCCCHHHHHCCCCHHHCCCCC
T ss_conf 1441068886347-877553334225789999999984689542799999726852012104702332002022213212
Q ss_pred CCHHHHHHHHHHHHHHCCCCCEEEEEE-CCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHH
Q ss_conf 101135666777642001563010000-2332224685210379999988760888999999998762135567212245
Q gi|254780306|r 222 KSISNKKEADDLISFVKKATYSVEKIE-NKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGL 300 (837)
Q Consensus 222 ~~~~~~~~a~~~~~~~~~~~~~V~~v~-~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~Gl 300 (837)
.++.++++|+.+++.+.+. +.|.+++ .+..+++||+||+||+|||+||++|||||++||+|||+|||+++++|+..||
T Consensus 239 ~~~~~~~~a~~i~~~l~~~-~~v~~~~~~k~~~~~Pp~Pf~ts~LQ~~As~~lg~sa~~Tm~iAQ~LYE~~~~~g~~~gl 317 (691)
T PRK05823 239 IDFLDEESAQRVINQLSDK-FKVYSIDEPKIYSSYPKSPYTTSTLQQDAINKLGWSSKKITLIAQHLYEGVEINGEQIAL 317 (691)
T ss_pred CCCCCHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCEE
T ss_conf 6638999999999986498-549999832510368989877799999999980987999999999974645457878655
Q ss_pred HHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCC--CCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHH
Q ss_conf 5314755444430568999976552001123763111125--56668877765247730234640000019999999999
Q gi|254780306|r 301 ITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYS--SKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYN 378 (837)
Q Consensus 301 ITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~--~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~ 378 (837)
||||||||++||++++..++++|.+.||.+|++.....++ .+.+++||||||||||++..+|+.+.+.|+.||++||+
T Consensus 318 ITYpRTDS~~ls~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~~~qdAH~AI~PT~~~~~p~~~~~~ls~de~klY~ 397 (691)
T PRK05823 318 ISYPRTDSTRLSDQFQQEANKFIENTYGKDYLANFKVLKKIKKKEANIQDAHEAIHPIDINITPEEVKNKISKDEFLLYR 397 (691)
T ss_pred EEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHH
T ss_conf 66147887767999999999999987748653002201136666676667764402566665734541368746778999
Q ss_pred HHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEE
Q ss_conf 99999999852221100100136774079639999987488058856763267776321001014886456882110011
Q gi|254780306|r 379 LIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATET 458 (837)
Q Consensus 379 LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~ 458 (837)
|||+|||||||+||+|++|+|.+.+.+ ..|.++|++++++||++||.+..+++ +++....||.+++|+.+.+.++
T Consensus 398 LI~rRflAs~m~~a~~~~t~v~~~~~~----~~F~a~g~~i~~~Gw~~vy~~~~~~~-~~~~~~~Lp~l~~g~~~~~~~~ 472 (691)
T PRK05823 398 LIWNRTVASLMAAAKFSKVVIRFINNN----NKFYTSSKTLLFDGYKKLYEHFYKKE-RDELYIDLNKINVGDEFKAKKI 472 (691)
T ss_pred HHHHHHHHHHCCHHEEEEEEEEEEECC----EEEEEEEEEEEECCEEEEECCCCCCC-CCCCCCCCCCCCCCCEEEEEEE
T ss_conf 999999998485331789999999789----49999728999878688875667753-2210145776788988666688
Q ss_pred ECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHH
Q ss_conf 01112346431017899874332102566551578999997322022147712220114200002233665568988999
Q gi|254780306|r 459 NASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTA 538 (837)
Q Consensus 459 ~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa 538 (837)
++++++|+||+||||||||++||+.|||||||||+||++|++|+||++++++|+||++|+.|+++|.++|++|++++|||
T Consensus 473 ~~~e~~TkPP~ryTEasLi~~ME~~GIGtpATrA~II~~L~~R~Yv~~~~k~l~pT~~G~~l~~~L~~~~~~l~~~~~Ta 552 (691)
T PRK05823 473 DLNEHETTPPPRYTQASLIEALEKAGIGRPSTYSTMASINLERGYANLDKRAYIPTDLGEKVNQELSKHFPKIINKEFTK 552 (691)
T ss_pred EEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEECCCEEEEHHHHHHHHHHHHHHHHHHCCHHHHH
T ss_conf 87653518999989999999999679997576899999887368289519767451899999999987525634977999
Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEE
Q ss_conf 99999999862601347899998676766557667755666776556766410245555676611433467773136871
Q gi|254780306|r 539 DLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLS 618 (837)
Q Consensus 539 ~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~ 618 (837)
.||+.||+|++|+.+|.+||++||..|...+..+..... . .......+...||+|+.+.+.. .
T Consensus 553 ~~E~~Ld~I~~G~~~~~~~l~~f~~~~~~~~~~~~~~~~-~--------------~~~~~~~~~~~CP~Cg~~l~~r--~ 615 (691)
T PRK05823 553 NMEESLDEIAEGKVNWKSFLKTFWPNFKEEVKLAYTSIE-K--------------VKKEKEIVGRDCPKCASDLLYR--R 615 (691)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-H--------------CCCCCCCCCCCCCCCCCCCEEE--E
T ss_conf 999988999769988999999999999999999987776-4--------------3455777799898889820367--4
Q ss_pred CCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCC
Q ss_conf 5776--1112343432333210012210000123442014689999669998269742
Q gi|254780306|r 619 SKYG--AFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGL 674 (837)
Q Consensus 619 gK~G--~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGp 674 (837)
|++| .||||||||+|+|+......+....+. .-..||.||.+++.|.|+||.
T Consensus 616 ~~~g~~~F~~Cs~yp~Ck~~~~~~~~~~~~~~~----~~~~CP~Cg~~lv~r~~k~~k 669 (691)
T PRK05823 616 TRRGNEKFVGCSNFPKCKFTEFSEQKPLEKPEE----LEELCPECNSKLVKRKTKFNK 669 (691)
T ss_pred CCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCC----CCCCCCCCCCHHHHEECCCCC
T ss_conf 268886045579999887877778776666332----588599998247422023589
No 14
>COG0550 TopA Topoisomerase IA [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=1333.58 Aligned_cols=550 Identities=50% Similarity=0.820 Sum_probs=518.3
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCC---CCCCCCCCCC-CCEEEEECCC-HHHHHHHHHHHHHHCCEE
Q ss_conf 9189977904787788750899899994251100786---5578676667-4406887765-489999999998709989
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPA---KKGSVLPEKE-FEMIWNIDPS-SQKHLQNIIHAVKSSTIL 75 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~---~~~~v~~~~~-f~p~y~v~~~-~kk~~~~i~~~~k~a~~i 75 (837)
|+|||||||+|||+|++|||++|+|+||+|||||||. ..++++++++ |.|.|++.+. +++.++.|+.++++||.|
T Consensus 1 ~~LiIvEsPskAk~Ia~~Lg~~~~V~as~GHi~dl~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~v~~lk~~ak~ad~v 80 (570)
T COG0550 1 KRLIIVESPSKAKTIAKYLGKGYVVTASVGHLRDLPFPEEYKGWVDVDLPIFEPKYIIKPGKKKKVVKKLKKLAKKADEV 80 (570)
T ss_pred CEEEEEECHHHHHHHHHHCCCCCEEEECCCCCCCCCCCHHCCCCCCCCCCCCCCCEECCCHHHHHHHHHHHHHHCCCCEE
T ss_conf 95999927789999998729994999756632137870211477577665566200215224579999999975549989
Q ss_pred EECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHH
Q ss_conf 99469970257999999999755125788716999980379899999986226469899999999999898740113789
Q gi|254780306|r 76 ILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPI 155 (837)
Q Consensus 76 ilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~ 155 (837)
|||||||||||+||||++++|+... ..+++|+||||||++||++||+|||++|++||+||+|||++|||||||+||+
T Consensus 81 ~lAtD~DREGE~I~~~i~~~l~~~~---~~~~~R~~F~eiT~~aI~~A~~~p~~id~~lv~A~~aR~~lD~lvG~~lSr~ 157 (570)
T COG0550 81 YLATDPDREGEAIGWHILEVLKLKN---PSKVKRVVFSEITKKAILSAFKNPREIDMNLVDAQLARRILDRLVGYNLSRL 157 (570)
T ss_pred EECCCCCCCHHHHHHHHHHHHCCCC---CCCEEEEEEECCCHHHHHHHHHCHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9898999530799999999847567---7741379984189999999995915227676889999999998853401499
Q ss_pred HHHHCCCC-CCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHH
Q ss_conf 88641467-65342268999999999999641376544001223315799654223310358330331011356667776
Q gi|254780306|r 156 LWQKLPGA-RSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLI 234 (837)
Q Consensus 156 L~rk~~~~-lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~ 234 (837)
||++++.+ |||||||||||+|||+||+||++|+|++||+|.+.|..+.+. |.|.|...++++. .++.+...|.+++
T Consensus 158 l~~~~~~~~LSaGRVQSpaL~lVveRE~EI~~F~p~~yw~i~a~~~~~~~~-f~a~~~~~~~~~~--~~~~~~~~a~~~~ 234 (570)
T COG0550 158 LWKKLKRGVLSAGRVQSPALRLVVEREREIEAFVPEEYWEIKAIFEKGGGE-FSARLTEIEGKKE--GRLKDKDEAEEIV 234 (570)
T ss_pred HHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCC-EEEEEECCCCCCC--CCCCCHHHHHHHH
T ss_conf 998605788676544551345657319999837997646999998448860-6788722564311--3455589999999
Q ss_pred HHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHH
Q ss_conf 42001563010000233222468521037999998876088899999999876213556721224553147554444305
Q gi|254780306|r 235 SFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPD 314 (837)
Q Consensus 235 ~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~e 314 (837)
+.++++.+.|.++++|+.+++||+||+||||||+||++|||||++||+|||+|||+ .||||||||||++||++
T Consensus 235 ~~l~~~~~~V~~ve~k~~~~~pp~Pf~tstLQq~As~~lgfs~kktm~iAQ~LYE~-------~glITYpRTDs~~ls~~ 307 (570)
T COG0550 235 NKLKGKPAKVVSVEKKPKKRSPPPPFTTSTLQQEASRKLGFSAKKTMDIAQKLYEG-------HGLITYPRTDSTRLSEE 307 (570)
T ss_pred HHCCCCCEEEEEEEEEEECCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCC-------CCCEEECCCCCCCCCHH
T ss_conf 97048955999986013136898997579999999975799989999999999608-------99278257899857999
Q ss_pred HHHHHHHHHHHH-CCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHE
Q ss_conf 689999765520-0112376311112556668877765247730234640000019999999999999999998522211
Q gi|254780306|r 315 ALEAVRRSITSH-YGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAK 393 (837)
Q Consensus 315 a~~~~r~~i~~~-~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~ 393 (837)
++..++.++... ||++|++..++.|.++.+++|+||||||||+ ..+|.++.. .||++||+|||+|||||||+||+
T Consensus 308 ~~~~~~~~i~~~~yg~~~l~~~~~~~~~~~~~~q~AHeAIrPT~-~~~p~~~~~---~de~klY~LI~rrflAs~m~~A~ 383 (570)
T COG0550 308 ALAEARLYILAIAYGKEYLPLKPRRYPSKGKKAQEAHEAIRPTD-FETPESLKA---YDELKLYDLIWRRFLASQMPDAI 383 (570)
T ss_pred HHHHHHHHHHHHCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCHHCCC---HHHHHHHHHHHHHHHHHHCCHHH
T ss_conf 99999999976320876422355557777788767887837788-788200165---55889999999999998381523
Q ss_pred ECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCH
Q ss_conf 00100136774079639999987488058856763267776321001014886456882110011011123464310178
Q gi|254780306|r 394 FERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSE 473 (837)
Q Consensus 394 ~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytE 473 (837)
|++++|++.+.++ .|+|+|++++|+||++||.+. ++++.+..||.|++||.+.+.++++.+|+|+||+||||
T Consensus 384 ~~~~~v~l~~~~~----~F~a~g~~~~~~Gw~~vy~~~----~~~~~~~~lP~l~~gd~l~~~~~~~~~~~T~PP~rytE 455 (570)
T COG0550 384 YEKTTVTLEVAGE----KFKASGKVLKFDGWLKVYGED----KDEEEDKELPELKEGDELKVEKLEVEEHFTKPPPRYTE 455 (570)
T ss_pred HEEEEEEEEECCC----EEEEEEEEEECCCHHHHHCCC----CCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCH
T ss_conf 0089999994186----799974488017579860643----45643465997788984566650022442597699898
Q ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHH
Q ss_conf 99874332102566551578999997322022147712220114200002233665568988999999999998626013
Q gi|254780306|r 474 SSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLN 553 (837)
Q Consensus 474 asLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~ 553 (837)
||||++||+.|||||||||+||++|++||||.+++++|+||++|+.|+++|+++|+++++|+|||+||++||+|++|+.+
T Consensus 456 asLvk~mE~~GIGrpSTyA~iI~~L~~RgYv~~~~~~~~pT~~G~~v~~~L~~~f~~l~~~~~Ta~mE~~Ld~I~~gk~~ 535 (570)
T COG0550 456 ASLVKAMEKLGIGTPSTYASIIETLQKRGYVEKKGKRLVPTELGEAVIELLEEYFPELVDPDFTAKMEEKLDEIAEGKLE 535 (570)
T ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEECCCEEEECHHHHHHHHHHHHHCHHHCCHHHHHHHHHHHHHHHCCCCC
T ss_conf 99999998479997001899999886277388029756775789999999987452426987899999989999859942
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 4789999867676655766775
Q gi|254780306|r 554 WKEVLHEFWEEFIEKIDSIKKL 575 (837)
Q Consensus 554 ~~~~L~~Fy~~f~~~i~~~~~~ 575 (837)
|.+||++||..|...+......
T Consensus 536 ~~~~l~e~~~~~~~~~~~~~~~ 557 (570)
T COG0550 536 WKDVLDEFKKKFSKLLEEAKKN 557 (570)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8999999999889999999732
No 15
>PRK08620 DNA topoisomerase III; Provisional
Probab=100.00 E-value=0 Score=1314.15 Aligned_cols=615 Identities=25% Similarity=0.396 Sum_probs=525.3
Q ss_pred CC-EEEECCHHHHHHHHHHH-----------CCCCEEEEEECCCEECCCCC-------------CCCCCCCCCCEEEEEC
Q ss_conf 91-89977904787788750-----------89989999425110078655-------------7867666744068877
Q gi|254780306|r 1 MN-VIIVESPAKAKTISKYL-----------GSNYKVLSSFGHIRDLPAKK-------------GSVLPEKEFEMIWNID 55 (837)
Q Consensus 1 M~-LvIvEsP~kak~I~~~L-----------g~~y~V~as~GHirdLp~~~-------------~~v~~~~~f~p~y~v~ 55 (837)
|+ ||||||||+||+|++|| |++|+|+||+|||+||+... +++.|+. ..+.++
T Consensus 2 mK~LvIaEKPs~Ak~Iak~Lg~~~k~~gy~eG~~y~Vt~s~GHl~~L~~pe~y~~~~k~W~~~dLPiiP~~---~k~~~i 78 (726)
T PRK08620 2 MKSLVLAEKPSVGRDIARVLKCNKKGNGYLEGNKYIVTWALGHLVTLADPESYDKKYKEWRLEDLPMLPKR---MKLVVI 78 (726)
T ss_pred CCCEEEECCHHHHHHHHHHHCCCCCCCCCEECCCEEEEEECCCCCCCCCHHHCCHHHCCCCCCCCCCCCHH---CCEEEC
T ss_conf 98289983879999999985756667774668898999826666438990235612045651347767332---204454
Q ss_pred CCHHHHHHHHHHHH--HHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC--CCC
Q ss_conf 65489999999998--70998999469970257999999999755125788716999980379899999986226--469
Q gi|254780306|r 56 PSSQKHLQNIIHAV--KSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR--DIN 131 (837)
Q Consensus 56 ~~~kk~~~~i~~~~--k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r--~~d 131 (837)
+++++|++.|++++ ++|++||||||||||||+|||||++.++ .++|++|+||||||++||++||+|++ ..+
T Consensus 79 ~~~~kq~~~ik~ll~~k~a~~IiiAtDpDREGE~Ia~~il~~~~-----~~kpikRl~fseiT~~aI~~A~~nlkp~~~~ 153 (726)
T PRK08620 79 KKTSKQFNAVKSQMLRKDVKEIIIATDAGREGELVARWIIDKAG-----VKKPIKRLWISSVTDKAIKDGFKNLKPGKAY 153 (726)
T ss_pred CCHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEECCCHHHHHHHHHCCCCHHHH
T ss_conf 74278999999998667999899878887334899999999837-----9997489996028999999999748981430
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEE
Q ss_conf 89999999999989874011378988641467653422689999999999996413765440012233157996542233
Q gi|254780306|r 132 LDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHL 211 (837)
Q Consensus 132 ~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l 211 (837)
++||+||+|||++|||||||+||+||.++.++|||||||||||+|||+||+||++|+|++||+|.+.+. + +.+.|
T Consensus 154 ~~L~~Aa~aRr~~D~lVG~nlSr~lt~k~~~~LSaGRVQTPtL~lIveRE~EI~~F~p~~Yw~i~a~~~---~--~~~~~ 228 (726)
T PRK08620 154 ENLYASAVARSEADWIVGINATRALTTKYNAQLSCGRVQTPTLAMIAQREEEIKNFKPKTYYTIEATTK---G--LKLTW 228 (726)
T ss_pred HHHHHHHHHHHHHHHHHCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEC---C--EEEEE
T ss_conf 547899999999999824000499998726766665200226699999899998089964289999964---6--06898
Q ss_pred EEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Q ss_conf 10358330331011356667776420015630100002332224685210379999988760888999999998762135
Q gi|254780306|r 212 TDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGI 291 (837)
Q Consensus 212 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~ 291 (837)
...+ .+.+++|+++|+.+++.+++..+.|.+|++++.+++||+||+||+|||+||++|||||++||+|||+|||+|
T Consensus 229 ~~~~----~~~~~~d~~~a~~i~~~l~~~~~~V~~v~~k~kk~~pP~pf~tstLQq~As~~lg~SakkTm~iAQ~LYE~~ 304 (726)
T PRK08620 229 QDKK----GNSRTFNKEKAEKIVKKLKGKDGKIVEVDKKHKKSYSPGLYDLTELQRDANKRFGYSAKETLNIMQRLYEQH 304 (726)
T ss_pred ECCC----CCCCCCCHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf 4155----656669999999999996159859999873010048979976799999999871878899999999998658
Q ss_pred CCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCC-------CCCCCCC-CCCCCEEEEECCCCCC
Q ss_conf 5672122455314755444430568999976552001123763111125-------5666887-7765247730234640
Q gi|254780306|r 292 DVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYS-------SKSKNAQ-EAHEAIRPNDFDFLPS 363 (837)
Q Consensus 292 ~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~-------~k~k~aQ-eAHeAIrPT~~~~~p~ 363 (837)
||||||||||++||++++..+++.|...++..|.+.....+. +.+.+++ .+|||||||+....+
T Consensus 305 -------glITYpRTDS~~ls~d~~~~~~~~l~~~~~~~y~~~~~~~~~~~~~~~k~~~~d~kv~dH~AI~PT~~~~~~- 376 (726)
T PRK08620 305 -------KVLTYPRTDSRYISTDIVDTLKERLKACGVGEYKKLANKILKKPIKANKSFVDDSKVSDHHAIIPTEQRVNL- 376 (726)
T ss_pred -------CEEECCCCCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-
T ss_conf -------603216778751788899999999998432135788887502456755444665555677684786667780-
Q ss_pred HHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCC-CCCCHHHC
Q ss_conf 00001999999999999999999852221100100136774079639999987488058856763267776-32100101
Q gi|254780306|r 364 KMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQ-EKNSEEDI 442 (837)
Q Consensus 364 ~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~-~~~~~~~~ 442 (837)
..|++||++||+|||+|||||||+||+|++|+|.+.+.+ ..|+|+|++++|+||++||....++ ++++..+.
T Consensus 377 ---~~Ls~de~klY~LI~~RflAs~m~~a~~~~t~v~~~~~~----~~F~a~G~~i~~~Gw~~vy~~~~~~~~~~~~~~~ 449 (726)
T PRK08620 377 ---SALSDKERKIYDLVVKRFLAVLMPPFEYEQTTVKAEVGG----ETFIAKGKVVKSLGWKEVYDNFEDDDDEDESKEQ 449 (726)
T ss_pred ---CCCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECC----EEEEEEEEEEEECCHHHHHCCCCCCCCCCCCCCC
T ss_conf ---008999999999999999997165125888999999789----1899998999556678762665565543210014
Q ss_pred CCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHC-------------------CCCCCCCHHHHHHHHHHCCE
Q ss_conf 48864568821100110111234643101789987433210-------------------25665515789999973220
Q gi|254780306|r 443 LLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEI-------------------GIGRPSTYATILETLYKRKY 503 (837)
Q Consensus 443 ~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~-------------------GIGrPSTyA~II~~L~~R~Y 503 (837)
.||.|++|+.+.+.++...+|+|+||+||||||||++||+. |||||||||+||++|++|+|
T Consensus 450 ~LP~l~~Ge~l~~~~~~~~~~~TkPP~ryTEasLi~~ME~~~k~v~~~d~~l~k~l~e~~GIGtpATrA~IIe~L~~r~Y 529 (726)
T PRK08620 450 LLPKLSKGDTLKVKKINITEGETKPPARFNEGTLLSAMENPQKYMQLKDKKLAKTLGETGGLGTVATRADIIEKLFNSFL 529 (726)
T ss_pred CCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCEE
T ss_conf 69978889976641323222206897998989999999735535664358999987640476764417778887754105
Q ss_pred EECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 22147712220114200002233665568988999999999998626013478999986767665576677556667765
Q gi|254780306|r 504 VIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDI 583 (837)
Q Consensus 504 V~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~ 583 (837)
|++++++|+||++|+.|+++|.. +|++|+|||.||++||+|+.|+.+|.+||++||.-+...+++++....
T Consensus 530 v~~~~k~l~pT~~G~~l~~~l~~---~l~~p~~TA~~E~~Ld~I~~Gk~~~~~fi~~~~~~~~~~v~~~k~~~~------ 600 (726)
T PRK08620 530 IEKRGKDIKITSKGKQLLELVPE---ELKSPLLTAEWEQKLELIAKGKLKKKTFINEMKNYTKKVVNEIKNSDK------ 600 (726)
T ss_pred EEEECCEEEECHHHHHHHHHHHH---HCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCC------
T ss_conf 87109988177689999998798---648945789999999999869998999999999999999999974014------
Q ss_pred HHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 56766410245555676611433467773136871577611123434323332100122100001234420146899996
Q gi|254780306|r 584 LNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKE 663 (837)
Q Consensus 584 l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~ 663 (837)
....+..+...||+||..++. +.||+|.|++||+ |+|+|++++...- =+.||.||.
T Consensus 601 ----------~~~~~~~t~~~Cp~Cg~~m~~--~~gr~Gkf~~C~~-peC~~~k~~~~~~-----------~~~Cp~C~~ 656 (726)
T PRK08620 601 ----------KYKHDNLTGTKCPDCGKFMLE--VKGKNGKMLVCQD-RECGHRKNVSRKT-----------NARCPNCKK 656 (726)
T ss_pred ----------CCCCCCCCCCCCCCCCCCCEE--EECCCCCEEECCC-CCCCCCCCCHHHC-----------CCCCCCCCC
T ss_conf ----------424577789856426832116--8589875574689-9899977710212-----------894999998
Q ss_pred EEEEEECCCCCEEEECC
Q ss_conf 69998269742277348
Q gi|254780306|r 664 SVTLRSGRFGLYVQRGD 680 (837)
Q Consensus 664 ~I~lk~GryGpYvq~Ge 680 (837)
+|.+|.+++|-+..+..
T Consensus 657 ~~~~~~~~~g~~~~c~~ 673 (726)
T PRK08620 657 KLELRGEGEGQIFVCVC 673 (726)
T ss_pred EEEEEECCCCCEEEECC
T ss_conf 56898567787899738
No 16
>PRK08174 DNA topoisomerase III; Validated
Probab=100.00 E-value=0 Score=1297.94 Aligned_cols=599 Identities=25% Similarity=0.401 Sum_probs=516.8
Q ss_pred CCEEEECCHHHHHHHHHHHC-----------CCCEEEEEECCCEECCCCC-------------CCCCCCCCCCEEEEECC
Q ss_conf 91899779047877887508-----------9989999425110078655-------------78676667440688776
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLG-----------SNYKVLSSFGHIRDLPAKK-------------GSVLPEKEFEMIWNIDP 56 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg-----------~~y~V~as~GHirdLp~~~-------------~~v~~~~~f~p~y~v~~ 56 (837)
|+|||||||++||+|++||| ++|.|+||+|||++|+..+ +.+.|+. | .|.+.+
T Consensus 1 MkLiIaEkPs~Ak~Ia~~LG~~~k~~gy~~~~~~~Vt~~~GHl~~l~~p~~y~~~~k~w~~~~lpi~p~~-~--~~~~~~ 77 (670)
T PRK08174 1 MRLFLCEKPSQGKDIARVLGATQRGEGCLSGPGVTVTWCIGHLLETAPPEAYDEQYKRWSLEQLPIIPQQ-W--KMVVKP 77 (670)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCCCCHHHCCCCCCCCCCCCCCCCCCC-C--EEEECC
T ss_conf 9599985879999999985876357762327985999846807546791234610035760117778632-2--578772
Q ss_pred CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHC--CCCCCHHH
Q ss_conf 5489999999998709989994699702579999999997551257887169999803798999999862--26469899
Q gi|254780306|r 57 SSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKS--PRDINLDL 134 (837)
Q Consensus 57 ~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n--~r~~d~~L 134 (837)
++++|++.|++++++||+||||||||||||+|||||+++++ .++||+|+|||+||+++|++||+| |++.+++|
T Consensus 78 ~~~~q~~~ik~l~k~ad~ii~AtD~DREGE~I~~~i~~~~~-----~~~~v~R~~fs~iT~~~I~~a~~nl~p~~~~~~L 152 (670)
T PRK08174 78 KTASQFKVVKRLLKQATELVIATDADREGEMIARELLELCG-----YRGPIQRLWLSALDDASIRKALAALKPGAETLPL 152 (670)
T ss_pred CHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEEECCHHHHHHHHHCCCCCHHHHHH
T ss_conf 07899999999996599999888888133699999999848-----8898278998757999999999647980330778
Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHC-----CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEE
Q ss_conf 99999999989874011378988641-----4676534226899999999999964137654400122331579965422
Q gi|254780306|r 135 VNAYLARRALDYLVGFNLSPILWQKL-----PGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTA 209 (837)
Q Consensus 135 v~A~~aRr~lD~lvG~~lSp~L~rk~-----~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a 209 (837)
++||+|||++|||||||+||+||.+. .+.+||||||||||+|||+||+||++|+|++||+|.+.|.. ++..|.+
T Consensus 153 ~~Aa~aR~~lD~lvG~nlSr~~t~~~~~~g~~~~lS~GRVQtPtL~lIveRE~EI~~F~p~~y~~i~~~~~~-~~~~f~a 231 (670)
T PRK08174 153 YYSALARSRADWLIGMNLSRLFTLLGRQAGYDGVLSVGRVQTPTLALVVDRDREIANFVPVPYWAIDVSLSA-GGQTFTA 231 (670)
T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEE-CCEEEEE
T ss_conf 999999999999718553688999877507887730450124668889999999980788632899999974-8915788
Q ss_pred EEEEECCEEECCCCHHHHHHHHHHHHHHCC-CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 331035833033101135666777642001-5630100002332224685210379999988760888999999998762
Q gi|254780306|r 210 HLTDFNGQRIEKKSISNKKEADDLISFVKK-ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLY 288 (837)
Q Consensus 210 ~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LY 288 (837)
+|...++...+.+++++++.|+.+.+.+++ ..++|.+|++++.+++||+||+||+|||+||++|||||++||+|||+||
T Consensus 232 ~~~~~~~~~d~~~r~~~~~~a~~~~~~~~~~~~~~V~~v~~k~~~~~pP~Pf~tstLQ~~As~~lg~sa~~Tm~iAQ~LY 311 (670)
T PRK08174 232 QWVPPEQYCDDEGRCLQQPVAQQAAQQIRQAGSAQVVSVETERVREGAPLPFDLGTLQEVCSKKLGLGAQETLDIAQALY 311 (670)
T ss_pred EEECCCCCCCHHCCCCCHHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 87424556212202479999999999986489759999985454247999974799999999871988889999999988
Q ss_pred CCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCC-----CCCCCCCCCCCCCCCCCCC--CCCCEEEEECCCC
Q ss_conf 13556721224553147554444305689999765520011-----2376311112556668877--7652477302346
Q gi|254780306|r 289 EGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGD-----HYLPEKPRIYSSKSKNAQE--AHEAIRPNDFDFL 361 (837)
Q Consensus 289 E~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~-----~~l~~~~r~y~~k~k~aQe--AHeAIrPT~~~~~ 361 (837)
|. .||||||||||++||++++..++.+|..+++. .+++...+.+++++.|.|+ ||||||||..
T Consensus 312 E~-------~glITYpRTDS~~l~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~k~r~~n~~kv~aH~AI~PT~~--- 381 (670)
T PRK08174 312 ET-------HKATTYPRTDCGYLPESMFAEVPTVLDALLKTDPSLRPLMGQLDRSQRSRAWNDKKITAHHGIIPTLE--- 381 (670)
T ss_pred HC-------CCEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC---
T ss_conf 52-------88287258787756878999999999998612715555530035333466678765456778677888---
Q ss_pred CCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCC--CH
Q ss_conf 4000001999999999999999999852221100100136774079639999987488058856763267776321--00
Q gi|254780306|r 362 PSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKN--SE 439 (837)
Q Consensus 362 p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~--~~ 439 (837)
+..+ ..|++||++||+|||+|||||||+||+|++|+|.+.+.+ ..|+++|++++|+||++||....+++++ ..
T Consensus 382 ~~~~-~~Ls~de~klY~LI~~RflAs~m~~a~~~~t~v~~~~~~----~~F~a~g~~i~~~Gw~~v~~~~~~~~~~~~~~ 456 (670)
T PRK08174 382 PADL-SKMSEKELAVYRLIRAHYLAQFLPHHEFDRTVATFDCGG----QLLRAVGKQIVVPGWKVLFAEPLEEDDGDEAP 456 (670)
T ss_pred CCCH-HHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECC----CEEEEEEEEEEECCHHHHHCCCCCCCCCCCCC
T ss_conf 7880-349999999999999999998486321778899999789----38999879997477687626656653223342
Q ss_pred HHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHH-----------------HHCCCCCCCCHHHHHHHHHHCC
Q ss_conf 10148864568821100110111234643101789987433-----------------2102566551578999997322
Q gi|254780306|r 440 EDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM-----------------EEIGIGRPSTYATILETLYKRK 502 (837)
Q Consensus 440 ~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~m-----------------E~~GIGrPSTyA~II~~L~~R~ 502 (837)
.+..||.|++|+.+.+.++++.+|+|+||+||||||||++| |+.|||||||||+||++|++|+
T Consensus 457 ~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~ryTEasLi~~M~~~~k~v~d~~l~~~LkE~~GIGtpaTrA~II~~L~~R~ 536 (670)
T PRK08174 457 RSQVLPALREGQACQVADVELKALKTQPPKPYTEGTLIKAMKNVAKFVTDPRLKQKLKDTTGIGTEATRAGIIQGLLDRG 536 (670)
T ss_pred CCCCCCCCCCCCEEEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 22327765689766775546520315897998989999999863003365888876310578785036999999998679
Q ss_pred EEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 02214771222011420000223366556898899999999999862601347899998676766557667755666776
Q gi|254780306|r 503 YVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLD 582 (837)
Q Consensus 503 YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d 582 (837)
||+.++++|+||++|+.|+++|.. .+++++|||.||.+||+|++|+.+|.+||.+|+..+...++.......
T Consensus 537 Yv~~~~k~l~pT~~G~~li~~l~~---~l~~~~~Ta~~E~~Ld~I~~G~~~~~~f~~~~~~~~~~~v~~~~~~~~----- 608 (670)
T PRK08174 537 YLVKKGKALRATDAAFTLIDAVPA---AIADPGTTALWEQALDMIAAGQMTLDVFMAKQAAWVSQLVAQCGGQSL----- 608 (670)
T ss_pred CEEECCCEEEECHHHHHHHHHHHH---HCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCC-----
T ss_conf 898209876024899999997687---627967899999999999859988999999999999999998641544-----
Q ss_pred HHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 5567664102455556766114334677731368715776111234343233321001221000
Q gi|254780306|r 583 ILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDI 646 (837)
Q Consensus 583 ~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~ 646 (837)
.....+..+||+|+. .|.. +.||+|.||||||||+|+||.|+..+....
T Consensus 609 -------------~~~~~~~~~CP~Cg~-~l~~-r~~k~G~F~gCs~yP~Ck~t~p~~~g~~~~ 657 (670)
T PRK08174 609 -------------SIKVPPSPACPQCGA-PTRQ-RNGKSGPFWGCSRYPDCKGTLPVDSGKSKR 657 (670)
T ss_pred -------------CCCCCCCCCCCCCCC-EEEE-EECCCCCEEECCCCCCCCCCCCCCCCCCCC
T ss_conf -------------457998997878997-5036-706887378699998888852289999777
No 17
>PRK07141 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1300.31 Aligned_cols=592 Identities=34% Similarity=0.573 Sum_probs=515.7
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCC---CCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEEC
Q ss_conf 1899779047877887508998999942511007865---5786766674406887765489999999998709989994
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAK---KGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILA 78 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~---~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilA 78 (837)
+|||||||||||+|++|||++|.|+||+|||+||+.. ++++++++ |.|.|.++++++++++.|++++++||+||||
T Consensus 4 ~LiIaEkPs~ak~Ia~~LG~~y~Vt~~~GHl~~L~~~~~~~~~~~~~~-w~p~~~~~~~kk~~~k~ik~l~k~ad~viiA 82 (622)
T PRK07141 4 KLVIVESPNKVKTISKYLGSDYNVTASVGHIAKLSKSGQFGLGIDFEN-WEPLYVLDPTKKKVIKELKKAAKKAKEVYIA 82 (622)
T ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEECCCHHCCCCCCCCCCCCCHHH-CCEEEEECCCHHHHHHHHHHHHHCCCEEEEC
T ss_conf 399983879999999984939899972033541888544688877677-8675786753899999999999669999988
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHH
Q ss_conf 69970257999999999755125788716999980379899999986226469899999999999898740113789886
Q gi|254780306|r 79 TDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQ 158 (837)
Q Consensus 79 tD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~r 158 (837)
||||||||+|||||+++++ +++|++|+||||||++||++||+||+++|++|++||+|||++|||||||+||+||+
T Consensus 83 tD~DREGE~I~~~i~~~~~-----~~~~v~R~~f~~iT~~aI~~A~~n~~~~~~~l~~A~~aR~~~D~lvG~nlSr~l~~ 157 (622)
T PRK07141 83 TDPDREGEAIGQNLVDYLK-----LKDKYKRIKYNEITKDAILEALENPTMLDQNLINAQKTRRMLDRIIGFRLSKLMKS 157 (622)
T ss_pred CCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEECCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf 8987130599999999828-----99983799982389999999985878533105589999999999706202299999
Q ss_pred HCC---CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHH
Q ss_conf 414---67653422689999999999996413765440012233157996542233103583303310113566677764
Q gi|254780306|r 159 KLP---GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLIS 235 (837)
Q Consensus 159 k~~---~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~ 235 (837)
+++ +.+||||||||||+|||+||+||++|+|++||.|.+.|... ..+.+.+...+....++. +.++++++++..
T Consensus 158 ~~~~~~~~lS~GRVQTPtL~lVveRe~eI~~F~p~~y~~i~a~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 234 (622)
T PRK07141 158 KLSNAPSNPSAGRVQSIALKLVIDREKEIEAFVPEKYFNLEAKIENS--NSLDAEYFNENNEAGDKN-WINEEEIDEIKA 234 (622)
T ss_pred HHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEEEEECC--CCEEEEEECCCCCCHHHC-CCCHHHHHHHHH
T ss_conf 85477888776652228899999999999737870279999999348--733789703554203321-479999999999
Q ss_pred HH-CCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHH
Q ss_conf 20-01563010000233222468521037999998876088899999999876213556721224553147554444305
Q gi|254780306|r 236 FV-KKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPD 314 (837)
Q Consensus 236 ~~-~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~e 314 (837)
.+ .+..++|.+++.++.+..||+||+|++||+.| +|||++||++||+|||+++. .||||||||||++||++
T Consensus 235 ~~~~~~~~~V~~v~~~~~~~~~p~pf~~s~l~k~~----~~sa~~tl~iaQ~LYE~~~~----~GlITYpRTDs~~ls~~ 306 (622)
T PRK07141 235 EILKNKKLIVKKIKVSTRKDPKLTPFKQAVLYKKS----QYSSASVQSALQKLYEGYGD----GGLISYPRTDSTRLSQT 306 (622)
T ss_pred HHHCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHH----CCCHHHHHHHHHHHHHHHCC----CCEEEEECCCCCCCCHH
T ss_conf 87237986999965245357998985168999885----77988999999999963165----86399767888536999
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHC--CCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6899997655200112376311112556668877765247730234640000--01999999999999999999852221
Q gi|254780306|r 315 ALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMK--QFLDSDQFQLYNLIWKRSVASQMASA 392 (837)
Q Consensus 315 a~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~--~~L~~de~klY~LI~~R~lasqm~~a 392 (837)
+++.++++|...||.+|++...+. .+|+|+||||||||++..+|+... ..|+++|++||+|||+|||||||+||
T Consensus 307 ~~~~~~~~i~~~~~~~~~~~~~k~----~~~~~~aH~AI~PT~~~~~p~~~~~~~~L~~~e~klY~LI~rrflas~~~~a 382 (622)
T PRK07141 307 FINKAKKYIEKKFGPEYVSKSIKG----FAGDQDAHEAIRPTDLELLPELAREKYDLGQIEYQIYKLIYNTTLQALMTPP 382 (622)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC----CCCCCCCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCHH
T ss_conf 999999999986556552243146----6676666676157886768133124457999999999999999999637666
Q ss_pred EECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCC
Q ss_conf 10010013677407963999998748805885676326777632100101488645688211001101112346431017
Q gi|254780306|r 393 KFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYS 472 (837)
Q Consensus 393 ~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~ryt 472 (837)
+++.|+|.+.+.+ ..|.++|++++++||+.+|... ++..||.+++|+.+.+.++.+++++|+||+|||
T Consensus 383 ~~~~t~v~~~~~~----~~F~~~g~~i~~~Gw~~v~~~~--------~~~~lP~l~~g~~~~~~~~~~~~~~TkPP~ryT 450 (622)
T PRK07141 383 VRKITRYTLENDK----HIFKLSYSKVTFDGYYKVTGFP--------ELKFDPKYEIGQSIEVKEFVVEDKETKPPARYN 450 (622)
T ss_pred EEEEEEEEEEECC----EEEEEEEEEEEECCEEEECCCC--------CCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCC
T ss_conf 0054899997389----8999987999987788941675--------445599888899867768898743338998869
Q ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCH
Q ss_conf 89987433210256655157899999732202214771222011420000223366556898899999999999862601
Q gi|254780306|r 473 ESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKL 552 (837)
Q Consensus 473 EasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~ 552 (837)
|||||++||+.|||||||||+||++|++|+||..++++|+||++|++|+++|..+||++++++|||.||+.||+|++|+.
T Consensus 451 EasLi~~Me~~gIGtpATrA~iIe~L~~R~Yv~~~~k~l~pT~~G~~l~~~L~~~~~~l~~~~~Ta~~E~~Ld~I~~G~~ 530 (622)
T PRK07141 451 DGSLIEKLDDIKVGRPSTFASTVKILKDRLYVDSESKALVPTDFGKIVLEKLIIGFPEIINEKYTAQVEEELDLIAEGKI 530 (622)
T ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCC
T ss_conf 99999998747998520299999999757738941977746374999999999861664493789999998999985998
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCC--CCCCCCCCC
Q ss_conf 347899998676766557667755666776556766410245555676611433467773136871577--611123434
Q gi|254780306|r 553 NWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKY--GAFVGCTNY 630 (837)
Q Consensus 553 ~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~--G~FigCSny 630 (837)
+|.+||++||..|...++.+.+... ... .....+...||+|++ .|.++. +++ |.|||||||
T Consensus 531 ~~~~~l~~~~~~~~~~~~~~~~~~~------------~~~---~~~~~~~~~CP~Cg~-~l~~r~-~~~g~~~F~gCs~y 593 (622)
T PRK07141 531 DYKKVLEDFWSKFENTYDDASKTME------------KTI---MEPEFLGESCPDCNG-DLVYRN-NRKGDQRFIGCSNF 593 (622)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH------------HCC---CCCCCCCCCCCCCCC-CEEEEE-CCCCCCEEEECCCC
T ss_conf 6999999999999999999987554------------314---776667998878998-225787-36889869878999
Q ss_pred CCCCCCCCCCCCC
Q ss_conf 3233321001221
Q gi|254780306|r 631 PECKYTRQLTSNP 643 (837)
Q Consensus 631 PeCk~t~~l~~~~ 643 (837)
|+|+||.+.....
T Consensus 594 p~Ck~t~~~~~~~ 606 (622)
T PRK07141 594 PNCRFTRSYEDAK 606 (622)
T ss_pred CCCCCCEECCCCC
T ss_conf 8888811678887
No 18
>PRK07220 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1278.94 Aligned_cols=614 Identities=28% Similarity=0.421 Sum_probs=516.9
Q ss_pred CCEEEECCHHHHHHHHHHHCC---------------------CCEEEEEECCCEEC--CCCC---CCCCCCCCCCEEEEE
Q ss_conf 918997790478778875089---------------------98999942511007--8655---786766674406887
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGS---------------------NYKVLSSFGHIRDL--PAKK---GSVLPEKEFEMIWNI 54 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~---------------------~y~V~as~GHirdL--p~~~---~~v~~~~~f~p~y~v 54 (837)
|+||||||||+||+||++||. +++|+|++|||.+| |... ..++|.+.|.+.|..
T Consensus 1 M~LiIAEKPsvAk~IA~~Lg~~~~~~~~~~g~~~y~~~~~~~~~ivt~~~GHL~~ld~P~~y~~W~~~d~~~l~~~~~~~ 80 (740)
T PRK07220 1 MHLIITEKNIAARRIAQILAPKSPKETKVSGVDVYRYEERRQETVVVGLSGHIVGIDFPEEYNNWQKVDPRDLIDAEIIT 80 (740)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCEEEEEECCEECCCCCCCCCCCCCCCCHHHCCCCCEEE
T ss_conf 98999778699999999858999877610586632674058817999604520356685013776727865648864576
Q ss_pred CCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHH
Q ss_conf 76548999999999870998999469970257999999999755125788716999980379899999986226469899
Q gi|254780306|r 55 DPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDL 134 (837)
Q Consensus 55 ~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~L 134 (837)
.+.++++++.|++++++||+||||||||||||+||||++++++.. .++.+|+|+||||||++||++||+||+++|++|
T Consensus 81 ~~~~kki~~~Lk~l~k~ad~ViiAtD~DREGE~I~~e~~~i~~~~--~~~~~v~R~~fseiT~~aI~~A~~n~~~~d~~L 158 (740)
T PRK07220 81 TPTNKKIVTALRKLGKEADRVTIATDYDREGELIGVEALNIIKEV--NPDIPFDRVRFSAITKKEIERAFSNPVEVDFNL 158 (740)
T ss_pred CCCHHHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHHHC--CCCCEEEEEEEECCCHHHHHHHHHCCCCCCHHH
T ss_conf 676489999999998179999989889746489999999999860--899705899970589999999996875358878
Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHCC----CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEE
Q ss_conf 999999999898740113789886414----6765342268999999999999641376544001223315799654223
Q gi|254780306|r 135 VNAYLARRALDYLVGFNLSPILWQKLP----GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAH 210 (837)
Q Consensus 135 v~A~~aRr~lD~lvG~~lSp~L~rk~~----~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~ 210 (837)
++||+|||++|||||||+||+||.+++ ..|||||||||||+|||+||+||++|+|++||+|.+.|.. ++..|.++
T Consensus 159 ~~A~~aR~~lD~lvG~nlSr~lt~~~~~~g~~~LSaGRVQTPtL~lIVeRe~EI~~F~p~~Yw~i~a~~~~-~~~~~~~~ 237 (740)
T PRK07220 159 ADAGEARQVIDLVWGAALTRYISLAAGRLGKMFLSVGRVQSPTLALIVDREKERNAFVPTPYWEIYAELEN-AGETFSAQ 237 (740)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC-CCCEEEEE
T ss_conf 99999999999984121658998997650677644231013889999999999984799642899999972-99049985
Q ss_pred EEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCC
Q ss_conf 31035833033101135666777642001563010000233222468521037999998876088899999999876213
Q gi|254780306|r 211 LTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEG 290 (837)
Q Consensus 211 l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~ 290 (837)
+ .+.++.++++|+.+.+.+. ..+.|.+|++++.+++||+||+||+|||+||+ |||||++||+|||+|||
T Consensus 238 ~--------~~~r~~d~~~a~~i~~~l~-~~~~V~~v~~k~~~~~pP~Pf~ts~Lq~~Ask-lg~Sa~~Tm~iAQ~LYe- 306 (740)
T PRK07220 238 H--------STRRFLDKEEADRVLEKLG-KKAEVKEIEKGEKTDQPPTPFNTTGFISAASS-IGFSPANAMRIAESLYT- 306 (740)
T ss_pred C--------CCCCCCCHHHHHHHHHHCC-CCCEEEEEEECCCCCCCCCCCCHHHHHHHHHH-CCCCHHHHHHHHHHHHC-
T ss_conf 0--------5677799999999999726-98489999835301489898767999999987-69979999999998742-
Q ss_pred CCCCCHHHHHHHHCCCCCCCCCHHH-H-HHHHHHHHHHCCC--CCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHC
Q ss_conf 5567212245531475544443056-8-9999765520011--2376311112556668877765247730234640000
Q gi|254780306|r 291 IDVNGEIVGLITYMRTDGVHMSPDA-L-EAVRRSITSHYGD--HYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMK 366 (837)
Q Consensus 291 ~~~~~~~~GlITYpRTDS~~ls~ea-~-~~~r~~i~~~~g~--~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~ 366 (837)
.||||||||||++++++. + ..+..+....|++ ..+....+...++.++.++||||||||+... .
T Consensus 307 -------~GlITYpRTDS~~lp~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~AI~PT~~~~-----~ 374 (740)
T PRK07220 307 -------NGYISYPRTDNTVYPESLDLRAQLEIFAEGPFGEYADKLLEKGELVPTRGKKETTDHPPIYPASLAK-----K 374 (740)
T ss_pred -------CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC-----C
T ss_conf -------8832146666540650276999999998605788899750157667786522101333435556566-----4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCC
Q ss_conf 01999999999999999999852221100100136774079639999987488058856763267776321001014886
Q gi|254780306|r 367 QFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPY 446 (837)
Q Consensus 367 ~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~ 446 (837)
..|++||++||+|||+|||||||+||+|++++|.+.+.+ ..|+++|++++|+||+++|.... .++..||.
T Consensus 375 ~~L~~de~klY~LI~rRflAs~m~~a~~~~t~v~~~~~~----~~F~a~G~~i~~~Gw~~vy~~~~------~~d~~LP~ 444 (740)
T PRK07220 375 SDLKEDEWKVYELVVRRFFATLAGPATWETMRLRFDIGG----EEFKANGARLLEQGWRWYYPYNR------PEDRLLPE 444 (740)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECC----EEEEEEEEEEEECCHHHHCCCCC------CCCCCCCC
T ss_conf 559999999999999999997373543032899999899----89998658996376798617776------41001887
Q ss_pred CCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCC
Q ss_conf 45688211001101112346431017899874332102566551578999997322022147712220114200002233
Q gi|254780306|r 447 ISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLEN 526 (837)
Q Consensus 447 l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~ 526 (837)
|++|+.+.+.++++.+++|+||+||||||||++||+.|||||||||+||++|++|+|| ++++|+||++|++|+++|++
T Consensus 445 l~~Ge~~~~~~~~~~~k~TkPP~ryTEasLIk~ME~~GIGtpATrA~iIe~L~~R~YV--e~~~l~PT~~G~~v~~~L~~ 522 (740)
T PRK07220 445 LSEGDILKVIKKEMLDKETQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAYI--HGNPIQPTNTSFAVVDALEK 522 (740)
T ss_pred CCCCCEEEEEEEEEEEECCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCC--CCCCCCCCHHHHHHHHHHHH
T ss_conf 7789885666778873004899888989999999738998500499999999861883--28865254799999999987
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECC
Q ss_conf 66556898899999999999862601347899998676766557667755666776556766410245555676611433
Q gi|254780306|r 527 FFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCP 606 (837)
Q Consensus 527 ~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp 606 (837)
+|++|++|+|||.||++||+|++|+.+|.+||++|+..|...+..+.+.. .++.+. .........+.+.||
T Consensus 523 ~~~~l~~p~~Ta~~E~~Ld~Ia~Gk~~~~~vl~e~~~~~~~~~~~~~~~~-~~i~~~--------~~~~~~~~~~~~~CP 593 (740)
T PRK07220 523 YAPTITKPDMTKLLEEDMDLIAEGKIKEDAVLEESREMLEQVFDELDKNR-EKIIES--------LQAGLREDKIIGKCS 593 (740)
T ss_pred HCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH--------HHHCCCCCCCCCCCC
T ss_conf 23453591279999999999986999899999999999999999999989-999987--------653023677789788
Q ss_pred CCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 46777313687157761112343432333210012210000123442014689999669998
Q gi|254780306|r 607 ECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLR 668 (837)
Q Consensus 607 ~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk 668 (837)
+|+.+.+ +++++++|.||||||||+|+||.||.....-. . . =..||.||.+++--
T Consensus 594 ~Cg~~l~-~r~~k~g~~FigCs~YP~C~~t~pLp~~g~~~-~-~----~~~C~~~~~~~~~~ 648 (740)
T PRK07220 594 LCGSELM-VRRSKRGSRFIGCSGYPNCTFSLPLPKSGQII-V-T----DKVCEAHGLHHIKI 648 (740)
T ss_pred CCCCCCE-EEECCCCCEEEECCCCCCCCCCEECCCCCCEE-E-C----CCCCCCCCCEEEEE
T ss_conf 8996004-77458799788589899999852269998463-4-7----88687799837999
No 19
>PRK07219 DNA topoisomerase I; Validated
Probab=100.00 E-value=0 Score=1268.54 Aligned_cols=660 Identities=24% Similarity=0.382 Sum_probs=535.6
Q ss_pred CCEEEECCHHHHHHHHHHHCCC---------------------CEEEEEECCCEEC--CCCC--C-CCCCCCCCCEEEEE
Q ss_conf 9189977904787788750899---------------------8999942511007--8655--7-86766674406887
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSN---------------------YKVLSSFGHIRDL--PAKK--G-SVLPEKEFEMIWNI 54 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~---------------------y~V~as~GHirdL--p~~~--~-~v~~~~~f~p~y~v 54 (837)
|+||||||||+|++||++||.+ +.|+|++|||.+| |... + ..++..-|...+..
T Consensus 4 MkLiIAEKPSvAr~IA~~L~~g~~k~~~~~g~~y~ef~~~g~~~~vt~~~GHl~el~~p~~y~~W~~~~l~~l~~~~~~~ 83 (769)
T PRK07219 4 FRLIIAEKMDAGRRIAYFLSKGTSKQKRSKGSSYIEFESNGEKTVLIPLSGHIVEADFPSDFSDWLKSDLNLLIDARIVK 83 (769)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCEEEEEECCCCCCCCCCCCCCCCCCCCCHHHCCCCCEEE
T ss_conf 68999877699999999737998666556787459995179679999725422345678567877768720158864142
Q ss_pred CCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHH
Q ss_conf 76548999999999870998999469970257999999999755125788716999980379899999986226469899
Q gi|254780306|r 55 DPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDL 134 (837)
Q Consensus 55 ~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~L 134 (837)
....+++++.|++++++||+||||||||||||+|||||+++|+. .+.+|+|+||||||++||++||+|||++|++|
T Consensus 84 ~~~~k~~~~~Lk~lak~ad~IilAtDpDREGE~I~~~i~~~l~~----~~~~v~Ri~f~eiT~~aI~~A~~n~~~~d~~L 159 (769)
T PRK07219 84 NVKNKRAYQTLKNFKGKADEIIIATDYDREGELIGVEALDIIKE----GKENIKRAKFSALTEKEINDAFSNTINVNYNL 159 (769)
T ss_pred CCCCHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCC----CCCCCEEEEEECCCHHHHHHHHHCCCCCCHHH
T ss_conf 47618999999999816999998988870434999999998522----59984689981489999999996852046889
Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHCC----CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEE
Q ss_conf 999999999898740113789886414----6765342268999999999999641376544001223315799654223
Q gi|254780306|r 135 VNAYLARRALDYLVGFNLSPILWQKLP----GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAH 210 (837)
Q Consensus 135 v~A~~aRr~lD~lvG~~lSp~L~rk~~----~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~ 210 (837)
|+||+|||++|||||||+||+||.+.+ ..|||||||||||+|||+||+||++|+|++||+|.+.|.. +..|.+.
T Consensus 160 ~~A~~aRr~lD~lvG~nlSr~lt~~~~~l~~~~LSaGRVQTPtL~lIveRe~EI~~F~pe~yw~i~~~~~~--~~~f~a~ 237 (769)
T PRK07219 160 ADAADARESIDLIWGAVLTRFFSIATGRLGKDFLSAGRVQTPTLAIVVKREREIRSFVPEKYWTISITFNK--NGDFDAY 237 (769)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC--CCCEEEE
T ss_conf 99999999999998631068988887641456666452000778999999999983799534899999804--8826885
Q ss_pred EEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCC
Q ss_conf 31035833033101135666777642001563010000233222468521037999998876088899999999876213
Q gi|254780306|r 211 LTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEG 290 (837)
Q Consensus 211 l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~ 290 (837)
+ ..++.|+++|+.+++.+++..++|.+|++++.+++||+||+||+|||+|| +|||||++||+|||+|||
T Consensus 238 ~---------~~~~~d~~~a~~i~~~l~~~~~~V~~v~~k~~~~~pP~Pf~tstLQq~As-rlg~s~~kTm~iAQ~LYe- 306 (769)
T PRK07219 238 Y---------NNELKDRDTAEKIFSEIKGMPGRVKSFDKEEYYIRRPAPFSTTEFLREAS-RIGIMPTKAMSIAEKLYM- 306 (769)
T ss_pred C---------CCCCCCHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHH-HCCCCHHHHHHHHHHHHH-
T ss_conf 4---------76668999999999997289947999972221026999978389999998-718999999999998864-
Q ss_pred CCCCCHHHHHHHHCCCCCCCCCHHH-HHHHHHHHH----HHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHH
Q ss_conf 5567212245531475544443056-899997655----20011237631111255666887776524773023464000
Q gi|254780306|r 291 IDVNGEIVGLITYMRTDGVHMSPDA-LEAVRRSIT----SHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKM 365 (837)
Q Consensus 291 ~~~~~~~~GlITYpRTDS~~ls~ea-~~~~r~~i~----~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~ 365 (837)
.||||||||||++++++. +..+...+. ..|+.+++. ..+.+.++.++.++||||||||++.
T Consensus 307 -------~GlITYpRTDS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~k~~~~~H~aI~PT~~~------ 372 (769)
T PRK07219 307 -------RGLISYPRTDNTVYPRSINLKSVLEKLKKSEYSMYVDEILS-QEKILPSRGRTETTDHPPIYPVSVP------ 372 (769)
T ss_pred -------CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCCCCCCCCCCCCCC------
T ss_conf -------89544677654225610329999999876467888987414-4556776444442335575646677------
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCC
Q ss_conf 00199999999999999999985222110010013677407963999998748805885676326777632100101488
Q gi|254780306|r 366 KQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLP 445 (837)
Q Consensus 366 ~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP 445 (837)
...|+.||++||+|||+|||||||+||+|++++|.+.+.+ +.|+++|++++|+||++||.... .+..||
T Consensus 373 ~~~Ls~de~klY~LI~~RflAs~m~~a~~~~t~v~i~~~~----~~F~asG~~i~~~Gw~~vy~~~~-------~d~~LP 441 (769)
T PRK07219 373 KEELKGDYKRIYDLILRRFLSTLYRDGVKTVSEAEIDVNG----YDFIAEGNITTDNGWYDIYGYKS-------RDYFVP 441 (769)
T ss_pred CHHCCHHHHHHHHHHHHHHHHHHCHHHEEEEEEEEEEECC----CEEEEEEEEEEECCHHHHHCCCC-------CCCCCC
T ss_conf 0016999999999999999998480244788999999689----58999989993558798608875-------446589
Q ss_pred CCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCC
Q ss_conf 64568821100110111234643101789987433210256655157899999732202214771222011420000223
Q gi|254780306|r 446 YISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLE 525 (837)
Q Consensus 446 ~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~ 525 (837)
.|++|+.+.+.++++.+|+|+||+||||||||++||+.|||||||||+||+||++|+|| ++++|+||++|++|+++|.
T Consensus 442 ~l~~g~~~~~~~~~~~~~~T~PP~ryTEasLIk~ME~~GIGrpSTyA~iI~tL~~R~YV--e~~~l~PT~lG~~v~~~l~ 519 (769)
T PRK07219 442 DLEEGEVLNGRDWELQEKETKPPPRYDMSSLLKKMESLNLGTKSTRHDIIGKLISRGFI--EGNPVKPTPLGEAFIDAVI 519 (769)
T ss_pred CCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCC--CCCCCEECHHHHHHHHHHH
T ss_conf 88889872344788763252799987999999988617998501599999999863875--0897507688999999998
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEC
Q ss_conf 36655689889999999999986260134789999867676655766775566677655676641024555567661143
Q gi|254780306|r 526 NFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTC 605 (837)
Q Consensus 526 ~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~C 605 (837)
++|++|++++|||+||++||+|++|+.+|.+||++||..|...+..+... ..++.+.+...+ ..+.....|
T Consensus 520 ~~~~~l~~~~~Ta~~E~~Ld~I~~G~~~~~~vl~e~~~~~~~~~~~~~~~-~~~~~~~~~~~~--------~~~~~~~~c 590 (769)
T PRK07219 520 SVNSRIADPEMTAKLEMDMDKIESGTMSKDDVVNESKKMLHSVLNDFQGK-TSDVKKIINDGI--------NAGESLGRC 590 (769)
T ss_pred HHCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH--------CCCCCCCCC
T ss_conf 73545339267899999999998489879999999999999999999998-999998875432--------134445777
Q ss_pred CCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEE--EEEECCCCCEEEECCCCC
Q ss_conf 346777313687157761112343432333210012210000123442014689999669--998269742277348877
Q gi|254780306|r 606 PECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESV--TLRSGRFGLYVQRGDGKD 683 (837)
Q Consensus 606 p~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I--~lk~GryGpYvq~Ge~~k 683 (837)
|.|..+.+.++ .+++|.|++|++ |+|+++.++..+..- +.. + -.||.||.+| +.|.|+||..-..+ ++
T Consensus 591 p~~~g~~l~~~-~~~~~~~~~c~~-p~C~~~~~~~~~g~~--~~~-~---~~Cp~Cg~~~ik~~~~g~~~~~~c~~--P~ 660 (769)
T PRK07219 591 PFHDGNELFLI-KDRFTYKIRCED-ENCRIDFNIKSNGSI--QLN-D---QKCPVCGLPMIKIIRKGQSPEVKCID--PA 660 (769)
T ss_pred CCCCCCCEEEE-ECCCCCEEECCC-CCCCCCCCCCCCCCE--EEC-C---CCCCCCCCHHHHEECCCCCCCCCCCC--CC
T ss_conf 65567520465-045550242278-776653335778850--016-8---86878895255012466687740599--98
Q ss_pred CCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCC-EEEECCEECCCC
Q ss_conf 7613378998842548999999861525515777898749991158765-261678111248
Q gi|254780306|r 684 AKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGY-YLNHDGAYTKLE 744 (837)
Q Consensus 684 pkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGp-Yi~~~~~~~sl~ 744 (837)
.+. ++. +-.+|.||+||..++.+.+|+|- |+.|.+ |..+.
T Consensus 661 C~~-----~~~---------------~~~~~~CP~cgg~lv~r~sk~gk~F~gCs~-yP~C~ 701 (769)
T PRK07219 661 CDY-----NKE---------------KEDYGECPADGGRLVLRQSRYGKRFLGCSN-YPKCT 701 (769)
T ss_pred CCC-----CCC---------------CCCCCCCCCCCCEEEEECCCCCCEEECCCC-CCCCC
T ss_conf 878-----778---------------777722889997799863789985651799-99997
No 20
>PRK07726 DNA topoisomerase III; Provisional
Probab=100.00 E-value=0 Score=1173.37 Aligned_cols=598 Identities=23% Similarity=0.379 Sum_probs=490.0
Q ss_pred CCEEEECCHHHHHHHHHHHC-----------------CCCEEEEEECCCEECCCC-------------CCCCCCCCCCCE
Q ss_conf 91899779047877887508-----------------998999942511007865-------------578676667440
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLG-----------------SNYKVLSSFGHIRDLPAK-------------KGSVLPEKEFEM 50 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg-----------------~~y~V~as~GHirdLp~~-------------~~~v~~~~~f~p 50 (837)
|+|||+||||+|+.||..|| ++|.|+||+||+.+|... .+++.|+. |
T Consensus 1 M~LiIAEKPsvA~~iA~~l~~~k~~Gy~e~~~~~~~~~~~~vtwa~GHL~~L~~P~~y~~~~k~W~~~~LPiiP~~-f-- 77 (716)
T PRK07726 1 MKLIIAEKPDQGLALASQFKYRRKDGYLEVEANELFPNGAYCTWAIGHLTQLCNPEHYHAEWKKWSLDTLPIIPER-F-- 77 (716)
T ss_pred CEEEEEECHHHHHHHHHHCCCCCCCCEEECCCCCCCCCCEEEEEECCCEEECCCHHHHCHHCCCCCHHHCCCCCHH-C--
T ss_conf 9799980889999999862877778737616654238985999971503211685562432065874426877532-2--
Q ss_pred EEEECCCHHHHHHHHHHHHHHCC--EEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC
Q ss_conf 68877654899999999987099--8999469970257999999999755125788716999980379899999986226
Q gi|254780306|r 51 IWNIDPSSQKHLQNIIHAVKSST--ILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR 128 (837)
Q Consensus 51 ~y~v~~~~kk~~~~i~~~~k~a~--~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r 128 (837)
.|.+.+++++|++.|++|++++| +||+|||||||||+|+|||+++++ +++|++|+|||++|++||++||+|++
T Consensus 78 ~~~~~~~~~~q~~~ik~L~~~~dv~~ii~AtD~DREGE~I~~~I~~~~~-----~~kpvkRl~~sslT~~aI~~a~~nl~ 152 (716)
T PRK07726 78 QYEVTKSKYKQFNVVKQLLHNPQVTEIIHAGDAGREGELIVRNIINLCN-----VQKPMKRLWISSLTKQAIYQGFKNLL 152 (716)
T ss_pred EEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEECCCHHHHHHHHHCCC
T ss_conf 2466746699999999998648999899915887334999999999728-----99974889971389999999997077
Q ss_pred --CCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHC-----CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEC
Q ss_conf --46989999999999989874011378988641-----46765342268999999999999641376544001223315
Q gi|254780306|r 129 --DINLDLVNAYLARRALDYLVGFNLSPILWQKL-----PGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLET 201 (837)
Q Consensus 129 --~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~-----~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~ 201 (837)
+.+++|++|++|||++|||||||+||+++..+ .+.+|+||||||||+|||+||+||++|+|++||+|.+.|..
T Consensus 153 ~~~~~~~L~~aa~aR~~~DwlvG~n~SR~~t~~~~~~g~~~~lS~GRVQTPtL~lIv~Re~eI~~F~p~~y~~i~a~~~~ 232 (716)
T PRK07726 153 DESDTINLYYEAYTRSCADWLVGMNASRVYSILLKKKGMNDVFSAGRVQTPTLALIVKREKEIENFKSEPFWEVFATFNI 232 (716)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCEECCHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEE
T ss_conf 61333589999999999998717510347788876427767644551111678999999999984899643899999997
Q ss_pred CCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf 79965422331035833033101135666777642001563010000233222468521037999998876088899999
Q gi|254780306|r 202 PRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTM 281 (837)
Q Consensus 202 ~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm 281 (837)
++..|.++|... ...++.+++.|+++.+.+.+..+.|.++++++.+.+||+||+||+||++||++|||||++||
T Consensus 233 -~~~~~~~~~~~~-----~~~r~~d~~~a~~i~~~~~~~~~~V~~v~~k~k~~~PP~pf~ls~LQ~~A~~~~g~sa~~Tl 306 (716)
T PRK07726 233 -EGKKYEGKWEKD-----NESRLKDPDMANKIAAFCQGKPAVVKEMKTERKEFQPPLLFNLSSLQATANKAFKFSPKKTL 306 (716)
T ss_pred -CCEEEEEEEECC-----CCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHH
T ss_conf -891799999527-----76745899999999999648984999998424665899987789999999987298999999
Q ss_pred HHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCC----CCCCCC-CCCCC-CCCCCCCC--CCCCCE
Q ss_conf 99987621355672122455314755444430568999976552001----123763-11112-55666887--776524
Q gi|254780306|r 282 RIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYG----DHYLPE-KPRIY-SSKSKNAQ--EAHEAI 353 (837)
Q Consensus 282 ~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g----~~~l~~-~~r~y-~~k~k~aQ--eAHeAI 353 (837)
++||+||| .||||||||||+|||++....++.++..+.+ ..+++. ..... +++..|.. .+||||
T Consensus 307 ~iAQ~LYE--------~glITYPRTDS~~ls~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~r~~~~~kv~dH~AI 378 (716)
T PRK07726 307 DITQKLYQ--------KGIVSYPRSDSNYVTQGEAATFPDILQKLSQFDEYKGLLPLPVESIMNNKRYVNEKKVTDHYAI 378 (716)
T ss_pred HHHHHHHH--------CCCEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHCCCCCCCHHCCCCCCCCCCCCCCCCC
T ss_conf 99999985--------6962006877764798999999999998535643101034421110014554574555677675
Q ss_pred EEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCC
Q ss_conf 77302346400000199999999999999999985222110010013677407963999998748805885676326777
Q gi|254780306|r 354 RPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYD 433 (837)
Q Consensus 354 rPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~ 433 (837)
|||+....+ ..|+.+|++||+|||+|||||||+||+|+.|+|...+.++ ..|+++|++++++||++||....
T Consensus 379 iPT~~~~~~----~~Ls~dE~kiY~LI~rRfLA~f~~~a~~~~t~v~~~~~g~---~~F~~~G~~i~~~Gw~~v~~~~~- 450 (716)
T PRK07726 379 IPTEQVTNP----SKLSGDEKKIYDLIVRRLIAAHYEVAIFDYTTIVTLVDER---AEFISKGKQQIQEGWRKVIFQDD- 450 (716)
T ss_pred CCCCCCCCH----HHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECCC---EEEEEEEEEEEECCHHHHCCCCC-
T ss_conf 774456891----5589999999999999999985850167559999995696---59999522998679798508776-
Q ss_pred CCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHH-----------------CCCCCCCCHHHHHH
Q ss_conf 6321001014886456882110011011123464310178998743321-----------------02566551578999
Q gi|254780306|r 434 QEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEE-----------------IGIGRPSTYATILE 496 (837)
Q Consensus 434 ~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~-----------------~GIGrPSTyA~II~ 496 (837)
.+++..||.|++|+.+.+.++++.+++|+||+||||||||++||. .|||||||||+||+
T Consensus 451 ----~~~e~~LP~l~~Ge~~~~~~~~~~e~~TkPP~ryTEatLl~aMe~~gk~v~d~el~~~lk~~~GIGTpATRA~IIe 526 (716)
T PRK07726 451 ----KDDETILPIVAEGEEGKVVKVKVKEGKTQPPKRYTEGQLITLMKTAGKYLENEELEKVLKKTEGLGTEATRAGIIT 526 (716)
T ss_pred ----CCCCCCCCCCCCCCEEEEEEEEEEEECCCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCHHHHHH
T ss_conf ----6543448988999987653306642015899987999999999742101387999998754568888410899999
Q ss_pred HHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99732202214771222011420000223366556898899999999999862601347899998676766557667755
Q gi|254780306|r 497 TLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLR 576 (837)
Q Consensus 497 ~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~ 576 (837)
+|++|+||++++++|+||++|+.|++.|... .|++++|||.||..|++|+.|+.+|.+||++++.-+...++++....
T Consensus 527 ~L~~r~Yi~~~~k~l~pT~~G~~li~~l~~~--~l~~p~~Ta~wE~~L~~I~~G~~~~~~f~~~i~~~~~~~v~~~~~~~ 604 (716)
T PRK07726 527 MLKDRKYIDVKKNQVYATDKGKVLIEAIGDK--ILASPEMTAKWEQRLAEIGEGTASPATFMEQTKKLSAKIIEDAVEMS 604 (716)
T ss_pred HHHHCCCEEECCCEEEECHHHHHHHHHHCHH--HCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9874571441098751768999999862975--43894789999999999986998999999999999999999998654
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCC--CCCCCCCCCC
Q ss_conf 666776556766410245555676611433467773136871577611123434--3233321001
Q gi|254780306|r 577 ISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNY--PECKYTRQLT 640 (837)
Q Consensus 577 ~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSny--PeCk~t~~l~ 640 (837)
......................+...+.||+|++ .+.. .|.|+||||| |+|+|+..-.
T Consensus 605 ~~~~~~~~~~~~~~~~~~~~~~~~~ig~CP~Cg~-~v~~-----~~k~~~Cs~y~~~~C~F~i~k~ 664 (716)
T PRK07726 605 EKWDFTGLDVESIERKGSKFTTGKKVGSCKKCDG-DVID-----KGTFYGCSNYNTTQCDFTISKK 664 (716)
T ss_pred HHCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCC-EEEE-----CCEEEECCCCCCCCCCEEEECE
T ss_conf 3024344331110000343335771665999999-8377-----6758973799899999795134
No 21
>PRK09401 reverse gyrase; Reviewed
Probab=100.00 E-value=0 Score=1187.21 Aligned_cols=513 Identities=35% Similarity=0.535 Sum_probs=451.6
Q ss_pred CEEEECCHHHHHHHHHHHCCC----------C---------EEEEEECCCEECCCCC--CCCCC-CCCCCEEEEECC---
Q ss_conf 189977904787788750899----------8---------9999425110078655--78676-667440688776---
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSN----------Y---------KVLSSFGHIRDLPAKK--GSVLP-EKEFEMIWNIDP--- 56 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~----------y---------~V~as~GHirdLp~~~--~~v~~-~~~f~p~y~v~~--- 56 (837)
-|||||||+||||||.|+|+- | .|+||.|||.||+... .||.. ++.|.|.|..+.
T Consensus 602 ~L~IVESP~KArTIa~FfGkps~R~~~~~~vyE~~~~d~~L~ItAs~GHv~DL~t~~g~~GV~~~~~~fiPvY~~IkrC~ 681 (1176)
T PRK09401 602 ALLIVESPTKARTIANFFGRPSRRRVGGLVVYEVVTGDKILLITASGGHVYDLTTDEGYYGVLVGNGKFVPVYNSIKRCR 681 (1176)
T ss_pred EEEEEECCCHHHHHHHHCCCCEEEEECCEEEEEEECCCEEEEEEECCCEEEECCCCCCCEEEEEECCEEEEEEHHHHHHH
T ss_conf 69999378058999987189705567887889986186589999537705761455762269963780898416676775
Q ss_pred ----------------------CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEC
Q ss_conf ----------------------5489999999998709989994699702579999999997551257887169999803
Q gi|254780306|r 57 ----------------------SSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNA 114 (837)
Q Consensus 57 ----------------------~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~e 114 (837)
++.++|+.|++++++||+||||||||||||+|||||+++|+.. +++++|++|||
T Consensus 682 ~cg~qft~~~~~cP~Cgs~~i~dk~~vv~aLR~lA~EvDeVyIATDPDREGEaIAwhl~~~Lk~~----~~~ikRI~FhE 757 (1176)
T PRK09401 682 DCGHQFTDESDRCPRCGSTNIDDKEEIIEALRELALEVDEVLIATDPDTEGEKIAWDVYLLLSPY----NPNIKRIEFHE 757 (1176)
T ss_pred HCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCEEEECCCCCCCCHHHHHHHHHHHCCC----CCCCEEEEEEC
T ss_conf 35860124666688778887566899999999998755989987899856389999999983554----89833799843
Q ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCE
Q ss_conf 79899999986226469899999999999898740113789886414-67653422689999999999996413765440
Q gi|254780306|r 115 ITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP-GARSAGRVQSVALRLICNRENQIESFVSEEYW 193 (837)
Q Consensus 115 iT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~-~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~ 193 (837)
||++||++||+|||++|+|||+||+|||++||||||+|||+||++++ .+|||||||||||+||||||+||+. ..||
T Consensus 758 ITk~AI~~Al~npr~Id~nLV~AQ~aRRilDRlVGf~LSp~Lwkk~~~~~LSAGRVQSpaL~lIVERE~E~k~---~~~~ 834 (1176)
T PRK09401 758 VTRRAILEALKNPRDVDENLVKAQIVRRIEDRWIGFELSQKLQKRFGKRNLSAGRVQTPVLGWIVERYKEYKK---KKGD 834 (1176)
T ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCEECHHHHHHCCCCCCCCCCCHHHHHHEEEECHHHHCC---CCCE
T ss_conf 4999999998495116988889999999999881572279999855889998661342411113351534225---3136
Q ss_pred EEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf 01223315799654223310358330331011356667776420015630100002332224685210379999988760
Q gi|254780306|r 194 SLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRL 273 (837)
Q Consensus 194 ~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~l 273 (837)
.+.+.+... ..+..+ ..+.++++|..+.+.++ .+.|.+++.++.+++|||||+||||||+||++|
T Consensus 835 ~~~~~~~~~--~~~~~~-----------~~~~~~~~a~~~~~~l~--~~~V~~ie~k~~~~~PppPFtTStLqqeAs~kL 899 (1176)
T PRK09401 835 VLVIKLENG--VGLELK-----------GEFEDKEEAKKFYEELK--VVDVEVLEEKEEELNPLPPYTTDTLLSDASRKL 899 (1176)
T ss_pred EEEEEECCC--CCCCEE-----------EEECCHHHHHHHHHHCC--CCEEEEEEEEEEECCCCCCCCHHHHHHHHHHHC
T ss_conf 988883367--774025-----------66377899999998426--858999860145248988965679999999876
Q ss_pred CCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCE
Q ss_conf 88899999999876213556721224553147554444305689999765520011237631111255666887776524
Q gi|254780306|r 274 GFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAI 353 (837)
Q Consensus 274 g~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAI 353 (837)
||||++||++||+||| .||||||||||+++|+++++.++++|.+.||++|+ .|| .+++|+|||||
T Consensus 900 gfSa~kTM~iAQ~LYE--------~GLITYmRTDStrlS~~~i~~ar~yI~~~~G~~y~--~pR-----~~~~q~AHEAI 964 (1176)
T PRK09401 900 GLSAQETMRIAQDLFE--------LGLITYHRTDSTRVSDVGIEVAREYLEKRFGEEYF--VPR-----SWGEGGAHEAI 964 (1176)
T ss_pred CCCHHHHHHHHHHHHC--------CCEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCC--CCC-----CCCCCCCCCCC
T ss_conf 9998999999999970--------78033258899866989999999999985081016--757-----67865676785
Q ss_pred EEEECCCCCCHHC----------CCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEE-EEECC
Q ss_conf 7730234640000----------019999999999999999998522211001001367740796399999874-88058
Q gi|254780306|r 354 RPNDFDFLPSKMK----------QFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGS-LLCFD 422 (837)
Q Consensus 354 rPT~~~~~p~~~~----------~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~-~i~~~ 422 (837)
|||++ ..|+++. ..|+.||++||+|||+|||||||.||+++++++.+.+.+. .|..+|. .++|+
T Consensus 965 RPT~~-~~~e~l~~~i~~~~~~~~~Lt~d~~kLY~LIw~RflASQM~~A~~~~~~v~i~~~~~----~~~~~~~~~i~~~ 1039 (1176)
T PRK09401 965 RPTRP-LDAEELERMIEEGILELSGLTKDHLRLYDLIFRRFIASQMKPAKVKKQKARIKAGGK----EQELELYVEILED 1039 (1176)
T ss_pred CCCCC-CCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHEEEEEEEEEECCE----EEEEEEEEEEEEC
T ss_conf 78898-986777664410210024799789999999999999975716431589999996896----8999877999877
Q ss_pred CHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCC
Q ss_conf 85676326777632100101488645688211001101112346431017899874332102566551578999997322
Q gi|254780306|r 423 GFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRK 502 (837)
Q Consensus 423 G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~ 502 (837)
||+++|.. .+|.+.+|+.+.+..++..++.|+|| |||||||++||+.|||||||||+||++|++|+
T Consensus 1040 G~~~vy~~------------~l~~~~~g~~~~~~~~~~~~~~t~Pp--YTEAsLIk~MEe~GIGRPSTYAsII~tL~~R~ 1105 (1176)
T PRK09401 1040 GFNLIYPL------------KLYPREEGEGYVVVEKEFYKVPKVPL--YTQGELVEEMKERGIGRPSTYAKIVETLLRRG 1105 (1176)
T ss_pred CHHHHCCC------------CCCCCCCCCCCCCCCCCCCCCCCCCC--CCHHHHHHHHHHCCCCCCCCHHHHHHHHHCCC
T ss_conf 73875235------------58764567600113110055897789--89899999998279998411688999886389
Q ss_pred EE-ECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 02-214771222011420000223366556898899999999999862601347899998676766557
Q gi|254780306|r 503 YV-IAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKID 570 (837)
Q Consensus 503 YV-~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~ 570 (837)
|| +.++++|+||++|+.|++||.++|+++++++|||+||+.||+|++|+.+|.+||++||++|++.++
T Consensus 1106 YVie~k~k~LiPT~lG~~V~~~L~~~F~~lv~~efTa~lE~~LD~Ia~Gk~d~~~vL~efy~el~~~le 1174 (1176)
T PRK09401 1106 YVIESKGKRLIPTKLGIKVYEYLSSRYKDLVSEERTRELEELMDKVEEGEEDYQEVLKELYEEIKELLE 1174 (1176)
T ss_pred CEEECCCCEECCCHHHHHHHHHHHHHCCHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 875278987681168999999999856042295027999986689976996399999999999999984
No 22
>PRK08173 DNA topoisomerase III; Validated
Probab=100.00 E-value=0 Score=1153.21 Aligned_cols=698 Identities=25% Similarity=0.387 Sum_probs=531.7
Q ss_pred CEEEECCHHHHHHHHHHHCC-----------CCEEEEEECCCEECCCC-------------CCCCCCCCCCCEEEEECCC
Q ss_conf 18997790478778875089-----------98999942511007865-------------5786766674406887765
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGS-----------NYKVLSSFGHIRDLPAK-------------KGSVLPEKEFEMIWNIDPS 57 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~-----------~y~V~as~GHirdLp~~-------------~~~v~~~~~f~p~y~v~~~ 57 (837)
.||||||||+|++|+++||. +|+|+||+|||++|... ++.|.|+. |. +.++++
T Consensus 4 ~LIIAEKPSvAk~IA~~Lg~~~k~~gy~e~~~y~Vtwa~GHL~eL~~Pe~y~~~~~kW~~~~LPiiP~~-f~--l~p~~~ 80 (857)
T PRK08173 4 ALIIAEKPSVANDIARALGGFTKHDDYFESDEYVLSSAVGHLLEIAAPEEYEVKRGKWSFAHLPVIPPH-FD--LNPIAK 80 (857)
T ss_pred CEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCCCCCHHCCHHHCCCCHHHCCCCCCC-CE--EEECCC
T ss_conf 299982989999999985887466875047998999754514228980014643345651106878831-32--454333
Q ss_pred HHHHHHHHHHHHHH--CCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCC--HH
Q ss_conf 48999999999870--998999469970257999999999755125788716999980379899999986226469--89
Q gi|254780306|r 58 SQKHLQNIIHAVKS--STILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDIN--LD 133 (837)
Q Consensus 58 ~kk~~~~i~~~~k~--a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d--~~ 133 (837)
+++|++.|++|++. +++||+|||||||||+|+|||+++++ +++|++|+|||++|++||++||+|+|+.+ .+
T Consensus 81 ~~~q~kvi~~L~k~~dv~~II~AtD~DREGElI~~~I~~~~~-----~~kpvkRlw~sslT~~aI~~a~~nlr~~~~~~~ 155 (857)
T PRK08173 81 TESRLKVLTKLIKRKDVDRLINACDAGREGELIFRLIAQHAK-----AKKPVQRLWLQSMTPQAIRDGFANLRSDEDMQP 155 (857)
T ss_pred HHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEECCCHHHHHHHHHCCCCCHHHHH
T ss_conf 788999999998656999899798898154699999999838-----999858899714899999999966677456689
Q ss_pred HHHHHHHHHHHHHHHHHHHCHHHHHHCC--C---CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEE
Q ss_conf 9999999999898740113789886414--6---7653422689999999999996413765440012233157996542
Q gi|254780306|r 134 LVNAYLARRALDYLVGFNLSPILWQKLP--G---ARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFT 208 (837)
Q Consensus 134 Lv~A~~aRr~lD~lvG~~lSp~L~rk~~--~---~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~ 208 (837)
|++|++|||++|||||||+||+||.... + .+|+||||||||+|||+||+||++|+|++||.|.+.|...++ .|.
T Consensus 156 L~~Aa~aR~~aDwLvG~N~SRa~T~~~~~~g~~~~lSvGRVQTPtL~lIv~Re~eI~~F~p~~Y~~i~a~f~~~~g-~~~ 234 (857)
T PRK08173 156 LADAARCRSEADWLVGINGTRAMTAFNSKGGGFFLTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRAEFVAAAG-FYE 234 (857)
T ss_pred HHHHHHHHHHHHHEEEEEHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCC-EEE
T ss_conf 9999999987511320340678999876417856667866277888999999999984699755999999972575-035
Q ss_pred EEEEEECCEE------ECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf 2331035833------0331011356667776420015630100002332224685210379999988760888999999
Q gi|254780306|r 209 AHLTDFNGQR------IEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMR 282 (837)
Q Consensus 209 a~l~~~~~~~------~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~ 282 (837)
++|...+-++ ....++++++.|+.+++.|.++..+|+. +.|+.++.||+||+||+||++||++|||||++||+
T Consensus 235 g~~~~~~~~~~~~~~~~~~~rl~d~~~A~~i~~~~~~~~~~V~~-e~K~~~~~pP~lf~Lt~LQ~eAn~~~g~Sa~~TL~ 313 (857)
T PRK08173 235 GRWFDPKFKKDEFDPEKRASRLWSLAAAEAIVAACRGKPGTVTE-ESKPSTQLSPLLFDLTSLQREANSRFGFSAKNTLG 313 (857)
T ss_pred EEEECCCCCCCCCHHHHHHHHHHCHHHHHHHHHHHCCCCEEEEE-EEEECCCCCCCCCCHHHHHHHHHHHCCCCHHHHHH
T ss_conf 57713234544211455554540899999999996389758998-73123678989946899999999854999999999
Q ss_pred HHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCC-CCC------------CCCCCCCCC-CCCCCCC
Q ss_conf 99876213556721224553147554444305689999765520011-237------------631111255-6668877
Q gi|254780306|r 283 IAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGD-HYL------------PEKPRIYSS-KSKNAQE 348 (837)
Q Consensus 283 iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~-~~l------------~~~~r~y~~-k~k~aQe 348 (837)
|||+|||.| |+||||||||+|||++.++.+++.+..+.+. .|. ..+.|.|++ |+ .
T Consensus 314 iAQ~LYEkh-------klITYPRTDS~~L~ed~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~kr~~dd~Kv----t 382 (857)
T PRK08173 314 LAQALYEKH-------KVLTYPRTDSRALPEDYLGTVKQTLEMLKESNNYLPHAKQILDKGWVKPNKRIFDNSKI----S 382 (857)
T ss_pred HHHHHHCCC-------CCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCCCCCCCC----C
T ss_conf 999986459-------97535787887589899999999999863453104678875223556745555687653----5
Q ss_pred CCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHH
Q ss_conf 76524773023464000001999999999999999999852221100100136774079639999987488058856763
Q gi|254780306|r 349 AHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVW 428 (837)
Q Consensus 349 AHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy 428 (837)
+|||||||.. .| ..|+++|++||+|||+||||+||+||+|+.|++.+.+.+. .|+++|++++++||++||
T Consensus 383 dH~AIiPT~~--~p----~~Ls~~E~kiY~LI~rRfLa~f~~~a~~~~t~v~~~v~g~----~F~a~G~vi~~~GW~~vy 452 (857)
T PRK08173 383 DHFAIIPTLQ--AP----KSLSEPEQKLYDLVVKRFLAVFFPAAEFRVTTRITEVAGH----HFKTEGKVLVEPGWLAVY 452 (857)
T ss_pred CCCCCCCCCC--CC----CCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEECCC----EEEEEEEEEEECCHHHHH
T ss_conf 7777377655--64----3189999999999999999973753076668999997797----899998999246879871
Q ss_pred CCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHH----------------HCCCCCCCCHH
Q ss_conf 26777632100101488645688211001101112346431017899874332----------------10256655157
Q gi|254780306|r 429 ENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKME----------------EIGIGRPSTYA 492 (837)
Q Consensus 429 ~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE----------------~~GIGrPSTyA 492 (837)
.... .+++..||+|++|+.+.+.++++.+++|+||+||||||||++|| +.|||||||||
T Consensus 453 ~~~~-----~~ed~~Lp~l~~Ge~v~~~~~~~~ek~TkPP~ryTEatLl~aME~agk~v~D~elk~~lk~~GiGTpATRA 527 (857)
T PRK08173 453 GKEA-----QGADANLVPVQKGEKVKTDKIAAVALTTKPPARYNEATLLSAMEGAGKLVDDDELREAMAAKGLGTPATRA 527 (857)
T ss_pred CCCC-----CCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCHHH
T ss_conf 8656-----66546589889999766405675245168998669899999987402334889999998647899851088
Q ss_pred HHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCC-CCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 89999973220221477122201142000022336-65568988999999999998626013478999986767665576
Q gi|254780306|r 493 TILETLYKRKYVIAEKRKILPQNTGRIVTAFLENF-FSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDS 571 (837)
Q Consensus 493 ~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~-f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~ 571 (837)
+||++|++|+||+++|+.|+||++|+.|+++|... .+.+.+|+|||.||..|++|+.|+.++.+||++.+.-....++.
T Consensus 528 ~IIe~L~~r~Yi~r~~k~l~pT~kG~~li~~l~~~~~~~l~spemTa~WE~~L~~Ie~G~~~~~~Fm~~i~~~~~~iv~~ 607 (857)
T PRK08173 528 AIIEGLLGEKYLVREGRELIPTAKAFQLMTLLRGLGVKELTSPELTGEWEYKLSQIERGNLSRDAFMQEIAQMTQQIVKR 607 (857)
T ss_pred HHHHHHHHCCCEEEECCEEEECHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 99999975786996298887876799999986403703205823799999999999859989999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 67755666776556766410245555676611433467773136871577611123434323332100122100001234
Q gi|254780306|r 572 IKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKE 651 (837)
Q Consensus 572 ~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~ 651 (837)
+.+... +.+ + .........||+|+ |.+. .++.+++|+ .|.|+..-......+....-
T Consensus 608 ~k~~~~--------~~~-----~-~~~~~~~~~CP~Cg-~~i~-----~~~k~y~C~---~C~f~i~k~i~gk~l~~~~~ 664 (857)
T PRK08173 608 AKEYDS--------DTI-----P-GDYATLQTPCPNCG-GVVK-----ENYRRFACT---KCDFSISKIPGGRQFEIAEV 664 (857)
T ss_pred HHHHHH--------CCC-----C-CCCCCCCCCCCCCC-CEEE-----ECCCEEECC---CCCEEEEEEECCCCCCHHHH
T ss_conf 985200--------024-----4-42233357888889-5167-----556189779---99778763207836899999
Q ss_pred CCCCCCCCCCC--CEEEEEECC-CCCEEEECCCCCCCC-CCC-C-C---CCCHHHCCHHHHHHHHHCCHHHCCCCCCCCE
Q ss_conf 42014689999--669998269-742277348877761-337-8-9---9884254899999986152551577789874
Q gi|254780306|r 652 SVLLGNDLETK--ESVTLRSGR-FGLYVQRGDGKDAKR-CSL-P-K---TWKSDSVDYDKAMSLLSLPREIGIHPETQKN 722 (837)
Q Consensus 652 ~~~LG~dP~~G--~~I~lk~Gr-yGpYvq~Ge~~kpkr-~si-~-k---~~~~~~itle~Al~LLsLPr~lG~~pe~g~~ 722 (837)
..+|-. -.+| +-..=|.|+ |-.++.+.+++.... ... + . +-+-+.++ ++--..||.||-||.+
T Consensus 665 ~~Ll~~-~kt~~ikGF~sK~Gk~F~A~l~L~~d~~~~~k~~fdf~~~~~~~~~~~~~-------~~~~~~lg~CP~C~~~ 736 (857)
T PRK08173 665 EELLRK-KEIGPLSGFRSKMGRPFSAILKLSDDETKNYKLEFDFGQDQGGEDGEAVD-------FSAQEPLGACPKCKGR 736 (857)
T ss_pred HHHHHC-CCCCCCCCCCCCCCCCEEEEEEECCCCCCCCEEEEECCCCCCCCCCCCCC-------CCCCCCCCCCCCCCCC
T ss_conf 999977-98677667526799830179993345566632554136776655566433-------3356636789999982
Q ss_pred EEEEECCCCC--EEE-ECCEECCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 9991158765--261-6781112488775143579999999983651
Q gi|254780306|r 723 IIAGTGKYGY--YLN-HDGAYTKLESIEQVLTIDLEQAISCITEKKK 766 (837)
Q Consensus 723 I~~~~GryGp--Yi~-~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~ 766 (837)
|..+-=-||- |+. ..+-.+.+.+..==-.|+.+++..||++.+.
T Consensus 737 v~e~~~~y~C~~~~~~~~~C~F~i~k~i~~k~i~~~~~~kLl~~gkT 783 (857)
T PRK08173 737 VFEHGMSYVCEKSVGPPKTCDFRSGKVILQQEISREQMAKLLTDGKT 783 (857)
T ss_pred EEECCCEEECCCCCCCCCCCEEEECHHHHCCCCCHHHHHHHHHCCCC
T ss_conf 08857456515776889997179556780987899999999975991
No 23
>PRK09031 DNA topoisomerase III; Provisional
Probab=100.00 E-value=0 Score=1156.27 Aligned_cols=550 Identities=25% Similarity=0.396 Sum_probs=478.2
Q ss_pred CCEEEECCHHHHHHHHHHH-------------CCCCEEEEEECCCEECCCC-------------CCCCCCCCCCCEEEEE
Q ss_conf 9189977904787788750-------------8998999942511007865-------------5786766674406887
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYL-------------GSNYKVLSSFGHIRDLPAK-------------KGSVLPEKEFEMIWNI 54 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~L-------------g~~y~V~as~GHirdLp~~-------------~~~v~~~~~f~p~y~v 54 (837)
|+||||||||+||+|+++| |++++|+||+|||.+|... ++.|.|++ | .+.+
T Consensus 1 M~LiIAEKPs~Ar~IA~~L~~~~~k~~g~~~~g~g~~Vtw~~GHll~l~~P~~y~~~~k~W~~~~LPiiP~~-~--~~~~ 77 (649)
T PRK09031 1 MRLFIAEKPSLGRAIADVLPKPHKKGDGFIECGNGDVVTWCIGHLLEQAEPDAYDPRYKRWNLEHLPIVPEK-W--QLQP 77 (649)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCEEECCCCEEEEECCCCCCCCCCCCCCHHHCCCCCCCCCCCCHH-C--EEEE
T ss_conf 979998486999999997276650577718847996999955644216771103654256760227857600-1--2224
Q ss_pred CCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCC--H
Q ss_conf 76548999999999870998999469970257999999999755125788716999980379899999986226469--8
Q gi|254780306|r 55 DPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDIN--L 132 (837)
Q Consensus 55 ~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d--~ 132 (837)
.+++++|++.|++++++||+||||||||||||+|+|||+++++... .++++|+|+|||+||+.||++||+|+|+.+ .
T Consensus 78 ~~~~~~ql~~ik~L~k~ad~ii~AtD~DREGElI~~eil~~~~~~~-~~~~~v~R~~~s~lt~~aI~~A~~~lr~~~~~~ 156 (649)
T PRK09031 78 RPSVRKQLTVIKKLLKQADELVHAGDPDREGQLLVDEVLDYLGLSA-EKRQQVQRCLISDLNPQAVKRALDRLRSNREFI 156 (649)
T ss_pred CCCHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCCCC-CCCCCEEEEEECCCCHHHHHHHHHCCCCCHHHH
T ss_conf 6028999999999996299999886887121699999999857342-367865899952588999999997158716678
Q ss_pred HHHHHHHHHHHHHHHHHHHHCH---HHHHHCC--CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEE
Q ss_conf 9999999999989874011378---9886414--6765342268999999999999641376544001223315799654
Q gi|254780306|r 133 DLVNAYLARRALDYLVGFNLSP---ILWQKLP--GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKF 207 (837)
Q Consensus 133 ~Lv~A~~aRr~lD~lvG~~lSp---~L~rk~~--~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f 207 (837)
+|++|++|||.+|||||||+|+ ++||+.+ +.||+||||||||+|||+||+||++|+|++||+|.+.|...++..|
T Consensus 157 ~L~~aa~aR~~~DwliG~n~TRa~tl~~r~~g~~~vlS~GRVQTPtL~lVveRe~eI~~F~p~~y~~i~a~~~~~~~~~f 236 (649)
T PRK09031 157 PLSVSALARARADWLYGINMTRAYTILGRKAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVPKDFFEVKAHIVTPADERF 236 (649)
T ss_pred HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCEE
T ss_conf 88999999999998737003189998765416777732443310367899998999984688744899999964899627
Q ss_pred EEEEEEECCE---EECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 2233103583---3033101135666777642001563010000233222468521037999998876088899999999
Q gi|254780306|r 208 TAHLTDFNGQ---RIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIA 284 (837)
Q Consensus 208 ~a~l~~~~~~---~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iA 284 (837)
.++|...+.. ..+.+++.+++.|+.+++.|.+++++|.+|+.++.+++||+||+||+||++||++|||||++||++|
T Consensus 237 ~a~w~~~~~~~~~~de~~r~~~~~~A~~i~~~i~~~~~~V~~v~~k~~k~~pP~Pf~ls~LQ~~Ask~~g~Sa~~tl~ia 316 (649)
T PRK09031 237 TAKWQPSEACEPYQDEEGRVLHRPLAENVVNRITGQPALVTSYNDKREKQSAPLPYSLSALQIDAAKRFGLSAQQVLDIC 316 (649)
T ss_pred EEEECCCCCCCCCCCHHCCCCCHHHHHHHHHHHHCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf 99853531133343312023679999999999608983999986556634898997889999999986299999999999
Q ss_pred HHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH--HCCCCCCCCCC---CCCCCCCCCCC--CCCCCEEEEE
Q ss_conf 87621355672122455314755444430568999976552--00112376311---11255666887--7765247730
Q gi|254780306|r 285 QKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITS--HYGDHYLPEKP---RIYSSKSKNAQ--EAHEAIRPND 357 (837)
Q Consensus 285 Q~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~--~~g~~~l~~~~---r~y~~k~k~aQ--eAHeAIrPT~ 357 (837)
|+|||.| ||||||||||+|||++++..+..++.. .++.++++... ...++++.|.+ +||||||||+
T Consensus 317 Q~LYE~~-------~lITYPRTDS~~lp~~~~~~~~~vl~~i~~~~~~~~~~~~~~~~~~k~k~~nd~kv~aH~AIiPT~ 389 (649)
T PRK09031 317 QKLYETH-------KLITYPRSDCRYLPEEHFAGRHAVLNAISVHAPELLPQVEVADPDLRNRAWNDKKVDAHHAIIPTA 389 (649)
T ss_pred HHHHHHC-------CCEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 9999718-------965016767886797999899999999985128664220114642356666776666888977887
Q ss_pred CCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCC
Q ss_conf 23464000001999999999999999999852221100100136774079639999987488058856763267776321
Q gi|254780306|r 358 FDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKN 437 (837)
Q Consensus 358 ~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~ 437 (837)
.... .+.|+++|++||+|||+||||+||+||+|+.|+|++.+.++ .|.++|++++++||+.+|....++ +
T Consensus 390 ~~~~----~~~Ls~~E~klY~LI~rr~la~~~~~a~~~~t~v~~~~~~~----~F~a~g~~~~~~Gw~~~~~~~~~~--~ 459 (649)
T PRK09031 390 KSSN----VNSLTENEAKVYLLIARQYLMQFYPDAVYRKCVIELDIAGG----KFIAKARFLAEAGWKTLLGKKERD--E 459 (649)
T ss_pred CCCC----HHHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECCC----EEEEEEEEEEECCCHHHCCCCCCC--C
T ss_conf 7789----14489999999999999999984841166238999997897----899987999556607533876665--4
Q ss_pred CHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHH-----------------HHCCCCCCCCHHHHHHHHHH
Q ss_conf 0010148864568821100110111234643101789987433-----------------21025665515789999973
Q gi|254780306|r 438 SEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM-----------------EEIGIGRPSTYATILETLYK 500 (837)
Q Consensus 438 ~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~m-----------------E~~GIGrPSTyA~II~~L~~ 500 (837)
++....||.|++|+.+.+.++++.+++|+||+||||||||++| |..|||||||||+||++|++
T Consensus 460 ~~~~~~LP~l~~g~~l~~~~~~~~~k~T~PP~ryTEatLl~aM~~~~r~v~d~elkk~lke~~GIGTpATrA~IIe~L~~ 539 (649)
T PRK09031 460 ENDGTPLPVVAKGQELLCEKGEVVEKQTQPPKHFTDATLLSAMTGIARFVQDKELKKILRETDGLGTEATRAGIIELLFK 539 (649)
T ss_pred CCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHH
T ss_conf 10136699888999865300034257578979988799999987333234669999874125798871458999999986
Q ss_pred CCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 22022147712220114200002233665568988999999999998626013478999986767665576677
Q gi|254780306|r 501 RKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKK 574 (837)
Q Consensus 501 R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~ 574 (837)
|+||.++|+.|+||++|+.|+++|+. .+.+|+|||.||.+||+|++|+.+|.+||++++..+...|+++..
T Consensus 540 R~Yv~~~gk~l~pT~~G~~Li~~L~~---~~~~p~~TA~wE~~L~~I~~G~~~~~~fm~~~~~~~~~~v~~~~~ 610 (649)
T PRK09031 540 RGFLTKKGKYIHSTDAGRALIHSLPE---MATRPDMTAHWESQLTQISEKQCRYQDFMQPLVGTLYQLIDQAKR 610 (649)
T ss_pred CCCEEECCCEEEECHHHHHHHHHHHH---HCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 78899519889776679999999888---627935699999999999859999999999999999999999860
No 24
>PRK05776 DNA topoisomerase III; Provisional
Probab=100.00 E-value=0 Score=1153.36 Aligned_cols=561 Identities=29% Similarity=0.447 Sum_probs=477.8
Q ss_pred EEEECCHHHHHHHHHHHCC--------------------CCEEEEEECCCEECCCCCCCCCC-CCCCCEEEEECCCH---
Q ss_conf 8997790478778875089--------------------98999942511007865578676-66744068877654---
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGS--------------------NYKVLSSFGHIRDLPAKKGSVLP-EKEFEMIWNIDPSS--- 58 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~--------------------~y~V~as~GHirdLp~~~~~v~~-~~~f~p~y~v~~~~--- 58 (837)
|||||||++||+||++||. +|.|+||+|||.+|+....+... +..|.|.|.+.+.+
T Consensus 11 LiIAEKPsvAk~IA~~Lg~~~~~~~~~~~~~~~~~~~g~~~iVt~~~GHl~~L~~~~~~~p~~~~~w~P~~~~~~~~~~~ 90 (675)
T PRK05776 11 LVIAEKPKAAKKIAEALSDKPIRCRKYGVPYWIVTNDGKKIVVAPAAGHLFGLHTDSRGFPVFDYEWKPLWEIDPSAKYT 90 (675)
T ss_pred EEEECCHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCEEEEEEECCEECCCCCCCCCCCCCCCCCCEEEEECCCCHHH
T ss_conf 99989889999999984889631057875313532689828999716673217853004976677877325715652007
Q ss_pred HHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf 89999999998709989994699702579999999997551257887169999803798999999862264698999999
Q gi|254780306|r 59 QKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAY 138 (837)
Q Consensus 59 kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~ 138 (837)
+++++.|++++++||+||+|||||||||+|||||+++++ +.+|++|+|||+||+++|++||+||+++|++|++||
T Consensus 91 kk~~~~ik~l~k~ad~viiAtD~DREGE~I~~~I~~~~~-----~~k~v~Rl~fssiT~~~I~~A~~nl~~~d~~l~~A~ 165 (675)
T PRK05776 91 KKYYELLSSLSKGASLYVNACDYDIEGSVIGYLIIKFFG-----DEKRAKRMKFSALTKQDIRRAFRNLERLDYEMINAG 165 (675)
T ss_pred HHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHC-----CCCCEEEEEEEECCHHHHHHHHHCCCCCCHHHHHHH
T ss_conf 899999999870399999878988133899999999828-----998707899964799999999967674447788999
Q ss_pred HHHHHHHHHHHHHHCHHHHHHCCC------CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEE
Q ss_conf 999998987401137898864146------76534226899999999999964137654400122331579965422331
Q gi|254780306|r 139 LARRALDYLVGFNLSPILWQKLPG------ARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLT 212 (837)
Q Consensus 139 ~aRr~lD~lvG~~lSp~L~rk~~~------~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~ 212 (837)
+|||++|||||||+||+||..+.. .+|+||||||||+|||+||+||++|+|++||.|.+.++. ++..|.+++.
T Consensus 166 ~aR~~~D~liG~nlSR~lt~~~~~~~g~~~~lSvGRVQTPtL~lIVeRe~EI~~F~p~~y~~i~~~~~~-~~~~f~~~~~ 244 (675)
T PRK05776 166 LARHELDWLWGINVSRALMEAVRDATGKRVILSAGRVQSPTLVEVVEREIERNLFVPLPYYSVSITVEK-GGKEFRLKVG 244 (675)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEE-CCEEEEEEEC
T ss_conf 999999886016540999999752058766311453115999999999999982889534999999981-8878999849
Q ss_pred EECCEEECCCCHHHHHHHHHHHHHHCCCC-CEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Q ss_conf 03583303310113566677764200156-30100002332224685210379999988760888999999998762135
Q gi|254780306|r 213 DFNGQRIEKKSISNKKEADDLISFVKKAT-YSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGI 291 (837)
Q Consensus 213 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~ 291 (837)
..+.++++|+.+++.+.+.. +.|.+|+.++.+.+||+||+||+||++||++|||||++||++||+|||
T Consensus 245 ---------~~~~~~~ea~~~~~~l~~~~~~~V~~v~~k~k~~~PP~pf~ts~LQ~~Ask~~g~Sa~~tm~iAQ~LYe-- 313 (675)
T PRK05776 245 ---------KTFEKKEEAKEIISEIRKKGYLIVVEVEEKDEILRPPPPFNLGDLQKEAARIYGFSPYKTQSIAEELYL-- 313 (675)
T ss_pred ---------CCCCCHHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHC--
T ss_conf ---------987889999999999857997599988850564379899758999999999759889999999999872--
Q ss_pred CCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHH-----HHCCC--CCCCCCCC-CC-CCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 567212245531475544443056899997655-----20011--23763111-12-55666887776524773023464
Q gi|254780306|r 292 DVNGEIVGLITYMRTDGVHMSPDALEAVRRSIT-----SHYGD--HYLPEKPR-IY-SSKSKNAQEAHEAIRPNDFDFLP 362 (837)
Q Consensus 292 ~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~-----~~~g~--~~l~~~~r-~y-~~k~k~aQeAHeAIrPT~~~~~p 362 (837)
.||||||||||++||++. +++..+. ..|+. +.+....+ .+ ..+.+..+.||||||||+. .|
T Consensus 314 ------~glITYPRTDS~~lp~~~--~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aH~AI~PT~~--~~ 383 (675)
T PRK05776 314 ------DALISYPRTNSQKIPPTI--DYRAILDGLSSIKSYRNLVELLLKETKGVLRPVQGSKDDPAHPAIYPTGE--KP 383 (675)
T ss_pred ------CCCEECCCCCCCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC--CC
T ss_conf ------881766887887688233--29999999974254778999875651474222556666777754033756--73
Q ss_pred CHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHC
Q ss_conf 00000199999999999999999985222110010013677407963999998748805885676326777632100101
Q gi|254780306|r 363 SKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDI 442 (837)
Q Consensus 363 ~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~ 442 (837)
+.|+.+|++||+|||+|||||||+||+|+.++|.+.+.+ +.+.|.++|++++++||+++|..... ++.
T Consensus 384 ----~~Ls~de~klY~LI~rRflas~~~~a~~~~t~v~~~~~~--~~~~F~~~g~~i~~~Gw~~v~~~~~~------~~~ 451 (675)
T PRK05776 384 ----KNLSKKHMKIYDLIVRRFLASFSRDAIVSKTKVTLRVPD--FDIVFKATGQRIEDKGWLKYYPFSKP------SEE 451 (675)
T ss_pred ----CCCCHHHHHHHHHHHHHHHHHHCCHHHEEEEEEEEEECC--CCEEEEEEEEEEEECCEEEEECCCCC------CCC
T ss_conf ----429999999999999999998486310689999999889--73599999799998880255168875------546
Q ss_pred CCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCC
Q ss_conf 48864568821100110111234643101789987433210256655157899999732202214771222011420000
Q gi|254780306|r 443 LLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTA 522 (837)
Q Consensus 443 ~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~ 522 (837)
.||.+++|+.+.+.++.+.+++|+||+||||||||++||+.|||||||||+||++|++|+||+.+|++|+||++|+.|++
T Consensus 452 ~LP~l~~G~~~~~~~~~~~e~~TkPP~ryTEatLi~~ME~~GIGTpATra~IIe~L~~R~Yi~~~~~~l~pT~~G~~li~ 531 (675)
T PRK05776 452 KLPDLKKGEKLKIVKVSVRMSYTKPPERYTKASLLKWMESVNIGTEATRARIIETLFKRKYLRSKGGKVYATPLGIGVAE 531 (675)
T ss_pred CCCCCCCCCEEEEEEEEEEECCCCCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCEEEECCEEEECHHHHHHHH
T ss_conf 59978999987888747751426999998999999998658999501689999989648969905999987445999999
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 22336655689889999999999986260134789999867676655766775566677655676641024555567661
Q gi|254780306|r 523 FLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDS 602 (837)
Q Consensus 523 ~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~ 602 (837)
+|+++|++|++++|||+||+.||+|+.|+.++.+||+++++.+...++++... ..++.+. +........+.
T Consensus 532 ~l~~~~~~l~~p~~Ta~~E~~L~~I~~Gk~~~~~f~~e~~~~~~~~v~~~~~~-~~~~~~~--------~~~~~~~~~~~ 602 (675)
T PRK05776 532 ILQKYFPDLTSVELTRRFEEKLEKIRSGKERREEVVEEAKKTLRKLLEEFKKN-KDEVGEE--------LAYSLGLIEPP 602 (675)
T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH--------HHHHHCCCCCC
T ss_conf 99974365259148999999989998799999999999999999999999863-9988899--------87530255677
Q ss_pred EECCCCCCC
Q ss_conf 143346777
Q gi|254780306|r 603 RTCPECHTH 611 (837)
Q Consensus 603 ~~Cp~C~~g 611 (837)
++||.||..
T Consensus 603 g~Cp~Cg~~ 611 (675)
T PRK05776 603 RKCKLCGRE 611 (675)
T ss_pred CCCCCCCCH
T ss_conf 889876602
No 25
>TIGR01056 topB DNA topoisomerase III; InterPro: IPR005738 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry describes topoisomerase III from bacteria and its equivalent encoded on plasmids. In Escherichia coli, topoisomerase III functions as the principal cellular decatenase, capable of unlinking replicating daughter chromosomes . Topoisomerase III requires single-stranded DNA for binding, so it is more efficient at decatenating chromosomes if the DNA circles contain a small gap. It appears that Topoisomerase III works by removing precatenanes, an alternative form that can be taken by the positive linkages that arise between the daughter chromosomes during replication. Topoisomerase III shows considerable identity to bacterial topoisomerase I, except that it lacks the zinc finger region found in the latter. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=1026.61 Aligned_cols=593 Identities=27% Similarity=0.449 Sum_probs=497.6
Q ss_pred CCEEEECCHHHHHHHHHHH------------------CCCCEEEEEECCCEECCCC--------------CCCCCCCCCC
Q ss_conf 9189977904787788750------------------8998999942511007865--------------5786766674
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYL------------------GSNYKVLSSFGHIRDLPAK--------------KGSVLPEKEF 48 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~L------------------g~~y~V~as~GHirdLp~~--------------~~~v~~~~~f 48 (837)
|.||||||||.|+.||.+| |.+++||||+||+.+|... .+.+.|+. |
T Consensus 3 ~~lvLaEKPS~ardlA~vL~~~~kkg~Gyle~sdeqlg~~~~vTWA~GHLve~a~P~~Yd~~Y~~Pw~~~~Lpl~p~~-~ 81 (755)
T TIGR01056 3 MRLVLAEKPSQARDLAKVLAKKKKKGNGYLEISDEQLGDGVVVTWAVGHLVELAEPEEYDEKYKKPWRLEDLPLVPEK-W 81 (755)
T ss_pred CEEEEEECCCHHHHHHHHHCCCCCCCCCCEEEECCCCCCCEEEEEECCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCC-C
T ss_conf 526885176227899998403563788533410010188707985200010244830235660787566655667765-3
Q ss_pred CEEEEECCCHHHHHHHHHHHHH--HCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHC
Q ss_conf 4068877654899999999987--09989994699702579999999997551257887169999803798999999862
Q gi|254780306|r 49 EMIWNIDPSSQKHLQNIIHAVK--SSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKS 126 (837)
Q Consensus 49 ~p~y~v~~~~kk~~~~i~~~~k--~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n 126 (837)
. .+|.++.++||+.|+++++ ++|+||||||||||||+||..|++.|+...- .+.+|+|+|+|+++++||++||++
T Consensus 82 ~--L~v~~~~~~Qfn~ik~~L~~~~v~evviATDa~REGe~ia~~iL~~~~~~~e-k~~~v~RLw~~~~~~~ai~~A~~~ 158 (755)
T TIGR01056 82 K--LVVKKKTKKQFNVIKRLLKEKEVDEVVIATDADREGELIAREILDYLKVRDE-KKVRVKRLWISSLDDKAIRKAFKK 158 (755)
T ss_pred C--CEECHHHHHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCC-CCEEEEEEEECCCCHHHHHHHHHH
T ss_conf 4--1225137888999997631137572787268863257999999987516856-530578873013787899999985
Q ss_pred CCCC--CHHHHHHHHHHHHHHHHHHHHHCHHHHHH-----CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf 2646--98999999999998987401137898864-----1467653422689999999999996413765440012233
Q gi|254780306|r 127 PRDI--NLDLVNAYLARRALDYLVGFNLSPILWQK-----LPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLL 199 (837)
Q Consensus 127 ~r~~--d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk-----~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~ 199 (837)
+|.- .++|+.++.||..+|||||+|+|++++.. +.+.||+||||||||+|||.||.||+||++.+||.|.|.+
T Consensus 159 L~s~~~~~~LY~~a~AR~~ADWLvGiNltR~fT~~gReaG~~~vLsvGRVqtPtL~~v~~Re~~I~~F~~k~fy~v~A~i 238 (755)
T TIGR01056 159 LRSKSETESLYKSAVARARADWLVGINLTRAFTLLGREAGFDGVLSVGRVQTPTLAMVVKREEEIENFVAKPFYEVKATI 238 (755)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHCCHHHCCCCCCCCCEEEEEEE
T ss_conf 27765421013664324441257765888888888886067875887301664224543002310367587741689998
Q ss_pred ECCCCCEEEEEEEE---ECCEEECCCCHHHHHHHHHHHHHHCCCC-CEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf 15799654223310---3583303310113566677764200156-3010000233222468521037999998876088
Q gi|254780306|r 200 ETPRNDKFTAHLTD---FNGQRIEKKSISNKKEADDLISFVKKAT-YSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGF 275 (837)
Q Consensus 200 ~~~~~~~f~a~l~~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~ 275 (837)
.. ++..|++.|.. ....+.+..|.+++..|+.++..|.+++ +.|.+++.+..+..||++|+||+||++|+++|||
T Consensus 239 ~~-~~~~~~~~w~~sea~~~y~~~~~r~l~~~l~~~~v~~l~~~~tA~v~~~~~~~~~~~AP~~ydLs~LQ~~~~~~fg~ 317 (755)
T TIGR01056 239 DK-DEEEFTAEWQPSEAAEQYKDEEERLLHEDLAERVVKDLQQKPTAVVTDLEKERKKESAPLLYDLSALQEDAAKRFGL 317 (755)
T ss_pred EC-CCEEEEEEECCCHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf 55-85165453057043210245013554256899999860489727997112430334788544668999999733388
Q ss_pred CHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCC--CCCCCC----CCCCCCCCCC--
Q ss_conf 89999999987621355672122455314755444430568999976552001123--763111----1255666887--
Q gi|254780306|r 276 SASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHY--LPEKPR----IYSSKSKNAQ-- 347 (837)
Q Consensus 276 sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~--l~~~~r----~y~~k~k~aQ-- 347 (837)
||++||+|||+|||.|| |||||||||+|||++..+.+.+.+...-+..+ ++.+.. .+.+...|..
T Consensus 318 SAk~~L~i~QkLYE~HK-------LiTYPRtDsRYL~~~~~~~l~~~l~~~~~~~~~~~~~q~~~~~~~~~~~~~nD~Kv 390 (755)
T TIGR01056 318 SAKEVLDIAQKLYETHK-------LITYPRTDSRYLPEDEKEELKEVLDALKVKAPALLPSQVKKLDEKIRNRLWNDKKV 390 (755)
T ss_pred CHHHHHHHHHHHHHCCC-------EEECCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHCCCCHHHCCCHHHCCCCCCCCC
T ss_conf 54579999985420244-------03148876566886554348888765214442331330101262223255675110
Q ss_pred CCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHH
Q ss_conf 77652477302346400000199999999999999999985222110010013677407963999998748805885676
Q gi|254780306|r 348 EAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKV 427 (837)
Q Consensus 348 eAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~v 427 (837)
+|||||+||.-. ...+.|++.|.+||+||.+||+|.+|+.++|+.|+|++.+.+. .|.+.|++|...||+++
T Consensus 391 ~dHhAIipT~~~----~~~~~L~e~E~~vY~li~~~yl~~f~p~~~y~~T~i~~~i~k~----~F~~kG~~~~~~Gwkal 462 (755)
T TIGR01056 391 EDHHAIIPTEED----LNLSDLSEEERKVYKLIAKRYLAQFMPKAEYEETKIELEIGKE----LFEAKGKVLQENGWKAL 462 (755)
T ss_pred CCCCCCCCCCCC----CCHHHHHHHHHHHHHHHHHHHHHHHCCHHHEEEEEEEEEECCC----EEEEEEEEEECCCCHHH
T ss_conf 344413036775----3010001777789999999999873681000036789985586----67874466631551413
Q ss_pred HCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHH-------------------HCCCCCC
Q ss_conf 326777632100101488645688211001101112346431017899874332-------------------1025665
Q gi|254780306|r 428 WENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKME-------------------EIGIGRP 488 (837)
Q Consensus 428 y~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE-------------------~~GIGrP 488 (837)
|.....+++.+.++..||.|..||.+.|...+..+++|+||+||||+|||++|+ ..||||+
T Consensus 463 l~~~~~deE~~~~~~tLP~~~kg~~~~v~~~~~~~~qT~PP~~y~e~TLL~AM~N~~~f~~Ged~~Lkk~L~e~~GLGT~ 542 (755)
T TIGR01056 463 LGKKEEDEEDEDDDTTLPALQKGDELAVEKLELLEKQTKPPARYTEGTLLSAMTNPAAFVQGEDKGLKKTLKETKGLGTE 542 (755)
T ss_pred CCCCCCCCCCCCCCCCCCHHHCCCEEEEECCEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC
T ss_conf 07764465568778757410058888752242302467886877626899985106876135436778887523888875
Q ss_pred CCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf 51578999997322022147712220114200002233665568988999999999998626013478999986767665
Q gi|254780306|r 489 STYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEK 568 (837)
Q Consensus 489 STyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~ 568 (837)
||||.||++|++|+|+.++|+.|+.|+.|+.++..|+.+ .+..|++||.||+.|+.||.|+....+||+..-.-..+.
T Consensus 543 ATRAdIIe~L~k~~fl~~~k~~i~~T~~G~~l~~~lpG~--~l~~P~LTA~WE~~L~~ia~g~~~~~~F~~~~~~~~~q~ 620 (755)
T TIGR01056 543 ATRADIIEKLFKRGFLEKKKKKIYITKKGKALLQLLPGE--LLTKPDLTAEWEQVLDEIAAGKVKSDDFIKKLKEYVKQL 620 (755)
T ss_pred CCHHHHHHHHHCCCCEEECCCEEEECHHHHHHHHHCCCC--CCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf 430358888741644266285121167788998745763--467876316899999887435664278899999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 576677556667765567664102455556766114334677731368715776111234343233
Q gi|254780306|r 569 IDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECK 634 (837)
Q Consensus 569 i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk 634 (837)
|++.... .............||.||. +.++..||.|..+-|..- +|.
T Consensus 621 v~~~~~~----------------~~~~~~~~~~~~~~PeCGk--mmlkvnGkrGtmlvCqdr-ec~ 667 (755)
T TIGR01056 621 VKEEKKS----------------PETIQKDAVEPVAVPECGK--MMLKVNGKRGTMLVCQDR-ECG 667 (755)
T ss_pred HHHHHCC----------------CCEEECCCCCCCCCCCCCC--EEEEECCCCCEEEEEECC-CCC
T ss_conf 9987438----------------5114415788888864254--556760763206786055-467
No 26
>TIGR01057 topA_arch DNA topoisomerase I; InterPro: IPR005739 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry describes topoisomerase I from archaea, which is more closely related to bacterial than to eukaryotic topoisomerase I . Topoisomerase I is the major enzyme for relaxing negatively supercoiled DNA, and its presence is balanced by reverse gyrase, which can introduce negative supercoils. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=1017.61 Aligned_cols=585 Identities=32% Similarity=0.498 Sum_probs=488.7
Q ss_pred EECCHHHHHHHHHHHCCC----------------------CEEEEEECCCEECCCCCC---CCCC--CCCCCEEEEECCC
Q ss_conf 977904787788750899----------------------899994251100786557---8676--6674406887765
Q gi|254780306|r 5 IVESPAKAKTISKYLGSN----------------------YKVLSSFGHIRDLPAKKG---SVLP--EKEFEMIWNIDPS 57 (837)
Q Consensus 5 IvEsP~kak~I~~~Lg~~----------------------y~V~as~GHirdLp~~~~---~v~~--~~~f~p~y~v~~~ 57 (837)
|||||+.|++||..|+++ -+|.+|+||+.-|.++.- +.-| |=.|.|.|+.+.+
T Consensus 1 iaEKP~~A~KIA~AL~~~~G~~kks~~gVpYye~~rdGk~i~vasavGHLfgL~~~~~k~Fg~~PvFD~eW~Pi~~~dkg 80 (637)
T TIGR01057 1 IAEKPKVAKKIAGALSDDRGVLKKSLYGVPYYEVVRDGKKIIVASAVGHLFGLAPKSRKVFGEYPVFDIEWVPIFEIDKG 80 (637)
T ss_pred CCCCCHHHHHHHHHCCCCCCCEEECCCCCCEEEEEECCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCC
T ss_conf 98871158999862056777302116875407898779179985153315688865554358877321123305676067
Q ss_pred H---HHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC-CCCHH
Q ss_conf 4---8999999999870998999469970257999999999755125788716999980379899999986226-46989
Q gi|254780306|r 58 S---QKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR-DINLD 133 (837)
Q Consensus 58 ~---kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r-~~d~~ 133 (837)
+ ++.++.|++++++|++-|+|||.|-|||.||||++++.. ..+....+||.||+||+..|++|++||- .+|..
T Consensus 81 kgY~~~Y~~~L~~l~~~a~~y~~AcDYDiEG~lIGf~alky~C---g~~~~~A~RMkFStLt~~di~rAy~n~e~~~dyg 157 (637)
T TIGR01057 81 KGYVKKYIKALSKLAKGADEYIVACDYDIEGELIGFKALKYAC---GVEKLKAKRMKFSTLTKKDIRRAYKNPEIEIDYG 157 (637)
T ss_pred CHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHC---CCCCHHCCCCCCCCCCHHHHHHHHHCCCCEECHH
T ss_conf 1368999999998512354356762103565307678987508---8640001334300023799999973889443032
Q ss_pred HHHHHHHHHHHHHHHHHHHCHHHHHHC---CCC---CCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEE
Q ss_conf 999999999989874011378988641---467---65342268999999999999641376544001223315799654
Q gi|254780306|r 134 LVNAYLARRALDYLVGFNLSPILWQKL---PGA---RSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKF 207 (837)
Q Consensus 134 Lv~A~~aRr~lD~lvG~~lSp~L~rk~---~~~---lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f 207 (837)
||||+.||++|||++|.|||++|+..+ .+. |||||||||||+++|+||+||+.|+|.|||-|.+.|.. +|+.|
T Consensus 158 ~v~AG~ARhiLDw~fGvN~SRALm~A~r~a~gr~v~LS~GRVQ~PtL~~l~eRe~EI~~F~P~pywvi~~~~~~-gG~~~ 236 (637)
T TIGR01057 158 MVDAGAARHILDWYFGVNLSRALMEAIRAAAGRWVILSAGRVQGPTLAFLVEREREIKKFVPKPYWVIKALLEK-GGGVF 236 (637)
T ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEC-CCCEE
T ss_conf 21113056777888534287899999999729989995176520799999988999852899830267785406-88558
Q ss_pred EEEEEEECCEEECCCCHHHHHHHHHHHHHHCCC-CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf 223310358330331011356667776420015-6301000023322246852103799999887608889999999987
Q gi|254780306|r 208 TAHLTDFNGQRIEKKSISNKKEADDLISFVKKA-TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQK 286 (837)
Q Consensus 208 ~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~ 286 (837)
.|.. ++..++++++|..|.+.|+++ .+.|.+|+.+..+++||+||+|.|||+||++.|||||++|+.|||+
T Consensus 237 ~A~~--------~~~K~~~~e~a~~i~~~~~~~~~~~V~~v~~~~~~~~PP~pFdLGtLQ~EAy~~fG~sPk~Tq~IAq~ 308 (637)
T TIGR01057 237 KAES--------EKEKIWKEEEAKSILEEVKKSKSAKVEEVRVKRSILKPPPPFDLGTLQREAYRVFGFSPKKTQEIAQE 308 (637)
T ss_pred EEEC--------CCCCCCHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf 7522--------57874124655568886167988423324553111683259875525899998607996446899999
Q ss_pred HHCCCCCCCHHHHHHHHCCCCCCCCCHHH--HHHHHHHHHH--HCCC--CCCC---C--CCCCCCCCCCCCCCCCCCEEE
Q ss_conf 62135567212245531475544443056--8999976552--0011--2376---3--111125566688777652477
Q gi|254780306|r 287 LYEGIDVNGEIVGLITYMRTDGVHMSPDA--LEAVRRSITS--HYGD--HYLP---E--KPRIYSSKSKNAQEAHEAIRP 355 (837)
Q Consensus 287 LYE~~~~~~~~~GlITYpRTDS~~ls~ea--~~~~r~~i~~--~~g~--~~l~---~--~~r~y~~k~k~aQeAHeAIrP 355 (837)
||+ .||||||||+|+-|+++- ...+.+++++ .||. +.|- . +|.. .+|- ..||+||+|
T Consensus 309 LY~--------~al~SYPRT~SQKLP~~i~Y~~il~nLakn~P~yr~~~e~L~~~G~~LkPve-GkKe---DpAHPAIhp 376 (637)
T TIGR01057 309 LYE--------EALISYPRTSSQKLPKSINYRKILKNLAKNNPLYREYAERLLEKGGELKPVE-GKKE---DPAHPAIHP 376 (637)
T ss_pred HHH--------CCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCC-CCCC---CCCCCCCCC
T ss_conf 864--------2351588787667888778799999997248984689999871678878857-8779---667886005
Q ss_pred EECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHH-CCCCCC
Q ss_conf 3023464000001999999999999999999852221100100136774079639999987488058856763-267776
Q gi|254780306|r 356 NDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVW-ENQYDQ 434 (837)
Q Consensus 356 T~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy-~~~~~~ 434 (837)
||. .|.+ +.||.||.+|||||++||||.||.+|+.+..+|.|....+ ..|.+||..+...||+++| .....
T Consensus 377 tG~--~P~~--G~LSk~e~~vYdLIvrRfLA~F~~~Ai~~~~~V~l~~~~G---~~F~~sG~Rv~k~GWl~~YG~Y~k~- 448 (637)
T TIGR01057 377 TGE--IPSE--GELSKDEKKVYDLIVRRFLAVFSEEAIREKLKVELRIGEG---EKFKLSGKRVVKKGWLEVYGKYSKF- 448 (637)
T ss_pred CCC--CCCC--CCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECCC---EEEEECCCCEEECCCCCCCCCCCCC-
T ss_conf 678--8888--8777788999989987887511510214334378982387---0698415612103630017666888-
Q ss_pred CCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEEC
Q ss_conf 32100101488645688211001101112346431017899874332102566551578999997322022147712220
Q gi|254780306|r 435 EKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQ 514 (837)
Q Consensus 435 ~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT 514 (837)
++..||+|..||.+.|..|.+..+.||||.||++||||++||..||||.||||.||+||.+||||+- ++++-.|
T Consensus 449 -----~e~~lPel~~Gd~~~V~~v~~~~~~t~pP~Ry~~ASlir~lE~~glGTkaTRA~Ii~~Ly~RgY~eG-~~~~~Vt 522 (637)
T TIGR01057 449 -----EEKELPELKRGDKIKVVRVKVEKKETKPPARYDKASLIRELEKRGLGTKATRAEIIEKLYKRGYIEG-KKSIKVT 522 (637)
T ss_pred -----CCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCEEEC-CCEEEEC
T ss_conf -----8754888888886899998864540686876657789899872588841038999998711731541-8634652
Q ss_pred CHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 11420000223366556898899999999999862601347899998676766557667755666776556766410245
Q gi|254780306|r 515 NTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFP 594 (837)
Q Consensus 515 ~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~ 594 (837)
|||..|++.|+.+||+|++.++|.++|.+|.+|-.|+.++.+|+++--..+...+++..+. ..++...+... .-.
T Consensus 523 PLG~~vi~tl~~y~peii~~~LTR~fE~~lE~I~~Gr~~k~~Videa~~~~~kiLe~f~~~-~~~ig~el~~~----~~~ 597 (637)
T TIGR01057 523 PLGEAVIETLKRYCPEIISEELTREFEKKLEDIMSGRITKDEVIDEAKKRLRKILEEFKKR-LEDIGIELAKS----LDS 597 (637)
T ss_pred CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH----HCC
T ss_conf 4505899999873410068132389999988875078666789999899999988999988-99998998887----312
Q ss_pred CC-CCCCCCEECCCCCCCCEEEEEECCC-CCCCCCCCCCCC
Q ss_conf 55-5676611433467773136871577-611123434323
Q gi|254780306|r 595 PK-ENNEDSRTCPECHTHSLSLKLSSKY-GAFVGCTNYPEC 633 (837)
Q Consensus 595 ~~-~~~~~~~~Cp~C~~g~L~~k~~gK~-G~FigCSnyPeC 633 (837)
.. ....+...||+||. .|.++...++ ..|+||||||+|
T Consensus 598 ~~e~K~~vvg~CP~CGG-~lv~ky~~~~~~rFvgCS~yp~c 637 (637)
T TIGR01057 598 SEEKKAKVVGKCPKCGG-KLVVKYAKKGRKRFVGCSNYPEC 637 (637)
T ss_pred CCCCCCEEEECCCCCCC-CEEEEEECCCCCEEECCCCCCCC
T ss_conf 23324505523778887-34898606888412115788899
No 27
>pfam01131 Topoisom_bac DNA topoisomerase. This subfamily of topoisomerase is divided on the basis that these enzymes preferentially relax negatively supercoiled DNA, from a 5' phospho- tyrosine linkage in the enzyme-DNA covalent intermediate and has high affinity for single stranded DNA.
Probab=100.00 E-value=0 Score=856.11 Aligned_cols=397 Identities=42% Similarity=0.605 Sum_probs=355.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHCHHHHHHC-CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEE
Q ss_conf 6989999999999989874011378988641-467653422689999999999996413765440012233157996542
Q gi|254780306|r 130 INLDLVNAYLARRALDYLVGFNLSPILWQKL-PGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFT 208 (837)
Q Consensus 130 ~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~-~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~ 208 (837)
.|+|||+||+|||++|||||||+||+||++. .+++|+||||||||+|||+||+||++|+|++||.|.+.|....+. +.
T Consensus 2 ~d~nL~~A~~aR~~~D~lvG~n~Sr~~t~~~~~~~lS~GRVQtPtL~lIv~Re~eI~~F~p~~y~~i~~~~~~~~~~-~~ 80 (403)
T pfam01131 2 EDENLVDAQEARRILDRLIGFNLSRALTLKGNKKVLSAGRVQTPTLGLIVEREKEIKNFVPEPYWTVEATLGKDEFA-AG 80 (403)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCC-CC
T ss_conf 88789999999999999972765499997248999753633889999999999999839995439999999768751-00
Q ss_pred EEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 23310358330331011356667776420015630100002332224685210379999988760888999999998762
Q gi|254780306|r 209 AHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLY 288 (837)
Q Consensus 209 a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LY 288 (837)
. ....+|.++++|+.+++.+++..+.|.+|+.++.+.+||+||+|++||++||++|||||++||++||+||
T Consensus 81 ~---------~~~~~~~~~~~a~~~~~~~~~~~~~v~~v~~~~~~~~pP~pf~ls~Lq~~a~~~~g~s~~~tm~iaQ~LY 151 (403)
T pfam01131 81 K---------DEEGRFFDKEEAEAIVEKIKGKTATVKSVEKKEKKEPPPLPFNTSTLQKEASRKLGFSAKKTMDIAQKLY 151 (403)
T ss_pred C---------CCCCCCCCHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf 2---------3347769999999999986489859999876577506999857799999998753878999999999988
Q ss_pred CCCCCCCHHHHHHHHCCCCCCCCCHHH-HHHHHHHHHHHCCCCCCCCCCCCCCCCCCC-CC-CCCCCEEEEECCCCCCHH
Q ss_conf 135567212245531475544443056-899997655200112376311112556668-87-776524773023464000
Q gi|254780306|r 289 EGIDVNGEIVGLITYMRTDGVHMSPDA-LEAVRRSITSHYGDHYLPEKPRIYSSKSKN-AQ-EAHEAIRPNDFDFLPSKM 365 (837)
Q Consensus 289 E~~~~~~~~~GlITYpRTDS~~ls~ea-~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~-aQ-eAHeAIrPT~~~~~p~~~ 365 (837)
| .||||||||||++||+++ +..+++.|.+.||.++++..+....++..+ +| +||||||||+.. +.
T Consensus 152 E--------~glITYpRTDs~~ls~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~k~~aH~AI~PT~~~--~~-- 219 (403)
T pfam01131 152 E--------KGLITYPRTDSTYLSEDAELAAILEYLAKRFGEEYLPYAPKLVKPKSPGNAKVGAHEAIRPTGPI--PR-- 219 (403)
T ss_pred H--------CCCEEECCCCCCCCCCHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC--CC--
T ss_conf 6--------58345347676527825579999999984113533233000024777665556788752036777--75--
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCC
Q ss_conf 00199999999999999999985222110010013677407963999998748805885676326777632100101488
Q gi|254780306|r 366 KQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLP 445 (837)
Q Consensus 366 ~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP 445 (837)
...|+.+|++||+|||+|||||||+||+|++++|.+.+.+ ..|+++|++++++||++||.... +++..+|
T Consensus 220 ~~~ls~~e~~iY~LI~~r~las~~~~a~~~~~~v~~~~~~----~~F~~~g~~~~~~Gw~~v~~~~~------~~~~~~p 289 (403)
T pfam01131 220 LPELSDDERKLYDLIVRRFLASQMPPAVYEETKVELEVGG----EEFKASGKVLLEPGWKKVYPYSK------DEDEEPP 289 (403)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEECC----EEEEEEEEEECCCCHHHHHCCCC------CCCCCCC
T ss_conf 2329999999999999999998385224778999999899----79999989972576787616775------4444486
Q ss_pred CCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCC-CCEEECCHHHHHCCCC
Q ss_conf 645688211001101112346431017899874332102566551578999997322022147-7122201142000022
Q gi|254780306|r 446 YISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEK-RKILPQNTGRIVTAFL 524 (837)
Q Consensus 446 ~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~-~~l~pT~~G~~v~~~L 524 (837)
.+++|+.+.+.++++.+++|+||+||||||||++||+.|||||||||+||++|++|+||.+++ ++|+||++|+.|+++|
T Consensus 290 ~~~~g~~~~~~~~~~~~~~T~PP~ryTe~sLi~~Me~~GIGtpATra~iI~~L~~R~Yi~~~k~k~l~pT~~G~~li~~l 369 (403)
T pfam01131 290 ELKEGEELTVQKVELEEKKTKPPPRYTEASLIKAMEKRGIGTPATRASIIETLLERGYVERKKNKRLVPTDLGRALIDAL 369 (403)
T ss_pred CCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEECCCCEEEECHHHHHHHHHH
T ss_conf 41368679875778764204798765899999999857999602389999999858949974897780537899999987
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 33665568988999999999998626013478999
Q gi|254780306|r 525 ENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 525 ~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
+ .|++|++|+|||.||..||+|++|+.+|.+||+
T Consensus 370 ~-~~~~l~~~~~Ta~~E~~Ld~I~~G~~~~~~~l~ 403 (403)
T pfam01131 370 P-RFPDLVSPELTARLEETLDEIARGEKDYEDVLD 403 (403)
T ss_pred H-CCCHHCCHHHHHHHHHHHHHHHCCCCCHHHHCC
T ss_conf 4-413106977899999999999869998888259
No 28
>KOG1956 consensus
Probab=100.00 E-value=0 Score=825.57 Aligned_cols=678 Identities=27% Similarity=0.384 Sum_probs=540.2
Q ss_pred CEEEECCHHHHHHHHHHHCCC---------------------------CEEEEEECCCEEC--CCC---CCCCCCCCCC-
Q ss_conf 189977904787788750899---------------------------8999942511007--865---5786766674-
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSN---------------------------YKVLSSFGHIRDL--PAK---KGSVLPEKEF- 48 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~---------------------------y~V~as~GHirdL--p~~---~~~v~~~~~f- 48 (837)
.|.++|+++.||.++..|+.+ -.+++..||+..| |.. ..+..+..-|
T Consensus 3 vl~vAekn~~ak~va~il~~g~~~~re~rSk~~kiy~f~~~~~g~~~~~~mtsvsghl~~~~f~~~~s~w~s~~~~~lf~ 82 (758)
T KOG1956 3 VLCVAEKNSIAKSVASILSGGTVRRREGRSKYNKIYDFDFNLFGQNCDVTMTSVSGHLTEADFPSEYSKWQSCPPDELFD 82 (758)
T ss_pred CCCCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCEEECCHHHHHH
T ss_conf 31113241566543000379976776540224443200044307753257752145555667744566402468899863
Q ss_pred CEEEE-ECCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCC
Q ss_conf 40688-77654899999999987099899946997025799999999975512578871699998037989999998622
Q gi|254780306|r 49 EMIWN-IDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 49 ~p~y~-v~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~ 127 (837)
.|.+. +..+.+++-+.|+++++.||.+|||||||||||+|||||.++++..+. ...|.|++||+||+.+|..|+.||
T Consensus 83 a~~~~~~~~~~~~i~~~ir~eAr~ad~LviwtDcDREGE~Ig~eI~~v~~~~~~--~~~V~RA~Fs~it~~~I~sA~~nl 160 (758)
T KOG1956 83 APVIKSVPENAKDIAKTIREEARRADYLVIWTDCDREGENIGWEIIDVCRAVKR--LLQVRRARFSEITRSAIKSAARNL 160 (758)
T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHHHHCC--CCEEEHHHHHCCCHHHHHHHHHCC
T ss_conf 004413846666788899999742665999526885420464999999986074--213201244014699999998483
Q ss_pred CCCCHHHHHHHHHHHHHHHHHH--HH--HCHHHHHHCC----CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf 6469899999999999898740--11--3789886414----67653422689999999999996413765440012233
Q gi|254780306|r 128 RDINLDLVNAYLARRALDYLVG--FN--LSPILWQKLP----GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLL 199 (837)
Q Consensus 128 r~~d~~Lv~A~~aRr~lD~lvG--~~--lSp~L~rk~~----~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~ 199 (837)
|++|+++|+|..||++||+++| || .|++|||+++ +..|+|+||.|||+|||||+.||++|+|++||+|....
T Consensus 161 reid~~~v~AvdaR~ELDlrIGa~FTRlqT~~L~r~f~~~~~~viSyG~cQfpTLgfVvdR~~eIe~FvPEefWtl~~~~ 240 (758)
T KOG1956 161 REIDEKLVHAVDARIELDLRIGAAFTRLQTLLLRRKFPILGEQVISYGPCQFPTLGFVVDRYKEIENFVPEEFWTLKFKH 240 (758)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEHHHHHHCCCCCCEEEEEEEE
T ss_conf 44426778888888887777545677777299986515652666544655676222220359887635875127998999
Q ss_pred ECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCC-CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf 1579965422331035833033101135666777642001-563010000233222468521037999998876088899
Q gi|254780306|r 200 ETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKK-ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSAS 278 (837)
Q Consensus 200 ~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~ 278 (837)
..+ +.++.++.++ ++++|..-+.-+.+.|.. ..++|.++.+|++++.||.|++|++||+.|+++|.||++
T Consensus 241 ~~~------~~~~~fnw~R---~~lfdr~s~~~~~e~c~e~k~a~Vv~~~kkpktKyrP~pl~TvELqK~~s~~lrlSak 311 (758)
T KOG1956 241 THK------GGLTEFNWKR---GHLFDRLSVVILYEICVEEKEATVVKVTKKPKTKYRPLPLDTVELQKLASRKLRLSAK 311 (758)
T ss_pred ECC------CCEEEEEECC---CCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHEECCHH
T ss_conf 625------7626776031---3410178899999987426430687435477667899764089987653554631178
Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHH-HHHHHHHHH--HHCC---CCCCC---CCCCCCCCCCCCCCCC
Q ss_conf 9999998762135567212245531475544443056-899997655--2001---12376---3111125566688777
Q gi|254780306|r 279 HTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDA-LEAVRRSIT--SHYG---DHYLP---EKPRIYSSKSKNAQEA 349 (837)
Q Consensus 279 ~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea-~~~~r~~i~--~~~g---~~~l~---~~~r~y~~k~k~aQeA 349 (837)
+||+||.+||. .|+|+||||..-..+.+. +..+..... ..|| ...+. ..||. .++..+|
T Consensus 312 ~TM~iAE~ly~--------~gfisyprtetd~F~s~~~lk~lv~~qt~~~~wg~yA~~ll~~~~r~Prn----g~~~d~A 379 (758)
T KOG1956 312 HTMKIAEKLYQ--------KGFISYPRTETDNFPSDMDLKALVEKQTQDPAWGSYAQRLLQPENRNPRN----GKHNDKA 379 (758)
T ss_pred HHHHHHHHHHH--------CCCEECCCCCCCCCCCCCCHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCC----CCCCCCC
T ss_conf 89999999985--------66150242236668876863888876546814678888751568889887----7654446
Q ss_pred CCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHC
Q ss_conf 65247730234640000019999999999999999998522211001001367740796399999874880588567632
Q gi|254780306|r 350 HEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWE 429 (837)
Q Consensus 350 HeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~ 429 (837)
|+.|+||-+.- -...++.|+++||+||.+||+||...+|+...|+|++....+ .|.++|..++..+|+.||.
T Consensus 380 hppihp~k~~s----~~~~~s~d~~~vye~v~rhflAc~S~dakg~et~vel~~~~E----~F~asgl~vl~~NyldVy~ 451 (758)
T KOG1956 380 HPPIHPTKFTS----REANLSGDHRKVYELVVRHFLACCSQDAKGAETTVELDIAQE----RFSASGLRVLERNYLDVYP 451 (758)
T ss_pred CCCCCCEEECC----CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEHHH----HCCCCCCCHHHCCCCCCCC
T ss_conf 89746411025----002578641789999999877763421346605999860203----0055545144326643333
Q ss_pred CCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCC-
Q ss_conf 6777632100101488645688211001101112346431017899874332102566551578999997322022147-
Q gi|254780306|r 430 NQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEK- 508 (837)
Q Consensus 430 ~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~- 508 (837)
...++ +..||.++.|+.+....++..++.|+||++||||+||+.||+.||||+||+|++|++||+|+||.+..
T Consensus 452 yekwe------~k~Lp~y~~ge~fq~~~lem~~g~T~~P~~ltEaeLI~lMdk~GIGtdAT~aehi~kiq~R~Yv~~~~~ 525 (758)
T KOG1956 452 YEKWE------DKQLPVYEDGELFQPGELEMKDGETSPPKYLTEAELISLMDKNGIGTDATIAEHIEKIQERGYVTKKNK 525 (758)
T ss_pred CCCCC------CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCEEEECC
T ss_conf 22126------654763026662145247713676589986587999999987289973169999999886041455345
Q ss_pred -CCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf -7122201142000022336655689889999999999986260134789999867676655766775566677655676
Q gi|254780306|r 509 -RKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDT 587 (837)
Q Consensus 509 -~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~i~~~~~~~~~~v~d~l~~~ 587 (837)
.+|+||.+|.+|+++++..+-++-+|+|+|.||.+|+.|+.|..+|..||.+.|..|......+... ...+.+.
T Consensus 526 ~~~~~P~~lg~aLv~gyd~~g~e~sKp~lra~mE~~Lk~Is~G~~~k~~vl~~~v~kyra~f~~~~~~-----~~~l~~~ 600 (758)
T KOG1956 526 VGRFVPTFLGVALVEGYDDMGLEMSKPFLRAEMEVDLKNISDGRKDKKEVLRDIVTKYRAYFHETERK-----IGCLGES 600 (758)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHH
T ss_conf 43107328889998767764112078677888987788742671018889999999999999999999-----9999999
Q ss_pred HHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf 64102455556766114334677731368715776111234343233321001221000012344201468999966999
Q gi|254780306|r 588 LSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTL 667 (837)
Q Consensus 588 ~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~l 667 (837)
+.-...... ..-+| ..-|+ .++..+|-++.++.+|..
T Consensus 601 l~~y~~~~a---------------------~~~~~-----~~~p~-----------------~~Pp~~~l~~s~~~~v~p 637 (758)
T KOG1956 601 LQRYLEFIA---------------------STLTG-----PDDPE-----------------GEPPLLGLEGSTSEKVGP 637 (758)
T ss_pred HHHHHHHCC---------------------CCCCC-----CCCCC-----------------CCCCCCCCCCCCCCCCCC
T ss_conf 999986324---------------------55668-----88888-----------------899888777887886587
Q ss_pred EECCCCCEEEECCCCCCCCCCCCCCCC------HHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEECCEEC
Q ss_conf 826974227734887776133789988------42548999999861525515777898749991158765261678111
Q gi|254780306|r 668 RSGRFGLYVQRGDGKDAKRCSLPKTWK------SDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYT 741 (837)
Q Consensus 668 k~GryGpYvq~Ge~~kpkr~si~k~~~------~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~ 741 (837)
+-||||+|+|+|. .+|.+||+.++ ...+|++-|+++|..|.+.| ||+.|.++...--+-|..+++..+-.
T Consensus 638 ~cgp~p~y~~~~~---~~rg~ipp~~~~g~~~~~~~~t~~~~~~~l~~~~tn~-~p~~~~~~~~~psk~~a~~~~~p~~a 713 (758)
T KOG1956 638 KCGPKPVYRQLGK---FKRGGIPPAANAGHPKDANSITGRSALNLLRGSMTNG-HPKPGQPVVLKPSKSGATIKSRPTAA 713 (758)
T ss_pred CCCCCCCCEECCC---CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 8999886334254---6778989888889855465065141587741533569-99998655677545654204784335
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf 24887751435799999999836511344
Q gi|254780306|r 742 KLESIEQVLTIDLEQAISCITEKKKIEKS 770 (837)
Q Consensus 742 sl~~~~~~~~I~l~~Aieli~~~k~~~~~ 770 (837)
.-+++-.+...+ +|+.|+..+....++
T Consensus 714 ~~~~~~~c~c~~--ra~~l~v~k~~~nrG 740 (758)
T KOG1956 714 TEEEEVTCGCGT--RAVKLLVAKTEPNRG 740 (758)
T ss_pred CCCCCCCCCCCC--HHHHHHHHCCCCCCC
T ss_conf 787554568751--555332302676679
No 29
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=835.81 Aligned_cols=506 Identities=33% Similarity=0.551 Sum_probs=418.7
Q ss_pred EEEECCHHHHHHHHHHHCCC----------C---------EEEEEECCCEECCCCCC--CCCCCC-CCCEEEEEC-----
Q ss_conf 89977904787788750899----------8---------99994251100786557--867666-744068877-----
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGSN----------Y---------KVLSSFGHIRDLPAKKG--SVLPEK-EFEMIWNID----- 55 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~~----------y---------~V~as~GHirdLp~~~~--~v~~~~-~f~p~y~v~----- 55 (837)
|+|||||+||+|||.|+|.- | .|+||.|||.||....+ ||..++ .|.|.|..+
T Consensus 620 L~IVESPnKARTIA~FFgrPS~R~~~~~~vYEv~~gD~vL~ItAS~GHv~DLvt~~g~hGvl~~~~~~vPvY~tIKrC~d 699 (1187)
T COG1110 620 LMIVESPNKARTIASFFGRPSVRRLGGGVVYEVAIGDLVLTITASGGHVFDLVTEPGVHGVLVKDGKYVPVYDTIKRCRD 699 (1187)
T ss_pred EEEEECCHHHHHHHHHHCCCCEEEECCEEEEEEECCCEEEEEEECCCEEEEEECCCCCCEEECCCCCEEEHHHHHHHHHH
T ss_conf 89996771888999984896235547906899961875899995387168863146521056058706862788888851
Q ss_pred --------------------CCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECC
Q ss_conf --------------------654899999999987099899946997025799999999975512578871699998037
Q gi|254780306|r 56 --------------------PSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAI 115 (837)
Q Consensus 56 --------------------~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~ei 115 (837)
.++...++.|++++-.+|+|++|||||.|||-|||.|+..|.+. ..+|+|+.|||+
T Consensus 700 cg~q~~~~~~~cP~Cgs~~v~d~~~~ve~lRelA~EvDeVlIgTDPDtEGEKIawDv~~~l~Py----~~nikR~eFHEV 775 (1187)
T COG1110 700 CGEQFVDSEDKCPRCGSRNVEDKTETVEALRELALEVDEILIGTDPDTEGEKIAWDVFNYLRPY----NPNVKRIEFHEV 775 (1187)
T ss_pred CCCEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCEEEECCCCCCCCCHHHHHHHHHHCCC----CCCEEEEEEEEE
T ss_conf 5844044323598878832024077999999988652779981799876442578898762767----876047773232
Q ss_pred CHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEE
Q ss_conf 9899999986226469899999999999898740113789886414-676534226899999999999964137654400
Q gi|254780306|r 116 TKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLP-GARSAGRVQSVALRLICNRENQIESFVSEEYWS 194 (837)
Q Consensus 116 T~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~-~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~ 194 (837)
|+.||.+|++|||++|.|||.||..||+.||+|||.||+.||.... .+|||||||||+|++||+|+.|-+.=+. |..
T Consensus 776 TrrAIleAl~n~r~vd~nlVkAQiVRRIeDRWIGF~LS~~Lw~~F~~~nLsAGRVQTPVLGWIV~Ry~e~~~~~~--~~~ 853 (1187)
T COG1110 776 TRRAILEALKNPRDVDENLVKAQIVRRIEDRWIGFELSQKLWDVFNNKNLSAGRVQTPVLGWIVNRYEEYKEKRG--YLV 853 (1187)
T ss_pred CHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCEEECHHHHHHHCCCCCCCCCCCCCCCEEEHHHHHHHHHCCC--EEE
T ss_conf 399999998390003513467776555543011426229999984766766660036640020126888764055--267
Q ss_pred EEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHC
Q ss_conf 12233157996542233103583303310113566677764200156301000023322246852103799999887608
Q gi|254780306|r 195 LSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLG 274 (837)
Q Consensus 195 i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg 274 (837)
+... +. ..+.+...++.+...+......|..+..++.-.+|+|||||.||.++||++||
T Consensus 854 ~~~~--------~~-------------~~~~~~~~~~~~~~~~~~~~v~v~~~~e~ee~~~PlPPyTTDt~L~dAs~~L~ 912 (1187)
T COG1110 854 IQLD--------LD-------------LPSGNREEVENVKRKLKLIVVEVVDVVEREEEKNPLPPYTTDTMLRDASRRLR 912 (1187)
T ss_pred EECC--------CE-------------EECCCHHHHHHHHHHCCCCEEEEEEHHHHHHCCCCCCCCCCCHHHHHHHHHHC
T ss_conf 6213--------10-------------35266055665543204544898630234430489879670158999999848
Q ss_pred CCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf 88999999998762135567212245531475544443056899997655200112376311112556668877765247
Q gi|254780306|r 275 FSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIR 354 (837)
Q Consensus 275 ~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIr 354 (837)
+|+++||+|||.|+| .|||||+||||++.|+..+.-++.++...+|.+|. .||.+.. .-||||||
T Consensus 913 lsa~~~M~iaQdLFE--------~GlITYHRTDSTrVS~~Gi~vAreyl~~~~~e~~f--~pR~Wge-----~GAHEaIR 977 (1187)
T COG1110 913 LSADETMQIAQDLFE--------GGLITYHRTDSTRVSDVGIRVAREYLRKEFGEEYF--RPRSWGE-----EGAHEAIR 977 (1187)
T ss_pred CCHHHHHHHHHHHHH--------CCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCC--CCCCCCC-----CCCCCCCC
T ss_conf 883489999999974--------36538860577545411178899998886233125--6776566-----77621557
Q ss_pred EEECCCCCC----------HHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCH
Q ss_conf 730234640----------0000199999999999999999985222110010013677407963999998748805885
Q gi|254780306|r 355 PNDFDFLPS----------KMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGF 424 (837)
Q Consensus 355 PT~~~~~p~----------~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~ 424 (837)
||......+ ++...|+.++.+||+||++|||||||.||......+.+.+.+.+ ...--.-.+...||
T Consensus 978 PtrPid~~eL~~~i~~G~i~~~~~Lt~~HlrvYdLIFrRFmASQm~pa~v~~~~~~i~~~~~~---~~~e~~ve~~~~G~ 1054 (1187)
T COG1110 978 PTRPIDVEELITLIEEGVIQLPIRLTKNHLRVYDLIFRRFMASQMRPAKVLKEKAEVKADGKD---VELEALVEILEDGF 1054 (1187)
T ss_pred CCCCCCHHHHHHHHHCCCEECCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEECCCCE---EEEEEHHHHHCCCH
T ss_conf 899887788999997487205521208899999999999888607860689999999648631---11110134431422
Q ss_pred HHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEE
Q ss_conf 67632677763210010148864568821100110111234643101789987433210256655157899999732202
Q gi|254780306|r 425 LKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYV 504 (837)
Q Consensus 425 ~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV 504 (837)
-.+|. -..+|.|..|+ +.+........... +.||++++|+.|.+.|||||||||.||++|..||||
T Consensus 1055 ~~vy~-----------~~~~p~l~~g~-l~v~~~~~~~~~kv--~lytqg~vi~~MKerGIGRPSTYAkive~L~~RgYv 1120 (1187)
T COG1110 1055 ALVYP-----------TRVLPELEKGT-LKVTEVEIRKVSKV--YLYTQGEVVEEMKERGIGRPSTYAKIVETLLRRGYV 1120 (1187)
T ss_pred HHHCC-----------CCCCCCCCCCC-EEEEEEEEEECCCC--CCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHCCCEE
T ss_conf 32055-----------53357667773-14333588870464--555535299999862789970799999998637739
Q ss_pred ECCCCC--EEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf 214771--222011420000223366556898899999999999862601347899998676766
Q gi|254780306|r 505 IAEKRK--ILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIE 567 (837)
Q Consensus 505 ~~~~~~--l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~ 567 (837)
...+++ ++||.+|+.|.+||.++|+++|+.+.|.++|+.||.|+.|+.++.++|++.|+.+..
T Consensus 1121 ie~kg~~~lipTk~Gi~Vy~yL~~~~~~lVSEerTR~LEe~MD~vE~gk~dy~~vL~ely~ei~~ 1185 (1187)
T COG1110 1121 IESKGRKKLIPTKLGIEVYEYLSEKYKKLVSEERTRRLEEIMDKVEEGKADYQEVLKELYEEIKS 1185 (1187)
T ss_pred EEECCCEEECCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf 98668167321411089999999850442455679999999989983644799999999999972
No 30
>cd00186 TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA and then rejoin the broken phosphodiester backbone. Proposed catalytic mechanism of single stranded DNA cleavage is by phosphoryl transfer through a tyrosine nucleophile using acid/base catalysis. Tyr is activated by a nearby group (not yet identified) acting as a general base for nucleophilic attack on the 5' phosphate of the scissile bond. Arg and Lys stabilize the pentavalent transition state. Glu then acts as a proton donor for the leaving 3'-oxygen, upon cleavage of the scissile strand.
Probab=100.00 E-value=0 Score=824.30 Aligned_cols=375 Identities=51% Similarity=0.770 Sum_probs=339.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHHHHCC--CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEE
Q ss_conf 899999999999898740113789886414--676534226899999999999964137654400122331579965422
Q gi|254780306|r 132 LDLVNAYLARRALDYLVGFNLSPILWQKLP--GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTA 209 (837)
Q Consensus 132 ~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~--~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a 209 (837)
.||++||+|||++|||||||+|+++|.+++ +.+|+||||||||+|||+||+||++|+|++||.|
T Consensus 1 ~nL~~a~~aR~~~D~liG~n~Sr~~t~~~~~~~~lS~GRVQTPtL~lvv~Re~ei~~f~~~~y~~~-------------- 66 (381)
T cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEI-------------- 66 (381)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEE--------------
T ss_conf 966899999999999973754399999848889975664488999999988999981898552885--------------
Q ss_pred EEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHC
Q ss_conf 33103583303310113566677764200156301000023322246852103799999887608889999999987621
Q gi|254780306|r 210 HLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYE 289 (837)
Q Consensus 210 ~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE 289 (837)
+.++|.++++++.+.+||+||+|++||++||++|||||++||+|||+|||
T Consensus 67 ------------------------------~~~~v~~~~~k~~~~~pP~pf~l~~Lq~~a~~~~g~s~~~tl~iaQ~LYE 116 (381)
T cd00186 67 ------------------------------KEAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYE 116 (381)
T ss_pred ------------------------------EEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf ------------------------------34899998751586479799468999999986069599999999999986
Q ss_pred CCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCC---CCCCCCCCCCCCCCCCEEEEECCCCCCHHC
Q ss_conf 35567212245531475544443056899997655200112376311---112556668877765247730234640000
Q gi|254780306|r 290 GIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKP---RIYSSKSKNAQEAHEAIRPNDFDFLPSKMK 366 (837)
Q Consensus 290 ~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~---r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~ 366 (837)
.||||||||||++||++++..++.++...++..++.... +....+.+++|+||||||||+....+ ...
T Consensus 117 --------~g~ITYpRTDs~~ls~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aH~AI~PT~~~~~~-~~~ 187 (381)
T cd00186 117 --------AGLITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGRRNPKRGKKEQGAHEAIRPTKVAPTP-ELE 187 (381)
T ss_pred --------CCEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHCCCCCCCCCCCCCCCCCEECCCCCCCH-HHH
T ss_conf --------79265326765616999999999999976473344134431256778899977896896167888885-666
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCC
Q ss_conf 01999999999999999999852221100100136774079639999987488058856763267776321001014886
Q gi|254780306|r 367 QFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPY 446 (837)
Q Consensus 367 ~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~ 446 (837)
+.|+.+|++||+|||+|||||||+||+|++++|.+.+.+ ..|.++|++++++||++||....+ +++..+|.
T Consensus 188 ~~l~~~e~~iY~LI~~rfla~~~~~~~~~~t~v~~~~~~----~~F~~~g~~i~~~Gw~~v~~~~~~-----~~~~~lp~ 258 (381)
T cd00186 188 ANLSEDEFKLYELIWRRFLASQMADAKYEETTVTLEIGG----EKFKASGKVLLEDGWLEVYPEEKD-----DEEEEPPP 258 (381)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEEECC----EEEEEEEEEEEECCHHHEECCCCC-----CCCCCCCC
T ss_conf 019999999999999999997464020368999999899----789999999976682004467787-----63235865
Q ss_pred CCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCC
Q ss_conf 45688211001101112346431017899874332102566551578999997322022147712220114200002233
Q gi|254780306|r 447 ISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLEN 526 (837)
Q Consensus 447 l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~ 526 (837)
+.+|+.+.+.++.+.+++|+||+||||||||++||+.|||||||||+||++|++|+||.+++++|+||++|+.|+++|.+
T Consensus 259 l~~g~~~~~~~~~~~e~~TkPP~ryTe~tLi~~Me~~GIGTpATra~IIe~L~~r~Yi~~~~~~l~~T~~G~~li~~l~~ 338 (381)
T cd00186 259 LKEGDELKLEEVELEEKETQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEK 338 (381)
T ss_pred CCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHHHH
T ss_conf 35697787878788877438998778999999765369987265989999998478099329999673789999999987
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Q ss_conf 665568988999999999998626013478999986767665
Q gi|254780306|r 527 FFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWEEFIEK 568 (837)
Q Consensus 527 ~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~~f~~~ 568 (837)
+|++|++++|||.||.+||+|++|+.+|.+||++||+.++..
T Consensus 339 ~~~~i~~p~~Ta~~E~~L~~I~~G~~~~~~~l~~~~~~~~~~ 380 (381)
T cd00186 339 HFPELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKI 380 (381)
T ss_pred HHHHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf 545625978999999999999879998999999999999835
No 31
>TIGR01054 rgy reverse gyrase; InterPro: IPR005736 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=778.66 Aligned_cols=521 Identities=32% Similarity=0.510 Sum_probs=390.3
Q ss_pred EEEECCHHHHHHHHHHHCC------------------C------------C--EEEEEECCCEECCCCC----CCCCCCC
Q ss_conf 8997790478778875089------------------9------------8--9999425110078655----7867666
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGS------------------N------------Y--KVLSSFGHIRDLPAKK----GSVLPEK 46 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~------------------~------------y--~V~as~GHirdLp~~~----~~v~~~~ 46 (837)
|+|||||+||||||.|.|+ | | .|+||.|||.||-.+. .||..++
T Consensus 661 L~vVESPnKARTIA~FFGkP~~R~iP~~~~vYEv~~gDkilmim~~~G~V~~L~iTas~GHv~DL~t~~~~~f~GV~~~~ 740 (1843)
T TIGR01054 661 LLVVESPNKARTIARFFGKPSVRKIPGGSVVYEVPVGDKILMIMAETGDVLVLVITASLGHVFDLVTDKVGGFYGVLVEN 740 (1843)
T ss_pred EEEEECCCCHHHHHHHCCCCCCEECCCCCEEEEEEECCEEEEEECCCCCEEEEEEEEECCCHHHHCCCCCCCEEEEEEEC
T ss_conf 79982786044553430699635515985389986168289985189837899998411002110367446342115305
Q ss_pred C-----CCEEEEECC--------------------------------CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHH
Q ss_conf 7-----440688776--------------------------------548999999999870998999469970257999
Q gi|254780306|r 47 E-----FEMIWNIDP--------------------------------SSQKHLQNIIHAVKSSTILILATDPDREGEAIS 89 (837)
Q Consensus 47 ~-----f~p~y~v~~--------------------------------~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Ia 89 (837)
+ |-|.|..++ +++..|+.|+++|.++|+|++|||||+|||-||
T Consensus 741 ~~g~~~Y~PvY~sIKrC~dcG~QfTd~~~leeli~e~cpkcgs~~~~d~~~~ve~lR~lA~EvD~v~iaTDPDtEGEKIg 820 (1843)
T TIGR01054 741 GEGAEAYVPVYTSIKRCRDCGEQFTDEEDLEELIKELCPKCGSENIEDSKSIVEILRELASEVDEVFIATDPDTEGEKIG 820 (1843)
T ss_pred CCCCCCCEEEECCCCEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCEEEECCCCCCCCCCHH
T ss_conf 88965420044110113358874367155899999860257875556526788999875444298887258898754089
Q ss_pred HHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC-----CCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCC---
Q ss_conf 999999755125788716999980379899999986226-----469899999999999898740113789886414---
Q gi|254780306|r 90 WHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR-----DINLDLVNAYLARRALDYLVGFNLSPILWQKLP--- 161 (837)
Q Consensus 90 whi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r-----~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~--- 161 (837)
|.|.-.+.+. .-+|+|+.|||+|+.||++|++||| ++|.|||+||..||+.||+|||.||+.||....
T Consensus 821 wDl~~~~~Py----~pnv~R~eFHEVT~rAi~eAl~s~rkGeel~vd~NLVkAQvVRRI~DRWiGF~LS~~Lw~~F~Pry 896 (1843)
T TIGR01054 821 WDLALLLRPY----NPNVKRAEFHEVTKRAILEALESPRKGEELSVDENLVKAQVVRRIEDRWIGFTLSQKLWEAFNPRY 896 (1843)
T ss_pred HHHHHHHCCC----CCCEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEEEEEEECEEECHHHHHCCCCCH
T ss_conf 9999980887----775246214562379999986087657501000231011588898754003011547772248504
Q ss_pred ------------CCCC--------------CCCHHHHHHHHHHHH---HH----HHHHCCCCCCEEEEEEEECCCC--CE
Q ss_conf ------------6765--------------342268999999999---99----9641376544001223315799--65
Q gi|254780306|r 162 ------------GARS--------------AGRVQSVALRLICNR---EN----QIESFVSEEYWSLSVLLETPRN--DK 206 (837)
Q Consensus 162 ------------~~lS--------------aGRVQtp~L~lIveR---e~----eI~~F~p~~y~~i~a~~~~~~~--~~ 206 (837)
.-|| |||||||+|++|||| ++ |=+. ...+..+.+. . .++ ..
T Consensus 897 CkrvleeyGekk~wLsrerCakykayynlsAGRVQTPVLGWiidRtlay~kkvWe~r~--~~~~~l~~~~-~-~d~~evP 972 (1843)
T TIGR01054 897 CKRVLEEYGEKKPWLSRERCAKYKAYYNLSAGRVQTPVLGWIIDRTLAYRKKVWEYRE--KRGSLLLFAL-E-SDDPEVP 972 (1843)
T ss_pred HHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCCEEECCCCCEEEEEEEHHCCCEEEEEE--ECCEEEEEEE-E-CCCCCCC
T ss_conf 6788874011267778556554322210358705005145067510021001001234--5133999998-2-5881023
Q ss_pred EEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC--CCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 4223310358330331011356667776420015630100002332--22468521037999998876088899999999
Q gi|254780306|r 207 FTAHLTDFNGQRIEKKSISNKKEADDLISFVKKATYSVEKIENKPI--KRNPWPAFTTSTLQQVASSRLGFSASHTMRIA 284 (837)
Q Consensus 207 f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~V~~v~~k~~--~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iA 284 (837)
|.... -+.|+-+|+++...+. -.-|..+..++. -++|||||||.||..|||++||+|+.+||+||
T Consensus 973 ~~~~~-----------~~~d~~~~~~~~~~l~--~~dV~~~~~~EEWt~~~PlPPYTTDT~L~dAn~~l~LS~~~~M~IA 1039 (1843)
T TIGR01054 973 FRLKL-----------ELDDKLEAKEFEKDLK--ELDVKVVEEKEEWTERNPLPPYTTDTMLEDANRKLGLSAKKAMKIA 1039 (1843)
T ss_pred EEEEE-----------EEECHHHHHHHHCCCC--EEEEEEECCCEEECCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf 46433-----------5421135432202541--4665541673000368500188756789998776357978999999
Q ss_pred HHHHCCCCCCCHHHHHHHHCCCC-----CC----------------------------------------CCC-------
Q ss_conf 87621355672122455314755-----44----------------------------------------443-------
Q gi|254780306|r 285 QKLYEGIDVNGEIVGLITYMRTD-----GV----------------------------------------HMS------- 312 (837)
Q Consensus 285 Q~LYE~~~~~~~~~GlITYpRTD-----S~----------------------------------------~ls------- 312 (837)
|.|+| .||||-|-|= ++ +||
T Consensus 1040 QeLFE--------~GLITtPdtyvvlGdGrietiedivnakernvlsldldnlsikidtaikfWklrynGnlskitlsnn 1111 (1843)
T TIGR01054 1040 QELFE--------LGLITTPDTYVVLGDGRIETIEDIVNAKERNVLSLDLDNLSIKIDTAIKFWKLRYNGNLSKITLSNN 1111 (1843)
T ss_pred HHHHH--------CCCCCCCCCEEEECCCCCHHHHHHHHHCCCCEEEEECCCCEEEEHHHHEEEEEEECCCEEEEEEECC
T ss_conf 98851--------5311288527996387103678764000121334420210121000200000002365013553035
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q gi|254780306|r 313 -------------------------------------------------------------------------------- 312 (837)
Q Consensus 313 -------------------------------------------------------------------------------- 312 (837)
T Consensus 1112 yelkatPdhCllvlrdnqlkWiPakdikendyiamPfnykverkPisllnllkylditdvliefdenstifekiaeyirn 1191 (1843)
T TIGR01054 1112 YELKATPDHCLLVLRDNQLKWIPAKDIKENDYIAMPFNYKVERKPISLLNLLKYLDITDVLIEFDENSTIFEKIAEYIRN 1191 (1843)
T ss_pred CCCCCCCCEEEEEEECCCCEECCCCCCCCCCEEECCCCCEECCCCHHHHHHHHHHHHHHHEEEECCCCHHHHHHHHHHHH
T ss_conf 21114777058988506400024223555652634533101145136888887631411102314651388999999874
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q gi|254780306|r 313 -------------------------------------------------------------------------------- 312 (837)
Q Consensus 313 -------------------------------------------------------------------------------- 312 (837)
T Consensus 1192 niktstkykylrnrrvPlkylieWnfdldeiekeakyiyksvaGtkkiPlfklderfWyfaGlvlGdGsiqdskiriaqt 1271 (1843)
T TIGR01054 1192 NIKTSTKYKYLRNRRVPLKYLIEWNFDLDEIEKEAKYIYKSVAGTKKIPLFKLDERFWYFAGLVLGDGSIQDSKIRIAQT 1271 (1843)
T ss_pred HHHHHHHHHHHHCCCCCHHEEEEECCCHHHHHHHHHHHHHHCCCCCCCCCEEECCHHEEEEEEEECCCCEECCEEEEECC
T ss_conf 21022322333215674000123035656665443422111035433540211110000001134166200140233237
Q ss_pred ------------------------------------------------------HH------------------------
Q ss_conf ------------------------------------------------------05------------------------
Q gi|254780306|r 313 ------------------------------------------------------PD------------------------ 314 (837)
Q Consensus 313 ------------------------------------------------------~e------------------------ 314 (837)
+.
T Consensus 1272 PlkdvksildetfPflhnWisGnqviisnPiiaeileklGmrnGklnGiifslPesyinaliaGyfdtdGCfsllydkka 1351 (1843)
T TIGR01054 1272 PLKDVKSILDETFPFLHNWISGNQVIISNPIIAEILEKLGMRNGKLNGIIFSLPESYINALIAGYFDTDGCFSLLYDKKA 1351 (1843)
T ss_pred CHHHHHHHHHHCCHHHHHHCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEEECCHHHHHHHHHHCCCCCCCEEHHHHHHH
T ss_conf 63678988741011354420566268706259999987066566402157744267887887200135741100111010
Q ss_pred -----------------------------------------------HHHHHH----HHHH------------------H
Q ss_conf -----------------------------------------------689999----7655------------------2
Q gi|254780306|r 315 -----------------------------------------------ALEAVR----RSIT------------------S 325 (837)
Q Consensus 315 -----------------------------------------------a~~~~r----~~i~------------------~ 325 (837)
.++..+ .+++ +
T Consensus 1352 kkhnlrmvltskrrdvlekiGiylnsiGilntlhksrevysliisnksletfkekiakylkirkeafinGyktykkehee 1431 (1843)
T TIGR01054 1352 KKHNLRMVLTSKRRDVLEKIGIYLNSIGILNTLHKSREVYSLIISNKSLETFKEKIAKYLKIRKEAFINGYKTYKKEHEE 1431 (1843)
T ss_pred HHCCEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 00111245510145677764256645677764421100123232201167899999998876666654113444222110
Q ss_pred HCCCCCCC------------------------------------------------------------------------
Q ss_conf 00112376------------------------------------------------------------------------
Q gi|254780306|r 326 HYGDHYLP------------------------------------------------------------------------ 333 (837)
Q Consensus 326 ~~g~~~l~------------------------------------------------------------------------ 333 (837)
.|--+.||
T Consensus 1432 rfeCdllPvkevfkkltfekGrkeilkdskihienWykektnniPreklktvlryannsehkeflekivnGdisfvrvkk 1511 (1843)
T TIGR01054 1432 RFECDLLPVKEVFKKLTFEKGRKEILKDSKIHIENWYKEKTNNIPREKLKTVLRYANNSEHKEFLEKIVNGDISFVRVKK 1511 (1843)
T ss_pred HHCCCCCCHHHHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCCEEEEEEEE
T ss_conf 00123232788987642210104443103000222232220367456788887641251257888887437512799864
Q ss_pred ------------------------------------CCCCCCC-CCCCCCC-----------------------CCCCCE
Q ss_conf ------------------------------------3111125-5666887-----------------------776524
Q gi|254780306|r 334 ------------------------------------EKPRIYS-SKSKNAQ-----------------------EAHEAI 353 (837)
Q Consensus 334 ------------------------------------~~~r~y~-~k~k~aQ-----------------------eAHeAI 353 (837)
++.|+=. +|..-|. -|||||
T Consensus 1512 veniPydGyvydlsikhnqnfisnGvishnCtYHRTDSTRVSd~Gk~~vAkEYL~~~fGGl~~e~f~pR~WGEgGAHEcI 1591 (1843)
T TIGR01054 1512 VENIPYDGYVYDLSIKHNQNFISNGVISHNCTYHRTDSTRVSDVGKMRVAKEYLEKRFGGLGEELFYPREWGEGGAHECI 1591 (1843)
T ss_pred EECCCCCCEEEEEEEECCCCHHHCCEEECCCCEECCCCCEECCCCCEEEEHHHHHHHCCCCHHHCCCCCCCCCCCCEECC
T ss_conf 31266665268645400332000561432652102765103454660000357763237730121568834787865356
Q ss_pred EEEECCCCCC-----------HHCCCCCHHHHHHHHHHHHHHHHHHHHHHE------------ECCCEEEEEEEECCCEE
Q ss_conf 7730234640-----------000019999999999999999998522211------------00100136774079639
Q gi|254780306|r 354 RPNDFDFLPS-----------KMKQFLDSDQFQLYNLIWKRSVASQMASAK------------FERTTVNIIATYNDQIG 410 (837)
Q Consensus 354 rPT~~~~~p~-----------~~~~~L~~de~klY~LI~~R~lasqm~~a~------------~~~~~v~i~~~~~~~~~ 410 (837)
|||-.. .++ .+...|.....+|||||+||||||||.||. .+...+.|...+.+
T Consensus 1592 RPtrPl-d~~dL~~~~~~G~i~~~~~L~~~hl~lYdLIFrRFmASQMkpa~alrvvyrlrvPev~~~~~~l~~~g~e--- 1667 (1843)
T TIGR01054 1592 RPTRPL-DVEDLERLVLEGVIELEGRLRRNHLKLYDLIFRRFMASQMKPAKALRVVYRLRVPEVDTKEITLKADGKE--- 1667 (1843)
T ss_pred CCCCCC-CHHHHHHHHHCCCEEECCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEEEEECCCE---
T ss_conf 876878-9899999986392330430168998886678764133107722025677676346056789999754601---
Q ss_pred EEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCC-CCCCHHHHHHHHHHCCCCCCC
Q ss_conf 9999874880588567632677763210010148864568821100110111234643-101789987433210256655
Q gi|254780306|r 411 HLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPP-PRYSESSLIKKMEEIGIGRPS 489 (837)
Q Consensus 411 ~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP-~rytEasLik~mE~~GIGrPS 489 (837)
.+.-....+.+.||-.+|.-.... .|.+..+........+..+=---+| ..|||++||+.|.+.||||||
T Consensus 1668 ~~~~~~v~~~~~Gf~l~yp~~~~~---------~~~~~k~~~~~~~~~e~~~VPKv~lkrlYt~G~iv~~MK~RGIGRPS 1738 (1843)
T TIGR01054 1668 VEEEGVVEIKERGFELVYPLKRKE---------PRLVEKGSLLIRKDKELRKVPKVYLKRLYTQGEIVKEMKERGIGRPS 1738 (1843)
T ss_pred EEEEEEEEEEECCHHHCCCCCCCC---------CCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCC
T ss_conf 311246887503202005624777---------53355664010112220407642530115631476886446775985
Q ss_pred CHHHHHHHHHHCCEEECCCC-------CEEECCHHHHHCCCCCC--C-----------------CCCCCCHHHHHHHHHH
Q ss_conf 15789999973220221477-------12220114200002233--6-----------------6556898899999999
Q gi|254780306|r 490 TYATILETLYKRKYVIAEKR-------KILPQNTGRIVTAFLEN--F-----------------FSQYVEYDFTADLEEK 543 (837)
Q Consensus 490 TyA~II~~L~~R~YV~~~~~-------~l~pT~~G~~v~~~L~~--~-----------------f~~~~~~~fTa~~E~~ 543 (837)
|||.||++|.+|+||...++ .|+||.+|+.|.+||.+ + ||.+|+.|+|.++|+.
T Consensus 1739 TYA~Iv~~Ll~R~YVvE~~~~eGrG~~~lIPTklG~~VY~YL~~~~~sadeeeyGGriaGilrr~p~lvSEd~TR~LEe~ 1818 (1843)
T TIGR01054 1739 TYAKIVEKLLERGYVVESKGKEGRGARFLIPTKLGIEVYEYLTNEKKSADEEEYGGRIAGILRRYPKLVSEDRTRELEEA 1818 (1843)
T ss_pred HHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCHHCCCEEHHHHHHCCCCCCCCHHHHHHHH
T ss_conf 58999998622897787516656757521455366158876200135654101265000243314653351010689988
Q ss_pred HHHHHCCCHHHHHHHHHHHHHH
Q ss_conf 9998626013478999986767
Q gi|254780306|r 544 LDEISTGKLNWKEVLHEFWEEF 565 (837)
Q Consensus 544 ld~Ia~G~~~~~~~L~~Fy~~f 565 (837)
||.|++|+.++.+||++.|...
T Consensus 1819 MD~vE~G~~dy~~VL~~l~~~i 1840 (1843)
T TIGR01054 1819 MDKVEKGELDYLEVLEELYREI 1840 (1843)
T ss_pred HHHHHCCCCCHHHHHHHHHHHH
T ss_conf 6355268779899999999997
No 32
>smart00437 TOP1Ac Bacterial DNA topoisomerase I DNA-binding domain. Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit
Probab=100.00 E-value=0 Score=549.15 Aligned_cols=255 Identities=49% Similarity=0.718 Sum_probs=226.0
Q ss_pred ECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 02332224685210379999988760888999999998762135567212245531475544443056899997655200
Q gi|254780306|r 248 ENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHY 327 (837)
Q Consensus 248 ~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~ 327 (837)
|+|+.+++||+||+|++||++||++|||||++||++||+||| .||||||||||++||++....++.+|..++
T Consensus 1 e~k~~~~~PP~pf~ls~Lq~~as~~~g~sa~~tl~iaQ~LYe--------~g~ITYpRTds~~l~~~~~~~~~~~i~~~~ 72 (259)
T smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE--------KGLITYPRTDSTRLSEEAVLEARNYISKHY 72 (259)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHH--------CCCEEECCCCCCCCCHHHHHHHHHHHHHHC
T ss_conf 998635789799778999999998669999999999999986--------785533476874639999999999999863
Q ss_pred CCCCCCCC----CCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEE
Q ss_conf 11237631----11125566688777652477302346400000199999999999999999985222110010013677
Q gi|254780306|r 328 GDHYLPEK----PRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIA 403 (837)
Q Consensus 328 g~~~l~~~----~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~ 403 (837)
+..|+... .+....+..++|+||||||||+....++. ...|+++|++||+|||+|||||||+||+|++++|.+.+
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~aH~AI~PT~~~~~~~~-~~~l~~~e~~lY~LI~~r~las~~~~~~~~~t~v~~~~ 151 (259)
T smart00437 73 GKEYLPLAVSLLKPRKPRWGKKEQGAHEAIRPTKPIPTPEL-EKELSEDEKKLYELIWRRFLASQMPDAKYEETKVIIKI 151 (259)
T ss_pred CHHHHHHHHHHCCCCCCCCCCCCCCCCCCEECCCCCCCHHH-HHHCCHHHHHHHHHHHHHHHHHHCCHHEEEEEEEEEEE
T ss_conf 52100255553257878889998789889873667777465-51099999999999999999985753327899999998
Q ss_pred EECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHC
Q ss_conf 40796399999874880588567632677763210010148864568821100110111234643101789987433210
Q gi|254780306|r 404 TYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEI 483 (837)
Q Consensus 404 ~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~ 483 (837)
.+ ..|.++|++++++||+.||....+ +++..||.+.+|+.+.+.++.+.+++|+||+||||+|||++||+.
T Consensus 152 ~~----~~F~~~g~~~~~~Gw~~v~~~~~~-----~~~~~lp~l~~g~~~~~~~~~~~~~~TkPP~~yte~tLi~~Me~~ 222 (259)
T smart00437 152 GG----EKFKAKGKTLLFDGWLKVYPEEKK-----EEEIELPTLKKGDELKVEEVEVEEKKTKPPARYTEASLIKLMEKR 222 (259)
T ss_pred CC----EEEEEEEEEEEECCHHHEECCCCC-----CCCCCCCCCCCCCEEEEEEEEEEEEECCCCCCCCHHHHHHHHHCC
T ss_conf 99----899999999986873740335656-----531328767779889998888765433899887999999987508
Q ss_pred CCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHH
Q ss_conf 2566551578999997322022147712220114200
Q gi|254780306|r 484 GIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIV 520 (837)
Q Consensus 484 GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v 520 (837)
|||||||||+||++|++|+||++++++|+||++|++|
T Consensus 223 GIGtpATra~iI~~L~~R~Yi~~~~k~l~pT~~G~~l 259 (259)
T smart00437 223 GIGRPSTYAEIIETLLDRGYVTKEKKKLIPTELGIAV 259 (259)
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEECCEEEECCCEECC
T ss_conf 9985025999999897589699459999554363319
No 33
>COG1754 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]
Probab=100.00 E-value=0 Score=519.65 Aligned_cols=247 Identities=44% Similarity=0.791 Sum_probs=223.0
Q ss_pred HHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCC
Q ss_conf 5567664102455556766114334677731368715776111234343233321001221000---0123442014689
Q gi|254780306|r 583 ILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDI---PEMKESVLLGNDL 659 (837)
Q Consensus 583 ~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~---~~~~~~~~LG~dP 659 (837)
..+..+..++|+...+....+.||.|+.+.+.++. ||||+|++|+|||+|.++++|.....+. .....+++||.||
T Consensus 4 ~~~~~L~~lv~~~~~D~s~~rt~~~~~~~~~slk~-GKyGpyl~~an~Pe~~~~~eL~~e~~~~l~~~~~~~~r~LG~DP 82 (298)
T COG1754 4 ALNKGLKPLVFPNREDASEPRTCPLCGTGELSLKL-GKYGPYLECANYPECTTPKELTLEVAENLEATPQGGPRVLGIDP 82 (298)
T ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEE-CCCCCCCEECCCCCCCCHHHHCCHHCCCCCCCCCCCCCCCCCCC
T ss_conf 54544565521135776557614434666156884-25433101206866547666140001222335689975236688
Q ss_pred CCCCEEEEEECCCCCEEE--ECCC-CCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEE
Q ss_conf 999669998269742277--3488-7776133789988425489999998615255157778987499911587652616
Q gi|254780306|r 660 ETKESVTLRSGRFGLYVQ--RGDG-KDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNH 736 (837)
Q Consensus 660 ~~G~~I~lk~GryGpYvq--~Ge~-~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~ 736 (837)
++|++|++|+|||||||| +|+. +||+|+|+|+++++++||||+||+||||||+||.||++|++|+|.+|||||||+|
T Consensus 83 ~tG~eI~~k~GryGPYVq~~lg~~~~kpkraSLpkg~~~e~ItLE~AL~LLsLPR~iG~hp~sge~I~ag~GRfGPyv~k 162 (298)
T COG1754 83 ETGEEIYLKNGRYGPYVQEQLGDPKPKPKRASLPKGWKPETITLEKALKLLSLPRVIGKHPDSGEEISAGLGRFGPYVKK 162 (298)
T ss_pred CCCCEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHCCCHHHCCCCCCCCEEEECCCCCCCCEEE
T ss_conf 88856688526777615643478888854466889888312759999998738243077988886788614665763310
Q ss_pred CCE-ECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCCC-CCEEEEECCCCCEEEECCEEEECCCC
Q ss_conf 781-1124887751435799999999836511344344544320102678989-84699606854525367888756578
Q gi|254780306|r 737 DGA-YTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPEG-GSITVHNGRYGPYLHWKKINASLSKE 814 (837)
Q Consensus 737 ~~~-~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~~-~~i~i~~GryGpYi~~gk~Na~ipk~ 814 (837)
.++ |+||++++|+|+|+||||+.||+|++.+++ +..++++||.||++ ++|.|++|||||||+||++||+|||+
T Consensus 163 ~Gsd~~sL~~~dd~ftItL~rA~~liaEk~~~G~-----s~~alk~lg~~p~~g~pI~v~dGrfGpYv~~Gk~Na~Lpkg 237 (298)
T COG1754 163 RGSDYRSLKSEDDVFTITLDRALKLIAEKRSRGR-----SAAALKELGTHPEGGKPITVKDGRFGPYVKDGKTNATLPKG 237 (298)
T ss_pred CCCCCCCCCCCCCEEEECHHHHHHHHHHHHCCCC-----CHHHHHHHCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf 6842114455343266308999999974530376-----44568874458467851588447867620015303657899
Q ss_pred CCHHHCCHHHHHHHHHHHHHC
Q ss_conf 896778999999999877726
Q gi|254780306|r 815 ESPDTVDLEKALKILNIKKQK 835 (837)
Q Consensus 815 ~~~e~lt~e~a~~li~~k~~k 835 (837)
.||++||+|+|++||++|+++
T Consensus 238 ~d~~sit~e~A~~LLaer~a~ 258 (298)
T COG1754 238 KDPASITLEEALELLAERRAK 258 (298)
T ss_pred CCCCCCCHHHHHHHHHHHCCC
T ss_conf 880106799999999974146
No 34
>KOG1957 consensus
Probab=100.00 E-value=0 Score=407.28 Aligned_cols=478 Identities=23% Similarity=0.265 Sum_probs=367.8
Q ss_pred EEEECCHHHHHHHHHHHCC------------------------CCEEEEEECCCE--ECCCC---CCCCCCCCCCCEEEE
Q ss_conf 8997790478778875089------------------------989999425110--07865---578676667440688
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGS------------------------NYKVLSSFGHIR--DLPAK---KGSVLPEKEFEMIWN 53 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~------------------------~y~V~as~GHir--dLp~~---~~~v~~~~~f~p~y~ 53 (837)
|+++|+|+.|-.||+.|.. .|+|++..||+. |+|+| +-.|||.+-|..--+
T Consensus 5 lmvaekpsla~sia~ils~g~~s~~kg~csvhe~~g~f~g~~~~fk~tsvcghvmsldf~~kyn~w~~vdp~elf~apt~ 84 (555)
T KOG1957 5 LMVAEKPSLADSIANILSNGQASKRKGWCSVHEYDGQFRGRAARFKVTSVCGHVMSLDFPPKYNNWDKVDPAELFSAPTE 84 (555)
T ss_pred EEEECCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEEEEEECEEEECCCCHHCCCCCCCCHHHHHCCCCH
T ss_conf 67615845999999986477610356733566525621682336888554110586047333177332698897277400
Q ss_pred ECC--CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCC
Q ss_conf 776--548999999999870998999469970257999999999755125788716999980379899999986226469
Q gi|254780306|r 54 IDP--SSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDIN 131 (837)
Q Consensus 54 v~~--~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d 131 (837)
-.. -|-...+.|...+++||.++||.|+|+|||+|+|++++..+......+-.++|+.||+||++.|.+||.|+.+.|
T Consensus 85 kkeanpk~~m~kfl~~eargcdy~vlwldcdkegenicfevidav~~~m~~~~~~tyra~fsaitekdi~~am~~lg~p~ 164 (555)
T KOG1957 85 KKEANPKMNMNKFLASEARGCDYLVLWLDCDKEGENICFEVIDAVKCVMNRSDFKTYRAHFSAITEKDIKKAMRNLGEPD 164 (555)
T ss_pred HCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCCEEEHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHCCCCC
T ss_conf 00148026599987643369867999962577767220103644545540576147753313022778999998538998
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEE
Q ss_conf 89999999999989874011378988641467653422689999999999996413765440012233157996542233
Q gi|254780306|r 132 LDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHL 211 (837)
Q Consensus 132 ~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l 211 (837)
.|...|..||+.||..| -. ..-.|.|.||||||+++|+|...|+.|+|+.||.+.+.+.+.+ +..+|
T Consensus 165 ~nea~svdarqeldlri--ld--------s~~isygpcqtptlgfcv~rhd~i~tfkpe~~w~l~~~~~~~~---~~lew 231 (555)
T KOG1957 165 QNEALSVDARQELDLRI--LD--------SSLISYGPCQTPTLGFCVTRHDQIQTFKPEQYWVLQTNFTTDD---LSLEW 231 (555)
T ss_pred CCHHCCCCHHHHHHHHH--HH--------HCCEEECCCCCCCCEEEEEEHHHHHCCCCCCEEEEEEECCCCC---CCCHH
T ss_conf 32101442444302634--53--------3122106778985312455431331358540588742048887---55013
Q ss_pred EEECCEEECCCCHHHHHHHHHHHHHHCC-CCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCC
Q ss_conf 1035833033101135666777642001-563010000233222468521037999998876088899999999876213
Q gi|254780306|r 212 TDFNGQRIEKKSISNKKEADDLISFVKK-ATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEG 290 (837)
Q Consensus 212 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~ 290 (837)
+.+|++|.+.|.-+++.++. ..+.|.+|.+|+..+.-|..++|..|.+.|
T Consensus 232 --------~r~rvfd~eia~~f~~~vk~~~~a~v~~vs~ke~~k~rp~alntvel~rv~--------------------- 282 (555)
T KOG1957 232 --------QRGRVFDAEIARVFLNRVKECKTALVEDVSKKEARKERPCALNTVELMRVA--------------------- 282 (555)
T ss_pred --------HHCCHHHHHHHHHHHHHHHHHHHHEEHHHHHHHHHHCCCCCCCHHHEEEEE---------------------
T ss_conf --------421113689999999998762021101045567753488421314002456---------------------
Q ss_pred CCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCHHCCCCC
Q ss_conf 55672122455314755444430568999976552001123763111125566688777652477302346400000199
Q gi|254780306|r 291 IDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDFLPSKMKQFLD 370 (837)
Q Consensus 291 ~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~k~k~aQeAHeAIrPT~~~~~p~~~~~~L~ 370 (837)
+|..+..+..+- .+.-+-+-|. .+ +....| +-|++|.|..... ....+
T Consensus 283 --------------itett~y~~nfd-------~si~~~D~L~-~~----s~gtdA-gdgpPitpmr~~~-----R~m~~ 330 (555)
T KOG1957 283 --------------ITETTAYPANFD-------TSIILGDTLF-EA----SFGTDA-GDGPPITPMRKCN-----RYMKS 330 (555)
T ss_pred --------------EEECCCCCCCCC-------CCCCCCCCCC-CC----CCCCCC-CCCCCCCCCCCCC-----CCCCC
T ss_conf --------------752245764456-------6631021001-45----456768-8999867664332-----00112
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHEECCCEEEEEEEECCCEEEEE--EEEEEEECCCHHHHHCCCCCCC-CCCHHHCCCCCC
Q ss_conf 9999999999999999852221100100136774079639999--9874880588567632677763-210010148864
Q gi|254780306|r 371 SDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLR--TTGSLLCFDGFLKVWENQYDQE-KNSEEDILLPYI 447 (837)
Q Consensus 371 ~de~klY~LI~~R~lasqm~~a~~~~~~v~i~~~~~~~~~~F~--asg~~i~~~G~~~vy~~~~~~~-~~~~~~~~LP~l 447 (837)
.|-++||..+++.|++.-+...+|..+++...++ ++ .|. .+|+.+...||-.+.....+.+ ....++-..|..
T Consensus 331 ~dtkRLY~~vCqhf~~tp~~~~~k~it~~k~slg--de--qf~lw~~Gk~~~~~gft~fm~n~p~m~wgagcdECthPSc 406 (555)
T KOG1957 331 GDTKRLYCYVCQHFYATPQFKCKKVITTVKCSLG--DE--QFILWCTGKRLREFGFTPFMPNNPKMPWGAGCDECTHPSC 406 (555)
T ss_pred CCCEEECCHHHHHHEECCCCCCEEEEEEEEECCC--CE--EEEECCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf 4300002044345212267672689866640457--74--6873157630115776635557876543457776679517
Q ss_pred C-------CCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHH---HHHHHHCCEEECC-CCCEEECCH
Q ss_conf 5-------6882110011011123464310178998743321025665515789---9999732202214-771222011
Q gi|254780306|r 448 S-------ANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATI---LETLYKRKYVIAE-KRKILPQNT 516 (837)
Q Consensus 448 ~-------~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~I---I~~L~~R~YV~~~-~~~l~pT~~ 516 (837)
. .|+.+.+.++.+...+|.||-+.|++-++..||+.||| |+|+| |..+.+|+||..+ |++++||++
T Consensus 407 q~slSmlgiG~~vEc~~v~Lv~~qTsPkwylTcnkcisvme~hgig---tdasI~VhinsiceRnYv~Ve~gr~~~Pt~L 483 (555)
T KOG1957 407 QQSLSMLGIGQCVECESVELVLDQTSPKWYLTCNKCISVMEKHGIG---TDASIPVHINSICERNYVTVESGRALVPTPL 483 (555)
T ss_pred HHHHHCCCCEEEEEECCEEEEECCCCCCCEEEHHHHHHHHHHHCCC---CEEEEEEEECCHHHHHEEEEECCCCCCCCCC
T ss_conf 7643025650489856689970589997413442557888762466---2125777634510131276104852477740
Q ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf 420000223366556898899999999999862601347899998
Q gi|254780306|r 517 GRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEF 561 (837)
Q Consensus 517 G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~F 561 (837)
|+.+..-...--|+++-+.+.+..|+.|-.++.|..++.++++.+
T Consensus 484 g~~l~~Gy~~~DP~l~lpt~r~~~es~~~lvA~G~A~~q~v~R~r 528 (555)
T KOG1957 484 GETLVRGYVKCDPELVLPTMRKEAESQLPLVAGGPADFQDVWRNR 528 (555)
T ss_pred CHHHHCCCEEECCCEECHHHHHHHHHHCHHHHCCCCCHHHHHHCC
T ss_conf 124313746437110226688889861415417861110233121
No 35
>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=100.00 E-value=2.3e-37 Score=299.55 Aligned_cols=122 Identities=50% Similarity=0.798 Sum_probs=115.8
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCC-CCEEEEECCCHHHHHHHHHHHHHHCCEEEECC
Q ss_conf 91899779047877887508998999942511007865578676667-44068877654899999999987099899946
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKE-FEMIWNIDPSSQKHLQNIIHAVKSSTILILAT 79 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~-f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAt 79 (837)
|+|||||||||||+|++|||++|.|+||+|||+|||.+..++++.+. |.|.|.+.++++++++.|++++++||+||+||
T Consensus 1 K~LvIvEsPskak~I~~~LG~~y~V~as~GHl~~L~~~~~~~~~~~~~~~p~~~~~~~k~k~i~~ik~l~~~ad~viiAt 80 (123)
T cd03363 1 KKLVIVESPAKAKTIKKYLGKEYEVLASVGHIRDLPKKGLGVDGEDDGFEPKYVVIPGKKKVVKELKKLAKKADEIYLAT 80 (123)
T ss_pred CEEEEEECHHHHHHHHHHHCCCCEEEEECCCHHHCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECC
T ss_conf 91999958788999999819996999711502315776467775457853377966417889999999985099899848
Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCC
Q ss_conf 997025799999999975512578871699998037989999998622
Q gi|254780306|r 80 DPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 80 D~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~ 127 (837)
|||||||+|||||+++++. +++++|+||||||++||++||+||
T Consensus 81 D~DrEGE~I~~~i~~~~~~-----~~~~~Ri~f~~iT~~aI~~A~~nP 123 (123)
T cd03363 81 DPDREGEAIAWHLAEVLKL-----KKNVKRVVFNEITKEAIKEALKNP 123 (123)
T ss_pred CCCCCHHHHHHHHHHHHCC-----CCCCEEEEEECCCHHHHHHHHHCC
T ss_conf 9982479999999999589-----999728999256999999999682
No 36
>cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. 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. 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 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=100.00 E-value=6.8e-36 Score=288.50 Aligned_cols=122 Identities=31% Similarity=0.558 Sum_probs=107.1
Q ss_pred CEEEECCHHHHHHHHHHHCCC-------------------CEEEEEECCCEECCCCCCCCCC---CCCCCEEEE------
Q ss_conf 189977904787788750899-------------------8999942511007865578676---667440688------
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSN-------------------YKVLSSFGHIRDLPAKKGSVLP---EKEFEMIWN------ 53 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~-------------------y~V~as~GHirdLp~~~~~v~~---~~~f~p~y~------ 53 (837)
.|||||||+|||+|++|||+. |.|+||+|||||||.+.+++++ ++.|.|.|.
T Consensus 2 ~LvIvEsP~kAktIa~~LG~~~~~~~~~~~~ye~~~~~~~~~V~as~GHi~dL~~~~~~~~~~~~~~~~~p~y~~~k~~~ 81 (170)
T cd03361 2 ALMIVESPNKARTIANFFGRPSVRRLGGLVVYEVSTGDGVLMITASGGHVYDLVTKEGGHGVVEDDGRYVPVYDSIKRCR 81 (170)
T ss_pred EEEEECCHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHC
T ss_conf 69998278999999998388531234665412321588458999788883238876678675366756564303543200
Q ss_pred -------------------ECCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEC
Q ss_conf -------------------7765489999999998709989994699702579999999997551257887169999803
Q gi|254780306|r 54 -------------------IDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNA 114 (837)
Q Consensus 54 -------------------v~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~e 114 (837)
+.++++++++.|++++++||+||||||||||||+||||++++|+.. +.+++|++|||
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~k~k~v~~lk~lak~ad~v~lATD~DREGEaIa~hi~~~l~~~----~~~~~Ri~F~e 157 (170)
T cd03361 82 DCGYQFTEDSDKCPRCGSENIDDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPY----NKNIKRAEFHE 157 (170)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCCC----CCCEEEEEECC
T ss_conf 01111112234464322233754899999999998608979985799822229999999995575----89815789746
Q ss_pred CCHHHHHHHHHCC
Q ss_conf 7989999998622
Q gi|254780306|r 115 ITKQVVLNAMKSP 127 (837)
Q Consensus 115 iT~~aI~~A~~n~ 127 (837)
||++||++||+||
T Consensus 158 ITk~aI~~A~~nP 170 (170)
T cd03361 158 VTRRAILEALRNP 170 (170)
T ss_pred CCHHHHHHHHHCC
T ss_conf 5999999999682
No 37
>PRK07941 DNA topoisomerase I; Validated
Probab=100.00 E-value=6e-33 Score=266.37 Aligned_cols=161 Identities=35% Similarity=0.601 Sum_probs=143.6
Q ss_pred CCCCCEEEEEECCCCCEEEE--CCCC----CCCCCCCCCCCCHHHCCHHHHHHHHHCC---HHHCCCCCCCCEEEEEECC
Q ss_conf 99996699982697422773--4887----7761337899884254899999986152---5515777898749991158
Q gi|254780306|r 659 LETKESVTLRSGRFGLYVQR--GDGK----DAKRCSLPKTWKSDSVDYDKAMSLLSLP---REIGIHPETQKNIIAGTGK 729 (837)
Q Consensus 659 P~~G~~I~lk~GryGpYvq~--Ge~~----kpkr~si~k~~~~~~itle~Al~LLsLP---r~lG~~pe~g~~I~~~~Gr 729 (837)
..+|.++.+|.||||||++. |... ++.|+++|.++.++++|++.|.+|+..| |.||.||++|++|.+++||
T Consensus 638 ~~~g~~l~~r~gk~G~f~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~r~LG~dP~tg~~V~lk~Gr 717 (933)
T PRK07941 638 DAEGRPVYVRVGRNGPYLERMVGTGDDGEPEPQRANLPDSLTPDELTLEVAEKLFATPQEGRELGVDPETGHEIVAKEGR 717 (933)
T ss_pred CCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCEEEEECCC
T ss_conf 67897547861577664000247688886430215678666865343777888750567897223589999868994179
Q ss_pred CCCEEEE-------------------------CCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCC
Q ss_conf 7652616-------------------------781112488775143579999999983651134434454432010267
Q gi|254780306|r 730 YGYYLNH-------------------------DGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGT 784 (837)
Q Consensus 730 yGpYi~~-------------------------~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~ 784 (837)
|||||.- .-+++||++..++.+||||.|+.||+-| |++|.
T Consensus 718 yGpyv~~~~~e~~~~~~~~~~~~~~~~~~~~~Kpk~asl~k~~~~~~itLe~Al~LlsLP---------------R~lG~ 782 (933)
T PRK07941 718 FGPYVTEVLPEPEEDGAAAKTAAKKKKKETGPKPRTGSLLRSMDLQTVTLEDALKLLSLP---------------RVVGV 782 (933)
T ss_pred CCCEEEEECCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCC---------------HHHCC
T ss_conf 877242004775200000011011344334678775667899980206899999997084---------------63189
Q ss_pred CCC-CCCEEEEECCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHHHH
Q ss_conf 898-98469960685452536788875657889677899999999987772
Q gi|254780306|r 785 HPE-GGSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKKQ 834 (837)
Q Consensus 785 ~p~-~~~i~i~~GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~li~~k~~ 834 (837)
||+ |.+|.+-.|||||||+||++|+|||++.|+-+|+|++|++||++++.
T Consensus 783 hPe~g~~I~a~~GrfGPYlk~~~~~~sL~~~~~~~~I~l~~Av~li~~~k~ 833 (933)
T PRK07941 783 DPASGEEITAQNGRYGPYLKRGTDSRSLATEEQIFTITLDEALKIYAEPKR 833 (933)
T ss_pred CCCCCCEEEECCCCCCCCCCCCCEEECCCCCCCCEECCHHHHHHHHHCHHH
T ss_conf 978998799756788766640883431698887512389999999955433
No 38
>PRK07561 DNA topoisomerase I; Validated
Probab=99.98 E-value=8.7e-32 Score=257.66 Aligned_cols=161 Identities=32% Similarity=0.514 Sum_probs=145.2
Q ss_pred CCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHH----CCHHHCCCCCCCCEEEEEECCCCCEE
Q ss_conf 99996699982697422773488777613378998842548999999861----52551577789874999115876526
Q gi|254780306|r 659 LETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLS----LPREIGIHPETQKNIIAGTGKYGYYL 734 (837)
Q Consensus 659 P~~G~~I~lk~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLs----LPr~lG~~pe~g~~I~~~~GryGpYi 734 (837)
+.++.++.+|.|||||||++.....+.++++|.++.+.+++.+.|.+|+. -||.||.||++|++|.+++|||||||
T Consensus 602 ~~~~~~~~~r~gk~G~~i~~~~~~~~~~~~~p~~~~~~~~~~~~~~~l~~~~~~g~r~LG~dP~tg~~V~~k~GryGpyv 681 (878)
T PRK07561 602 DLEGLPCVVRIGRFGPYLEGEREEEPIKASLPQDITPADLDPEQVEQILKQKTEGPEKLGTHPETGEPVYLLFGPYGPYV 681 (878)
T ss_pred CCCCCCCEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCCEE
T ss_conf 77898623664167672021058765310267655865478788877641246787323668999986899935821869
Q ss_pred EECC--------EECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEECCCCCEEEE-
Q ss_conf 1678--------1112488775143579999999983651134434454432010267898-98469960685452536-
Q gi|254780306|r 735 NHDG--------AYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNGRYGPYLHW- 804 (837)
Q Consensus 735 ~~~~--------~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~GryGpYi~~- 804 (837)
+.|. +++||+++.++.+||||.|++||+=| |++|.||+ |.+|.+-.|||||||+|
T Consensus 682 qlG~~~~~~~Kpk~asl~k~~~~~~itle~Al~LlsLP---------------r~lG~~pe~g~~I~a~~GrfGPY~~~d 746 (878)
T PRK07561 682 QLGDVTEENPKPKRASLPKGVKPEDVTLEMALGLLSLP---------------RLLGEHPETGGKIQAGLGRFGPYVVHD 746 (878)
T ss_pred EECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCC---------------HHHCCCCCCCCEEEECCCCCCCCEEEC
T ss_conf 80477766778764456899980426899999997075---------------753788789987998767877667404
Q ss_pred ----CCEEEECCCCCCHHHCCHHHHHHHHHHHHH
Q ss_conf ----788875657889677899999999987772
Q gi|254780306|r 805 ----KKINASLSKEESPDTVDLEKALKILNIKKQ 834 (837)
Q Consensus 805 ----gk~Na~ipk~~~~e~lt~e~a~~li~~k~~ 834 (837)
|+.++|||++.|+-+|++++|++||++++.
T Consensus 747 g~k~g~~~~sl~~~~~~~~i~l~~Av~lia~~k~ 780 (878)
T PRK07561 747 KGKGEKDYRSLKKEDDVLTVDLERALELLAMPKK 780 (878)
T ss_pred CCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHC
T ss_conf 7766764145799887645159999999961321
No 39
>PRK06599 DNA topoisomerase I; Validated
Probab=99.97 E-value=3.5e-31 Score=253.09 Aligned_cols=163 Identities=20% Similarity=0.314 Sum_probs=137.2
Q ss_pred CCCCCCC-EEEEEECCCCCEEEECCCCCCCCC-CCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEE
Q ss_conf 6899996-699982697422773488777613-37899884254899999986152551577789874999115876526
Q gi|254780306|r 657 NDLETKE-SVTLRSGRFGLYVQRGDGKDAKRC-SLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYL 734 (837)
Q Consensus 657 ~dP~~G~-~I~lk~GryGpYvq~Ge~~kpkr~-si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi 734 (837)
.||.|+. ++.+|.||||+|+++++.++.+.. ++..+... ....++...+...||.||.+|+ |.+|.+++|||||||
T Consensus 599 ~cp~c~~g~l~~r~gk~G~f~~cs~yp~c~~~~~~~~~~~~-~~~~~~~~~~~~~~~~lG~d~~-g~~v~~k~GryGpyv 676 (776)
T PRK06599 599 VCPSCKTGELSLKLGKFGAFLACSNYPECTFRKSIVSGNDN-NENEGEPKAIPNENKVLGTDKD-GVEIYLKKGPYGPYI 676 (776)
T ss_pred CCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHCCCCCCCCCCCCC-CCEEEEECCCCCCEE
T ss_conf 17878887358960586574115798666666768876564-0234566633467820242989-998999248886769
Q ss_pred EECC-------EECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEECCCCCEEEECC
Q ss_conf 1678-------1112488775143579999999983651134434454432010267898-9846996068545253678
Q gi|254780306|r 735 NHDG-------AYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNGRYGPYLHWKK 806 (837)
Q Consensus 735 ~~~~-------~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~GryGpYi~~gk 806 (837)
+++. ++.||++..++.+||||.|++||.-| |++|.||+ |.+|.+.+|||||||+||+
T Consensus 677 q~g~~~~~~kpk~~sl~~~~~~~~itle~Al~ll~lP---------------r~lG~~p~~g~~i~~~~GryGpYvk~~~ 741 (776)
T PRK06599 677 QLGEQEGKVKPKRSPVPASLNQNDITLEIALKLLSLP---------------LKIGIHKDSGEEIMIGYGKFGPYIKYMG 741 (776)
T ss_pred EECCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCC---------------HHHCCCCCCCCEEEECCCCCCCEEEECC
T ss_conf 8447778778775678899983231899999998383---------------7319997899779987778872088899
Q ss_pred EEEECCCCCCHHHCCHHHHHHHHHHHHHCC
Q ss_conf 887565788967789999999998777266
Q gi|254780306|r 807 INASLSKEESPDTVDLEKALKILNIKKQKK 836 (837)
Q Consensus 807 ~Na~ipk~~~~e~lt~e~a~~li~~k~~kk 836 (837)
+|+|||++.|+-+|||++|++||+++++|.
T Consensus 742 ~~~sl~~~~~~~~i~l~~A~~li~~~k~~~ 771 (776)
T PRK06599 742 KFISIPKKYDFLNLSLDDAMKLIEDNKAKL 771 (776)
T ss_pred EEEECCCCCCCCCCCHHHHHHHHHHHHHHC
T ss_conf 887679888874358999999999887633
No 40
>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=99.97 E-value=1.1e-30 Score=249.36 Aligned_cols=123 Identities=38% Similarity=0.592 Sum_probs=107.8
Q ss_pred CCEEEECCHHHHHHHHHHHCC------------CCEEEEEECCCEECCCCCCCCCC-------CCCCCEEEEECCCHHHH
Q ss_conf 918997790478778875089------------98999942511007865578676-------66744068877654899
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGS------------NYKVLSSFGHIRDLPAKKGSVLP-------EKEFEMIWNIDPSSQKH 61 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~------------~y~V~as~GHirdLp~~~~~v~~-------~~~f~p~y~v~~~~kk~ 61 (837)
|.|||||||++|++|+++||. +|.|+||+|||++|+........ ...+.+.|...++++++
T Consensus 1 ~~LiIaEKPs~ak~Ia~~Lg~~~~~~~~~~~~~~~~v~~~~GHl~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (142)
T cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKGFYGEGGGYVVTASVGHLLELPFPEEYVDWDKDWPLELFPFEPKYVVIPDKKKQ 80 (142)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCEECCCCCCCCCCCCCCCCCCCCCCCEEEEECCCHHHH
T ss_conf 98999889999999999968996556753468988999964400046881025750005865457888069989656999
Q ss_pred HHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCC
Q ss_conf 999999987099899946997025799999999975512578871699998037989999998622
Q gi|254780306|r 62 LQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 62 ~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~ 127 (837)
++.|++++++||+||+|||||||||+|+||++++++. .+++++|+|||++|+++|++||+||
T Consensus 81 ~~~i~~l~~~~d~iiiAtD~DrEGE~I~~~i~~~~~~----~~~~v~R~~fsslT~~~I~~A~~nl 142 (142)
T cd01028 81 LKALKKLAKKADEIVLATDPDREGELIAWEILEVLKC----DNKPVKRAWFSEITPKAIREAFKNL 142 (142)
T ss_pred HHHHHHHHHHCCEEEECCCCCCCHHHHHHHHHHHHCC----CCCCCEEEEEECCCHHHHHHHHHCC
T ss_conf 9999999861999998889982279999999999578----8999278998357999999999758
No 41
>cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. 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=99.97 E-value=1.6e-30 Score=248.23 Aligned_cols=124 Identities=28% Similarity=0.431 Sum_probs=106.7
Q ss_pred CCEEEECCHHHHHHHHHHHCC------------------CCEEEEEECCCEECCCCC---------CCCCCCCCCCEEEE
Q ss_conf 918997790478778875089------------------989999425110078655---------78676667440688
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGS------------------NYKVLSSFGHIRDLPAKK---------GSVLPEKEFEMIWN 53 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~------------------~y~V~as~GHirdLp~~~---------~~v~~~~~f~p~y~ 53 (837)
|.|||||||++||+|+++||. +|.|+||+|||++|.... ....|...+...|+
T Consensus 1 m~LiIaEKPs~Ak~IA~~Lg~~~~~~~~~~~~~~~~~~~~~~vt~~~GHl~~l~~p~~y~~~~~~~~~~~~~~~~~~~~~ 80 (151)
T cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKGRYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLEDPLFPAPFKLK 80 (151)
T ss_pred CEEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEECHHHCCCCCHHHCCCCCCCCCCCCCCCCCCEEEE
T ss_conf 99999889899999999848996114765433211368988999750232144530223544357855576788771589
Q ss_pred ECCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCC
Q ss_conf 77654899999999987099899946997025799999999975512578871699998037989999998622
Q gi|254780306|r 54 IDPSSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 54 v~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~ 127 (837)
+.++++++++.|++++++||+||+|||||||||+|+|||+++++. ..+++++|+|||++|+++|++||+|+
T Consensus 81 ~~~~~~~~~~~ik~l~~~ad~ii~atD~DrEGE~I~~ei~~~~~~---~~~~~v~R~~fs~lT~~~I~~A~~nL 151 (151)
T cd03362 81 VDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKC---VKRKPVKRAWFSSLTPKAIRRAFKNL 151 (151)
T ss_pred ECCCHHHHHHHHHHHHHHCCEEEECCCCCCCHHHHHHHHHHHHCC---CCCCCEEEEEEECCCHHHHHHHHHCC
T ss_conf 885489999999999853998998778872045999999998488---88985689998048999999999758
No 42
>PRK09138 DNA topoisomerase I; Validated
Probab=99.97 E-value=7.2e-30 Score=243.28 Aligned_cols=158 Identities=25% Similarity=0.420 Sum_probs=119.5
Q ss_pred CCCCCCC-EEEEEECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEE
Q ss_conf 6899996-699982697422773488777613378998842548999999861525515777898749991158765261
Q gi|254780306|r 657 NDLETKE-SVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLN 735 (837)
Q Consensus 657 ~dP~~G~-~I~lk~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~ 735 (837)
.||.||. .+.||.|||||||.+++-+..+.. ..+.++....+ .--.-||.||.||++|++|.+.+|||||||+
T Consensus 604 ~cp~c~~g~l~l~~gk~G~figcsnypec~~t---~~l~~~~~~~~---~~~~~~r~LG~dP~tg~~v~~k~GrfGpyvq 677 (887)
T PRK09138 604 ICPTCGTGRLSLKLGKFGAFVGCSNYPECRYT---RQLSADGGEEA---AASDDPKVLGKDPETGEEVTLRSGRFGPYVQ 677 (887)
T ss_pred CCCCCCCCCEEEECCCCCCCCCCCCCCCCCCC---CCCCCCCCCCH---HCCCCCCEEECCCCCCCEEEEEECCCCCEEE
T ss_conf 36678887368870576566656788644355---55788754201---1245783320079999758997047777586
Q ss_pred ECC--------EECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEECCCCCEEEECC
Q ss_conf 678--------1112488775143579999999983651134434454432010267898-9846996068545253678
Q gi|254780306|r 736 HDG--------AYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNGRYGPYLHWKK 806 (837)
Q Consensus 736 ~~~--------~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~GryGpYi~~gk 806 (837)
.|. +++||++..++.+||||.|+.||+=| |++|.||+ |.+|.+-.|||||||+||+
T Consensus 678 ~G~~~~~~~kpk~asl~k~~~~~~itle~Al~LlsLP---------------r~lG~hpe~g~~I~a~~GrfGPYv~~~~ 742 (887)
T PRK09138 678 LGEATAEGKKPKRASLPKGWSPADVDLEKALALLSLP---------------REVGKHPETGKPISAGIGRYGPYVKHGG 742 (887)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCC---------------HHHCCCCCCCCEEEECCCCCCCCEEECC
T ss_conf 1687644457544678899980106899999998174---------------8538997899789981588766488899
Q ss_pred EEEECCCCCCHHHCCHHHHHHHHHHHHHC
Q ss_conf 88756578896778999999999877726
Q gi|254780306|r 807 INASLSKEESPDTVDLEKALKILNIKKQK 835 (837)
Q Consensus 807 ~Na~ipk~~~~e~lt~e~a~~li~~k~~k 835 (837)
.|+||+++.|+-+|+|++|++||++++++
T Consensus 743 ~~~sl~~~~~~~~i~l~~A~~lia~~~~~ 771 (887)
T PRK09138 743 TYANLEKVDDVFTIGLNRAVTLLAEKQAG 771 (887)
T ss_pred EEECCCCCCCCEEECHHHHHHHHHHHHHC
T ss_conf 98268998986251699999999612103
No 43
>smart00436 TOP1Bc Bacterial DNA topoisomeraes I ATP-binding domain. Extension of TOPRIM in Bacterial DNA topoisomeraes I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase beta subunit
Probab=99.96 E-value=6.4e-29 Score=236.14 Aligned_cols=88 Identities=52% Similarity=0.834 Sum_probs=85.0
Q ss_pred EEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHCCC-CCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 69999803798999999862264698999999999998987401137898864146-76534226899999999999964
Q gi|254780306|r 107 IQRVSFNAITKQVVLNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLPG-ARSAGRVQSVALRLICNRENQIE 185 (837)
Q Consensus 107 v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~~aRr~lD~lvG~~lSp~L~rk~~~-~lSaGRVQtp~L~lIveRe~eI~ 185 (837)
|+|+||||||+++|++||+||+++|++|++||+||+.+|||+|||+||++|.++.. ++|+||||||||+|||+||+||+
T Consensus 1 VkR~~~~~iT~~~I~~A~~n~~~~~~~l~~a~~aR~~~D~lvG~n~sr~~t~~~~~~~lS~GRVQtP~L~liv~Re~ei~ 80 (89)
T smart00436 1 IKRIEFSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRKGVLSAGRVQTPTLGLIVEREREIK 80 (89)
T ss_pred CEEEEEECCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 95888707899999999977572678699999999999999676215999998477898765506779999999899998
Q ss_pred HCCCCCCEE
Q ss_conf 137654400
Q gi|254780306|r 186 SFVSEEYWS 194 (837)
Q Consensus 186 ~F~p~~y~~ 194 (837)
+|+|++||+
T Consensus 81 ~F~p~~y~~ 89 (89)
T smart00436 81 NFVPKPYWE 89 (89)
T ss_pred CCCCCCCCC
T ss_conf 189976369
No 44
>PRK08780 DNA topoisomerase III; Provisional
Probab=99.95 E-value=5.5e-27 Score=221.61 Aligned_cols=165 Identities=19% Similarity=0.281 Sum_probs=127.7
Q ss_pred CCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCC----CCCCC--CCCC----CCCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf 6114334677731368715776111234343233321----00122--1000----012344201468999966999826
Q gi|254780306|r 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTR----QLTSN--PQDI----PEMKESVLLGNDLETKESVTLRSG 670 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~----~l~~~--~~~~----~~~~~~~~LG~dP~~G~~I~lk~G 670 (837)
..+.||+||.. +.++ .|+||+|+.|..-.+...++ +-..+ ..++ .-+..|+.||. ++|++|.+..|
T Consensus 590 ~lg~dp~~g~~-v~~k-~GryGpyvq~g~~~~~~kpk~~sl~~~~~~~~i~le~Al~ll~lPr~lG~--~~g~~i~~~~G 665 (783)
T PRK08780 590 VLGTDPKSGKE-VSAR-IGRFGPMVQIGTVDDEEKPRFASLRPGQSIYSISLEEALELFKMPRALGE--DKGQDVSVGIG 665 (783)
T ss_pred CCCCCCCCCCE-EEEE-ECCCCCEEEECCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHCCCHHHCC--CCCCEEEECCC
T ss_conf 04889888970-5998-33777767514787566986331799999132789999998705242089--99977997768
Q ss_pred CCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHC------CHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCC
Q ss_conf 974227734887776133789988425489999998615------25515777898749991158765261678111248
Q gi|254780306|r 671 RFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSL------PREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLE 744 (837)
Q Consensus 671 ryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsL------Pr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~ 744 (837)
||||||++|. +++||+++.++-+|+|+.|+.|+.- ++.||.|| |.+|.+.+|||||||+|++.|+|||
T Consensus 666 r~GpYv~~~~----~~~sl~~~~~~~~i~l~~A~~li~~~~~~~~~~~~~~~~--~~~i~v~~GryGpYv~~gk~na~ip 739 (783)
T PRK08780 666 RFGPFARRGS----TYVSLKKEDDPYTIDLARAVFLIEEKEEIARNRVIKDFE--GSDIQVLNGRFGPYISDGKLNGKIP 739 (783)
T ss_pred CCCCCEEECC----EEECCCCCCCCEEECHHHHHHHHHHHHHCCCCCCCCCCC--CCCEEEECCCCCCEEEECCEEEECC
T ss_conf 8775475798----883479998764527999999997032026566666689--9974881268864077798995058
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 8775143579999999983651134434454
Q gi|254780306|r 745 SIEQVLTIDLEQAISCITEKKKIEKSSRKNS 775 (837)
Q Consensus 745 ~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~ 775 (837)
++.+|.+|||++|++||+++++..++++++.
T Consensus 740 k~~~~~~ltle~a~~li~e~~~~~~~~~~~~ 770 (783)
T PRK08780 740 KDREPASLTLEEVQQLLADTGKPVRKGFGAK 770 (783)
T ss_pred CCCCCCCCCHHHHHHHHHHCCCCCCCCCCCC
T ss_conf 9998000899999999972788877788888
No 45
>COG1754 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]
Probab=99.94 E-value=2.8e-27 Score=223.88 Aligned_cols=164 Identities=24% Similarity=0.383 Sum_probs=119.6
Q ss_pred CCEECCCCCCCCEEEEEECCCCCCCCC--CCC-CCCCC-CCCCCCCCCC------CCCCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf 611433467773136871577611123--434-32333-2100122100------0012344201468999966999826
Q gi|254780306|r 601 DSRTCPECHTHSLSLKLSSKYGAFVGC--TNY-PECKY-TRQLTSNPQD------IPEMKESVLLGNDLETKESVTLRSG 670 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~k~~gK~G~FigC--Sny-PeCk~-t~~l~~~~~~------~~~~~~~~~LG~dP~~G~~I~lk~G 670 (837)
..+.-|.-+ .-..-+.|+||+|+.- ..- ++-+. ..+-..++.+ +.-+.-++.||+||++|+.|.+-+|
T Consensus 77 ~LG~DP~tG--~eI~~k~GryGPYVq~~lg~~~~kpkraSLpkg~~~e~ItLE~AL~LLsLPR~iG~hp~sge~I~ag~G 154 (298)
T COG1754 77 VLGIDPETG--EEIYLKNGRYGPYVQEQLGDPKPKPKRASLPKGWKPETITLEKALKLLSLPRVIGKHPDSGEEISAGLG 154 (298)
T ss_pred CCCCCCCCC--CEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHCCCHHHCCCCCCCCEEEECCC
T ss_conf 236688888--566885267776156434788888544668898883127599999987382430779888867886146
Q ss_pred CCCCEEE-ECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCH----------HHCCCCCCCCEEEEEECCCCCEEEECCE
Q ss_conf 9742277-3488777613378998842548999999861525----------5157778987499911587652616781
Q gi|254780306|r 671 RFGLYVQ-RGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPR----------EIGIHPETQKNIIAGTGKYGYYLNHDGA 739 (837)
Q Consensus 671 ryGpYvq-~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr----------~lG~~pe~g~~I~~~~GryGpYi~~~~~ 739 (837)
||||||- .|. -.+||.+.-++=+|||+.|+.|+.-.| .||.||+.|++|.+..|||||||+|+++
T Consensus 155 RfGPyv~k~Gs----d~~sL~~~dd~ftItL~rA~~liaEk~~~G~s~~alk~lg~~p~~g~pI~v~dGrfGpYv~~Gk~ 230 (298)
T COG1754 155 RFGPYVKKRGS----DYRSLKSEDDVFTITLDRALKLIAEKRSRGRSAAALKELGTHPEGGKPITVKDGRFGPYVKDGKT 230 (298)
T ss_pred CCCCCEEECCC----CCCCCCCCCCEEEECHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCCEEEECCCCCCCCCCCCC
T ss_conf 65763310684----21144553432663089999999745303764456887445846785158844786762001530
Q ss_pred ECCCCCCCCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf 1124887751435799999999836511344
Q gi|254780306|r 740 YTKLESIEQVLTIDLEQAISCITEKKKIEKS 770 (837)
Q Consensus 740 ~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~ 770 (837)
|++|++.+|+-+||+++|++||++....++.
T Consensus 231 Na~Lpkg~d~~sit~e~A~~LLaer~a~~~~ 261 (298)
T COG1754 231 NATLPKGKDPASITLEEALELLAERRAKGGP 261 (298)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHCCCCCC
T ss_conf 3657899880106799999999974146888
No 46
>LOAD_Toprim consensus
Probab=99.93 E-value=3.1e-25 Score=208.44 Aligned_cols=98 Identities=35% Similarity=0.566 Sum_probs=88.1
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCC
Q ss_conf 91899779047877887508998999942511007865578676667440688776548999999999870998999469
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD 80 (837)
.+|||||||+||++|++|||+ |.|.||+||+++ +.+..+++++++++.||||||
T Consensus 1 K~liIVEsp~k~k~I~~~l~~-~~vias~GHi~~-------------------------~~~~~~~~~~~~~~~VilATD 54 (98)
T LOAD_Toprim 1 KKIIVVEGPADAKAIERFGGD-KNVIASKGHARK-------------------------KSVLELIKLALKAKEVIIATD 54 (98)
T ss_pred CEEEEEECHHHHHHHHHHCCC-CEEEECCCCCCC-------------------------CHHHHHHHHHHCCCEEEEECC
T ss_conf 949999284889999998599-879979588325-------------------------169999999846992999469
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC
Q ss_conf 970257999999999755125788716999980379899999986226
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR 128 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r 128 (837)
||||||+||||+.++|... ...++|+.|||||+.||.+|++||.
T Consensus 55 pDrEGEaIa~hl~~~l~~~----~~~~~Ri~f~eitk~ai~~ai~~p~ 98 (98)
T LOAD_Toprim 55 PDREGEKIAKKLLELLRGY----GGFVRRAVFLEITEEAIKEGIRKAL 98 (98)
T ss_pred CCCCHHHHHHHHHHHHCCC----CCCEEEEEEECCCHHHHHHHHHCCC
T ss_conf 6965289999999983677----9974689980539899999997759
No 47
>pfam01751 Toprim Toprim domain. This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR 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 EC:2.7.7.6 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.
Probab=99.50 E-value=2e-13 Score=119.90 Aligned_cols=89 Identities=37% Similarity=0.630 Sum_probs=76.4
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCC
Q ss_conf 91899779047877887508998999942511007865578676667440688776548999999999870998999469
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD 80 (837)
+.|+|||+|+.+.+|+++++.++.+.++.||+.+|. +.++++++.|++..+++ +||+|||
T Consensus 1 ~~l~IVE~~~d~~~i~~~~~~~~~~~~~~G~~~~l~-------------------~~~~~~~~~l~~~~~~~-eViiatD 60 (89)
T pfam01751 1 KVLIIVEGPSDAIALAKAGGYKGNVVALLGHLSDVI-------------------PLTKEQLKLLKKLAKKD-EVILATD 60 (89)
T ss_pred CEEEEECCHHHHHHHHHHCCCCEEEEEEECEECCCC-------------------CCCHHHHHHHHHHHCCC-EEEEECC
T ss_conf 989998988999999962488879998415705765-------------------54246799999862377-4999879
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEE
Q ss_conf 970257999999999755125788716999980
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQKNLIEKTKIQRVSFN 113 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~ 113 (837)
+|||||+|+||+.+.|+... .+++|+.++
T Consensus 61 ~D~eGe~~a~~l~~~l~~~~----~~v~ri~~~ 89 (89)
T pfam01751 61 PDREGEAIAWKLLELLKPLG----KKVRRIFLP 89 (89)
T ss_pred CCHHHHHHHHHHHHHHHHCC----CCEEEEECC
T ss_conf 89489999999999831229----816999669
No 48
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=99.43 E-value=7e-13 Score=115.74 Aligned_cols=74 Identities=38% Similarity=0.561 Sum_probs=66.3
Q ss_pred CCEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCC
Q ss_conf 91899779047877887508998999942511007865578676667440688776548999999999870998999469
Q gi|254780306|r 1 MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80 (837)
Q Consensus 1 M~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD 80 (837)
..|+|||+|+.+.+|+++++.++.|.|+.||+. ++++++.|++..++ ++||+|||
T Consensus 1 ~~liIVEg~~d~~~i~~~~~~~~~~~~~~G~~~------------------------~~~~i~~l~~~~~~-~eViiatD 55 (76)
T smart00493 1 KVLIIVEGPADAIALEKAGGFGGNVVALGGHLL------------------------KKEIIKLLKRLAKK-KEVILATD 55 (76)
T ss_pred CEEEEECCHHHHHHHHHHCCCCEEEEECCCCCC------------------------CHHHHHHHHHHHCC-CEEEEECC
T ss_conf 979998788899999985699979998215235------------------------04489999986338-97999769
Q ss_pred CCCHHHHHHHHHHHHHHHH
Q ss_conf 9702579999999997551
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQK 99 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~ 99 (837)
+|||||+|+||+.+.|+..
T Consensus 56 ~D~eGe~~a~~i~~~l~~~ 74 (76)
T smart00493 56 PDREGEAIAWKLAELLKPA 74 (76)
T ss_pred CCCCHHHHHHHHHHHHHHC
T ss_conf 8944699999999987762
No 49
>PRK09137 DNA topoisomerase I; Validated
Probab=99.27 E-value=2.9e-11 Score=103.56 Aligned_cols=113 Identities=23% Similarity=0.374 Sum_probs=77.9
Q ss_pred CCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-EEEEEECCCCC-EEEE
Q ss_conf 611433467773136871577611123434323332100122100001234420146899996-69998269742-2773
Q gi|254780306|r 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKE-SVTLRSGRFGL-YVQR 678 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~-~I~lk~GryGp-Yvq~ 678 (837)
....||+|+..++ ++ .|++|.|++||+||+|+++.++... ...-+.||+||. +|+.|.+|+|. |.-+
T Consensus 638 ~~~~Cp~Cg~~mv-~k-~gr~G~f~~Cs~yP~Ck~~~~~~k~---------~~~~~~CP~C~~g~~~~r~~k~Gk~f~gC 706 (761)
T PRK09137 638 EGRKCPKCGSPLH-IK-QGRYGKFIGCSNYPECKHMEPLEKP---------KDTGVTCPKCKKGELVEKKSRYGKIFYSC 706 (761)
T ss_pred CCCCCCCCCCCEE-EE-ECCCCCEEECCCCCCCCCCCCCCCC---------CCCCCCCCCCCCCCEEEEECCCCCCCCCC
T ss_conf 7886988997127-86-1467634533799876677766676---------66776198999987777517999940278
Q ss_pred CCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEE--ECCCCCEEEECCEECCC
Q ss_conf 488777613378998842548999999861525515777898749991--15876526167811124
Q gi|254780306|r 679 GDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAG--TGKYGYYLNHDGAYTKL 743 (837)
Q Consensus 679 Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~--~GryGpYi~~~~~~~sl 743 (837)
...++.++++-.+ | +-..||.||.++.+. .++-|.++.|-++...-
T Consensus 707 ~~yp~C~~~~~~~------------------p-~~~~Cp~Cg~~~~~~k~~~~~g~~~~C~n~~C~~ 754 (761)
T PRK09137 707 ARYPKCKYALWNP------------------P-VAEPCPKCGWPILTIKTTKRRGEEKVCPQEECDY 754 (761)
T ss_pred CCCCCCCCCCCCC------------------C-CCCCCCCCCCCEEEEEECCCCCCEEECCCCCCCC
T ss_conf 9889998424799------------------8-8997867997015888426786279898999998
No 50
>PRK08413 consensus
Probab=99.26 E-value=3.7e-11 Score=102.76 Aligned_cols=107 Identities=19% Similarity=0.282 Sum_probs=79.7
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCEEEEEECCCCCEEEECC
Q ss_conf 1143346777313687157761112343432333210012210000123442014-689999669998269742277348
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLG-NDLETKESVTLRSGRFGLYVQRGD 680 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG-~dP~~G~~I~lk~GryGpYvq~Ge 680 (837)
...||+|+..++. ..|++|.|++|++||+|+.+........ .+...| .||+||.+|++|.||+|.| +|.
T Consensus 613 ~~~c~~cg~~m~~--k~gr~g~f~~C~~~p~ck~~~~~~~~~~------~~~~~~~~CP~Cgg~l~~r~sk~GkF--~gC 682 (733)
T PRK08413 613 EEVCEKCGGPMVQ--KFGRNGEFLACSGYPKCKNTKSLKNTPN------AKEVIGVKCPECGGEIVERFSRRGKF--YGC 682 (733)
T ss_pred CCCCCCCCCHHHE--EECCCCCEEECCCCCCCCCCCCCCCCCC------CCCCCCCCCCCCCCEEEEEECCCCCE--ECC
T ss_conf 5668767841321--2057873443479988877412556667------66556856899999899871799975--368
Q ss_pred CC--CCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEEC
Q ss_conf 87--7761337899884254899999986152551577789874999115876526167
Q gi|254780306|r 681 GK--DAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHD 737 (837)
Q Consensus 681 ~~--kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~ 737 (837)
.. +.++++-.+ -+--.||+||.+++-..++.|+++.|-
T Consensus 683 s~YP~C~f~~~~~-------------------P~~~~Cp~Cg~~~~~~~~~~~~~~~C~ 722 (733)
T PRK08413 683 SNYPKCNFISNYE-------------------PINKKCEECGYMMVKREYRKKEVHECI 722 (733)
T ss_pred CCCCCCCCCCCCC-------------------CCCCCCCCCCCEEEEEECCCCCEEECC
T ss_conf 9999998767789-------------------578968789932089984789879899
No 51
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=99.19 E-value=5.3e-11 Score=101.63 Aligned_cols=80 Identities=20% Similarity=0.426 Sum_probs=56.7
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCEEEEEECCCCCEEEEC
Q ss_conf 11433467773136871577611123434323332100122100001234420146899--9966999826974227734
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLE--TKESVTLRSGRFGLYVQRG 679 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~--~G~~I~lk~GryGpYvq~G 679 (837)
...||+|+. .|.+| .||||.||||||||+|++|.++...... ..+......||. ||..|+.|.+|+|- +-+|
T Consensus 645 ~~~Cp~Cg~-~mv~k-~gr~G~F~~Cs~YP~Ck~t~~l~k~~~~---~~~~~~~v~cp~~~c~g~~v~r~sr~g~-~Fyg 718 (864)
T PRK06319 645 DSPCPLCGG-EMKVR-HGRFGTFLGCENYPECRGIINIHKKGEE---GIEQEETIPCPAIGCTGHIVKRRSRFNK-IFYS 718 (864)
T ss_pred CCCCCCCCC-CCEEE-CCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCEEEEEECCCCC-EEEC
T ss_conf 998767897-01131-3787754316998577897466666777---8765677768998989868886347898-4436
Q ss_pred CCCCCCCC
Q ss_conf 88777613
Q gi|254780306|r 680 DGKDAKRC 687 (837)
Q Consensus 680 e~~kpkr~ 687 (837)
.+..|+.-
T Consensus 719 c~~yP~c~ 726 (864)
T PRK06319 719 CSEYPECS 726 (864)
T ss_pred CCCCCCCC
T ss_conf 78899985
No 52
>PRK08938 DNA topoisomerase I; Validated
Probab=99.12 E-value=9.3e-11 Score=99.80 Aligned_cols=67 Identities=25% Similarity=0.443 Sum_probs=52.4
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECC
Q ss_conf 1143346777313687157761112343432333210012210000123442014689999669998269742277348
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGD 680 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge 680 (837)
...||+|+.|.+..+.+++++.|+||||||+|+|+.-- ....+.||+||.+|+.|.|++|.|+.+-+
T Consensus 617 ~~~CP~C~~g~l~~r~sk~g~~f~gCs~yp~C~~~~~~------------~p~~~~Cp~Cg~~~~~~~~~~g~~~~C~n 683 (692)
T PRK08938 617 GVTCPKCHKGQVIERKSKKNRIFYGCDRYPECDFVSWD------------KPIGRDCPKCGHYLVEKKVKKGKQVQCSN 683 (692)
T ss_pred CCCCCCCCCCCEEEEECCCCCEEEECCCCCCCCEECCC------------CCCCCCCCCCCCCCEEEECCCCCEEECCC
T ss_conf 88295999974575514789877748989989831678------------87488499999604268557888797899
No 53
>PRK07219 DNA topoisomerase I; Validated
Probab=99.03 E-value=4.6e-09 Score=87.10 Aligned_cols=113 Identities=16% Similarity=0.279 Sum_probs=71.9
Q ss_pred CCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCC-EEEEC
Q ss_conf 61143346777313687157761112343432333210012210000123442014689999669998269742-27734
Q gi|254780306|r 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGL-YVQRG 679 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGp-Yvq~G 679 (837)
....||+||..++.+.+.|++| ++.|++ |+|+++++. ...|.||.||.+|++|.+|+|- |+-+.
T Consensus 631 ~~~~Cp~Cg~~~ik~~~~g~~~-~~~c~~-P~C~~~~~~-------------~~~~~CP~cgg~lv~r~sk~gk~F~gCs 695 (769)
T PRK07219 631 NDQKCPVCGLPMIKIIRKGQSP-EVKCID-PACDYNKEK-------------EDYGECPADGGRLVLRQSRYGKRFLGCS 695 (769)
T ss_pred CCCCCCCCCCHHHHEECCCCCC-CCCCCC-CCCCCCCCC-------------CCCCCCCCCCCEEEEECCCCCCEEECCC
T ss_conf 6886878895255012466687-740599-988787787-------------7772288999779986378998565179
Q ss_pred CCCCCCCC-CCCCCCCHHHCCHHHHHHHHHCCHHHC-CCCCCCCEEEEEECCCCCEEEECCEECCC
Q ss_conf 88777613-378998842548999999861525515-77789874999115876526167811124
Q gi|254780306|r 680 DGKDAKRC-SLPKTWKSDSVDYDKAMSLLSLPREIG-IHPETQKNIIAGTGKYGYYLNHDGAYTKL 743 (837)
Q Consensus 680 e~~kpkr~-si~k~~~~~~itle~Al~LLsLPr~lG-~~pe~g~~I~~~~GryGpYi~~~~~~~sl 743 (837)
..++.+.. .+|..-.+ +.+| .||.||.+++...+..|++..|-+....-
T Consensus 696 ~yP~C~~t~~lp~~~~~---------------~~~~e~Cp~Cg~~~~~~~~~~~~~~~C~~~~C~~ 746 (769)
T PRK07219 696 NYPKCTVTYPLPQKGII---------------KKTGEKCPYCGAPILVLINGRRHWKFCPNIDCEY 746 (769)
T ss_pred CCCCCCCCCCCCCCCCC---------------CCCCCCCCCCCCEEEEEECCCCCEEECCCCCCCC
T ss_conf 99999752507544764---------------5058847778983799972784300689989998
No 54
>PRK05582 DNA topoisomerase I; Validated
Probab=98.97 E-value=6e-10 Score=93.72 Aligned_cols=106 Identities=19% Similarity=0.329 Sum_probs=65.1
Q ss_pred CCCCCCCEEEEEECCCCCEEEECCCCCCCCC-CCCCCCCHHHCCHHHHHHHHHCCHHHC-CCCCCCCEEEEEECCCCC-E
Q ss_conf 6899996699982697422773488777613-378998842548999999861525515-777898749991158765-2
Q gi|254780306|r 657 NDLETKESVTLRSGRFGLYVQRGDGKDAKRC-SLPKTWKSDSVDYDKAMSLLSLPREIG-IHPETQKNIIAGTGKYGY-Y 733 (837)
Q Consensus 657 ~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~-si~k~~~~~~itle~Al~LLsLPr~lG-~~pe~g~~I~~~~GryGp-Y 733 (837)
.||.||.++.+|.||||.|+-+..-++.+.. ++.+... .-|...| .||.||..++.+.||+|- |
T Consensus 575 ~Cp~Cg~~l~~r~~~~G~F~~Cs~yP~Ck~t~~~~~~~~-------------~~~~~~~~~CP~C~~~l~~r~~k~gk~F 641 (692)
T PRK05582 575 KCPKCGRELVIKHGRYGEFIACSNYPKCKYTKPIEEEEK-------------LASEELDVKCPECGGKIVKRKSKKGKKF 641 (692)
T ss_pred CCCCCCCCCEEEECCCCCEEECCCCCCCCCCCCCCCCCC-------------CCCCCCCCCCCCCCCEEEEEECCCCCEE
T ss_conf 775679820267268896265789987889776876444-------------4445369979999977478854899989
Q ss_pred EEECCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEEEEECCCCCEEEEC
Q ss_conf 616781112488775143579999999983651134434454432010267898-984699606854525367
Q gi|254780306|r 734 LNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSITVHNGRYGPYLHWK 805 (837)
Q Consensus 734 i~~~~~~~sl~~~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~i~~GryGpYi~~g 805 (837)
+.|.+ |..++-... . .|. -...|. |++++.+.||+|.|+.|-
T Consensus 642 ~gCs~-yp~C~~~~~-----~----------------------~p~--~~~Cp~Cg~~~~~k~~~~~~~~~c~ 684 (692)
T PRK05582 642 YGCSN-YPKCNFISN-----Y----------------------EPS--NEKCPECGSYMVKKESKKGEYLECS 684 (692)
T ss_pred EECCC-CCCCCCCCC-----C----------------------CCC--CCCCCCCCCHHHEEECCCCCEEECC
T ss_conf 97489-999997738-----8----------------------999--9969999815704745888878899
No 55
>PRK09001 DNA topoisomerase I; Validated
Probab=98.76 E-value=1.5e-08 Score=83.18 Aligned_cols=146 Identities=21% Similarity=0.313 Sum_probs=84.4
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCC
Q ss_conf 11433467773136871577611123434323332100122100001234420146899996699982697422773488
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDG 681 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~ 681 (837)
.+.||+|+..+-..- ....+.+..|+|+|+|..+.-. ...-.+....++. =.||.||.+|.||.||||.|+.+.+
T Consensus 664 ~~~c~~c~~~md~yl-~d~~~k~~~c~n~p~c~g~~~e-~g~~~~~~~~~p~--~~C~kCg~~m~lk~GRfGkf~~Ct~- 738 (869)
T PRK09001 664 KRRCPKCGTAMDSYL-IDEKRKLHVCGNNPDCDGYEIE-EGEFKIKGYDGPI--VECDKCGSEMHLKTGRFGKYFGCTN- 738 (869)
T ss_pred CCCCCCCCCCHHHHE-ECCCCEEEECCCCCCCCCEEEC-CCCCCCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCCC-
T ss_conf 454774355013212-0477447644799888865622-5620125777786--5365579854550367646431599-
Q ss_pred CCCCCC-CCCCCC-----CHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHH
Q ss_conf 777613-378998-----84254899999986152551577789874999115876526167811124887751435799
Q gi|254780306|r 682 KDAKRC-SLPKTW-----KSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLE 755 (837)
Q Consensus 682 ~kpkr~-si~k~~-----~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~ 755 (837)
++.|+. .|.++= ..+.|.+.+ | .|+.|+...+++.|+.|+++.|.+ |......--|+--.|.
T Consensus 739 ~~Ck~trk~~~~g~~~pp~~~pi~~~~----------l-~c~k~~~~~vlr~~~~g~fla~s~-fpk~retr~p~v~e~~ 806 (869)
T PRK09001 739 EECKNTRKILKNGEVAPPKEDPVPLPE----------L-KCEKSDAYFVLRDGAAGIFLAAST-FPKSRETRAPLVEELV 806 (869)
T ss_pred CCCCCHHHHHCCCCCCCCCCCCCCCCC----------C-CCCCCCCEEEEECCCCCCCCCCCC-CCCCCCCCCCHHHHHH
T ss_conf 778567777417994999889978876----------6-566459846865255551000167-9865454783189989
Q ss_pred HHHHHHHHH
Q ss_conf 999999836
Q gi|254780306|r 756 QAISCITEK 764 (837)
Q Consensus 756 ~Aieli~~~ 764 (837)
+-.+.|.++
T Consensus 807 ~~~~~~~~k 815 (869)
T PRK09001 807 RFRDRLPEK 815 (869)
T ss_pred HHHHHCCHH
T ss_conf 887646888
No 56
>pfam01396 zf-C4_Topoisom Topoisomerase DNA binding C4 zinc finger.
Probab=98.41 E-value=1.3e-07 Score=76.24 Aligned_cols=38 Identities=53% Similarity=1.177 Sum_probs=31.4
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 1143346777313687157761112343432333210012
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTS 641 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~ 641 (837)
+++||+|+ +.|.++ .+|+|.|||||+||+|+||.++..
T Consensus 1 vgkCP~Cg-~~l~~r-~~r~G~F~gCs~yP~C~~t~~l~k 38 (39)
T pfam01396 1 VGKCPKCG-GDLVLK-RGKFGKFVGCSNYPECKFTKPLKK 38 (39)
T ss_pred CCCCCCCC-CEEEEE-ECCCCEEEECCCCCCCCCEEECCC
T ss_conf 94377899-981688-368770872899989888132688
No 57
>PRK05823 consensus
Probab=98.26 E-value=3.7e-07 Score=72.77 Aligned_cols=76 Identities=17% Similarity=0.313 Sum_probs=48.3
Q ss_pred CCCCCCCEEEEEECCCC--CEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHC-CCCCCCCEEEEEECCCCC-
Q ss_conf 68999966999826974--22773488777613378998842548999999861525515-777898749991158765-
Q gi|254780306|r 657 NDLETKESVTLRSGRFG--LYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIG-IHPETQKNIIAGTGKYGY- 732 (837)
Q Consensus 657 ~dP~~G~~I~lk~GryG--pYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG-~~pe~g~~I~~~~GryGp- 732 (837)
.||.||.++.+|.|+|| +|+-+..-++.+....... .+ ..-|..++ .||.||.+++.+.||||.
T Consensus 603 ~CP~Cg~~l~~r~~~~g~~~F~~Cs~yp~Ck~~~~~~~-~~-----------~~~~~~~~~~CP~Cg~~lv~r~~k~~k~ 670 (691)
T PRK05823 603 DCPKCASDLLYRRTRRGNEKFVGCSNFPKCKFTEFSEQ-KP-----------LEKPEELEELCPECNSKLVKRKTKFNKN 670 (691)
T ss_pred CCCCCCCCCEEEECCCCCCEEEECCCCCCCCCCCCCCC-CC-----------CCCCCCCCCCCCCCCCHHHHEECCCCCC
T ss_conf 89888982036742688860455799998878777787-76-----------6663325885999982474220235899
Q ss_pred --EEEECCEECCCCC
Q ss_conf --2616781112488
Q gi|254780306|r 733 --YLNHDGAYTKLES 745 (837)
Q Consensus 733 --Yi~~~~~~~sl~~ 745 (837)
|+.|.+ |..++-
T Consensus 671 ~~f~gCs~-yP~C~~ 684 (691)
T PRK05823 671 KTFIGCSN-FPKCNY 684 (691)
T ss_pred CEEEECCC-CCCCCC
T ss_conf 87996899-999998
No 58
>COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]
Probab=98.22 E-value=3.8e-06 Score=65.20 Aligned_cols=66 Identities=30% Similarity=0.684 Sum_probs=47.0
Q ss_pred CCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCC-CEEEEEECCCC
Q ss_conf 567661143346777313687157761112343432333-210012210000123442014689999-66999826974
Q gi|254780306|r 597 ENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKY-TRQLTSNPQDIPEMKESVLLGNDLETK-ESVTLRSGRFG 673 (837)
Q Consensus 597 ~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~-t~~l~~~~~~~~~~~~~~~LG~dP~~G-~~I~lk~GryG 673 (837)
....+...||+|+..++. + .+++|.|+||||||+|.+ +.+ .......-+..|+|| ..+.++.|+||
T Consensus 12 ~~~~~~~~Cp~Cg~~m~~-~-~~~~g~f~gCs~yP~C~~~~~~---------~~~~~~~~~~Cp~C~~~~~~~k~~~~~ 79 (140)
T COG0551 12 KDLKTGQICPKCGKNMVK-K-FGKYGIFLGCSNYPKCDYYEPE---------KAIAEKTGVKCPKCGKGLLVLKKGRFG 79 (140)
T ss_pred ECCCCCCCCCCCCCCEEE-E-ECCCCEEEECCCCCCCCCCCCC---------CCCCCCCCEECCCCCCCCCEEEECCCC
T ss_conf 012357607777754057-8-5458779835888655667542---------332124776677667734023434567
No 59
>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=97.86 E-value=0.0002 Score=52.24 Aligned_cols=72 Identities=33% Similarity=0.481 Sum_probs=59.7
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
.++|||+|+.+..+.++.+.+..|.++.||... .....+..+.+.+..|++++|+
T Consensus 2 ~viivEG~~d~~~l~~~~~~~~~~~~~~G~~~~-------------------------~~~~~~~~~~~~~~~vii~~D~ 56 (83)
T cd00188 2 KLIIVEGPSDALALAQAGGYGGAVVALGGHALN-------------------------KTRELLKRLLGEAKEVIIATDA 56 (83)
T ss_pred EEEEECCHHHHHHHHHHCCCCEEEEEEEEEECC-------------------------CHHHHHHHHHCCCCEEEEECCC
T ss_conf 799988889999999856999799997557384-------------------------3899999987689999997498
Q ss_pred CCHHHHHHHHHHHHHHH
Q ss_conf 70257999999999755
Q gi|254780306|r 82 DREGEAISWHVLDVLRQ 98 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~ 98 (837)
|++|+.++|++.+.+..
T Consensus 57 D~~g~~~~~~~~~~~~~ 73 (83)
T cd00188 57 DREGEAIALRLLELLKS 73 (83)
T ss_pred CHHHHHHHHHHHHHHHH
T ss_conf 93799999999997323
No 60
>PRK08620 DNA topoisomerase III; Provisional
Probab=97.44 E-value=0.0004 Score=49.99 Aligned_cols=61 Identities=11% Similarity=0.097 Sum_probs=32.0
Q ss_pred CCCCCCCEEEEEECCCCCEEEECCCCCCC-CCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEE
Q ss_conf 68999966999826974227734887776-13378998842548999999861525515777898749991158765261
Q gi|254780306|r 657 NDLETKESVTLRSGRFGLYVQRGDGKDAK-RCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLN 735 (837)
Q Consensus 657 ~dP~~G~~I~lk~GryGpYvq~Ge~~kpk-r~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~ 735 (837)
.||+||.+|+.+.||||.++-+.+ ++.+ +.++.+ .+=+.||+||+.+..+.+++|-|..
T Consensus 611 ~Cp~Cg~~m~~~~gr~Gkf~~C~~-peC~~~k~~~~-------------------~~~~~Cp~C~~~~~~~~~~~g~~~~ 670 (726)
T PRK08620 611 KCPDCGKFMLEVKGKNGKMLVCQD-RECGHRKNVSR-------------------KTNARCPNCKKKLELRGEGEGQIFV 670 (726)
T ss_pred CCCCCCCCCEEEECCCCCEEECCC-CCCCCCCCCHH-------------------HCCCCCCCCCCEEEEEECCCCCEEE
T ss_conf 564268321168589875574689-98999777102-------------------1289499999856898567787899
Q ss_pred EC
Q ss_conf 67
Q gi|254780306|r 736 HD 737 (837)
Q Consensus 736 ~~ 737 (837)
|.
T Consensus 671 c~ 672 (726)
T PRK08620 671 CV 672 (726)
T ss_pred EC
T ss_conf 73
No 61
>COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]
Probab=97.33 E-value=0.00024 Score=51.71 Aligned_cols=72 Identities=22% Similarity=0.470 Sum_probs=51.8
Q ss_pred CCCEECCCCCCCCEEEEEECCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEE
Q ss_conf 66114334677731368715776-11123434323332100122100001234420146899996699982697422773
Q gi|254780306|r 600 EDSRTCPECHTHSLSLKLSSKYG-AFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQR 678 (837)
Q Consensus 600 ~~~~~Cp~C~~g~L~~k~~gK~G-~FigCSnyPeCk~t~~l~~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~ 678 (837)
.+...||.|+.+.+.++. +++| .|++|++||+|+|+........ ..|.+|.+..++.+...-++++
T Consensus 58 ~~~~~Cp~C~~~~~~~k~-~~~~~~f~~~~~~Pkc~~~~~~~~~~~------------~cp~c~~~~~~~k~~~~~~~~~ 124 (140)
T COG0551 58 KTGVKCPKCGKGLLVLKK-GRFGKNFLGCSNYPKCRFTEKPKPKEK------------KCPKCGSRKLVEKKEKKKGVFL 124 (140)
T ss_pred CCCEECCCCCCCCCEEEE-CCCCCCCCEECCCCCCCCEECCCHHHH------------HCCCCCCHHHEEEEEECCCEEE
T ss_conf 477667766773402343-456763412536886610234472444------------4865686123256651363660
Q ss_pred CCCCCC
Q ss_conf 488777
Q gi|254780306|r 679 GDGKDA 684 (837)
Q Consensus 679 Ge~~kp 684 (837)
+...++
T Consensus 125 ~c~~~~ 130 (140)
T COG0551 125 ECSNKP 130 (140)
T ss_pred CCCCCH
T ss_conf 367653
No 62
>PRK00076 recR recombination protein RecR; Reviewed
Probab=96.88 E-value=0.013 Score=38.61 Aligned_cols=64 Identities=22% Similarity=0.421 Sum_probs=43.7
Q ss_pred HHHHHHHHHH--HCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEE--------EECCCHHHHHHHHHCCC
Q ss_conf 9999999987--09989994699702579999999997551257887169999--------80379899999986226
Q gi|254780306|r 61 HLQNIIHAVK--SSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVS--------FNAITKQVVLNAMKSPR 128 (837)
Q Consensus 61 ~~~~i~~~~k--~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~--------f~eiT~~aI~~A~~n~r 128 (837)
.++.|.+.++ +.++||+||+|+-|||+-|..|.+.|+.. +.+|.|+- +.=+....+.+||++-+
T Consensus 122 ~i~~L~~Ri~~~~v~EVIlA~~~t~EGe~Ta~yi~~~lk~~----~ikitrlA~GiP~G~~ley~D~~TL~~Al~~R~ 195 (197)
T PRK00076 122 NIDELLERLADGEVKEVILATNPTVEGEATAHYIARLLKPL----GVKVTRLAHGVPVGGELEYVDEGTLSRALEGRR 195 (197)
T ss_pred CHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHC----CCEEEEEEECCCCCCCEECCCHHHHHHHHHHCC
T ss_conf 88999998657995179986489865089999999986554----970777654477785400278999999998472
No 63
>PRK13844 recombination protein RecR; Provisional
Probab=96.78 E-value=0.019 Score=37.41 Aligned_cols=62 Identities=24% Similarity=0.434 Sum_probs=39.3
Q ss_pred HHHHHHHHH--HCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEE--------ECCCHHHHHHHHHCCC
Q ss_conf 999999987--099899946997025799999999975512578871699998--------0379899999986226
Q gi|254780306|r 62 LQNIIHAVK--SSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSF--------NAITKQVVLNAMKSPR 128 (837)
Q Consensus 62 ~~~i~~~~k--~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f--------~eiT~~aI~~A~~n~r 128 (837)
++.|.+.++ +.++||+||+|.-|||+-|..|.+.|+. +.+|.|+-. .=+.+..+.+||++-+
T Consensus 127 i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~l~~-----~ikitrLA~GlP~G~~ley~D~~TL~~Al~~R~ 198 (200)
T PRK13844 127 LDILQQIIADRKIDEVILAISPTVEGETTAHFISQMIAK-----DIKISRIGFGVPFGGELEYLDQQTLLHAFNART 198 (200)
T ss_pred HHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC-----CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 799998863799747999679996509999999998449-----972776654477785310068999999997372
No 64
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=96.73 E-value=0.041 Score=34.89 Aligned_cols=86 Identities=27% Similarity=0.435 Sum_probs=54.1
Q ss_pred EEEECCHHHHHHHHHHH--CCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCC--EEEEC
Q ss_conf 89977904787788750--899899994251100786557867666744068877654899999999987099--89994
Q gi|254780306|r 3 VIIVESPAKAKTISKYL--GSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSST--ILILA 78 (837)
Q Consensus 3 LvIvEsP~kak~I~~~L--g~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~--~iilA 78 (837)
|.|||+|+-.-.+++.- ..-|-|+ .|||--| .||.|++ -.++.|.+-+.+.+ +||+|
T Consensus 82 icVVe~p~Dv~a~E~~~~f~G~YhVL--~G~lspl----~gigpe~-------------l~i~~L~~Rl~~~~~~EvIlA 142 (198)
T COG0353 82 LCVVEEPKDVLALEKTGEFRGLYHVL--GGLLSPL----DGIGPED-------------LNIDELLQRLAEGSIKEVILA 142 (198)
T ss_pred EEEECCHHHHHHHHHHCCCCEEEEEE--CCCCCCC----CCCCCCC-------------CCHHHHHHHHHCCCCCEEEEE
T ss_conf 89986649999999745257278884--5733734----5899101-------------267999999846997559996
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf 699702579999999997551257887169999
Q gi|254780306|r 79 TDPDREGEAISWHVLDVLRQKNLIEKTKIQRVS 111 (837)
Q Consensus 79 tD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~ 111 (837)
|+|--|||+-|..|.+.|+.. ..+|.|+-
T Consensus 143 tnpTvEGeaTA~YI~~~l~~~----~ikvtRlA 171 (198)
T COG0353 143 TNPTVEGEATALYIARLLKPL----GLKVTRLA 171 (198)
T ss_pred CCCCCCCHHHHHHHHHHHHHC----CCEEEEEE
T ss_conf 589864368999999997535----97178776
No 65
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=96.61 E-value=0.039 Score=35.06 Aligned_cols=80 Identities=31% Similarity=0.514 Sum_probs=58.1
Q ss_pred EEEECCHHHHHHHHHHH-----CCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEE
Q ss_conf 89977904787788750-----8998999942511007865578676667440688776548999999999870998999
Q gi|254780306|r 3 VIIVESPAKAKTISKYL-----GSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILIL 77 (837)
Q Consensus 3 LvIvEsP~kak~I~~~L-----g~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iil 77 (837)
-||||-.|-+-+|++.| |..|.++-| +|.|.. .+..-+.++.+||.|++
T Consensus 10 RIiVEGAsDvE~iSkalQr~aLG~eYnITis------------SIiPTT--------------~~eIA~raaeGADlvlI 63 (290)
T COG4026 10 RIIVEGASDVEVISKALQRLALGSEYNITIS------------SIIPTT--------------NVEIAKRAAEGADLVLI 63 (290)
T ss_pred EEEEECCCHHHHHHHHHHHHHHCCCCEEEEE------------EECCCC--------------HHHHHHHHHCCCCEEEE
T ss_conf 9986065338999999988640561105888------------622675--------------19999876356877999
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEE
Q ss_conf 46997025799999999975512578871699998
Q gi|254780306|r 78 ATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSF 112 (837)
Q Consensus 78 AtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f 112 (837)
|||.||-|--.|-.+.+.|.-.- ..+.||.+
T Consensus 64 ATDaD~~GReLA~kf~eeLrg~V----GhiERmK~ 94 (290)
T COG4026 64 ATDADRVGRELAEKFFEELRGMV----GHIERMKI 94 (290)
T ss_pred EECCCCHHHHHHHHHHHHHHHHH----HHHHEECC
T ss_conf 60576045999999999998753----04511226
No 66
>TIGR00615 recR recombination protein RecR; InterPro: IPR000093 The bacterial protein recR seems to play a role in a recombinational process of DNA repair . It may act with recF and recO. RecR is a protein of about 200 amino acid residues. This protein contains a putative C4-type zinc finger in the N-terminal section.; GO: 0006281 DNA repair, 0006310 DNA recombination.
Probab=96.21 E-value=0.029 Score=36.04 Aligned_cols=102 Identities=29% Similarity=0.489 Sum_probs=63.9
Q ss_pred EEEECCHHHHHHHH---HHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHH----HHH--HCC
Q ss_conf 89977904787788---750899899994251100786557867666744068877654899999999----987--099
Q gi|254780306|r 3 VIIVESPAKAKTIS---KYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIH----AVK--SST 73 (837)
Q Consensus 3 LvIvEsP~kak~I~---~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~----~~k--~a~ 73 (837)
+-|||.|.=+-.|+ .|.|. |-|+- |||- |- -||-||+ =.++.|.+ -++ +.+
T Consensus 85 iCvV~~p~Dv~a~E~~~~f~G~-YhVL~--G~is--Pl--~Gigp~~-------------~~i~~L~~riGeRl~~~~~~ 144 (205)
T TIGR00615 85 ICVVEDPKDVFALEKTKEFRGR-YHVLG--GLIS--PL--DGIGPED-------------LKIAALLKRIGERLQEESVK 144 (205)
T ss_pred EEEECCHHHHHHHHHHHHHCCC-EEEEC--CEEC--CC--CCCCCCC-------------CCHHHHHHHHHCCCCCCCCC
T ss_conf 6874472679998765421660-14315--6417--64--5768322-------------14688998860000005797
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf 89994699702579999999997551257887169999803798999999862264698999999
Q gi|254780306|r 74 ILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNAY 138 (837)
Q Consensus 74 ~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A~ 138 (837)
||||||||--||||-|-.|.+.|++.. +..+|.|+ |.-=|--.|...||+.
T Consensus 145 EVIlA~nPt~EGeaTa~Yi~~~l~~~f--P~~~~tRi------------A~G~PvGg~lE~~D~~ 195 (205)
T TIGR00615 145 EVILATNPTVEGEATALYIARLLRPLF--PGVKVTRI------------ASGLPVGGDLEYVDEV 195 (205)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCC--CCCEEEEE------------EECCCCCCCHHHHHHH
T ss_conf 788607898413479999999986238--98378655------------4224225515667579
No 67
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=96.07 E-value=0.057 Score=33.83 Aligned_cols=87 Identities=25% Similarity=0.435 Sum_probs=57.8
Q ss_pred CEEEECCHHHHHHHHHHH--CCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHH--HCCEEEE
Q ss_conf 189977904787788750--899899994251100786557867666744068877654899999999987--0998999
Q gi|254780306|r 2 NVIIVESPAKAKTISKYL--GSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVK--SSTILIL 77 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~L--g~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k--~a~~iil 77 (837)
+|.|||+|+-.-.|++-= -.-|-|+- |++ .+.+ ++.|++ -.++.|.+.++ +.++||+
T Consensus 2 ~lcVVe~~~Dl~~iE~s~~y~G~YhVL~--G~l---spl~-g~~p~~-------------l~i~~L~~ri~~~~i~EvIl 62 (112)
T cd01025 2 KLCVVEEPRDVLAIEESGEYRGLYHVLG--GLI---SPLD-GIGPDD-------------LNIDKLLERIAKGQVKEVIL 62 (112)
T ss_pred EEEEECCHHHHHHHHHHCCCCEEEEEEC--CCC---CCCC-CCCCCC-------------CCHHHHHHHHHCCCCEEEEE
T ss_conf 7999898999999972175656999852--634---7556-998330-------------31999999983589418999
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf 4699702579999999997551257887169999
Q gi|254780306|r 78 ATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVS 111 (837)
Q Consensus 78 AtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~ 111 (837)
||.|.-|||+-|..|.+.|+.. +.++.|+-
T Consensus 63 A~~~t~EGe~Ta~yi~~~l~~~----~ikitrLA 92 (112)
T cd01025 63 ATNPTVEGEATALYIAKLLKDF----GVKVTRLA 92 (112)
T ss_pred ECCCCCCCHHHHHHHHHHHHHC----CCCEEEEE
T ss_conf 7489966089999999985435----97279887
No 68
>PRK07220 DNA topoisomerase I; Validated
Probab=95.81 E-value=0.018 Score=37.64 Aligned_cols=114 Identities=17% Similarity=0.255 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHHHHHH-HHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCC
Q ss_conf 9999999999999985-222110010013677407963999998748805885676326777632100101488645688
Q gi|254780306|r 373 QFQLYNLIWKRSVASQ-MASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANE 451 (837)
Q Consensus 373 e~klY~LI~~R~lasq-m~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~ 451 (837)
|--.-.||+.|...-+ +.|-.|-...+.+... + ..|.+....-. + . +..+.+..+-.+ ++
T Consensus 198 QTPtL~lIVeRe~EI~~F~p~~Yw~i~a~~~~~--~--~~~~~~~~~~r------~-----~--d~~~a~~i~~~l--~~ 258 (740)
T PRK07220 198 QSPTLALIVDREKERNAFVPTPYWEIYAELENA--G--ETFSAQHSTRR------F-----L--DKEEADRVLEKL--GK 258 (740)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECC--C--CEEEEECCCCC------C-----C--CHHHHHHHHHHC--CC
T ss_conf 138899999999999847996428999999729--9--04998505677------7-----9--999999999972--69
Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEEC
Q ss_conf 2110011011123464310178998743321025665515789999973220221
Q gi|254780306|r 452 QLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIA 506 (837)
Q Consensus 452 ~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~ 506 (837)
...+.+++..++...||+.||-++|.+..-.+|++-.-| -.|-+.|.+.||+.-
T Consensus 259 ~~~V~~v~~k~~~~~pP~Pf~ts~Lq~~Asklg~Sa~~T-m~iAQ~LYe~GlITY 312 (740)
T PRK07220 259 KAEVKEIEKGEKTDQPPTPFNTTGFISAASSIGFSPANA-MRIAESLYTNGYISY 312 (740)
T ss_pred CCEEEEEEECCCCCCCCCCCCHHHHHHHHHHCCCCHHHH-HHHHHHHHCCCCCCC
T ss_conf 848999983530148989876799999998769979999-999998742883214
No 69
>TIGR01051 topA_bact DNA topoisomerase I; InterPro: IPR005733 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry describes topoisomerase I from bacteria, which is more closely related to archaeal than to eukaryotic topoisomerase I . Topoisomerase I is the major enzyme for relaxing negatively supercoiled DNA, and its presence is balanced by reverse gyrase, which can introduce negative supercoils. Prokaryotic topoisomerase I folds in an unusual way to give 4 distinct domains, enclosing a hole large enough to accommodate a double-stranded DNA segment. A tyrosine at the active site, which lies at the interface of 2 domains, is involved in transient breakage of a DNA strand, and the formation of a covalent protein-DNA intermediate through a 5-phosphotyrosine linkage. The structure reveals a plausible mechanism by which this and related enzymes could catalyse the passage of one DNA strand through a transient break in another strand . Topoisomerase I require Mg2+ as a cofactor for catalysis to take place. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003917 DNA topoisomerase type I activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=95.77 E-value=0.0072 Score=40.58 Aligned_cols=103 Identities=18% Similarity=0.215 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHHH-HHHHHHEECCCEEEEEEEECC---CEEEEEEEEEEEECCCHHHHHCCCCCCCC------------
Q ss_conf 99999999999999-852221100100136774079---63999998748805885676326777632------------
Q gi|254780306|r 373 QFQLYNLIWKRSVA-SQMASAKFERTTVNIIATYND---QIGHLRTTGSLLCFDGFLKVWENQYDQEK------------ 436 (837)
Q Consensus 373 e~klY~LI~~R~la-sqm~~a~~~~~~v~i~~~~~~---~~~~F~asg~~i~~~G~~~vy~~~~~~~~------------ 436 (837)
|----.||+.|=-. .-|.|+.|=...+.+....++ ....|.|. .+...|=.......-|...
T Consensus 188 QSVAlRLi~~RErEi~~Fvp~~YW~~~~~~~~~~~~~~~~~~~f~A~--l~~~~g~kl~~~~~~D~~~g~l~~G~~v~~L 265 (688)
T TIGR01051 188 QSVALRLIVDREREIKRFVPEEYWTVDAKLEAKNNQKVACKETFEAL--LTEVNGKKLKAGSDFDPLTGELRPGKEVVVL 265 (688)
T ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCHHHHCCCCE--EEEECCCCCCCCCCCCCCCCCCCCCCEEEEE
T ss_conf 65567677754789861688611798999645666311111046321--2412470113212478010126899716881
Q ss_pred CCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHH
Q ss_conf 10010148864568821100110111234643101789987
Q gi|254780306|r 437 NSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLI 477 (837)
Q Consensus 437 ~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLi 477 (837)
++.+...|-..-.|+.+.+..++......+||+.|+=|||=
T Consensus 266 ~E~~A~~~~~~L~~~~~~V~~~e~K~~~~~P~~PF~TSTLQ 306 (688)
T TIGR01051 266 NEAEATALKEQLKGEEYVVEEIEKKPKKSRPPPPFTTSTLQ 306 (688)
T ss_pred CHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCHHH
T ss_conf 86999999985078647998863043301763483354189
No 70
>PRK05776 DNA topoisomerase III; Provisional
Probab=94.59 E-value=0.13 Score=31.02 Aligned_cols=113 Identities=18% Similarity=0.290 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHHHH-HHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCC
Q ss_conf 99999999999985-22211001001367740796399999874880588567632677763210010148864568821
Q gi|254780306|r 375 QLYNLIWKRSVASQ-MASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQL 453 (837)
Q Consensus 375 klY~LI~~R~lasq-m~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~ 453 (837)
=.-.||+.|..+-+ +.|..|-...+.+.. ++ ..|.+... .-| +..++....+-.+.....+
T Consensus 205 PtL~lIVeRe~EI~~F~p~~y~~i~~~~~~--~~--~~f~~~~~----~~~----------~~~~ea~~~~~~l~~~~~~ 266 (675)
T PRK05776 205 PTLVEVVEREIERNLFVPLPYYSVSITVEK--GG--KEFRLKVG----KTF----------EKKEEAKEIISEIRKKGYL 266 (675)
T ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEEEEEE--CC--EEEEEEEC----CCC----------CCHHHHHHHHHHHHCCCCE
T ss_conf 999999999999982889534999999981--88--78999849----987----------8899999999998579975
Q ss_pred CCEEEECCCCCCCCCCCCCHHHHHHHHHH-CCCCCCCCHHHHHHHHHHCCEEEC
Q ss_conf 10011011123464310178998743321-025665515789999973220221
Q gi|254780306|r 454 IATETNASQHFTEPPPRYSESSLIKKMEE-IGIGRPSTYATILETLYKRKYVIA 506 (837)
Q Consensus 454 ~~~~~~~~~~~TkPP~rytEasLik~mE~-~GIGrPSTyA~II~~L~~R~YV~~ 506 (837)
.+.++..+.+.+.||+.|+=++|.+.+-. .|++-. -=-+|.+.|.+.||+.-
T Consensus 267 ~V~~v~~k~k~~~PP~pf~ts~LQ~~Ask~~g~Sa~-~tm~iAQ~LYe~glITY 319 (675)
T PRK05776 267 IVVEVEEKDEILRPPPPFNLGDLQKEAARIYGFSPY-KTQSIAEELYLDALISY 319 (675)
T ss_pred EEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHH-HHHHHHHHHHCCCCEEC
T ss_conf 999888505643798997589999999997598899-99999999872881766
No 71
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=93.88 E-value=0.17 Score=30.17 Aligned_cols=68 Identities=25% Similarity=0.345 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHH-HCCCCCCCEEE--------EEEECCCHHHHHHHHHCC
Q ss_conf 8999999999870998999469970257999999999755-12578871699--------998037989999998622
Q gi|254780306|r 59 QKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQ-KNLIEKTKIQR--------VSFNAITKQVVLNAMKSP 127 (837)
Q Consensus 59 kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~-~~~~~~~~v~R--------~~f~eiT~~aI~~A~~n~ 127 (837)
...+..|+.+.+. ..||+-||||+.||-|.--+.++|.- +++..+....+ +-.-++...+++.|+.+.
T Consensus 43 ~~~ie~i~~~~~~-k~VIILTD~D~~Ge~Irk~l~~~l~~~~~~~id~~~~~~~~~~~~i~gVE~~~~~~~~~~l~~~ 119 (127)
T COG1658 43 LETIELIKKAQKY-KGVIILTDPDRKGERIRKKLKEYLPGAKGAFIDREIRNKLKINGKIIGVEEASSEALRKALKEV 119 (127)
T ss_pred HHHHHHHHHHHCC-CCEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCEECCHHHHHHHHHHC
T ss_conf 8899999986425-8779986898562899999999715254654148985130367552361107848899999746
No 72
>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=93.80 E-value=0.45 Score=27.11 Aligned_cols=68 Identities=28% Similarity=0.415 Sum_probs=45.1
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
.+||||-..=...+.+++... .+..+.|.. -..+.+..|.. ....||+.|||
T Consensus 3 evIvVEGk~D~~~l~~~~~~~-~ii~t~g~~------------------------~~~~~~~~i~~---~~~~VIIlTD~ 54 (81)
T cd01027 3 EVIIVEGKNDTESLKKLGIEA-EIIETNGSI------------------------INKETIELIKK---AYRGVIILTDP 54 (81)
T ss_pred EEEEEECCCHHHHHHHHCCCE-EEEEECCCC------------------------CCHHHHHHHHH---HCCCEEEEECC
T ss_conf 699995561899999863781-399989903------------------------45999999998---55985999689
Q ss_pred CCHHHHHHHHHHHHHH
Q ss_conf 7025799999999975
Q gi|254780306|r 82 DREGEAISWHVLDVLR 97 (837)
Q Consensus 82 DREGE~Iawhi~e~l~ 97 (837)
|+-||-|.--+.+.|.
T Consensus 55 D~~Gekirk~i~~~l~ 70 (81)
T cd01027 55 DRKGEKIRKKLSEYLS 70 (81)
T ss_pred CCCHHHHHHHHHHHHC
T ss_conf 9670799999999822
No 73
>PRK07141 DNA topoisomerase I; Validated
Probab=93.74 E-value=0.23 Score=29.20 Aligned_cols=58 Identities=19% Similarity=0.248 Sum_probs=38.0
Q ss_pred CCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHC----CEEE
Q ss_conf 8864568821100110111234643101789987433210256655157899999732----2022
Q gi|254780306|r 444 LPYISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGRPSTYATILETLYKR----KYVI 505 (837)
Q Consensus 444 LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGrPSTyA~II~~L~~R----~YV~ 505 (837)
+-.+..+..+.+.++...++...||..|+.++|-+.. |+. |..=-.|.+.|.+. ||+.
T Consensus 233 ~~~~~~~~~~~V~~v~~~~~~~~~p~pf~~s~l~k~~---~~s-a~~tl~iaQ~LYE~~~~~GlIT 294 (622)
T PRK07141 233 KAEILKNKKLIVKKIKVSTRKDPKLTPFKQAVLYKKS---QYS-SASVQSALQKLYEGYGDGGLIS 294 (622)
T ss_pred HHHHHCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHH---CCC-HHHHHHHHHHHHHHHCCCCEEE
T ss_conf 9987237986999965245357998985168999885---779-8899999999996316586399
No 74
>pfam01131 Topoisom_bac DNA topoisomerase. This subfamily of topoisomerase is divided on the basis that these enzymes preferentially relax negatively supercoiled DNA, from a 5' phospho- tyrosine linkage in the enzyme-DNA covalent intermediate and has high affinity for single stranded DNA.
Probab=93.57 E-value=0.26 Score=28.89 Aligned_cols=57 Identities=18% Similarity=0.339 Sum_probs=45.3
Q ss_pred CCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHH-CCCCCCCCHHHHHHHHHHCCEEEC
Q ss_conf 6882110011011123464310178998743321-025665515789999973220221
Q gi|254780306|r 449 ANEQLIATETNASQHFTEPPPRYSESSLIKKMEE-IGIGRPSTYATILETLYKRKYVIA 506 (837)
Q Consensus 449 ~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~-~GIGrPSTyA~II~~L~~R~YV~~ 506 (837)
.+....+.+++.+++.+.||+.|+=++|.+.+-. .|+.-.-| -.|.+.|.+.|||.-
T Consensus 101 ~~~~~~v~~v~~~~~~~~pP~pf~ls~Lq~~a~~~~g~s~~~t-m~iaQ~LYE~glITY 158 (403)
T pfam01131 101 KGKTATVKSVEKKEKKEPPPLPFNTSTLQKEASRKLGFSAKKT-MDIAQKLYEKGLITY 158 (403)
T ss_pred CCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHH-HHHHHHHHHCCCEEE
T ss_conf 4898599998765775069998577999999987538789999-999999886583453
No 75
>PRK09031 DNA topoisomerase III; Provisional
Probab=93.12 E-value=0.43 Score=27.27 Aligned_cols=56 Identities=21% Similarity=0.319 Sum_probs=42.0
Q ss_pred CCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHH-HCCCCCCCCHHHHHHHHHHC-CEEE
Q ss_conf 688211001101112346431017899874332-10256655157899999732-2022
Q gi|254780306|r 449 ANEQLIATETNASQHFTEPPPRYSESSLIKKME-EIGIGRPSTYATILETLYKR-KYVI 505 (837)
Q Consensus 449 ~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE-~~GIGrPSTyA~II~~L~~R-~YV~ 505 (837)
.|....+.+++.+++...||..|+=++|-+.+- ..|+.-- .=-.|.+.|.++ +||.
T Consensus 270 ~~~~~~V~~v~~k~~k~~pP~Pf~ls~LQ~~Ask~~g~Sa~-~tl~iaQ~LYE~~~lIT 327 (649)
T PRK09031 270 TGQPALVTSYNDKREKQSAPLPYSLSALQIDAAKRFGLSAQ-QVLDICQKLYETHKLIT 327 (649)
T ss_pred HCCCEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHH-HHHHHHHHHHHHCCCEE
T ss_conf 08983999986556634898997889999999986299999-99999999997189650
No 76
>smart00437 TOP1Ac Bacterial DNA topoisomerase I DNA-binding domain. Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit
Probab=92.99 E-value=0.34 Score=28.03 Aligned_cols=93 Identities=23% Similarity=0.276 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHHHCCC-CCCEEEEEEEECCCCCEEEEEEEEE--CCEE-ECCCCHHHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 999999999999641376-5440012233157996542233103--5833-03310113566677764200156301000
Q gi|254780306|r 172 VALRLICNRENQIESFVS-EEYWSLSVLLETPRNDKFTAHLTDF--NGQR-IEKKSISNKKEADDLISFVKKATYSVEKI 247 (837)
Q Consensus 172 p~L~lIveRe~eI~~F~p-~~y~~i~a~~~~~~~~~f~a~l~~~--~~~~-~~~~~~~~~~~a~~~~~~~~~~~~~V~~v 247 (837)
=.-.||+.|-.. +|-| ..|-...+.+.. ++..|.+..... .|.+ +.. ...+++-..+-.--.+..+.|.++
T Consensus 123 ~lY~LI~~r~la--s~~~~~~~~~t~v~~~~-~~~~F~~~g~~~~~~Gw~~v~~--~~~~~~~~~lp~l~~g~~~~~~~~ 197 (259)
T smart00437 123 KLYELIWRRFLA--SQMPDAKYEETKVIIKI-GGEKFKAKGKTLLFDGWLKVYP--EEKKEEEIELPTLKKGDELKVEEV 197 (259)
T ss_pred HHHHHHHHHHHH--HHCCHHEEEEEEEEEEE-CCEEEEEEEEEEEECCHHHEEC--CCCCCCCCCCCCCCCCCEEEEEEE
T ss_conf 999999999999--85753327899999998-9989999999998687374033--565653132876777988999888
Q ss_pred ECCCCCCCCCCCCCHHHHHHHH
Q ss_conf 0233222468521037999998
Q gi|254780306|r 248 ENKPIKRNPWPAFTTSTLQQVA 269 (837)
Q Consensus 248 ~~k~~~~~Pp~Pf~tstLQq~A 269 (837)
+.++.+.+||++|+-++|-+.+
T Consensus 198 ~~~~~~TkPP~~yte~tLi~~M 219 (259)
T smart00437 198 EVEEKKTKPPARYTEASLIKLM 219 (259)
T ss_pred EEEEEECCCCCCCCHHHHHHHH
T ss_conf 8765433899887999999987
No 77
>cd00186 TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA and then rejoin the broken phosphodiester backbone. Proposed catalytic mechanism of single stranded DNA cleavage is by phosphoryl transfer through a tyrosine nucleophile using acid/base catalysis. Tyr is activated by a nearby group (not yet identified) acting as a general base for nucleophilic attack on the 5' phosphate of the scissile bond. Arg and Lys stabilize the pentavalent transition state. Glu then acts as a proton donor for the leaving 3'-oxygen, upon cleavage of the scissile strand.
Probab=92.44 E-value=0.43 Score=27.26 Aligned_cols=52 Identities=17% Similarity=0.424 Sum_probs=27.9
Q ss_pred CCCEEEECCCCCCCCCCCCCHHHHHHHHH-HCCCCCCCCHHHHHHHHHHCCEEE
Q ss_conf 11001101112346431017899874332-102566551578999997322022
Q gi|254780306|r 453 LIATETNASQHFTEPPPRYSESSLIKKME-EIGIGRPSTYATILETLYKRKYVI 505 (837)
Q Consensus 453 ~~~~~~~~~~~~TkPP~rytEasLik~mE-~~GIGrPSTyA~II~~L~~R~YV~ 505 (837)
..+.+++.+++.+.||..|+=++|-+.+- ..|+.-. -=-.|.+.|.+.|||.
T Consensus 69 ~~v~~~~~k~~~~~pP~pf~l~~Lq~~a~~~~g~s~~-~tl~iaQ~LYE~g~IT 121 (381)
T cd00186 69 AVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAK-KTMQIAQKLYEAGLIT 121 (381)
T ss_pred EEEEEEEEEEEECCCCCCCCHHHHHHHHHHCCCCCHH-HHHHHHHHHHHCCEEE
T ss_conf 8999987515864797994689999999860695999-9999999998679265
No 78
>PRK08174 DNA topoisomerase III; Validated
Probab=92.33 E-value=0.16 Score=30.37 Aligned_cols=123 Identities=12% Similarity=0.111 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHHHHHH-HHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCC
Q ss_conf 9999999999999985-222110010013677407963999998748805885676326777632100101488645688
Q gi|254780306|r 373 QFQLYNLIWKRSVASQ-MASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANE 451 (837)
Q Consensus 373 e~klY~LI~~R~lasq-m~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~ 451 (837)
|--.-.||+.|-..-+ +.|..|-...+.+...+ ..|.+... ...++.. .+..- -.........-.++...
T Consensus 193 QtPtL~lIveRE~EI~~F~p~~y~~i~~~~~~~~----~~f~a~~~--~~~~~~d--~~~r~-~~~~~a~~~~~~~~~~~ 263 (670)
T PRK08174 193 QTPTLALVVDRDREIANFVPVPYWAIDVSLSAGG----QTFTAQWV--PPEQYCD--DEGRC-LQQPVAQQAAQQIRQAG 263 (670)
T ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECC----EEEEEEEE--CCCCCCC--HHCCC-CCHHHHHHHHHHHHCCC
T ss_conf 2466888999999998078863289999997489----15788874--2455621--22024-79999999999986489
Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHHH-CCCCCCCCHHHHHHHHHHC-CEEE
Q ss_conf 2110011011123464310178998743321-0256655157899999732-2022
Q gi|254780306|r 452 QLIATETNASQHFTEPPPRYSESSLIKKMEE-IGIGRPSTYATILETLYKR-KYVI 505 (837)
Q Consensus 452 ~~~~~~~~~~~~~TkPP~rytEasLik~mE~-~GIGrPSTyA~II~~L~~R-~YV~ 505 (837)
...+.+++.++....||+.|+=++|-+.+=. +|++---| -.|-+.|.+. ||+.
T Consensus 264 ~~~V~~v~~k~~~~~pP~Pf~tstLQ~~As~~lg~sa~~T-m~iAQ~LYE~~glIT 318 (670)
T PRK08174 264 SAQVVSVETERVREGAPLPFDLGTLQEVCSKKLGLGAQET-LDIAQALYETHKATT 318 (670)
T ss_pred CEEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHCCCHHHH-HHHHHHHHHCCCEEE
T ss_conf 7599999854542479999747999999998719888899-999999885288287
No 79
>TIGR01057 topA_arch DNA topoisomerase I; InterPro: IPR005739 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 I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry describes topoisomerase I from archaea, which is more closely related to bacterial than to eukaryotic topoisomerase I . Topoisomerase I is the major enzyme for relaxing negatively supercoiled DNA, and its presence is balanced by reverse gyrase, which can introduce negative supercoils. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=91.38 E-value=0.75 Score=25.44 Aligned_cols=56 Identities=18% Similarity=0.434 Sum_probs=40.2
Q ss_pred EEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHH
Q ss_conf 999998748805885676326777632100101488645688211001101112346431017899874
Q gi|254780306|r 410 GHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIK 478 (837)
Q Consensus 410 ~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik 478 (837)
..|.|.- .+|+ ++ ..++....+-.++......|.+|..+...-+||+.|.=+||=+
T Consensus 234 ~~~~A~~-----~~~K-~~-------~~e~a~~i~~~~~~~~~~~V~~v~~~~~~~~PP~pFdLGtLQ~ 289 (637)
T TIGR01057 234 GVFKAES-----EKEK-IW-------KEEEAKSILEEVKKSKSAKVEEVRVKRSILKPPPPFDLGTLQR 289 (637)
T ss_pred CEEEEEC-----CCCC-CC-------HHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCCCCHHHH
T ss_conf 5587522-----5787-41-------2465556888616798842332455311168325987552589
No 80
>pfam01396 zf-C4_Topoisom Topoisomerase DNA binding C4 zinc finger.
Probab=91.07 E-value=0.18 Score=30.02 Aligned_cols=26 Identities=19% Similarity=0.570 Sum_probs=14.0
Q ss_pred HCCCCCCCCEEEEEECCCCCEEEECC
Q ss_conf 15777898749991158765261678
Q gi|254780306|r 713 IGIHPETQKNIIAGTGKYGYYLNHDG 738 (837)
Q Consensus 713 lG~~pe~g~~I~~~~GryGpYi~~~~ 738 (837)
+|.+|++|.+++++.||||.|+.|.+
T Consensus 1 vgkCP~Cg~~l~~r~~r~G~F~gCs~ 26 (39)
T pfam01396 1 VGKCPKCGGDLVLKRGKFGKFVGCSN 26 (39)
T ss_pred CCCCCCCCCEEEEEECCCCEEEECCC
T ss_conf 94377899981688368770872899
No 81
>PRK07726 DNA topoisomerase III; Provisional
Probab=90.90 E-value=0.81 Score=25.18 Aligned_cols=117 Identities=15% Similarity=0.106 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHH-HHHHEECCCEEEEEEEECCCEEEEEEEEEEEECCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCC
Q ss_conf 999999999999985-2221100100136774079639999987488058856763267776321001014886456882
Q gi|254780306|r 374 FQLYNLIWKRSVASQ-MASAKFERTTVNIIATYNDQIGHLRTTGSLLCFDGFLKVWENQYDQEKNSEEDILLPYISANEQ 452 (837)
Q Consensus 374 ~klY~LI~~R~lasq-m~~a~~~~~~v~i~~~~~~~~~~F~asg~~i~~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~ 452 (837)
--.-.||+.|..+-+ +.|..|-...+.+...+ ..|.+.... .... ++. +. +....+-....|..
T Consensus 202 TPtL~lIv~Re~eI~~F~p~~y~~i~a~~~~~~----~~~~~~~~~--~~~~-r~~-----d~---~~a~~i~~~~~~~~ 266 (716)
T PRK07726 202 TPTLALIVKREKEIENFKSEPFWEVFATFNIEG----KKYEGKWEK--DNES-RLK-----DP---DMANKIAAFCQGKP 266 (716)
T ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECC----EEEEEEEEC--CCCC-CCC-----CH---HHHHHHHHHHCCCC
T ss_conf 167899999999998489964389999999789----179999952--7767-458-----99---99999999964898
Q ss_pred CCCEEEECCCCCCCCCCCCCHHHHHHHHH-HCCCCCCCCHHHHHHHHHHCCEEEC
Q ss_conf 11001101112346431017899874332-1025665515789999973220221
Q gi|254780306|r 453 LIATETNASQHFTEPPPRYSESSLIKKME-EIGIGRPSTYATILETLYKRKYVIA 506 (837)
Q Consensus 453 ~~~~~~~~~~~~TkPP~rytEasLik~mE-~~GIGrPSTyA~II~~L~~R~YV~~ 506 (837)
..+.+++.+++...||..|+=++|-+.+- ..|+.-.-| -.|.+.|.++||+.-
T Consensus 267 ~~V~~v~~k~k~~~PP~pf~ls~LQ~~A~~~~g~sa~~T-l~iAQ~LYE~glITY 320 (716)
T PRK07726 267 AVVKEMKTERKEFQPPLLFNLSSLQATANKAFKFSPKKT-LDITQKLYQKGIVSY 320 (716)
T ss_pred EEEEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCHHHH-HHHHHHHHHCCCEEE
T ss_conf 499999842466589998778999999998729899999-999999985696200
No 82
>PRK04031 DNA primase; Provisional
Probab=88.62 E-value=1 Score=24.35 Aligned_cols=37 Identities=30% Similarity=0.391 Sum_probs=18.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 7554444305689999765520011237631111255
Q gi|254780306|r 305 RTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSS 341 (837)
Q Consensus 305 RTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~r~y~~ 341 (837)
-.||..|.++.....|.-=...||.+-||..|.+.++
T Consensus 132 ~~~~~~i~~ev~~~~~~~~~~~yg~~~lpagp~v~~s 168 (420)
T PRK04031 132 IPDSKEIIEEVREAVRVEEIIEYGPEKLPAGPNVDDS 168 (420)
T ss_pred CCCHHHHHHHHHHHHHHHHHHEECCCCCCCCCCCCCC
T ss_conf 8219999999998860364411165678999897888
No 83
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator; InterPro: IPR011789 This entry represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system . This protein is a member of the MerR family of transcriptional activators and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue .; GO: 0003677 DNA binding, 0005507 copper ion binding, 0016563 transcription activator activity, 0045941 positive regulation of transcription.
Probab=82.13 E-value=1.2 Score=23.90 Aligned_cols=41 Identities=24% Similarity=0.447 Sum_probs=32.6
Q ss_pred HHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHH-HCCCCCCC--CCHHHHHHHH
Q ss_conf 98876088899999999876213556721224553-14755444--4305689999
Q gi|254780306|r 268 VASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLIT-YMRTDGVH--MSPDALEAVR 320 (837)
Q Consensus 268 ~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlIT-YpRTDS~~--ls~ea~~~~r 320 (837)
++++.-|+|+|-. +|||. .|||+ =+||||-| +++.+++..+
T Consensus 5 ~~AK~tglssK~I-----R~YE~-------kGLi~Pp~Rse~GYR~Y~~~h~~~L~ 48 (127)
T TIGR02044 5 QVAKLTGLSSKSI-----RYYEE-------KGLIPPPLRSEGGYRTYTDKHVDELR 48 (127)
T ss_pred HHHCCCCCCHHHH-----HHHHH-------HCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf 7750147726889-----88776-------32679988688888563876788889
No 84
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=79.35 E-value=2.6 Score=21.34 Aligned_cols=80 Identities=16% Similarity=0.307 Sum_probs=47.0
Q ss_pred CCEEEEC-CHHHHHHHHHHHCC--CCEEEEEECCCEE---CCCC-CCC-CCCCCCCCEEEEECCCHHHHHHHHHHHHHHC
Q ss_conf 9189977-90478778875089--9899994251100---7865-578-6766674406887765489999999998709
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLGS--NYKVLSSFGHIRD---LPAK-KGS-VLPEKEFEMIWNIDPSSQKHLQNIIHAVKSS 72 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg~--~y~V~as~GHird---Lp~~-~~~-v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a 72 (837)
|+++||| -|..+..++.||.. +|.|+++.+-..+ +-.. ... |..| .+-..-+.-..++.|+..-..+
T Consensus 5 i~VLIVEDd~~v~~~l~~~L~~~~gf~~V~~A~~~~eA~~~l~~~~pDLvLLD-----i~LPd~~Glell~~lr~~~~~~ 79 (225)
T PRK10046 5 LTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFKPGLILLD-----NYLPDGRGINLLHELVQAHYPG 79 (225)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHCCCCEEEEE-----CCCCCCCHHHHHHHHHHHCCCC
T ss_conf 86999959899999999999728995499998999999999973599999982-----8989997999999999648799
Q ss_pred CEEEECCCCCCHH
Q ss_conf 9899946997025
Q gi|254780306|r 73 TILILATDPDREG 85 (837)
Q Consensus 73 ~~iilAtD~DREG 85 (837)
+-|++-.-.|.|=
T Consensus 80 ~VI~iTA~~d~~~ 92 (225)
T PRK10046 80 DVVFTTAASDMET 92 (225)
T ss_pred CEEEEECCCCHHH
T ss_conf 8899968999999
No 85
>KOG1956 consensus
Probab=77.12 E-value=0.024 Score=36.59 Aligned_cols=355 Identities=18% Similarity=0.162 Sum_probs=174.6
Q ss_pred CCCCCCCCCCEEEEECC-CCCCHHCCCCCHHHHHHHHHHHHHHHHHHHHHHE-ECCCEEEEEEEECCCEEEEEEEEEEEE
Q ss_conf 66887776524773023-4640000019999999999999999998522211-001001367740796399999874880
Q gi|254780306|r 343 SKNAQEAHEAIRPNDFD-FLPSKMKQFLDSDQFQLYNLIWKRSVASQMASAK-FERTTVNIIATYNDQIGHLRTTGSLLC 420 (837)
Q Consensus 343 ~k~aQeAHeAIrPT~~~-~~p~~~~~~L~~de~klY~LI~~R~lasqm~~a~-~~~~~v~i~~~~~~~~~~F~asg~~i~ 420 (837)
...+|.||+|++|++.. +.|......+..+--..|.++|-|-.+.||.++. |+-..-.+-+... ..+++.-+.+.
T Consensus 350 t~~~~wg~yA~~ll~~~~r~Prng~~~d~Ahppihp~k~~s~~~~~s~d~~~vye~v~rhflAc~S---~dakg~et~ve 426 (758)
T KOG1956 350 TQDPAWGSYAQRLLQPENRNPRNGKHNDKAHPPIHPTKFTSREANLSGDHRKVYELVVRHFLACCS---QDAKGAETTVE 426 (758)
T ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHC---CCCCCCCEEEE
T ss_conf 468146788887515688898877654446897464110250025786417899999998777634---21346605999
Q ss_pred CCCHHHHHCCCCCCCCCCHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHH-HCCCC--C-C--CCHHHH
Q ss_conf 5885676326777632100101488645688211001101112346431017899874332-10256--6-5--515789
Q gi|254780306|r 421 FDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKME-EIGIG--R-P--STYATI 494 (837)
Q Consensus 421 ~~G~~~vy~~~~~~~~~~~~~~~LP~l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE-~~GIG--r-P--STyA~I 494 (837)
+++...+|...- |-.+..|. +.+-..+--+ ++--|.|.++.++.--| +++=| . | =|-|+.
T Consensus 427 l~~~~E~F~asg-----------l~vl~~Ny-ldVy~yekwe--~k~Lp~y~~ge~fq~~~lem~~g~T~~P~~ltEaeL 492 (758)
T KOG1956 427 LDIAQERFSASG-----------LRVLERNY-LDVYPYEKWE--DKQLPVYEDGELFQPGELEMKDGETSPPKYLTEAEL 492 (758)
T ss_pred EEEHHHHCCCCC-----------CCHHHCCC-CCCCCCCCCC--CCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCHHHH
T ss_conf 860203005554-----------51443266-4333322126--654763026662145247713676589986587999
Q ss_pred HHHHHHCCEE---------EC--CCCCEEE-CCHHHHHCCCCCCCCCCCCCHHHHHHH-HHHHHHHHCCCHHHHHHHHHH
Q ss_conf 9999732202---------21--4771222-011420000223366556898899999-999999862601347899998
Q gi|254780306|r 495 LETLYKRKYV---------IA--EKRKILP-QNTGRIVTAFLENFFSQYVEYDFTADL-EEKLDEISTGKLNWKEVLHEF 561 (837)
Q Consensus 495 I~~L~~R~YV---------~~--~~~~l~p-T~~G~~v~~~L~~~f~~~~~~~fTa~~-E~~ld~Ia~G~~~~~~~L~~F 561 (837)
|..+-+-|-= ++ +.+...- ...|+ +.|.|-+.+ -.-+|.+ |-..|+..|..-
T Consensus 493 I~lMdk~GIGtdAT~aehi~kiq~R~Yv~~~~~~~~-------------~~P~~lg~aLv~gyd~~--g~e~sKp~lra~ 557 (758)
T KOG1956 493 ISLMDKNGIGTDATIAEHIEKIQERGYVTKKNKVGR-------------FVPTFLGVALVEGYDDM--GLEMSKPFLRAE 557 (758)
T ss_pred HHHHHHCCCCCCHHHHHHHHHHHHHCCEEEECCCCC-------------CCCHHHHHHHHHHHHHH--HHHCCCHHHHHH
T ss_conf 999987289973169999999886041455345431-------------07328889998767764--112078677888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCCC-CCCCCCCCCCCC
Q ss_conf 6767665576677556667765567664102455556766114334677731368715776111234-343233321001
Q gi|254780306|r 562 WEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHSLSLKLSSKYGAFVGCT-NYPECKYTRQLT 640 (837)
Q Consensus 562 y~~f~~~i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCS-nyPeCk~t~~l~ 640 (837)
.+.-.++|..... +-...+.+. ..+|..++--+ +--.|. ..-|.
T Consensus 558 mE~~Lk~Is~G~~----~k~~vl~~~------------------------------v~kyra~f~~~~~~~~~l-~~~l~ 602 (758)
T KOG1956 558 MEVDLKNISDGRK----DKKEVLRDI------------------------------VTKYRAYFHETERKIGCL-GESLQ 602 (758)
T ss_pred HHHHHHHHCCCCC----CHHHHHHHH------------------------------HHHHHHHHHHHHHHHHHH-HHHHH
T ss_conf 9877887426710----188899999------------------------------999999999999999999-99999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHHHCCHHHCCCCCCC
Q ss_conf 22100001234420146899996699982697422773488777613378998842548999999861525515777898
Q gi|254780306|r 641 SNPQDIPEMKESVLLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQ 720 (837)
Q Consensus 641 ~~~~~~~~~~~~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LLsLPr~lG~~pe~g 720 (837)
+-+..+.++. +| ...| . ..|..+|.|+.++
T Consensus 603 ------------~y~~~~a~~~---------~~-------~~~p------~----------------~~Pp~~~l~~s~~ 632 (758)
T KOG1956 603 ------------RYLEFIASTL---------TG-------PDDP------E----------------GEPPLLGLEGSTS 632 (758)
T ss_pred ------------HHHHHCCCCC---------CC-------CCCC------C----------------CCCCCCCCCCCCC
T ss_conf ------------9986324556---------68-------8888------8----------------8998887778878
Q ss_pred CEEEEEECCCCCEEEECCE-ECCCCC------CCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCC-CCCEE
Q ss_conf 7499911587652616781-112488------775143579999999983651134434454432010267898-98469
Q gi|254780306|r 721 KNIIAGTGKYGYYLNHDGA-YTKLES------IEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGHVIGTHPE-GGSIT 792 (837)
Q Consensus 721 ~~I~~~~GryGpYi~~~~~-~~sl~~------~~~~~~I~l~~Aieli~~~k~~~~~~~~~~~~~~~~lg~~p~-~~~i~ 792 (837)
+.|-..-|++|+|...++. -.+++. ..+.-.|++.-|++++..+. ..| ||+ +.+++
T Consensus 633 ~~v~p~cgp~p~y~~~~~~~rg~ipp~~~~g~~~~~~~~t~~~~~~~l~~~~---------------tn~-~p~~~~~~~ 696 (758)
T KOG1956 633 EKVGPKCGPKPVYRQLGKFKRGGIPPAANAGHPKDANSITGRSALNLLRGSM---------------TNG-HPKPGQPVV 696 (758)
T ss_pred CCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCC---------------CCC-CCCCCCCCC
T ss_conf 8658789998863342546778989888889855465065141587741533---------------569-999986556
Q ss_pred EEECCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHH
Q ss_conf 9606854525367888756578896778999999999877
Q gi|254780306|r 793 VHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIK 832 (837)
Q Consensus 793 i~~GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~li~~k 832 (837)
.+--+-|..++.--+-++-+++..+--.| +|..|+-.|
T Consensus 697 ~~psk~~a~~~~~p~~a~~~~~~~c~c~~--ra~~l~v~k 734 (758)
T KOG1956 697 LKPSKSGATIKSRPTAATEEEEVTCGCGT--RAVKLLVAK 734 (758)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCC--HHHHHHHHC
T ss_conf 77545654204784335787554568751--555332302
No 86
>KOG1502 consensus
Probab=76.89 E-value=5.2 Score=19.12 Aligned_cols=89 Identities=22% Similarity=0.313 Sum_probs=48.4
Q ss_pred HHHCCCCEEEEEE---------CCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC------
Q ss_conf 7508998999942---------5110078655786766674406887765489999999998709989994699------
Q gi|254780306|r 17 KYLGSNYKVLSSF---------GHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP------ 81 (837)
Q Consensus 17 ~~Lg~~y~V~as~---------GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~------ 81 (837)
..|-.||.|.+++ .|+++|+... +. ...|+. --.-...+.+++++||.|++...|
T Consensus 25 ~LL~rGY~V~gtVR~~~~~k~~~~L~~l~~a~-----~~--l~l~~a---DL~d~~sf~~ai~gcdgVfH~Asp~~~~~~ 94 (327)
T KOG1502 25 LLLSRGYTVRGTVRDPEDEKKTEHLRKLEGAK-----ER--LKLFKA---DLLDEGSFDKAIDGCDGVFHTASPVDFDLE 94 (327)
T ss_pred HHHHCCCEEEEEECCCCHHHHHHHHHHCCCCC-----CC--CEEEEC---CCCCCCHHHHHHHCCCEEEEECCCCCCCCC
T ss_conf 99868998999970863056589998651575-----44--258852---435513599997078789991766787778
Q ss_pred CCHHHHHHHHH---HHHHHHHCCCCCCCEEEEEEECCCH
Q ss_conf 70257999999---9997551257887169999803798
Q gi|254780306|r 82 DREGEAISWHV---LDVLRQKNLIEKTKIQRVSFNAITK 117 (837)
Q Consensus 82 DREGE~Iawhi---~e~l~~~~~~~~~~v~R~~f~eiT~ 117 (837)
|-|-|+|-=-+ ..+|+.+. ..+.|+|++|.+=+-
T Consensus 95 ~~e~~li~pav~Gt~nVL~ac~--~~~sVkrvV~TSS~a 131 (327)
T KOG1502 95 DPEKELIDPAVKGTKNVLEACK--KTKSVKRVVYTSSTA 131 (327)
T ss_pred CCHHHHHHHHHHHHHHHHHHHH--CCCCCCEEEEECCHH
T ss_conf 7477663178888999999986--058722699961478
No 87
>PTZ00150 phosphoglucomutase; Provisional
Probab=75.62 E-value=5.6 Score=18.88 Aligned_cols=15 Identities=33% Similarity=0.437 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHH
Q ss_conf 134789999867676
Q gi|254780306|r 552 LNWKEVLHEFWEEFI 566 (837)
Q Consensus 552 ~~~~~~L~~Fy~~f~ 566 (837)
++-.+.|++.|..+.
T Consensus 449 ~tL~d~L~eiy~~yG 463 (593)
T PTZ00150 449 LTFHEYLENIREEIG 463 (593)
T ss_pred CCHHHHHHHHHHHHC
T ss_conf 999999999999839
No 88
>COG0358 DnaG DNA primase (bacterial type) [DNA replication, recombination, and repair]
Probab=75.21 E-value=5.7 Score=18.81 Aligned_cols=16 Identities=19% Similarity=0.268 Sum_probs=9.1
Q ss_pred EEECCCCCCHHHHHHH
Q ss_conf 9994699702579999
Q gi|254780306|r 75 LILATDPDREGEAISW 90 (837)
Q Consensus 75 iilAtD~DREGE~Iaw 90 (837)
++++-=|..=|-+|+|
T Consensus 55 ~yhCFGCg~~Gd~i~F 70 (568)
T COG0358 55 FYHCFGCGAGGDAIKF 70 (568)
T ss_pred EEEECCCCCCCCHHHH
T ss_conf 6984168998517778
No 89
>pfam09653 consensus
Probab=74.37 E-value=2 Score=22.28 Aligned_cols=49 Identities=24% Similarity=0.313 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 103799999887608889999999987621355672122455314755444430568999
Q gi|254780306|r 260 FTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAV 319 (837)
Q Consensus 260 f~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~ 319 (837)
|++++.|+ .-+...=.+..+...||+||+ .||||-| |.-||.+..++.+
T Consensus 16 F~l~S~~e-GIKvH~dA~p~~i~Aa~RLf~--------KGLitq~--DGGYLT~lG~e~a 64 (75)
T pfam09653 16 FPLDSTQE-GIKVHSDAAPELIAAAKRLFD--------KGLITQP--DGGYLTSLGHDAA 64 (75)
T ss_pred CCCCCHHC-CCCCCCCCCHHHHHHHHHHHH--------CCCCCCC--CCCCCCHHHHHHH
T ss_conf 89711003-640136699999999999998--------5882188--8885407678899
No 90
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. 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 nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=73.57 E-value=6.2 Score=18.52 Aligned_cols=68 Identities=24% Similarity=0.309 Sum_probs=44.1
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
.++|||.+.-|=++..+-+ ..|.++.|-- + ...++. .+.+....||+|.|.
T Consensus 2 ~v~i~EG~~Dals~~~~g~--~~~va~~G~~-------------~-----------~~~~~~---~l~~~~~~vii~~D~ 52 (79)
T cd01029 2 EVIIVEGYMDVLALHQAGI--KNVVAALGTA-------------N-----------TEEQLR---LLKRFARTVILAFDN 52 (79)
T ss_pred EEEEEECHHHHHHHHHCCC--CCCCCCCCCC-------------C-----------CHHHHH---HHHCCCCCEEEEECC
T ss_conf 3999964799999997186--5442588767-------------7-----------499999---985557765999688
Q ss_pred CCHHHHHHHHHHHHHHH
Q ss_conf 70257999999999755
Q gi|254780306|r 82 DREGEAISWHVLDVLRQ 98 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~ 98 (837)
|..|..-+.+..+.+..
T Consensus 53 D~aG~~~~~~~~~~~~~ 69 (79)
T cd01029 53 DEAGKKAAARALELLLA 69 (79)
T ss_pred CHHHHHHHHHHHHHHHH
T ss_conf 89999999999999997
No 91
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex . The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. .
Probab=72.97 E-value=2.8 Score=21.13 Aligned_cols=29 Identities=21% Similarity=0.589 Sum_probs=16.6
Q ss_pred CEECCCCCCCCE-EEEEEC--CCC-CCCCCCCC
Q ss_conf 114334677731-368715--776-11123434
Q gi|254780306|r 602 SRTCPECHTHSL-SLKLSS--KYG-AFVGCTNY 630 (837)
Q Consensus 602 ~~~Cp~C~~g~L-~~k~~g--K~G-~FigCSny 630 (837)
...||.||+.-+ ...+.| ..| .|+.||-.
T Consensus 188 R~~CPaCGs~PvasMv~~g~~~~GlRYlsCslC 220 (312)
T TIGR01562 188 RTLCPACGSRPVASMVRIGHKAEGLRYLSCSLC 220 (312)
T ss_pred CCCCCCCCCCCHHHHHCCCCCCCCHHHHCCCCC
T ss_conf 522367877861666203676553122200000
No 92
>TIGR02173 cyt_kin_arch cytidylate kinase, putative; InterPro: IPR011892 Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by IPR003136 from INTERPRO.; GO: 0004127 cytidylate kinase activity, 0005524 ATP binding, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=71.24 E-value=2.6 Score=21.40 Aligned_cols=71 Identities=23% Similarity=0.368 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCC-CCCCCEEEEECCC-HHHHHHHHHHHHHHCCEEEECCCCCCHHH
Q ss_conf 047877887508998999942511007865578676-6674406887765-48999999999870998999469970257
Q gi|254780306|r 9 PAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLP-EKEFEMIWNIDPS-SQKHLQNIIHAVKSSTILILATDPDREGE 86 (837)
Q Consensus 9 P~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~-~~~f~p~y~v~~~-~kk~~~~i~~~~k~a~~iilAtD~DREGE 86 (837)
-|.||.||+-||=.| | |.||||+|..+. |.+. |+... +-.|+ -|++=+.++..+.+...||+ ||-
T Consensus 14 tTvA~~lA~~Lsl~~-i--SaG~iRelA~~~-Gldl~E~~~a---ee~~eIDk~iD~~~~E~A~~~~nvvl------Esr 80 (173)
T TIGR02173 14 TTVAKILAEKLSLKL-I--SAGDIRELAEKM-GLDLAESKYA---EENPEIDKKIDRRIREIAEKEKNVVL------ESR 80 (173)
T ss_pred HHHHHHHHHHCCCCE-E--CCCHHHHHHHHC-CCCHHHHHHH---CCCCCCCHHHHHHHHHHHCCCCCEEE------EEH
T ss_conf 789999998639831-2--020078898642-9887773443---05863116753788554304896688------520
Q ss_pred HHHHHH
Q ss_conf 999999
Q gi|254780306|r 87 AISWHV 92 (837)
Q Consensus 87 ~Iawhi 92 (837)
+=||-+
T Consensus 81 lagW~~ 86 (173)
T TIGR02173 81 LAGWIL 86 (173)
T ss_pred HHHHHC
T ss_conf 543311
No 93
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=71.19 E-value=6.6 Score=18.34 Aligned_cols=40 Identities=28% Similarity=0.367 Sum_probs=26.6
Q ss_pred HCCCCCCCCHHHHHHHHHHCCEEECCC-CCEEECCHHHHHCC
Q ss_conf 102566551578999997322022147-71222011420000
Q gi|254780306|r 482 EIGIGRPSTYATILETLYKRKYVIAEK-RKILPQNTGRIVTA 522 (837)
Q Consensus 482 ~~GIGrPSTyA~II~~L~~R~YV~~~~-~~l~pT~~G~~v~~ 522 (837)
.+|+-+| |-...++.|.+.|||..++ +.+.-|+.|+....
T Consensus 8 ~L~vs~~-sVs~~l~~L~~~Gli~~~~y~~i~LT~~G~~~A~ 48 (96)
T smart00529 8 RLNVSPP-TVTQMLKKLEKDGLVEYEPYRGITLTEKGRRLAR 48 (96)
T ss_pred HHCCCCH-HHHHHHHHHHHCCCEEECCCCCEEECHHHHHHHH
T ss_conf 8499916-7999999999888988749989788987999999
No 94
>pfam09151 DUF1936 Domain of unknown function (DUF1936). This domain is found in a set of hypothetical Archaeal proteins. Its exact function has not, as yet, been defined. It possesses a zinc ribbon fold.
Probab=66.39 E-value=3.4 Score=20.45 Aligned_cols=32 Identities=31% Similarity=0.725 Sum_probs=20.4
Q ss_pred EECCCCCCCCEEEEEECCCC-CCCCCCCCCCCCC
Q ss_conf 14334677731368715776-1112343432333
Q gi|254780306|r 603 RTCPECHTHSLSLKLSSKYG-AFVGCTNYPECKY 635 (837)
Q Consensus 603 ~~Cp~C~~g~L~~k~~gK~G-~FigCSnyPeCk~ 635 (837)
..||+|+-|.|.-.-..|.- ..+-||| |.|.|
T Consensus 2 hlcpkcgvgvlepvydekgeikvfrcsn-pacdy 34 (36)
T pfam09151 2 HLCPKCGVGVLEPVYDEKGEIKVFRCSN-PACDY 34 (36)
T ss_pred CCCCCCCCCCEEEECCCCCCEEEEECCC-CCCCC
T ss_conf 6477456110032005777388997279-76665
No 95
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. 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 nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=66.38 E-value=8.7 Score=17.44 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=48.1
Q ss_pred CEEEECCHHHHHHHHHHHCCCCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 18997790478778875089989999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+++|||.+--+=+...+ |-.. ++|++|-= -...|++.|++. +++|+++.|.
T Consensus 2 ~viivEG~~D~i~~~~~-G~~n-~VA~~Gt~------------------------~t~~q~~~L~~~---~~~vil~~D~ 52 (79)
T cd03364 2 KVILVEGYMDVIALHQA-GIKN-VVASLGTA------------------------LTEEQAELLKRL---AKEVILAFDG 52 (79)
T ss_pred EEEEEECHHHHHHHHHC-CCCC-EEECCCCC------------------------CCHHHHHHHHCC---CCCEEEEECC
T ss_conf 89999677999999985-9962-56256654------------------------719999977231---5867999789
Q ss_pred CCHHHHHHHHHHHHHHHH
Q ss_conf 702579999999997551
Q gi|254780306|r 82 DREGEAISWHVLDVLRQK 99 (837)
Q Consensus 82 DREGE~Iawhi~e~l~~~ 99 (837)
|.-|..=++.+.+.|...
T Consensus 53 D~AG~~Aa~r~~~~l~~~ 70 (79)
T cd03364 53 DEAGQKAALRALELLLKL 70 (79)
T ss_pred CHHHHHHHHHHHHHHHHC
T ss_conf 889999999999999977
No 96
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=64.89 E-value=9.2 Score=17.24 Aligned_cols=42 Identities=26% Similarity=0.491 Sum_probs=32.6
Q ss_pred HHCCCCCCCCHHHHHHHHHHCCEEECCC-CCEEECCHHHHHCCC
Q ss_conf 2102566551578999997322022147-712220114200002
Q gi|254780306|r 481 EEIGIGRPSTYATILETLYKRKYVIAEK-RKILPQNTGRIVTAF 523 (837)
Q Consensus 481 E~~GIGrPSTyA~II~~L~~R~YV~~~~-~~l~pT~~G~~v~~~ 523 (837)
+.+|+ .|||-...|..|.+.|||..+. +.+.-|+.|+.+...
T Consensus 30 ~~L~V-s~~SVs~mikkL~~~Glv~~~~y~~i~LT~~G~~~A~~ 72 (142)
T PRK03902 30 EALSV-HPSSVTKMVQKLDKDEYLIYEKYRGLVLTPKGKKIGKR 72 (142)
T ss_pred HHHCC-CCHHHHHHHHHHHHCCCCEECCCCCEEECHHHHHHHHH
T ss_conf 99789-95339999999998799245589875689879999999
No 97
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=64.61 E-value=7.3 Score=17.99 Aligned_cols=18 Identities=33% Similarity=0.440 Sum_probs=11.6
Q ss_pred HHHHHHHHHHCCCCCCCC
Q ss_conf 899874332102566551
Q gi|254780306|r 473 ESSLIKKMEEIGIGRPST 490 (837)
Q Consensus 473 EasLik~mE~~GIGrPST 490 (837)
+-.+++.+-+.||-.|-|
T Consensus 577 ~~~~l~~~~e~gin~p~t 594 (750)
T COG0068 577 ELKVLAQALEKGINAPLT 594 (750)
T ss_pred HHHHHHHHHHHCCCCCCC
T ss_conf 578899998714687310
No 98
>PRK11050 manganese transport regulator MntR; Provisional
Probab=63.40 E-value=9.8 Score=17.05 Aligned_cols=39 Identities=21% Similarity=0.342 Sum_probs=21.2
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCC-CCEEECCHHHHHCC
Q ss_conf 02566551578999997322022147-71222011420000
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEK-RKILPQNTGRIVTA 522 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~-~~l~pT~~G~~v~~ 522 (837)
+|+- |+|-+.+|.+|.+.|||..+. +.+.-|+.|+.+..
T Consensus 64 LgVs-~pSVt~mlkrL~~~GlV~~~~Y~~I~LT~~G~~~A~ 103 (155)
T PRK11050 64 LGVS-QPTVAKMLKRLARDGLVEMRPYRGVFLTPEGEKLAQ 103 (155)
T ss_pred HCCC-CHHHHHHHHHHHHCCCEEECCCCCEEECHHHHHHHH
T ss_conf 0999-331999999998789988718988468977999999
No 99
>pfam09526 DUF2387 Probable metal-binding protein (DUF2387). Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various proteobacteria.
Probab=62.55 E-value=8.1 Score=17.68 Aligned_cols=42 Identities=26% Similarity=0.585 Sum_probs=23.1
Q ss_pred CEECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 114334677731368715776111234343233321001221000
Q gi|254780306|r 602 SRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDI 646 (837)
Q Consensus 602 ~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~~~~~ 646 (837)
+-.||+|+.-.-.....-..-.++.|- .|.|+......+.+.
T Consensus 8 GAvCP~C~~~D~i~~~~~~~~~~~eCV---~Cg~~e~~~~~~~e~ 49 (61)
T pfam09526 8 GAVCPKCSAMDTIRMWRENGVEYVECV---SCGYTDQQTDEPVEL 49 (61)
T ss_pred CCCCCCCCCCCEEEEEECCCCEEEEEC---CCCCCCCCCCCCCCC
T ss_conf 541898756537988723994699977---899981268886442
No 100
>PRK08208 coproporphyrinogen III oxidase; Validated
Probab=62.16 E-value=6.8 Score=18.23 Aligned_cols=45 Identities=11% Similarity=0.201 Sum_probs=35.0
Q ss_pred HHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHH
Q ss_conf 899999732202214771222011420000223366556898899999
Q gi|254780306|r 493 TILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADL 540 (837)
Q Consensus 493 ~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~ 540 (837)
.-|+.+++.|.|+.++++|..|+.|+.+.+.+- ..+++++-++.+
T Consensus 386 ~~l~~l~~~GLl~~~~~~l~LT~~G~~~~d~I~---~~F~s~~v~~~~ 430 (436)
T PRK08208 386 PELEEFIDQGWCYQNGSRVRLTETGLAYSDCLG---PVFISPEVRKMM 430 (436)
T ss_pred HHHHHHHHCCCEEEECCEEEECHHHHHHHHHHH---HHHCCHHHHHHH
T ss_conf 999999978888970999999975889999999---987698889999
No 101
>PRK06294 coproporphyrinogen III oxidase; Provisional
Probab=62.14 E-value=3.5 Score=20.40 Aligned_cols=41 Identities=5% Similarity=0.060 Sum_probs=30.8
Q ss_pred HHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHH
Q ss_conf 78999997322022147712220114200002233665568988
Q gi|254780306|r 492 ATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYD 535 (837)
Q Consensus 492 A~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~ 535 (837)
...++.+.++|+++.++++|..|+.|+.+.+.+- .++++..
T Consensus 333 ~~~l~~~~~~Gll~~~~~~l~LT~~G~l~~d~I~---~~ll~~s 373 (374)
T PRK06294 333 LELTMQPSIQGLFTQNDQILSLNKQGRLFHDTIA---EEIMGSS 373 (374)
T ss_pred HHHHHHHHHCCCEEEECCEEEECHHHHHHHHHHH---HHHHCCC
T ss_conf 9999999988988984999999942627999999---9985001
No 102
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=61.84 E-value=5.6 Score=18.86 Aligned_cols=50 Identities=28% Similarity=0.373 Sum_probs=34.6
Q ss_pred CCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCC-------CEEECCHHHHHCCCC
Q ss_conf 178998743321025665515789999973220221477-------122201142000022
Q gi|254780306|r 471 YSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKR-------KILPQNTGRIVTAFL 524 (837)
Q Consensus 471 ytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~-------~l~pT~~G~~v~~~L 524 (837)
-|...|...| |+- +||-+.+|..|.++|||.+... .+..|+.|..+.+-+
T Consensus 25 ~t~~~la~~l---~~~-~~~vs~~v~~L~~~glv~r~~~~~D~R~~~i~LT~~G~~~~~~~ 81 (101)
T smart00347 25 LSVSELAKRL---GVS-PSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELIEEL 81 (101)
T ss_pred CCHHHHHHHH---CCC-HHHHHHHHHHHHCCCCEEEEECCCCCCEEEEEECHHHHHHHHHH
T ss_conf 7999999998---968-87999999999458938982189998858989998999999999
No 103
>PRK08599 coproporphyrinogen III oxidase; Provisional
Probab=60.88 E-value=4.1 Score=19.92 Aligned_cols=43 Identities=7% Similarity=0.186 Sum_probs=35.0
Q ss_pred HCCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 1025665515789999973220221477122201142000022
Q gi|254780306|r 482 EIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 482 ~~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
..|+.-...++..|+.|+++|+|..+++++..|+.|+.+.+.+
T Consensus 327 ~fg~~~~~~~~~~l~~l~~~Gll~~~~~~i~lT~~G~~~~~~I 369 (377)
T PRK08599 327 KFGQSFEEVFGETIQELQEQGLLEEDDDFVRLTKKGKFLGNEV 369 (377)
T ss_pred HHCCCHHHHHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHH
T ss_conf 9892999999999999997798998099999998489999999
No 104
>PRK05660 coproporphyrinogen III oxidase; Provisional
Probab=60.54 E-value=5 Score=19.23 Aligned_cols=40 Identities=15% Similarity=0.205 Sum_probs=31.5
Q ss_pred CCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 25665515789999973220221477122201142000022
Q gi|254780306|r 484 GIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 484 GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
|+.- ..+...|+.++++|++..++.++..|+.|+.+.+.+
T Consensus 332 g~~~-~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~l~~n~I 371 (378)
T PRK05660 332 GLPE-SVIRPQLDEAIAQGYLTETEDYWQITEHGKLFLNDL 371 (378)
T ss_pred CCCH-HHHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHH
T ss_conf 9799-999999999997998898399999997789999999
No 105
>pfam06969 HemN_C HemN C-terminal region. Members of this family are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX, one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain (pfam04055) suggest it may be a substrate binding domain.
Probab=59.44 E-value=8.1 Score=17.66 Aligned_cols=54 Identities=19% Similarity=0.298 Sum_probs=34.9
Q ss_pred CCCCCCCHHHHHHHHHHCCCC-----------CCCCHHHHHHHHHHCCEEECCCCCEEECCHHHH
Q ss_conf 643101789987433210256-----------655157899999732202214771222011420
Q gi|254780306|r 466 EPPPRYSESSLIKKMEEIGIG-----------RPSTYATILETLYKRKYVIAEKRKILPQNTGRI 519 (837)
Q Consensus 466 kPP~rytEasLik~mE~~GIG-----------rPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~ 519 (837)
.|..+..|.-+...+-..||= =..-+...|+.++++|+|..+++.|.+|+.|+.
T Consensus 54 s~~d~~~e~ii~~LR~~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~l 118 (118)
T pfam06969 54 SPEDRLRERLILGLRLTEGLDLAAFEQRFGLDFEEEYEPLLEKLQEDGLLELDDGRLRLTPRGRL 118 (118)
T ss_pred CHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEEECCEEEECCCCCC
T ss_conf 98999999999999985890899999998949999879999999988998973999997868569
No 106
>PRK08166 NADH dehydrogenase subunit G; Validated
Probab=59.19 E-value=4.5 Score=19.60 Aligned_cols=13 Identities=23% Similarity=0.296 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 9999999898740
Q gi|254780306|r 137 AYLARRALDYLVG 149 (837)
Q Consensus 137 A~~aRr~lD~lvG 149 (837)
.+.+=|+.|=+.|
T Consensus 154 C~rCvR~c~ei~g 166 (858)
T PRK08166 154 CYRCVRYYKDYAG 166 (858)
T ss_pred CCHHHHHHHHHCC
T ss_conf 7556551786548
No 107
>TIGR00314 cdhA CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit; InterPro: IPR004460 Acetyl-CoA decarbonylase/synthase (ACDS) is a multienzyme complex (carbon monoxide dehydrogenase is a synonym). The ACDS complex carries out an unusual reaction involving the reversible cleavage and synthesis of acetyl-CoA in methanogens. The family contains the 4Fe-4S ferredoxin domain [C-x(2)-C-x(2)-C-x(3)-C-[PEG]] between residues 448-462 of the model.; GO: 0018492 carbon-monoxide dehydrogenase (acceptor) activity, 0006084 acetyl-CoA metabolic process.
Probab=58.98 E-value=3.3 Score=20.61 Aligned_cols=21 Identities=29% Similarity=0.153 Sum_probs=10.1
Q ss_pred CHHHCCHHHHHHHHHHHHHCC
Q ss_conf 967789999999998777266
Q gi|254780306|r 816 SPDTVDLEKALKILNIKKQKK 836 (837)
Q Consensus 816 ~~e~lt~e~a~~li~~k~~kk 836 (837)
|+==..-++.++.|++|-.+|
T Consensus 749 DlPl~~k~~~lk~LEek~gWK 769 (795)
T TIGR00314 749 DLPLVMKDELLKVLEEKYGWK 769 (795)
T ss_pred CCCHHHHHHHHHHHHHHHCCC
T ss_conf 775577999999987651788
No 108
>pfam07848 PaaX PaaX-like protein. This family contains proteins that are similar to the product of the paaX gene of Escherichia coli. This protein is involved in the regulation of expression of a group of proteins known to participate in the metabolism of phenylacetic acid. In fact, some members of this family are annotated by InterPro as containing a winged helix DNA-binding domain (Interpro:IPR009058).
Probab=58.12 E-value=8.2 Score=17.64 Aligned_cols=38 Identities=24% Similarity=0.294 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECC
Q ss_conf 101789987433210256655157899999732202214
Q gi|254780306|r 469 PRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAE 507 (837)
Q Consensus 469 ~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~ 507 (837)
....-++||+.||..||.-++.|++ +.-|..+|.++.+
T Consensus 19 g~i~~~sLi~ll~~~Gi~~~avRtA-lsRl~~~GwL~~~ 56 (70)
T pfam07848 19 GAIWLGSLIRLLAGFGISERLVRTA-LSRLVKAGWLVRE 56 (70)
T ss_pred CEEEHHHHHHHHHHCCCCHHHHHHH-HHHHHHCCCEEEE
T ss_conf 8374899999999839981789999-9999764864667
No 109
>PRK08629 coproporphyrinogen III oxidase; Provisional
Probab=57.39 E-value=5 Score=19.21 Aligned_cols=41 Identities=7% Similarity=0.114 Sum_probs=33.9
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCC
Q ss_conf 02566551578999997322022147712220114200002
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAF 523 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~ 523 (837)
-|+-=...|+.-|+.+++.|+++.++++|..|+.|+.+.+.
T Consensus 359 fG~~~~~~~~~~i~~l~~~GLl~~~~~~lrLT~kG~ll~n~ 399 (424)
T PRK08629 359 FGVNLDTALFKEMLLLKLIGAIKNDPGDLIVTDFGKYLGVV 399 (424)
T ss_pred HCCCHHHHHHHHHHHHHHCCCEEECCCEEEECCCHHHHHHH
T ss_conf 89599999999999999889989819999999047899999
No 110
>TIGR01700 PNPH purine nucleoside phosphorylase I, inosine and guanosine-specific; InterPro: IPR011270 This entry represents a family of bacterial and metazoan purine phosphorylases acting primarily on inosine and guanosine and not acting on adenosine. PNP-I refers to the nomenclature from Bacillus stearothermophilus where PHP-II refers to the nucleotidase acting on adenosine as the primary substrate. The bacterial enzymes (PUNA) are typified by the Bacillus PupG protein which is involved in the metabolism of nucleosides as a carbon source. Several metazoan enzymes (PNPH) are well characterised including the human and bovine enzymes which have been crystallised. ; GO: 0004731 purine-nucleoside phosphorylase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=56.99 E-value=8.1 Score=17.67 Aligned_cols=34 Identities=24% Similarity=0.447 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCC-CCHHHCCHHH
Q ss_conf 42014689999669998269742277348877761337899-8842548999
Q gi|254780306|r 652 SVLLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKT-WKSDSVDYDK 702 (837)
Q Consensus 652 ~~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~si~k~-~~~~~itle~ 702 (837)
.-++|. -.|++|.+..|||=+| ++ ++++.+|+=-
T Consensus 42 ~lvfG~--L~G~~Vv~mQGRFH~Y---------------EGny~~~~VTFPV 76 (259)
T TIGR01700 42 NLVFGI--LGGKPVVAMQGRFHLY---------------EGNYDMAKVTFPV 76 (259)
T ss_pred CEEEEE--ECCEEEEEECCCCCCC---------------CCCCCHHHHCHHH
T ss_conf 377556--7796799831886566---------------7887766604356
No 111
>PRK08949 consensus
Probab=56.88 E-value=5.6 Score=18.88 Aligned_cols=41 Identities=12% Similarity=0.196 Sum_probs=32.9
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 025665515789999973220221477122201142000022
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
.|+. ...+...|+.+++.||+..++..+..|+.|+.+.+.+
T Consensus 331 ~G~~-~~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~l~~n~I 371 (378)
T PRK08949 331 TGLT-ESVIRPQIDEAIAQGYLTETEDYWQITEHGKLFLNSL 371 (378)
T ss_pred HCCC-HHHHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHH
T ss_conf 7989-9999999999997898396299999998789999999
No 112
>PRK05799 coproporphyrinogen III oxidase; Provisional
Probab=55.89 E-value=5.3 Score=19.06 Aligned_cols=42 Identities=14% Similarity=0.286 Sum_probs=35.3
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 025665515789999973220221477122201142000022
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
.|+.-...+...++.+.++|++..++.++..|+.|+.+.+.+
T Consensus 327 fg~~~~~~~~~~l~~l~~~Gll~~~~~~i~lT~~G~~~~d~i 368 (374)
T PRK05799 327 FGKNIYEVYGEVINKYIKEGLLIEKEGRIYLSERGIEISNSI 368 (374)
T ss_pred HCCCHHHHHHHHHHHHHHCCCEEECCCEEEECHHHHHHHHHH
T ss_conf 892999999999999997599898099999997789999999
No 113
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=55.83 E-value=8.3 Score=17.57 Aligned_cols=31 Identities=35% Similarity=0.536 Sum_probs=22.6
Q ss_pred HHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
Q ss_conf 988760888999999998762135567212245531475
Q gi|254780306|r 268 VASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRT 306 (837)
Q Consensus 268 ~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRT 306 (837)
+-+..+|+....+-++.+.||| .|+|+|.|.
T Consensus 37 ela~~l~i~~~~vrriL~~L~e--------~~li~~~k~ 67 (176)
T COG1675 37 ELAELLGIKKNEVRRILYALYE--------DGLISYRKK 67 (176)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH--------CCCEEEEEE
T ss_conf 9988867639999999999985--------792688860
No 114
>PRK08898 coproporphyrinogen III oxidase; Provisional
Probab=55.82 E-value=6.9 Score=18.18 Aligned_cols=35 Identities=17% Similarity=0.172 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 15789999973220221477122201142000022
Q gi|254780306|r 490 TYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 490 TyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
.+...|+.+++.|.|+.++.++..|+.|+.+.+.+
T Consensus 353 ~~~~~l~~l~~~GLl~~~~~~i~lT~~G~~~~n~I 387 (393)
T PRK08898 353 AIEPQLAAAEQRGLLERDPTRIRPTPLGQRFLNDL 387 (393)
T ss_pred HHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHH
T ss_conf 99999999997898998099999997589999999
No 115
>KOG2767 consensus
Probab=55.59 E-value=5.1 Score=19.20 Aligned_cols=33 Identities=24% Similarity=0.401 Sum_probs=18.0
Q ss_pred CCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEE
Q ss_conf 1789987433210256655157899999732202
Q gi|254780306|r 471 YSESSLIKKMEEIGIGRPSTYATILETLYKRKYV 504 (837)
Q Consensus 471 ytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV 504 (837)
-+.-.|++.++++-|--. ----+.+.|++-.||
T Consensus 262 ~~~kEi~~~a~~l~i~~k-~p~vl~~~Lf~e~iv 294 (400)
T KOG2767 262 KSDKEIVKEAERLDIKNK-APLVLAEVLFDEKIV 294 (400)
T ss_pred CCHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHH
T ss_conf 027999999888763135-428999998626899
No 116
>TIGR02349 DnaJ_bact chaperone protein DnaJ; InterPro: IPR012724 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolizing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold . DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation . Thus, DnaK and DnaJ may bind to one and the same polypeptide chain to form a ternary complex. The formation of a ternary complex may result in cis-interaction of the J-domain of DnaJ with the ATPase domain of DnaK. An unfolded polypeptide may enter the chaperone cycle by associating first either with ATP-liganded DnaK or with DnaJ. DnaK interacts with both the backbone and side chains of a peptide substrate; it thus shows binding polarity and admits only L-peptide segments. In contrast, DnaJ has been shown to bind both L- and D-peptides and is assumed to interact only with the side chains of the substrate. DnaJ comprises a 70-residue N-terminal domain (the J-domain); a 30-residue glycine-rich region (the G-domain); a central domain containing 4 repeats of a CxxCxGxG motif (the CRR-domain); and a 120-170 residue C-terminal region. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins , either together or separately. This entry mostly consists of bacterial forms of DnaJ. The three components of the DnaK-DnaJ-GrpE system are typically encoded by consecutive genes. DnaJ homologues occur in many genomes, typically not encoded near DnaK and GrpE-like genes. Most such proteins are not included in this family, though some chloroplast homologues are included; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0009408 response to heat.
Probab=55.57 E-value=7.8 Score=17.76 Aligned_cols=46 Identities=22% Similarity=0.515 Sum_probs=30.0
Q ss_pred CCCCCCEECCCCC-CCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 5676611433467-773136871577611123434323332100122
Q gi|254780306|r 597 ENNEDSRTCPECH-THSLSLKLSSKYGAFVGCTNYPECKYTRQLTSN 642 (837)
Q Consensus 597 ~~~~~~~~Cp~C~-~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~~ 642 (837)
+.+..+++||.|+ .|.+......=+|.|-.-+-.|+|.-.-.+..+
T Consensus 183 ~~g~~~~tC~~C~G~Gqv~~~~~t~fG~f~~~~tC~~C~G~G~ii~~ 229 (386)
T TIGR02349 183 KPGTDPKTCPTCGGTGQVRRQQGTPFGFFQQQQTCPTCGGEGKIIKE 229 (386)
T ss_pred CCCCCCEECCCCCCEEEEEEECCCEEEEEEEEEECCCCCCEEEEEEC
T ss_conf 08888547877897589999714065899985877885842389633
No 117
>TIGR01296 asd_B aspartate-semialdehyde dehydrogenase; InterPro: IPR005986 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see . Aspartate-semialdehyde dehydrogenase, the second enzyme in the aspartate pathway, converts aspartyl phosphate to aspartate-semialdehyde, the branch point intermediate between the lysine and threonine/methionine pathways. Based on sequence alignments, the aspartate-semialdehyde dehydrogenase family appears to have two distinct subgroups, one found in most bacteria (Gram-positve and Gram-negative), while the other is found primarily in organisms lacking peptidoglycan (archaea,fungi and some bacteria). Most studies have been performed on enzymes isolated from Gram-negative bacteria , , , . The N-terminal domain forms the active site and NADP-binding pocket, while C-terminal domain is primarily involved in hydrophobic intersubunit contacts. The catalytic mechanism involves the formation of a covalent thioester acyl-enzyme intermediate mediated through nucleophilic attack by an active site cysteine residue on the substrate aspartyl phosphate. Release of inorganic phosphate is followed by hydride transfer from NADPH to yield the product. The recently described archaeal structure suggests that the two subgroups of aspartate semi-aldehyde dehydrogenase share similar structures and have an identical catalytic mechanism, despite their relatively low sequence identity . Unlike the bacterial enzymes, the archaeal enzyme utilised both NAD and NADP as cofactor. This entry represents the subgroup of aspartate-semialdehyde dehydrogenase most commonly found in bacteria. Note that some bacteria, such as Chlamydia, contain the enzyme from the other subgroup (IPR005676 from INTERPRO) instead.; GO: 0004073 aspartate-semialdehyde dehydrogenase activity, 0009086 methionine biosynthetic process, 0009088 threonine biosynthetic process.
Probab=54.84 E-value=12 Score=16.34 Aligned_cols=101 Identities=20% Similarity=0.231 Sum_probs=44.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC-CCEE--EEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHH
Q ss_conf 1467653422689999999999996413765-4400--122331579965422331035833033101135666777642
Q gi|254780306|r 160 LPGARSAGRVQSVALRLICNRENQIESFVSE-EYWS--LSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISF 236 (837)
Q Consensus 160 ~~~~lSaGRVQtp~L~lIveRe~eI~~F~p~-~y~~--i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~ 236 (837)
++...|+||.=+- -++|.+|+.-.++ .|-. |.--| |.| +.=.+++.|-++...
T Consensus 32 ~AS~RS~G~~~~F-----~gke~~v~~~~~~n~F~gekidIAl-------FSA------------GgsvSke~aP~a~k~ 87 (350)
T TIGR01296 32 LASERSAGRKVTF-----KGKELEVEEAKKENSFEGEKIDIAL-------FSA------------GGSVSKEFAPKAAKA 87 (350)
T ss_pred HCCCCCCCCEEEE-----CCCEEEEECCCCCCCCCCCEEEEEE-------ECC------------CHHHHHHHHHHHHCC
T ss_conf 1056788857851-----2753660101001488877033456-------515------------313348887888608
Q ss_pred -H------------CCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCC
Q ss_conf -0------------01563010000233222468521037999998876088899999999876213556
Q gi|254780306|r 237 -V------------KKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDV 293 (837)
Q Consensus 237 -~------------~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~ 293 (837)
+ .+-++.|-+|..+..+..++.= --|| =.-|.=+.|.+..=||...++
T Consensus 88 g~~VIDntS~fR~D~dVPLVVPEVN~~~~~~~~~kg-------IIAN--PNCstIqmv~~LkPl~~~~~i 148 (350)
T TIGR01296 88 GVIVIDNTSAFRMDPDVPLVVPEVNLEDLKEFNKKG-------IIAN--PNCSTIQMVVVLKPLHDEAKI 148 (350)
T ss_pred CCEEEECCCCCCCCCCCCEEECCCCHHHHHCCCCCC-------CEEC--CCCCHHHHHHHHHHHHHHCCE
T ss_conf 757981762000578986344377847763478888-------1458--860077798840465630674
No 118
>PRK09129 NADH dehydrogenase subunit G; Validated
Probab=54.68 E-value=4.7 Score=19.46 Aligned_cols=11 Identities=27% Similarity=0.178 Sum_probs=6.4
Q ss_pred ECCCCCCHHHH
Q ss_conf 94699702579
Q gi|254780306|r 77 LATDPDREGEA 87 (837)
Q Consensus 77 lAtD~DREGE~ 87 (837)
-+.=+|+-||.
T Consensus 97 dc~~c~~~g~c 107 (777)
T PRK09129 97 DCPICDQGGEC 107 (777)
T ss_pred CCCCCCCCCCC
T ss_conf 78868888876
No 119
>PRK07860 NADH dehydrogenase subunit G; Validated
Probab=54.66 E-value=8.4 Score=17.53 Aligned_cols=17 Identities=24% Similarity=0.084 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q ss_conf 99999999989874011
Q gi|254780306|r 135 VNAYLARRALDYLVGFN 151 (837)
Q Consensus 135 v~A~~aRr~lD~lvG~~ 151 (837)
+..+.+=|..|-+.|-.
T Consensus 165 I~C~RCVR~c~ev~G~~ 181 (809)
T PRK07860 165 VLCARCTRFSDQIAGDP 181 (809)
T ss_pred CCCCHHHHHHHHHCCCC
T ss_conf 62818999998644874
No 120
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=54.40 E-value=14 Score=15.98 Aligned_cols=41 Identities=20% Similarity=0.275 Sum_probs=29.1
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCC-------CEEECCHHHHHCCCC
Q ss_conf 025665515789999973220221477-------122201142000022
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKR-------KILPQNTGRIVTAFL 524 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~-------~l~pT~~G~~v~~~L 524 (837)
.|+ ++||-..+|..|.++|||.+... .+..|+.|+.+..-+
T Consensus 46 l~~-~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~~~~ 93 (126)
T COG1846 46 LGL-DRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELLEQL 93 (126)
T ss_pred HCC-CHHHHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHH
T ss_conf 787-888899999999988993674388886312435562159999997
No 121
>smart00532 LIGANc Ligase N family.
Probab=54.01 E-value=5.7 Score=18.83 Aligned_cols=27 Identities=30% Similarity=0.739 Sum_probs=11.3
Q ss_pred ECCCCCCCCEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 43346777313687157761112343432333
Q gi|254780306|r 604 TCPECHTHSLSLKLSSKYGAFVGCTNYPECKY 635 (837)
Q Consensus 604 ~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~ 635 (837)
.||.|+.. |. + .....++-|.| +.|..
T Consensus 401 ~CP~C~s~-l~-~--~~~~~~~~C~n-~~C~a 427 (441)
T smart00532 401 HCPSCGSE-LV-R--EEGEVDIRCPN-PLCPA 427 (441)
T ss_pred CCCCCCCE-EE-E--CCCCEEEECCC-CCCHH
T ss_conf 89899798-38-4--38987898899-98989
No 122
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family; InterPro: IPR004659 The eubacterial degradosome is a large, multiprotein, multienzyme complex involved in RNA processing and degradation in Escherichia coli and other proteobacteria . The components of the RNA degradosome in E. coli (EBI-1169250 from INTACT) are: Ribonuclease E (Rne), P21513 from SWISSPROT, IPR004659 from INTERPRO ATP-dependent RNA helicase (RhlB), P0A8J8 from SWISSPROT, IPR000629 from INTERPRO Polynucleotide phosphorylase (Pnp), , IPR012162 from INTERPRO Enolase (Eno), P0A6P9 from SWISSPROT, IPR000941 from INTERPRO Associated components: The chaperone protein DnaK (,IPR012725 from INTERPRO) associates to abnormal complexes in which the canonical components RhlB and PNPase are not present or present in limiting amount and could be involved in repairing such incorrectly assembled degradosomes. Polyphosphate kinase (Ppk), P0A7B1 from SWISSPROT, IPR003414 from INTERPRO appears to maintain an appropriate microenvironment, removing inhibitory polyphosphate and NDPs and regenerating ATP. Subunit composition of the E. coli degradosome(see: http://biocyc.org/ECOLI/NEW-IMAGE?type=POLYPEPTIDE&object=CPLX0-2381): [(Ppk)4][(Rne)4][(RhlB)2][(Pnp)3][(Eno)2] In vitro a "minimal" degradosome composed of only RNase E, PNPase and RhlB degrades malEF REP RNA in an ATP-dependent manner in vitro, with activity equivalent to purified whole degradosomes. RNase E enzymatic function is dispensible, whereas PNPase must be catalytically active and incorporated into the degradosome for degradation to occur . RNase E provides the organizational structure for the degradosome . It is tethered to the cytoplasmic membrane via its amino-terminus and its carboxy-terminal half, which is largly unstructured and poorly conserved, cooridnates the binding of PNPase, RhlB and enolase. The loss of this portion of the protein prevents degradation of a number of degradosome substrates, including the ptsG and mukB mRNAs and RNA I , , . Ribonuclease E 3.1.4 from EC is responsible for maturing 5S rRNA from its precursors from all the rRNA genes. It also cleaves RNA I, a molecule that controls the replication of ColE1 plasmid DNA. It is the major endoribonuclease participating in mRNA turnover in Escherichia coli, and initiates decay of RNAs by cutting them internally near their 5'-end. It is able to remove poly A tails by an endonucleolytic process. Ribonuclease G is smaller than RNase E lacking the C-terminal region. It is involved in processing of the 5' end of 16S rRNA, and may be involved in chromosome segregation and cell division too. RNase E is a major subunit the eubacterial degradosome. It is a large, multiprotein, multienzyme complex involved in RNA processing and degradation in Escherichia coli and other proteobacteria . It consists of the RNA degradation enzymes RNase E (Rne) and PNPase (Pnp), as well as the ATP-dependent RNA helicase (RhlB) and the metabolic enzyme enolase (Eno) , , .; GO: 0004540 ribonuclease activity, 0006396 RNA processing, 0005737 cytoplasm.
Probab=53.71 E-value=13 Score=16.04 Aligned_cols=44 Identities=18% Similarity=0.214 Sum_probs=29.5
Q ss_pred EEECCH-HHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 222011-4200002233665568988999999999998626013478999
Q gi|254780306|r 511 ILPQNT-GRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 511 l~pT~~-G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
|.--++ |.+|+||. |+.+.+=-..+++.|.+.-+....+..+..
T Consensus 373 LrLRnlGGiiiiDFI-----DM~~~k~~~~vl~~l~~~l~~DraR~~i~~ 417 (464)
T TIGR00757 373 LRLRNLGGIIIIDFI-----DMKSEKNRRRVLERLKEALSRDRARIQILG 417 (464)
T ss_pred HHHCCCCCEEEEEEE-----CCCCHHHHHHHHHHHHHHHHCCCCCCCHHH
T ss_conf 521015847999510-----698866689999999999861663100110
No 123
>PRK02362 ski2-like helicase; Provisional
Probab=51.58 E-value=15 Score=15.67 Aligned_cols=48 Identities=19% Similarity=0.275 Sum_probs=35.6
Q ss_pred HHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 8999997322022147712220114200002233665568988999999999998
Q gi|254780306|r 493 TILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEI 547 (837)
Q Consensus 493 ~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~I 547 (837)
+.++.|.+.++|+.++..+.||++|+++... +++|.-.+.+-+.|...
T Consensus 469 ~~l~~L~~~~~i~~~~~~~~~T~lG~avs~~-------yldp~~a~~i~~~L~~~ 516 (736)
T PRK02362 469 DVLEFLRRNGMVEEDGDALRATRLGSLVSRL-------YIDPLSAALIIDGLRDA 516 (736)
T ss_pred HHHHHHHHCCCEECCCCEEEECHHHHHHHHH-------CCCHHHHHHHHHHHHHH
T ss_conf 9999999786957059878446789999980-------59988999999999986
No 124
>PRK09130 NADH dehydrogenase subunit G; Validated
Probab=51.22 E-value=14 Score=15.85 Aligned_cols=16 Identities=0% Similarity=0.034 Sum_probs=8.6
Q ss_pred CHHHCCHHHHHHHHHH
Q ss_conf 9677899999999987
Q gi|254780306|r 816 SPDTVDLEKALKILNI 831 (837)
Q Consensus 816 ~~e~lt~e~a~~li~~ 831 (837)
.--+-|+.+|-++-..
T Consensus 663 sr~S~tM~~cs~~~~~ 678 (680)
T PRK09130 663 ARASATMAECSALASG 678 (680)
T ss_pred HHCCHHHHHHHHHHHC
T ss_conf 6602999998855432
No 125
>TIGR01973 NuoG NADH-quinone oxidoreductase, chain G; InterPro: IPR010228 This entry represents the G subunit (one of 14 subunits, A to N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This family does not contain related subunits from formate dehydrogenase complexes.; GO: 0016651 oxidoreductase activity acting on NADH or NADPH, 0051536 iron-sulfur cluster binding.
Probab=51.17 E-value=10 Score=16.82 Aligned_cols=27 Identities=22% Similarity=0.164 Sum_probs=20.0
Q ss_pred CCHHHHHHHHHHHHHHH---CCCHHHHHHH
Q ss_conf 89889999999999986---2601347899
Q gi|254780306|r 532 VEYDFTADLEEKLDEIS---TGKLNWKEVL 558 (837)
Q Consensus 532 ~~~~fTa~~E~~ld~Ia---~G~~~~~~~L 558 (837)
-.+...+.+++.|+.|+ .|.-.|..++
T Consensus 453 ~~~~~~g~~~~~L~~ia~~~~~~~~~~~~~ 482 (715)
T TIGR01973 453 NLVFHPGLSPKKLDDIAEASSGAHSDDQVV 482 (715)
T ss_pred CCHHHHCCHHHHHHHHHHHHHHCCCHHHHH
T ss_conf 332340500347999999997427100001
No 126
>PRK04017 hypothetical protein; Provisional
Probab=50.81 E-value=15 Score=15.59 Aligned_cols=42 Identities=24% Similarity=0.299 Sum_probs=31.9
Q ss_pred HHHHHHHHHH-HHCCEEEECCCCCCHHHHHHHHHHHHHHHHCC
Q ss_conf 9999999998-70998999469970257999999999755125
Q gi|254780306|r 60 KHLQNIIHAV-KSSTILILATDPDREGEAISWHVLDVLRQKNL 101 (837)
Q Consensus 60 k~~~~i~~~~-k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~ 101 (837)
..+..+...+ +...+||+-||-||-|+-++-.+.+.|...+.
T Consensus 52 ~~l~~ia~~~~~~~~~vIlL~DwDr~G~~L~~kl~~~L~~~g~ 94 (132)
T PRK04017 52 LPLFEIALRASRLKKEVIILTDFDRKGEELAKKLSEYLQGYGI 94 (132)
T ss_pred CCHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHHHCCC
T ss_conf 4099999999855983999971363217999999999986899
No 127
>KOG2324 consensus
Probab=49.78 E-value=12 Score=16.35 Aligned_cols=17 Identities=24% Similarity=0.313 Sum_probs=10.1
Q ss_pred CCCCEEEEEECCCCCEE
Q ss_conf 99966999826974227
Q gi|254780306|r 660 ETKESVTLRSGRFGLYV 676 (837)
Q Consensus 660 ~~G~~I~lk~GryGpYv 676 (837)
.+|+|-+|..|=||.=|
T Consensus 287 ~~gKpe~l~MgCyGIGV 303 (457)
T KOG2324 287 VEGKPEFLHMGCYGIGV 303 (457)
T ss_pred ECCCCCEEEECCEECCH
T ss_conf 05984068740200048
No 128
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'; InterPro: IPR012758 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanococcus jannaschii contains an intein.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0008270 zinc ion binding, 0006350 transcription.
Probab=49.69 E-value=16 Score=15.46 Aligned_cols=15 Identities=7% Similarity=0.071 Sum_probs=10.9
Q ss_pred ECCCHHHHHHHHHCC
Q ss_conf 037989999998622
Q gi|254780306|r 113 NAITKQVVLNAMKSP 127 (837)
Q Consensus 113 ~eiT~~aI~~A~~n~ 127 (837)
-=||++.|++=|++-
T Consensus 180 ~KLTP~eiRErLEki 194 (901)
T TIGR02390 180 VKLTPSEIRERLEKI 194 (901)
T ss_pred EECCCHHHHHHHHCC
T ss_conf 442817999975168
No 129
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=48.98 E-value=14 Score=15.79 Aligned_cols=29 Identities=31% Similarity=0.567 Sum_probs=17.9
Q ss_pred HHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
Q ss_conf 8760888999999998762135567212245531475
Q gi|254780306|r 270 SSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRT 306 (837)
Q Consensus 270 s~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRT 306 (837)
+..+|+..-.+=++...||| .||+||-|.
T Consensus 43 Ae~~gi~lN~VRk~LY~Lye--------~~La~yrR~ 71 (178)
T PRK06266 43 AEQTGIKLNTVRKILYKLYD--------AGLADYKRE 71 (178)
T ss_pred HHHHCCCHHHHHHHHHHHHH--------CCCCEEEEE
T ss_conf 99969978999999999985--------764136665
No 130
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=48.38 E-value=15 Score=15.68 Aligned_cols=26 Identities=19% Similarity=0.312 Sum_probs=17.8
Q ss_pred CCCHHHHHHHHHHHHHHC-CEEEECCC
Q ss_conf 765489999999998709-98999469
Q gi|254780306|r 55 DPSSQKHLQNIIHAVKSS-TILILATD 80 (837)
Q Consensus 55 ~~~~kk~~~~i~~~~k~a-~~iilAtD 80 (837)
.-+..+-++.|..+++.- ..|.+++-
T Consensus 29 ~vgr~~si~ale~a~~~~~k~i~l~~q 55 (782)
T COG0466 29 FVGREKSIKALEEAMKNDQKYILLVTQ 55 (782)
T ss_pred ECCCHHHHHHHHHHHHCCCCEEEEEEE
T ss_conf 727753799999997278877999981
No 131
>pfam01726 LexA_DNA_bind LexA DNA binding domain. This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins. The aligned region contains a variant form of the helix-turn-helix DNA binding motif. This domain is found associated with pfam00717 the auto-proteolytic domain of LexA EC:3.4.21.88.
Probab=47.83 E-value=15 Score=15.56 Aligned_cols=30 Identities=17% Similarity=0.409 Sum_probs=20.6
Q ss_pred HHHCCCCCCCCHHHHHHHHHHCCEEECCCC
Q ss_conf 321025665515789999973220221477
Q gi|254780306|r 480 MEEIGIGRPSTYATILETLYKRKYVIAEKR 509 (837)
Q Consensus 480 mE~~GIGrPSTyA~II~~L~~R~YV~~~~~ 509 (837)
++..|+--|||-...|..|.++||+.+..+
T Consensus 32 ~~~~g~~S~s~v~~~l~~Le~kG~I~r~~~ 61 (65)
T pfam01726 32 AQALGLRSPNAAEEHLKALERKGYIERDPG 61 (65)
T ss_pred HHHHCCCCHHHHHHHHHHHHHCCCEECCCC
T ss_conf 999389980999999999999839634899
No 132
>TIGR00763 lon ATP-dependent protease La; InterPro: IPR004815 Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes . They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence . Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases . Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base . The geometric orientations of the catalytic residues are similar between families, despite different protein folds . The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) , . Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. This signature defines the bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). This family of sequences does not include the archaeal lon homologs, IPR004663 from INTERPRO. In the eukaryotes the majority of the proteins are located in the mitochondrial matrix , . In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response .; GO: 0004176 ATP-dependent peptidase activity, 0005524 ATP binding, 0006510 ATP-dependent proteolysis.
Probab=47.75 E-value=17 Score=15.34 Aligned_cols=17 Identities=24% Similarity=0.460 Sum_probs=10.1
Q ss_pred CEEECCC-----CCEEECCHHH
Q ss_conf 2022147-----7122201142
Q gi|254780306|r 502 KYVIAEK-----RKILPQNTGR 518 (837)
Q Consensus 502 ~YV~~~~-----~~l~pT~~G~ 518 (837)
||+.-+| +.|+|..+..
T Consensus 598 GY~~~EK~~IA~~yLiP~~~~~ 619 (941)
T TIGR00763 598 GYTEEEKLEIAKKYLIPKALED 619 (941)
T ss_pred CCCHHHHHHHHHHCCHHHHHHH
T ss_conf 8876789999985471367987
No 133
>PRK00574 gltX glutamyl-tRNA synthetase; Reviewed
Probab=47.69 E-value=7.5 Score=17.90 Aligned_cols=70 Identities=14% Similarity=0.261 Sum_probs=37.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEEEEEECCEEECCCCHHHHHHHHHHHHHHCCCC
Q ss_conf 67653422689999999999996413765440012233157996542233103583303310113566677764200156
Q gi|254780306|r 162 GARSAGRVQSVALRLICNRENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKAT 241 (837)
Q Consensus 162 ~~lSaGRVQtp~L~lIveRe~eI~~F~p~~y~~i~a~~~~~~~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~ 241 (837)
|-|-+|-+-|.....+.-| ..|..|-.++-..|..| ..++..+.|.+.++=-.
T Consensus 15 G~lHiG~~rtAl~n~l~Ar---------------------~~~G~fiLRIEDTD~~R------~~~~~~~~I~~~L~wlg 67 (489)
T PRK00574 15 GYLHIGNARTALFNYLFAK---------------------HNNGKFILRIEDTDQER------NVEGGEESQLENLKWLG 67 (489)
T ss_pred CCCCHHHHHHHHHHHHHHH---------------------HCCCEEEEEECCCCCCC------CCHHHHHHHHHHHHHCC
T ss_conf 8422478999999999999---------------------64998999867789877------87699999999999879
Q ss_pred CEEEEEECCCCCCCCCCCCC
Q ss_conf 30100002332224685210
Q gi|254780306|r 242 YSVEKIENKPIKRNPWPAFT 261 (837)
Q Consensus 242 ~~V~~v~~k~~~~~Pp~Pf~ 261 (837)
.. ..+.+...-|..||-
T Consensus 68 l~---~DE~p~~~g~~gPY~ 84 (489)
T PRK00574 68 ID---WDEGPDKGGEYGPYR 84 (489)
T ss_pred CC---CCCCCCCCCCCCCCC
T ss_conf 88---877877788888835
No 134
>TIGR00354 polC DNA polymerase II, large subunit DP2; InterPro: IPR004475 This family represents the large subunit, DP2, of a two subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0006308 DNA catabolic process.
Probab=47.27 E-value=9.3 Score=17.22 Aligned_cols=136 Identities=21% Similarity=0.191 Sum_probs=65.0
Q ss_pred CCCCCCCCCCCEEEEECCCHHH---HHHH---HHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEE
Q ss_conf 5786766674406887765489---9999---999987099899946997025799999999975512578871699998
Q gi|254780306|r 39 KGSVLPEKEFEMIWNIDPSSQK---HLQN---IIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSF 112 (837)
Q Consensus 39 ~~~v~~~~~f~p~y~v~~~~kk---~~~~---i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f 112 (837)
.-|.||+.. +. +|=+++ .|.- ++.+|+...++ -.-||==|.||+.|..-+-.....+..|-.|
T Consensus 26 kkGlDp~~~--vE---IPlAkdmAeRVEgLvgp~G~A~RI~EL---eeg~lgrE~~af~iA~EIvegkfg~~dPeek--- 94 (1173)
T TIGR00354 26 KKGLDPELE--VE---IPLAKDMAERVEGLVGPKGVAKRIKEL---EEGDLGREEVAFKIAKEIVEGKFGEFDPEEK--- 94 (1173)
T ss_pred HCCCCCCCC--CC---CCHHHHHHHHHHHHCCCHHHHHHHHHH---HCCCCCHHHHHHHHHHHHHCCCCCCCCHHHH---
T ss_conf 257688887--46---503554777766431842377677776---5088653589999999985257887674678---
Q ss_pred ECCCHHHHHHHHHCCCCCCHHHHHH---HHHH-HHHHHHHHHHHCHHHHHHCC-CCCCCCC---HHHHHHHHHHHHHHHH
Q ss_conf 0379899999986226469899999---9999-99898740113789886414-6765342---2689999999999996
Q gi|254780306|r 113 NAITKQVVLNAMKSPRDINLDLVNA---YLAR-RALDYLVGFNLSPILWQKLP-GARSAGR---VQSVALRLICNRENQI 184 (837)
Q Consensus 113 ~eiT~~aI~~A~~n~r~~d~~Lv~A---~~aR-r~lD~lvG~~lSp~L~rk~~-~~lSaGR---VQtp~L~lIveRe~eI 184 (837)
-+.-++||+-|++=+. +..|.| +.|| |+ |.= |.-|..|.-..+ +-.|||= |-|+-++==|.|-.+|
T Consensus 95 Ek~ad~AvRTAlAilT---EGvVAAPlEGIArVrI-k~n--~D~~~yLavYyAGPIRSAGGTAqalSVLvaDyvR~a~gl 168 (1173)
T TIGR00354 95 EKKADQAVRTALAILT---EGVVAAPLEGIARVRI-KKN--FDKSEYLAVYYAGPIRSAGGTAQALSVLVADYVRKAVGL 168 (1173)
T ss_pred HHHHHHHHHHHHHHHH---CCCEECCCCCEEEEEE-ECC--CCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 9999899999999972---3310047665034665-027--898623688853876560369999999999899876237
Q ss_pred HHCCCCC
Q ss_conf 4137654
Q gi|254780306|r 185 ESFVSEE 191 (837)
Q Consensus 185 ~~F~p~~ 191 (837)
..++|.+
T Consensus 169 dRYkPtE 175 (1173)
T TIGR00354 169 DRYKPTE 175 (1173)
T ss_pred CCCCCCH
T ss_conf 8878655
No 135
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=47.07 E-value=17 Score=15.27 Aligned_cols=37 Identities=30% Similarity=0.490 Sum_probs=29.7
Q ss_pred CCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCC
Q ss_conf 10178998743321025665515789999973220221477
Q gi|254780306|r 469 PRYSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKR 509 (837)
Q Consensus 469 ~rytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~ 509 (837)
.|-+++.|.+++ |+=++ |=.-|+..|-+||||+++++
T Consensus 209 Gri~Q~eL~r~l---glskt-TvsR~L~~LEk~GlIe~~K~ 245 (258)
T COG2512 209 GRITQAELRRAL---GLSKT-TVSRILRRLEKRGLIEKEKK 245 (258)
T ss_pred CEEEHHHHHHHH---CCCHH-HHHHHHHHHHHCCCEEEEEE
T ss_conf 978699988860---99767-79999999986895688870
No 136
>PRK08807 consensus
Probab=46.37 E-value=12 Score=16.40 Aligned_cols=41 Identities=15% Similarity=0.273 Sum_probs=30.9
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 025665515789999973220221477122201142000022
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
.|+.-.. +..-+..+.++|++..++.++.+|+.|+.+.+.+
T Consensus 339 ~G~~~~~-~~~~l~~~~~~Gll~~~~~ri~LT~~G~~~~n~V 379 (385)
T PRK08807 339 TGLAAEV-IEAPLARAVAQGWLRRQDGRVVPTELGRRFTNDV 379 (385)
T ss_pred HCCCHHH-HHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHH
T ss_conf 7969999-9999999997899897499999996388999999
No 137
>pfam02002 TFIIE_alpha TFIIE alpha subunit. The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF. This family consists of the conserved amino terminal region of eukaryotic TFIIE-alpha and proteins from archaebacteria that are presumed to be TFIIE-alpha subunits.
Probab=46.32 E-value=15 Score=15.74 Aligned_cols=31 Identities=23% Similarity=0.441 Sum_probs=26.2
Q ss_pred HHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
Q ss_conf 988760888999999998762135567212245531475
Q gi|254780306|r 268 VASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRT 306 (837)
Q Consensus 268 ~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRT 306 (837)
+.+..+|+....+=+++.+||| .||++|.|.
T Consensus 32 dLa~~l~~~~n~vRkiL~~L~e--------~~lv~~~r~ 62 (105)
T pfam02002 32 DLAELLGIDLNELRKLLYRLYD--------ARLVKYRRR 62 (105)
T ss_pred HHHHHHCCCHHHHHHHHHHHHH--------CCCEEEEEE
T ss_conf 9999978988899999999987--------886588976
No 138
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=46.29 E-value=18 Score=15.10 Aligned_cols=68 Identities=22% Similarity=0.356 Sum_probs=39.4
Q ss_pred CCEEEE-CCH---HHHHHHHHHHCC---CCEEEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCC
Q ss_conf 918997-790---478778875089---9899994251100786557867666744068877654899999999987099
Q gi|254780306|r 1 MNVIIV-ESP---AKAKTISKYLGS---NYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSST 73 (837)
Q Consensus 1 M~LvIv-EsP---~kak~I~~~Lg~---~y~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~ 73 (837)
||+|++ =|| |+.+.+.+++.. ..-+....-+++|||...+ +. .+|. . ..+..+.+.+..||
T Consensus 1 MkIV~IsGS~s~~SrT~~L~~~v~~~L~~~g~ev~~i~l~dl~~~~l-l~--~~~~--------~-p~v~~~~~~V~~AD 68 (191)
T PRK10569 1 MRVITLAGSPRFPSRSSVLLEYAREWLQGLDVEVYHWNLQDFAAEDL-LY--ARFD--------S-PAVKTFTEQLQQAD 68 (191)
T ss_pred CEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEHHHCCCHHH-HC--CCCC--------C-HHHHHHHHHHHHCC
T ss_conf 95999958999997499999999999986698589986331680654-01--6789--------9-89999999998589
Q ss_pred EEEECCC
Q ss_conf 8999469
Q gi|254780306|r 74 ILILATD 80 (837)
Q Consensus 74 ~iilAtD 80 (837)
-+|+||=
T Consensus 69 ~lIVaTP 75 (191)
T PRK10569 69 GLIVATP 75 (191)
T ss_pred EEEEECC
T ss_conf 7999676
No 139
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=45.80 E-value=4.7 Score=19.45 Aligned_cols=48 Identities=13% Similarity=0.187 Sum_probs=25.7
Q ss_pred CCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCCC-------CEEECCHHHHHCC
Q ss_conf 178998743321025665515789999973220221477-------1222011420000
Q gi|254780306|r 471 YSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEKR-------KILPQNTGRIVTA 522 (837)
Q Consensus 471 ytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~-------~l~pT~~G~~v~~ 522 (837)
.|.+.|-+.| ||- +||-+.+|..|..+|||++.-+ .+..|+.|..+.+
T Consensus 55 ~t~~eLa~~l---~id-~~tvt~~ldrLe~~GlI~R~~~p~DrR~~~v~LT~~G~~l~~ 109 (144)
T PRK11512 55 ITPVELKKVL---SVD-LGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAICE 109 (144)
T ss_pred CCHHHHHHHH---CCC-HHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHH
T ss_conf 7999999997---888-878999999999787966357987762478788977999999
No 140
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains; InterPro: IPR005690 Two integral outer envelope GTPases, Toc34 and Toc86, are proposed to regulate the recognition and translocation of nuclear-encoded preproteins during the early stages of protein import into chloroplasts. The long precursor of the 86K protein is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation . The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009707 chloroplast outer membrane.
Probab=45.49 E-value=9.3 Score=17.20 Aligned_cols=114 Identities=21% Similarity=0.328 Sum_probs=60.0
Q ss_pred HHHHHHHHHHCCCCEEEEEECC----CEECCCCCCCCCCC----CCCCEEEEECCCHHHHHHHHHHHHHHC-CEEEECCC
Q ss_conf 4787788750899899994251----10078655786766----674406887765489999999998709-98999469
Q gi|254780306|r 10 AKAKTISKYLGSNYKVLSSFGH----IRDLPAKKGSVLPE----KEFEMIWNIDPSSQKHLQNIIHAVKSS-TILILATD 80 (837)
Q Consensus 10 ~kak~I~~~Lg~~y~V~as~GH----irdLp~~~~~v~~~----~~f~p~y~v~~~~kk~~~~i~~~~k~a-~~iilAtD 80 (837)
.|.-||...||.--..+.+||- |+|.-.-=-||.+. -+..+.|.=-....|++..+|+++|++ --|||--|
T Consensus 136 GKSATINSI~~e~~~s~dAf~~~T~~V~~i~G~V~Gv~i~viDTPGL~~s~~dQs~N~K~L~sVK~~~KK~PPDIVLY~D 215 (772)
T TIGR00993 136 GKSATINSIFGEVKASIDAFGLGTTSVQEIEGLVDGVKIRVIDTPGLKSSASDQSKNEKILSSVKKLIKKNPPDIVLYVD 215 (772)
T ss_pred CCCHHHHHHHCCEEEEEECCCCCCCEEEEEEEEEEEEEEEEEECCCCCHHHHHHHHCHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf 72010111123500120101466644776666771079999757887555543330206888888863179696698600
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCEEE---------EEEECCCHHHHHHHHHCCCC------CCHHHHHHH
Q ss_conf 97025799999999975512578871699---------99803798999999862264------698999999
Q gi|254780306|r 81 PDREGEAISWHVLDVLRQKNLIEKTKIQR---------VSFNAITKQVVLNAMKSPRD------INLDLVNAY 138 (837)
Q Consensus 81 ~DREGE~Iawhi~e~l~~~~~~~~~~v~R---------~~f~eiT~~aI~~A~~n~r~------~d~~Lv~A~ 138 (837)
|= + ++.+. .++.|.-| ||+|.|- .+.+|-.-|=+ ..++++=||
T Consensus 216 --RL---------D-~Q~RD-~~dlPlLRti~~~lGpsIW~N~IV--~LTHAAS~PPDg~~Gt~~SYD~FVaQ 273 (772)
T TIGR00993 216 --RL---------D-LQTRD-LNDLPLLRTITDVLGPSIWKNAIV--TLTHAASAPPDGPNGTPLSYDVFVAQ 273 (772)
T ss_pred --CC---------C-CCCCC-CCCCCHHHHHHHHHCCHHHHHHHH--HHHHCCCCCCCCCCCCCCCEEEEEEC
T ss_conf --22---------3-33465-667744757775616101320432--11100368767888884200001100
No 141
>TIGR01591 Fdh-alpha formate dehydrogenase, alpha subunit; InterPro: IPR006478 This group of sequences describe a subset of formate dehydrogenase alpha chains found mainly in the archaea but also in alpha and gamma proteobacteria and a small number of Gram-positive bacteria. The alpha chain contains domains for molybdopterin dinucleotide binding and molybdopterin oxidoreductase. The holo-enzyme also contains beta and gamma subunits. The enzyme catalyzes the oxidation of formate (produced from pyruvate during anaerobic growth) to carbon dioxide with the concomitant release of two electrons and two protons. The enzyme's purpose is to allow growth on formate in some circumstances and, in the case of FdhH in gamma proteobacteria, to pass electrons to hydrogenase (by which process acid is neutralized) . The alpha subunit of a version of nitrate reductase is closely related.; GO: 0008863 formate dehydrogenase activity, 0015942 formate metabolic process, 0009326 formate dehydrogenase complex.
Probab=45.25 E-value=13 Score=16.08 Aligned_cols=82 Identities=20% Similarity=0.203 Sum_probs=36.6
Q ss_pred HHHHHHHHH--CCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHH-------HHHHHHCCCCCCCHHHH
Q ss_conf 667776420--015630100002332224685210379999988760888999999-------99876213556721224
Q gi|254780306|r 229 EADDLISFV--KKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMR-------IAQKLYEGIDVNGEIVG 299 (837)
Q Consensus 229 ~a~~~~~~~--~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~-------iAQ~LYE~~~~~~~~~G 299 (837)
-++.+.++. +++.+.|.++-+.+.-++.- ++.+..=.++=..+=++- |-|.||.. -
T Consensus 180 v~~~l~~AKk~nGaKiiV~DpR~t~taksah-------i~AD~~i~~k~GTdial~na~a~viI~egL~Dk--------~ 244 (694)
T TIGR01591 180 VASKLMRAKKRNGAKIIVIDPRKTETAKSAH-------IIADLFIPLKPGTDIALLNAVANVIIEEGLYDK--------E 244 (694)
T ss_pred HHHHHHHHHHHCCCEEEEECCCCCCHHHHHH-------HCCCEEEECCCCHHHHHHHHHHHEEECCCCCCH--------H
T ss_conf 8999999985089789997588860232211-------101106517997089999732002422786166--------8
Q ss_pred HHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCC
Q ss_conf 55314755444430568999976552001123
Q gi|254780306|r 300 LITYMRTDGVHMSPDALEAVRRSITSHYGDHY 331 (837)
Q Consensus 300 lITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~ 331 (837)
||- -|||-.. .++.|+.|+..|-.++
T Consensus 245 Fi~-~R~~W~~-----F~E~r~~V~~~yTpE~ 270 (694)
T TIGR01591 245 FIE-KRTDWEG-----FEEFREIVKGKYTPEY 270 (694)
T ss_pred HHH-HHCCCCC-----HHHHHHHHCCCCCHHH
T ss_conf 897-5148785-----3788877504787532
No 142
>KOG0994 consensus
Probab=44.84 E-value=19 Score=14.94 Aligned_cols=26 Identities=27% Similarity=0.290 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 79999988760888999999998762
Q gi|254780306|r 263 STLQQVASSRLGFSASHTMRIAQKLY 288 (837)
Q Consensus 263 stLQq~As~~lg~sa~~Tm~iAQ~LY 288 (837)
-|+|..++=+-||+-.+.-..|+.-+
T Consensus 930 ~t~~ivC~C~~GY~G~RCe~CA~~~f 955 (1758)
T KOG0994 930 RTQQIVCHCQEGYSGSRCEICADNHF 955 (1758)
T ss_pred CCCCEEEECCCCCCCCCHHHHCCCCC
T ss_conf 32232342146766540123123456
No 143
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=44.60 E-value=19 Score=14.92 Aligned_cols=51 Identities=22% Similarity=0.346 Sum_probs=36.2
Q ss_pred CCHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCEEECCC-------CCEEECCHHHHHCCCCC
Q ss_conf 17899874332102566551578999997322022147-------71222011420000223
Q gi|254780306|r 471 YSESSLIKKMEEIGIGRPSTYATILETLYKRKYVIAEK-------RKILPQNTGRIVTAFLE 525 (837)
Q Consensus 471 ytEasLik~mE~~GIGrPSTyA~II~~L~~R~YV~~~~-------~~l~pT~~G~~v~~~L~ 525 (837)
-|...|-+. .||-+| |=+.+|..|.++|||.+.. +.+..|+.|..+.+-+.
T Consensus 47 ~tq~eLa~~---l~v~~~-t~tr~ld~LE~~GlI~R~~~~~DrR~~~i~LT~~G~~l~~~~~ 104 (144)
T PRK03573 47 QSQIQLAKA---IGIEQP-SLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLISEME 104 (144)
T ss_pred CCHHHHHHH---HCCCHH-HHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHHH
T ss_conf 899999999---798783-6999999999888978622867675467678887999999999
No 144
>PRK09058 coproporphyrinogen III oxidase; Provisional
Probab=44.60 E-value=3.5 Score=20.41 Aligned_cols=43 Identities=14% Similarity=0.085 Sum_probs=34.6
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCC
Q ss_conf 0256655157899999732202214771222011420000223
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLE 525 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~ 525 (837)
.+.|.....+..++.+++.|.|..++..|..|+.|+.+.+.+-
T Consensus 385 ~~~~~~~~~~~~l~~~~~~GLv~~~~~~l~LT~~Gr~~~~~Ia 427 (447)
T PRK09058 385 LRTPHAVALAPLLAQWQQAGLVELSSDCLRLTLAGRFWAVNLA 427 (447)
T ss_pred CCCCHHHHHHHHHHHHHHCCCEEEECCEEEECCCCCCHHHHHH
T ss_conf 2655699999999999978998996999999977666999999
No 145
>COG1568 Predicted methyltransferases [General function prediction only]
Probab=44.30 E-value=17 Score=15.20 Aligned_cols=11 Identities=27% Similarity=0.468 Sum_probs=4.3
Q ss_pred EECCHHHHHCC
Q ss_conf 22011420000
Q gi|254780306|r 512 LPQNTGRIVTA 522 (837)
Q Consensus 512 ~pT~~G~~v~~ 522 (837)
..++.|..+++
T Consensus 275 lIn~~gvVITd 285 (354)
T COG1568 275 LINEMGVVITD 285 (354)
T ss_pred HHHHCCEEHHH
T ss_conf 98743764076
No 146
>COG3383 Uncharacterized anaerobic dehydrogenase [General function prediction only]
Probab=44.15 E-value=19 Score=14.87 Aligned_cols=39 Identities=26% Similarity=0.433 Sum_probs=20.7
Q ss_pred ECCHHHHHCCCCCCCCCCCCCHHHHHHHH----------------HHHHHHHCCCHH
Q ss_conf 20114200002233665568988999999----------------999998626013
Q gi|254780306|r 513 PQNTGRIVTAFLENFFSQYVEYDFTADLE----------------EKLDEISTGKLN 553 (837)
Q Consensus 513 pT~~G~~v~~~L~~~f~~~~~~~fTa~~E----------------~~ld~Ia~G~~~ 553 (837)
..+.|- +-+.|..+ ..|-|..+.++.| ++||.|.+|++.
T Consensus 596 a~DmGs-lP~~LPGy-q~isdd~~R~kFE~~wGv~i~~ePGl~~~~Mlea~~~G~~~ 650 (978)
T COG3383 596 ACDMGS-LPDVLPGY-QPISDDAVRAKFEEAWGVKIPREPGLDNPEMLEAIEEGKLK 650 (978)
T ss_pred CCCCCC-CCCCCCCC-CCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCEE
T ss_conf 244566-86658775-21565889999999758877998888728999998628615
No 147
>cd01916 ACS_1 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH) consisting of two ACS and two CODH subunits. CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP). ACS has three structural domains, an N-terminal rossman fold domain with a helical region at its N-terminus which interacts with CODH, and two alpha + beta fold domains. A Ni-Fe-S center referred to as the A-cluster is located in the C-terminal domain. A large cavity exists between the three domains which may bind CoA.
Probab=44.03 E-value=8.1 Score=17.68 Aligned_cols=12 Identities=58% Similarity=1.265 Sum_probs=10.1
Q ss_pred CCCCCCCCCCCC
Q ss_conf 111234343233
Q gi|254780306|r 623 AFVGCTNYPECK 634 (837)
Q Consensus 623 ~FigCSnyPeCk 634 (837)
.|+||||||+..
T Consensus 469 a~vGC~Nypng~ 480 (731)
T cd01916 469 ALVGCSNYPNGT 480 (731)
T ss_pred EEECCCCCCCCC
T ss_conf 995078898861
No 148
>pfam01978 TrmB Sugar-specific transcriptional regulator TrmB. One member of this family, TrmB, has been shown to be a sugar-specific transcriptional regulator of the trehalose/maltose ABC transporter in Thermococcus litoralis.
Probab=43.70 E-value=13 Score=16.11 Aligned_cols=20 Identities=15% Similarity=0.253 Sum_probs=10.5
Q ss_pred HHHHCCCHHHHHHHHHHHHC
Q ss_conf 87608889999999987621
Q gi|254780306|r 270 SSRLGFSASHTMRIAQKLYE 289 (837)
Q Consensus 270 s~~lg~sa~~Tm~iAQ~LYE 289 (837)
++..|++-.++-++.++|.+
T Consensus 29 a~~~~i~r~~vY~~L~~L~~ 48 (68)
T pfam01978 29 AEESGVPRSKVYEVLRSLEK 48 (68)
T ss_pred HHHHCCCHHHHHHHHHHHHH
T ss_conf 99959889899999999998
No 149
>pfam10557 Cullin_Nedd8 Cullin protein neddylation domain. This is the neddylation site of cullin proteins which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognizes and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae, and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenes
Probab=43.48 E-value=20 Score=14.79 Aligned_cols=13 Identities=23% Similarity=0.649 Sum_probs=7.8
Q ss_pred HHHHHHCCEEECC
Q ss_conf 9999732202214
Q gi|254780306|r 495 LETLYKRKYVIAE 507 (837)
Q Consensus 495 I~~L~~R~YV~~~ 507 (837)
|+.|++|+|+.++
T Consensus 51 Ie~LIekeYl~R~ 63 (68)
T pfam10557 51 IESLIEKEYLERD 63 (68)
T ss_pred HHHHHHHHHHHCC
T ss_conf 9999987888318
No 150
>TIGR00334 primaseG_like primase homolog; InterPro: IPR004466 This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases..
Probab=43.14 E-value=20 Score=14.76 Aligned_cols=71 Identities=20% Similarity=0.342 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHH-------CCCCCCCEEEEEEECCCHHHHHHHHHCCCC
Q ss_conf 489999999998709989994699702579999999997551-------257887169999803798999999862264
Q gi|254780306|r 58 SQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQK-------NLIEKTKIQRVSFNAITKQVVLNAMKSPRD 129 (837)
Q Consensus 58 ~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~-------~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~ 129 (837)
+...++.++...+ ...+++.+|||..|+.|-..+.+.+... .....+..+.+-..+.+..++..++.+...
T Consensus 34 ~~~~~~~~~~~~~-~~~~~~~~dpd~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~ 111 (176)
T TIGR00334 34 KDETINLLKKALK-KKGVILLLDPDKPGEKIRKKLEEHLGGYENCFLPKALLKPKNTKKIGVEEASKTALIAALENVGT 111 (176)
T ss_pred HHHHHHHHHHHHH-HCCEEEEECCCCCHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 5788999998775-36736875687322689999998614212333314551333332111123218899999864444
No 151
>PRK00941 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated
Probab=42.65 E-value=8.7 Score=17.41 Aligned_cols=12 Identities=67% Similarity=1.370 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCC
Q ss_conf 111234343233
Q gi|254780306|r 623 AFVGCTNYPECK 634 (837)
Q Consensus 623 ~FigCSnyPeCk 634 (837)
.|+||+|||+..
T Consensus 506 a~vGC~Nypng~ 517 (779)
T PRK00941 506 AFVGCSNYPNGG 517 (779)
T ss_pred EEECCCCCCCCC
T ss_conf 995178898861
No 152
>TIGR00014 arsC arsenate reductase; InterPro: IPR006659 This entry describes a distinct clade, including ArsC itself, of the broader family of ArsC and related proteins. This clade is almost completely restricted to the proteobacteria. An anion-translocating ATPase has been identified as the product of the arsenical resistance operon of resistance plasmid R773 . When expressed in Escherichia coli this ATP-driven oxyanion pump catalyses extrusion of the oxyanions arsenite, antimonite and arsenate. The pump is composed of two polypeptides, the products of the arsA and arsB genes. The pump alone produces resistance to arsenite and antimonite. This protein, ArsC, catalyzes the reduction of arsenate to arsenite, and thus extends resistance to include arsenate. ; GO: 0008794 arsenate reductase (glutaredoxin) activity, 0006118 electron transport.
Probab=42.30 E-value=11 Score=16.55 Aligned_cols=53 Identities=23% Similarity=0.281 Sum_probs=35.0
Q ss_pred HHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCH-HHHHHHHHHHHCCC
Q ss_conf 6677764200156301000023322246852103799999887608889-99999998762135
Q gi|254780306|r 229 EADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSA-SHTMRIAQKLYEGI 291 (837)
Q Consensus 229 ~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa-~~Tm~iAQ~LYE~~ 291 (837)
++-++++.- +-.-+|...=+ -||+.|.||+-. ++||.|+ ++.|+.=..+|-..
T Consensus 14 ~tLalL~dk-gi~P~vV~YL~--------~pp~~seL~~~~-~~LG~~~ar~~~R~ke~~y~eL 67 (114)
T TIGR00014 14 QTLALLEDK-GIEPEVVKYLK--------NPPTKSELKALL-AKLGISSAREMIRTKEELYKEL 67 (114)
T ss_pred HHHHHHHHC-CCCCEEEECCC--------CCCCHHHHHHHH-HHCCCCHHHHHCCCCCCCCCCC
T ss_conf 999999856-99954741458--------974868899999-8708970363011765210004
No 153
>TIGR02647 DNA conserved hypothetical protein TIGR02647; InterPro: IPR013468 Proteins in this entry are found, so far, only in the Gammaproteobacteria. Their function is currently unknown. The location on the chromosome is usually not far from housekeeping genes. Some proteins have been annotated in public databases as DNA-binding protein inhibitors, putative transcriptional regulators, or hypothetical DNA binding proteins..
Probab=42.10 E-value=20 Score=14.65 Aligned_cols=36 Identities=31% Similarity=0.415 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHH
Q ss_conf 8899999999876213556721224553147554444305689999
Q gi|254780306|r 275 FSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVR 320 (837)
Q Consensus 275 ~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r 320 (837)
-........|++|||+ ||+|=| |.-||.+..++.+.
T Consensus 31 ~A~~~~~aA~~RL~~K--------~L~~Qp--DGGYLT~~G~~~ae 66 (77)
T TIGR02647 31 TASPAAVAAAKRLYEK--------GLTDQP--DGGYLTSLGLEAAE 66 (77)
T ss_pred HHHHHHHHHHHHHHHC--------CCCCCC--CCCCHHHHHHHHHH
T ss_conf 1037899999988733--------775579--97501354448899
No 154
>PRK08332 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=41.99 E-value=14 Score=15.80 Aligned_cols=40 Identities=25% Similarity=0.301 Sum_probs=18.2
Q ss_pred CCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCCCCHHHHH
Q ss_conf 44068877654899999999987099899946997025799
Q gi|254780306|r 48 FEMIWNIDPSSQKHLQNIIHAVKSSTILILATDPDREGEAI 88 (837)
Q Consensus 48 f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~DREGE~I 88 (837)
|.|-+.+.|+- +++..-.+.+|..|-+|-.--.|..=|.|
T Consensus 399 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 (1748)
T PRK08332 399 WHPFFVITPDF-KIVEKRADELKEGDILIGGMPDDDDYEFI 438 (1748)
T ss_pred CCCCEEECCCC-CHHHHHHHHHCCCCEEECCCCCCCCHHHH
T ss_conf 86517856863-11564444540377665378887540123
No 155
>PRK07379 coproporphyrinogen III oxidase; Provisional
Probab=41.62 E-value=21 Score=14.60 Aligned_cols=42 Identities=10% Similarity=0.180 Sum_probs=32.9
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEECC-HHHHHCCCC
Q ss_conf 025665515789999973220221477122201-142000022
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILPQN-TGRIVTAFL 524 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~-~G~~v~~~L 524 (837)
.|..-...+...++.+.++|.+..+++++..|+ .|+.+.+.+
T Consensus 345 fg~~~~~~~~~~l~~l~~~Gll~~~~~~i~LT~p~G~l~~n~I 387 (399)
T PRK07379 345 FGQEIVEKILQCLQPYFQQGWVELTGGRLRLTDPEGFLFSNTV 387 (399)
T ss_pred HCCCHHHHHHHHHHHHHHCCCEEEECCEEEEECCCCEEEHHHH
T ss_conf 8967899999999999967988997999999487835429899
No 156
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=41.49 E-value=21 Score=14.58 Aligned_cols=28 Identities=11% Similarity=0.265 Sum_probs=17.3
Q ss_pred CHHHHHHHHHHHHHHCCEEEECCCCCCH
Q ss_conf 5489999999998709989994699702
Q gi|254780306|r 57 SSQKHLQNIIHAVKSSTILILATDPDRE 84 (837)
Q Consensus 57 ~~kk~~~~i~~~~k~a~~iilAtD~DRE 84 (837)
+..+-++.|..+.+.-..|++.+--|-+
T Consensus 32 GR~kSI~AlE~A~~~d~~I~LVaQKD~~ 59 (784)
T PRK10787 32 GREKSIRCLEAAMDHDKKIMLVAQKEAS 59 (784)
T ss_pred CCHHHHHHHHHHHHCCCEEEEEECCCCC
T ss_conf 8889999999999649979999756888
No 157
>KOG1168 consensus
Probab=41.34 E-value=21 Score=14.56 Aligned_cols=11 Identities=27% Similarity=0.005 Sum_probs=4.1
Q ss_pred CCCCHHHHHHH
Q ss_conf 53422689999
Q gi|254780306|r 165 SAGRVQSVALR 175 (837)
Q Consensus 165 SaGRVQtp~L~ 175 (837)
|-+-.-|++++
T Consensus 34 s~~~~~S~~~~ 44 (385)
T KOG1168 34 SQLFFPSELFR 44 (385)
T ss_pred CCCCCCHHHHH
T ss_conf 02457507666
No 158
>TIGR01697 PNPH-PUNA-XAPA inosine guanosine and xanthosine phosphorylase family; InterPro: IPR011268 This entry describes a subset of the phosphorylase family. The entry excludes the methylthioadenosine phosphorylases (MTAP, IPR010044 from INTERPRO), which are believed to play a specific role in the recycling of methionine from methylthioadenosine. This entry consists of three clades of purine phosphorylases based on a neighbour-joining tree using the MTAP family as an out group. The highest-branching clade (IPR011269 from INTERPRO) consists of a group of sequences from both Gram-positive and Gram-negative bacteria which have been shown to act as purine nucleotide phosphorylases but whose physiological substrate and role in vivo remain unknown . Of the two remaining clades, one is xanthosine phosphorylase (XAPA, IPR010943 from INTERPRO); it is limited to certain gammaproteobacteria and constitutes a special purine phosphorylase found in a specialised operon for xanthosine catabolism . The enzyme also acts on the same purines (inosine and guanosine) as the other characterised members of this subfamily, but is only induced when xanthosine must be degraded. The remaining and largest clade consists of purine nucleotide phosphorylases (PNPH, IPR011270 from INTERPRO) from metazoa and bacteria which act primarily on guanosine and inosine, and do not act on adenosine. Sequences from Clostridium and Thermotoga fall between these last two clades and are uncharacterised with respect to substrate range. ; GO: 0004731 purine-nucleoside phosphorylase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=41.00 E-value=18 Score=15.14 Aligned_cols=84 Identities=14% Similarity=0.324 Sum_probs=46.2
Q ss_pred CCCCCCCCCC--EEEEEECCCCCEEEECCCCCCCCCCCCCC-CCHHHCCHHHHHHHHHC---------------CHHHCC
Q ss_conf 0146899996--69998269742277348877761337899-88425489999998615---------------255157
Q gi|254780306|r 654 LLGNDLETKE--SVTLRSGRFGLYVQRGDGKDAKRCSLPKT-WKSDSVDYDKAMSLLSL---------------PREIGI 715 (837)
Q Consensus 654 ~LG~dP~~G~--~I~lk~GryGpYvq~Ge~~kpkr~si~k~-~~~~~itle~Al~LLsL---------------Pr~lG~ 715 (837)
++|. -.|+ ||.+..|||=+| ++ .+++.+|+= ++++.+ -+++..
T Consensus 48 v~G~--Lgg~rvpV~~m~GRfH~Y---------------EGn~d~~~vt~P--vR~mk~lGv~~lvvTNAAGg~n~~~~~ 108 (266)
T TIGR01697 48 VFGR--LGGKRVPVVVMQGRFHYY---------------EGNYDMAAVTFP--VRVMKLLGVEILVVTNAAGGLNADFKP 108 (266)
T ss_pred EEEE--ECCEEEEEEEEECCCCCC---------------CCCCCHHHHHHH--HHHHHHCCCEEEEEECCCCCCCCCCCC
T ss_conf 7776--657114688850772356---------------789666677689--999986692089997466120678898
Q ss_pred CCCCCCEEEEE-----ECC--CCCEEEEC-----CEECCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 77898749991-----158--76526167-----81112488775143579999999983
Q gi|254780306|r 716 HPETQKNIIAG-----TGK--YGYYLNHD-----GAYTKLESIEQVLTIDLEQAISCITE 763 (837)
Q Consensus 716 ~pe~g~~I~~~-----~Gr--yGpYi~~~-----~~~~sl~~~~~~~~I~l~~Aieli~~ 763 (837)
|.-|.+. .|+ +-|=|-++ .-|.+| -+.+|-+|=+.+.=+|+
T Consensus 109 ----GdLm~i~DHIN~~~~ag~nPLvGpN~~~FG~RFp~l---~~AYD~~lr~~~~~~A~ 161 (266)
T TIGR01697 109 ----GDLMIIKDHINLPGLAGFNPLVGPNDDEFGTRFPDL---SNAYDKELRALAKDVAK 161 (266)
T ss_pred ----CCEEEEECHHHCCCCCCCCCCCCCCCCCCCCCCCCC---CCHHHHHHHHHHHHHHH
T ss_conf ----537997112114400047878698885557899876---64567999999999998
No 159
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; InterPro: IPR012794 Members of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.; GO: 0003677 DNA binding, 0016563 transcription activator activity, 0045941 positive regulation of transcription, 0046278 protocatechuate metabolic process.
Probab=40.91 E-value=18 Score=15.06 Aligned_cols=20 Identities=15% Similarity=0.165 Sum_probs=11.5
Q ss_pred HHHHHHCCC---HHHHHHHHHHH
Q ss_conf 988760888---99999999876
Q gi|254780306|r 268 VASSRLGFS---ASHTMRIAQKL 287 (837)
Q Consensus 268 ~As~~lg~s---a~~Tm~iAQ~L 287 (837)
+++++=|+| |.|.|-..|+|
T Consensus 29 ~vA~~TGL~RAaARR~LLTL~~L 51 (252)
T TIGR02431 29 DVAEATGLTRAAARRFLLTLVEL 51 (252)
T ss_pred HHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 99987589947988899846562
No 160
>TIGR00575 dnlj DNA ligase, NAD-dependent; InterPro: IPR001679 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase: one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC). This family is predominantly composed of NAD-dependent bacterial DNA ligases. They are proteins of about 75 to 85 Kd whose sequence is well conserved , . They also show similarity to yicF, an Escherichia coli hypothetical protein of 63 Kd.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair.
Probab=40.54 E-value=15 Score=15.61 Aligned_cols=37 Identities=22% Similarity=0.419 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHHHCCC-HHHHHHHHH--HHHCCCCCCCHHHHHHHHCC
Q ss_conf 210379999988760888-999999998--76213556721224553147
Q gi|254780306|r 259 AFTTSTLQQVASSRLGFS-ASHTMRIAQ--KLYEGIDVNGEIVGLITYMR 305 (837)
Q Consensus 259 Pf~tstLQq~As~~lg~s-a~~Tm~iAQ--~LYE~~~~~~~~~GlITYpR 305 (837)
||.|-..--..=++|||. .....+.++ ++=| .|.|-+
T Consensus 238 ~~~t~~~~L~~L~~~GF~TV~~~~~~~~ln~~~e----------V~~~~~ 277 (706)
T TIGR00575 238 PFRTQYEALAWLKKLGFPTVNPHIRLCKLNSIEE----------VLEYYE 277 (706)
T ss_pred CCCCHHHHHHHHHHCCCCCCHHHHHHHCCCCHHH----------HHHHHH
T ss_conf 8677899999998638842012577630389889----------999999
No 161
>pfam11279 DUF3080 Protein of unknown function (DUF3080). Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently this family has no known function.
Probab=40.25 E-value=21 Score=14.60 Aligned_cols=51 Identities=20% Similarity=0.171 Sum_probs=32.0
Q ss_pred HHHHHCCCCCCHHHHHHHHHHH-HHHHHHHHHHCHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 9998622646989999999999-9898740113789886414676534226899999999999
Q gi|254780306|r 121 LNAMKSPRDINLDLVNAYLARR-ALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNREN 182 (837)
Q Consensus 121 ~~A~~n~r~~d~~Lv~A~~aRr-~lD~lvG~~lSp~L~rk~~~~lSaGRVQtp~L~lIveRe~ 182 (837)
+....+.-+++.+|.|+..-|. .|--+||= ++-|-||||+|.-+|++|.+-
T Consensus 33 r~~~~~~~~~~i~lld~~~L~~C~L~~liae-----------rNs~LGk~~~~s~rl~ye~~f 84 (315)
T pfam11279 33 RELLLDIPDLTIGLLDFLSLRHCGLFVLIAE-----------RNSILGKVQDPSQRLDYELRF 84 (315)
T ss_pred HHHCCCCCCCCCCHHHHHHHCCCCCHHHHHH-----------HCCCCCCCCCHHHHHHHHHHH
T ss_conf 4431789866764999986368950779998-----------624313576888988999999
No 162
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=39.81 E-value=16 Score=15.53 Aligned_cols=64 Identities=19% Similarity=0.248 Sum_probs=35.2
Q ss_pred CCHHHHHHHHHHHHHHCCEEEECCC----CCCHHHHHHHHHHHHHH---HHCCCCCCCEEEEEEECCCHHHHHHHHHC
Q ss_conf 6548999999999870998999469----97025799999999975---51257887169999803798999999862
Q gi|254780306|r 56 PSSQKHLQNIIHAVKSSTILILATD----PDREGEAISWHVLDVLR---QKNLIEKTKIQRVSFNAITKQVVLNAMKS 126 (837)
Q Consensus 56 ~~~kk~~~~i~~~~k~a~~iilAtD----~DREGE~Iawhi~e~l~---~~~~~~~~~v~R~~f~eiT~~aI~~A~~n 126 (837)
.+.++.+..|+++++..+.-|.--| +|-|=-.....+. .|+ +.....+.|..|+= .++..+|..
T Consensus 5 ~~~~~~i~~L~~~L~~~~~~Yyv~d~P~VsD~eYD~L~reL~-~lE~~~Pel~~~dSPtqrVG------~~~~~~F~k 75 (667)
T COG0272 5 AEAQEEIEELRELLNKHDYRYYVLDAPSVSDAEYDQLYRELQ-ELEEKHPELITPDSPTQRVG------AAPLNAFKK 75 (667)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH-HHHHHCCCCCCCCCCCCCCC------CCCHHCCCC
T ss_conf 789999999999999977887226999798589999999999-99986877678999965557------430100453
No 163
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=39.76 E-value=20 Score=14.65 Aligned_cols=43 Identities=14% Similarity=0.122 Sum_probs=31.0
Q ss_pred CCCEEEEECCCCCEEEECCEEEECCCCCCHHHCCHHHHHHHHHHH
Q ss_conf 984699606854525367888756578896778999999999877
Q gi|254780306|r 788 GGSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIK 832 (837)
Q Consensus 788 ~~~i~i~~GryGpYi~~gk~Na~ipk~~~~e~lt~e~a~~li~~k 832 (837)
|-|+.|--|+= .++.|..-....+.-..+.++++++++.|.+.
T Consensus 525 GiP~~vvvGkk--~l~~g~vEvk~R~~~~~~~v~~~el~~~v~~l 567 (570)
T PRK09194 525 GIPHRIVVGKR--GLAEGIVEYKNRRTGEKEEVKLDELVEFLKEL 567 (570)
T ss_pred CCCEEEEECCC--CCCCCEEEEEEECCCCEEEECHHHHHHHHHHH
T ss_conf 89979999267--40158599999068975886199999999998
No 164
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=39.34 E-value=22 Score=14.35 Aligned_cols=20 Identities=20% Similarity=0.416 Sum_probs=12.3
Q ss_pred CHHHCCHHHHHHHH--HCCHHH
Q ss_conf 84254899999986--152551
Q gi|254780306|r 694 KSDSVDYDKAMSLL--SLPREI 713 (837)
Q Consensus 694 ~~~~itle~Al~LL--sLPr~l 713 (837)
.-.+|+||.-|++- +||..|
T Consensus 190 tq~eislEefIE~eR~~L~~~L 211 (299)
T COG5252 190 TQVEISLEEFIELERQSLPEKL 211 (299)
T ss_pred CCCCCCHHHHHHHHHCCCCCCC
T ss_conf 5542019999998860278767
No 165
>pfam09339 HTH_IclR IclR helix-turn-helix domain.
Probab=39.18 E-value=14 Score=15.81 Aligned_cols=20 Identities=35% Similarity=0.496 Sum_probs=12.2
Q ss_pred HHHHCCCHHHHHHHHHHHHC
Q ss_conf 87608889999999987621
Q gi|254780306|r 270 SSRLGFSASHTMRIAQKLYE 289 (837)
Q Consensus 270 s~~lg~sa~~Tm~iAQ~LYE 289 (837)
++.+|++...+-++.+.|=+
T Consensus 25 a~~~gl~kstv~RlL~tL~~ 44 (52)
T pfam09339 25 ARRTGLPKSTAHRLLQTLVE 44 (52)
T ss_pred HHHHCCCHHHHHHHHHHHHH
T ss_conf 99989199999999999998
No 166
>PRK13347 coproporphyrinogen III oxidase; Provisional
Probab=39.16 E-value=8.3 Score=17.57 Aligned_cols=36 Identities=22% Similarity=0.182 Sum_probs=29.0
Q ss_pred HHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCC
Q ss_conf 999997322022147712220114200002233665
Q gi|254780306|r 494 ILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFS 529 (837)
Q Consensus 494 II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~ 529 (837)
-++.+.++|.|+.++.+|..|+.|+.+.+.+-..|.
T Consensus 404 ~l~~l~~~GLl~~~~~~l~lT~~Gr~l~~~Ia~~Fd 439 (453)
T PRK13347 404 RLEPLAADGLVTIDGGGIRVTPEGRPLIRAVAAAFD 439 (453)
T ss_pred HHHHHHHCCCEEEECCEEEECHHHHHHHHHHHHHHH
T ss_conf 999999789889989999999708999999999999
No 167
>TIGR01503 MthylAspMut_E methylaspartate mutase, E subunit; InterPro: IPR006396 Glutamate mutase (methylaspartate mutase) catalyses the reversible interconversion of L-glutamate and L-threo-3-methylaspartate, the first step in the pathway of glutamate fermentation . Catalysis is initiated using the cobalamin cofactor. The E subunit is the catalytic subunit (MutE) . ; GO: 0016866 intramolecular transferase activity, 0031419 cobalamin binding, 0019670 anaerobic glutamate catabolic process.
Probab=38.49 E-value=22 Score=14.44 Aligned_cols=27 Identities=11% Similarity=0.178 Sum_probs=17.7
Q ss_pred HHCCCCCHHHHHHHHHHHHH-HHHHHHHH
Q ss_conf 00001999999999999999-99985222
Q gi|254780306|r 364 KMKQFLDSDQFQLYNLIWKR-SVASQMAS 391 (837)
Q Consensus 364 ~~~~~L~~de~klY~LI~~R-~lasqm~~ 391 (837)
+=.+....||.|-|-+|.-- |+| -|..
T Consensus 291 QWmGGFP~dE~kAf~vIs~ataiA-~l~~ 318 (481)
T TIGR01503 291 QWMGGFPEDESKAFGVISLATAIA-ALSG 318 (481)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHH-HHHC
T ss_conf 277996256788877899999999-8737
No 168
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=37.61 E-value=24 Score=14.16 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=29.1
Q ss_pred HCCCCCCCCHHHHHHHHHHCCEEECCC-CCEEECCHHHHH
Q ss_conf 102566551578999997322022147-712220114200
Q gi|254780306|r 482 EIGIGRPSTYATILETLYKRKYVIAEK-RKILPQNTGRIV 520 (837)
Q Consensus 482 ~~GIGrPSTyA~II~~L~~R~YV~~~~-~~l~pT~~G~~v 520 (837)
.+++- |+|-+.++..|.+.|||..++ +.+.-|+.|...
T Consensus 33 ~L~Vs-p~sVt~ml~rL~~~GlV~~~~y~gi~LT~~G~~~ 71 (154)
T COG1321 33 RLKVS-PPSVTEMLKRLERLGLVEYEPYGGVTLTEKGREK 71 (154)
T ss_pred HHCCC-CHHHHHHHHHHHHCCCEEEECCCCEEECCCHHHH
T ss_conf 85899-2789999999987899788458886788354899
No 169
>TIGR00781 ccoO cytochrome c oxidase, cbb3-type, subunit II; InterPro: IPR003468 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO) . Cytochrome cbb3 oxidases are required both to support symbiotic nitrogen fixation, whilst ensuring that the oxygen-labile nitrogenase is not compromised. Cytochrome cbb3 oxidases consist of four subunits: FixN (or CcoN), FixO (or CcoO), FixP (or CcoP) and FixQ (or CcoQ). The catalytic core is comprised of subunits FixN, FixO and FixP, where FixN acts as the catalytic subunit, and Fix O and FixP are membrane-bound mono- and di-haem cytochromes c, respectively. The FixQ subunit protects the core complex in the presence of oxygen from proteolytic degradation . This entry represents the mono-haem FixO subunit.; GO: 0004129 cytochrome-c oxidase activity, 0006118 electron transport.
Probab=37.36 E-value=17 Score=15.18 Aligned_cols=20 Identities=25% Similarity=0.531 Sum_probs=11.3
Q ss_pred HHCCHHHHHHHHHCCHHH-CC
Q ss_conf 254899999986152551-57
Q gi|254780306|r 696 DSVDYDKAMSLLSLPREI-GI 715 (837)
Q Consensus 696 ~~itle~Al~LLsLPr~l-G~ 715 (837)
..+|.+.+..-++=-+.| |+
T Consensus 143 ~~~d~~~~~~~~~~~~~VfGv 163 (234)
T TIGR00781 143 KKVDVDTVVAELKAQKKVFGV 163 (234)
T ss_pred CCCCHHHHHHHHHHCCCCCCC
T ss_conf 888599999988640031256
No 170
>PRK09057 coproporphyrinogen III oxidase; Provisional
Probab=37.27 E-value=21 Score=14.54 Aligned_cols=33 Identities=15% Similarity=0.252 Sum_probs=27.2
Q ss_pred HHHHHHHHHCCEEECCCC-CEEECCHHHHHCCCC
Q ss_conf 789999973220221477-122201142000022
Q gi|254780306|r 492 ATILETLYKRKYVIAEKR-KILPQNTGRIVTAFL 524 (837)
Q Consensus 492 A~II~~L~~R~YV~~~~~-~l~pT~~G~~v~~~L 524 (837)
..-++.+.+.|+++.+++ +|.+|+.|+.+.+.+
T Consensus 342 ~~~l~~l~~~Gll~~~~~~rl~lT~~G~~l~d~v 375 (381)
T PRK09057 342 PARLALLIEEGLIERDGDSRLRATPAGRLVLDAV 375 (381)
T ss_pred HHHHHHHHHCCCEEEECCCEEEECHHHHHHHHHH
T ss_conf 9999999978997980898699997887999999
No 171
>TIGR03129 one_C_dehyd_B formylmethanofuran dehydrogenase subunit B. Members of this largely archaeal protein family are subunit B of the formylmethanofuran dehydrogenase. Nomenclature in some bacteria may reflect inclusion of the formyltransferase described by TIGR03119 as part of the complex, and therefore call this protein formyltransferase/hydrolase complex Fhc subunit C. Note that this model does not distinguish tungsten (FwdB) from molybdenum-containing (FmdB) forms of this enzyme.
Probab=36.81 E-value=16 Score=15.45 Aligned_cols=13 Identities=23% Similarity=0.023 Sum_probs=4.6
Q ss_pred HCCHHHHHHHHHH
Q ss_conf 7899999999987
Q gi|254780306|r 819 TVDLEKALKILNI 831 (837)
Q Consensus 819 ~lt~e~a~~li~~ 831 (837)
.-+.-+.+..|++
T Consensus 407 ~~sd~~i~~~ia~ 419 (421)
T TIGR03129 407 EPSDEEILKKILE 419 (421)
T ss_pred CCCHHHHHHHHHH
T ss_conf 8799999999982
No 172
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=36.32 E-value=15 Score=15.60 Aligned_cols=26 Identities=8% Similarity=0.272 Sum_probs=18.4
Q ss_pred CCHHHHHHHHHHHHHHCCEEEECC-CC
Q ss_conf 654899999999987099899946-99
Q gi|254780306|r 56 PSSQKHLQNIIHAVKSSTILILAT-DP 81 (837)
Q Consensus 56 ~~~kk~~~~i~~~~k~a~~iilAt-D~ 81 (837)
.+.++.+..|++.+..++..|-.. +|
T Consensus 3 ~~~~~~i~~L~~~i~~~n~~YY~~~~p 29 (668)
T PRK07956 3 EEAKKRIEELREELNHHAYAYYVLDNP 29 (668)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 799999999999999999986438998
No 173
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=36.12 E-value=25 Score=14.00 Aligned_cols=50 Identities=26% Similarity=0.410 Sum_probs=28.8
Q ss_pred CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHC-CCCCCCCCHHHHHHHH
Q ss_conf 2103799999887608889999999987621355672122455314-7554444305689999
Q gi|254780306|r 259 AFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYM-RTDGVHMSPDALEAVR 320 (837)
Q Consensus 259 Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYp-RTDS~~ls~ea~~~~r 320 (837)
|.+.+. .++.+|++..-+.++.+.|-+ .||+.+- .|..-.+....+.-..
T Consensus 20 ~~sl~e----ia~~~~l~ksT~~RlL~tL~~--------~G~l~~~~~~~~Y~lG~~~~~lg~ 70 (91)
T smart00346 20 GLTLAE----LAERLGLSKSTAHRLLNTLQE--------LGYVEQDGQNGRYRLGPKVLELGQ 70 (91)
T ss_pred CCCHHH----HHHHHCCCHHHHHHHHHHHHH--------CCCEEEECCCCEEEECHHHHHHHH
T ss_conf 989999----999989099999999999998--------899688499997753099999999
No 174
>KOG0976 consensus
Probab=35.55 E-value=16 Score=15.42 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=17.5
Q ss_pred CCCCCCCHHHHHHHHHHCCEEE
Q ss_conf 2566551578999997322022
Q gi|254780306|r 484 GIGRPSTYATILETLYKRKYVI 505 (837)
Q Consensus 484 GIGrPSTyA~II~~L~~R~YV~ 505 (837)
-.|||||||++++....|.|+.
T Consensus 653 klgrrstl~st~sE~dts~ymr 674 (1265)
T KOG0976 653 KLGRRSTLASTFSEADTSDYMR 674 (1265)
T ss_pred CCCCHHHHHHHHHHHHHHHHHC
T ss_conf 6577178888878877777623
No 175
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit ClpA; InterPro: IPR013461 Proteins in this entry are related to ClpA () from Escherichia coli. ClpA is an ATP-dependent chaperone and part of the ClpAP protease that participates in regulatory protein degradation and the dissolution and degradation of protein aggregates . ClpA recognises sequences in specific proteins, which it then unfolds in an ATP-dependent manner and transports into the degradation chamber of the associated ClpP protein , . A small adaptor-like protein, ClpS, modulates the activity of ClpA and is an important regulatory factor for this protein . It protects ClpA from autodegradation and appears to redirect its activity away from soluble proteins and toward aggregated proteins..
Probab=35.41 E-value=26 Score=13.92 Aligned_cols=52 Identities=35% Similarity=0.488 Sum_probs=35.2
Q ss_pred HHHHC------CCHHHHHHHHHHH---HCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 87608------8899999999876---2135567212245531475544443056899997655200112376311
Q gi|254780306|r 270 SSRLG------FSASHTMRIAQKL---YEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKP 336 (837)
Q Consensus 270 s~~lg------~sa~~Tm~iAQ~L---YE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~i~~~~g~~~l~~~~ 336 (837)
||||. =|...|..|.+.| ||. ||- +++|++++..+-.+-..-.-+.+||++.
T Consensus 362 sRRFQKIDv~EPs~eet~~ILkGLk~~YE~------------fH~---V~Y~~eal~~Av~LS~ryI~DRfLPDKA 422 (774)
T TIGR02639 362 SRRFQKIDVGEPSIEETVKILKGLKEQYEE------------FHH---VKYSDEALEAAVELSARYINDRFLPDKA 422 (774)
T ss_pred CCCCCEECCCCCCHHHHHHHHHHHHHHHHC------------CCC---EECCHHHHHHHHHHHHHHCCCCCCCCHH
T ss_conf 654233117957888999999865542013------------250---1138699999999988860257898543
No 176
>KOG2337 consensus
Probab=35.37 E-value=26 Score=13.91 Aligned_cols=15 Identities=20% Similarity=0.366 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHCCC
Q ss_conf 356667776420015
Q gi|254780306|r 226 NKKEADDLISFVKKA 240 (837)
Q Consensus 226 ~~~~a~~~~~~~~~~ 240 (837)
-+++|+++-+.++..
T Consensus 96 l~~ea~eiwesi~sG 110 (669)
T KOG2337 96 LEQEAEEIWESIKSG 110 (669)
T ss_pred HHHHHHHHHHHHCCC
T ss_conf 999999999863048
No 177
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha subunit, Gram-positive type; InterPro: IPR006308 These are the polypeptide chains of DNA polymerase III. Full-length homologs of this protein are restricted to the Gram-positive lineages, including the Mycoplasmas. This protein is designated alpha chain and given the gene symbol polC, but is not a full-length homolog of other polC genes. The N-terminal region of about 200 amino acids is rich in low-complexity sequence and poorly alignable. ; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0005737 cytoplasm.
Probab=35.23 E-value=22 Score=14.46 Aligned_cols=71 Identities=17% Similarity=0.128 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHH-HHCCEEEECCCCCCHHHHHHHHHHHHHH--HHCCCCCCC--EEEEEEECCCHHHHHHHHHCCC
Q ss_conf 489999999998-7099899946997025799999999975--512578871--6999980379899999986226
Q gi|254780306|r 58 SQKHLQNIIHAV-KSSTILILATDPDREGEAISWHVLDVLR--QKNLIEKTK--IQRVSFNAITKQVVLNAMKSPR 128 (837)
Q Consensus 58 ~kk~~~~i~~~~-k~a~~iilAtD~DREGE~Iawhi~e~l~--~~~~~~~~~--v~R~~f~eiT~~aI~~A~~n~r 128 (837)
-.+.+..|+.-. =++.--+------|+++.+.-.|.++-. ...-..+.| .+||.||-=|+=+=..|+.++.
T Consensus 56 D~~~~~~~K~~~wv~~~g~~~~~~~~~~~~~~~~~I~~i~~~~~~~r~D~~k~~~KRVEL~~HTkMS~mDaI~s~~ 131 (1264)
T TIGR01405 56 DKEKFDGIKIGKWVRVRGKIELDKFSRDLQMIIKDIEEIETSAEAERKDKAKEIEKRVELHFHTKMSQMDAITSVQ 131 (1264)
T ss_pred HHHHHHHHCCCCCEEEEEEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHCCCCCHH
T ss_conf 0577734203773599998875221200058775021246772214655553557534541121201010457889
No 178
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=35.01 E-value=26 Score=13.87 Aligned_cols=31 Identities=19% Similarity=0.644 Sum_probs=19.2
Q ss_pred CCCCEECCCCCCCCE--EEEEECCCC-CCCCCCC
Q ss_conf 766114334677731--368715776-1112343
Q gi|254780306|r 599 NEDSRTCPECHTHSL--SLKLSSKYG-AFVGCTN 629 (837)
Q Consensus 599 ~~~~~~Cp~C~~g~L--~~k~~gK~G-~FigCSn 629 (837)
+...+.||.||..-+ .++..++.| .|+-||-
T Consensus 184 ~~~~~~CPvCGs~Pvasvv~~g~~~G~RyL~Csl 217 (307)
T PRK03564 184 GEQRQYCPVCGSMPVSSVVQIGTTQGLRYLHCNL 217 (307)
T ss_pred CCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCC
T ss_conf 7778859988987514557506878706886487
No 179
>PRK11517 transcriptional regulatory protein YedW; Provisional
Probab=34.77 E-value=26 Score=13.85 Aligned_cols=29 Identities=14% Similarity=0.331 Sum_probs=23.6
Q ss_pred CCEEEEC-CHHHHHHHHHHHC-CCCEEEEEE
Q ss_conf 9189977-9047877887508-998999942
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLG-SNYKVLSSF 29 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg-~~y~V~as~ 29 (837)
|++.||| -|..+..|..+|. .||.|.++.
T Consensus 1 MkILiVEDd~~l~~~l~~~L~~~g~~V~~a~ 31 (223)
T PRK11517 1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVS 31 (223)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEEC
T ss_conf 9899996989999999999998899999989
No 180
>pfam09395 consensus
Probab=34.74 E-value=26 Score=13.84 Aligned_cols=46 Identities=26% Similarity=0.436 Sum_probs=32.1
Q ss_pred CEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 12220114200002233665568988999999999998626013478999
Q gi|254780306|r 510 KILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLH 559 (837)
Q Consensus 510 ~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~ 559 (837)
..-||.-|++ +||..+.+. ||-++ -.||+.|.+|++-...-+++++
T Consensus 4 sYCPTTCGIA--DFLs~Yqt~-vdkdL-q~lE~~L~qieN~Tsea~~lIk 49 (77)
T pfam09395 4 SYCPTTCGIA--DFLSTYQTT-VDKDL-QTLEDILHQIENKTSEAKELIK 49 (77)
T ss_pred CCCCCCHHHH--HHHHHHHHH-HHHHH-HHHHHHHHHHHCCCHHHHHHHH
T ss_conf 6598501089--999985010-66799-9999999999800267999999
No 181
>TIGR01381 E1_like_apg7 E1-like protein-activating enzyme Gsa7p/Apg7p; InterPro: IPR006285 This is a family of eukaryotic proteins found in animals, plants, and yeasts that includes Apg7p (YHR171W) from Saccharomyces cerevisiae and GSA7 from Pichia pastoris. Members are about 650 to 700 residues in length and include a central domain of about 150 residues shared with the ThiF/MoeB/HesA family of proteins. A low level of similarity to ubiquitin-activating enzyme E1 is described in a paper on peroxisome autophagy mediated by GSA7, and is the basis of the name ubiquitin activating enzyme E1-like protein. Members of the family appear to be involved in protein lipidation events analogous to ubiquitination and required for membrane fusion events during autophagy. .
Probab=34.63 E-value=26 Score=13.83 Aligned_cols=27 Identities=26% Similarity=0.459 Sum_probs=11.3
Q ss_pred CCCCCCCCEEEECCCCCCCCCCCCCHHHH
Q ss_conf 56882110011011123464310178998
Q gi|254780306|r 448 SANEQLIATETNASQHFTEPPPRYSESSL 476 (837)
Q Consensus 448 ~~g~~~~~~~~~~~~~~TkPP~rytEasL 476 (837)
...+++....+.+-.. -=|.|.-+.|.
T Consensus 300 na~gKl~P~s~dl~~~--~DP~rLa~~sV 326 (689)
T TIGR01381 300 NANGKLVPKSVDLAKE--VDPKRLAERSV 326 (689)
T ss_pred CCCCCCCCEEEEHHHC--CCHHHHHHHHH
T ss_conf 3578877604210011--58167887641
No 182
>pfam09538 FYDLN_acid Protein of unknown function (FYDLN_acid). Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=34.60 E-value=23 Score=14.33 Aligned_cols=15 Identities=40% Similarity=0.862 Sum_probs=9.5
Q ss_pred CCEECCCCCCCCEEE
Q ss_conf 611433467773136
Q gi|254780306|r 601 DSRTCPECHTHSLSL 615 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~ 615 (837)
+.|.||.|+.-+.-+
T Consensus 8 ~kr~c~~c~~~fydl 22 (104)
T pfam09538 8 TKRTCPTCGKRFYDL 22 (104)
T ss_pred CCCCCCCCCCCCCCC
T ss_conf 765478888821127
No 183
>PRK08115 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=34.37 E-value=24 Score=14.08 Aligned_cols=62 Identities=13% Similarity=0.100 Sum_probs=33.6
Q ss_pred CCCCCCCCC-HHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHH
Q ss_conf 133789988-425489999998615255157778987499911587652616781112488775143579999
Q gi|254780306|r 686 RCSLPKTWK-SDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQA 757 (837)
Q Consensus 686 r~si~k~~~-~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~A 757 (837)
-.||.|+++ |++.|.|+.-++.-+--.+|-- |-.|.-.= ..+..--||..+++-++-.++..
T Consensus 730 DsSISKTINlPndATvEDV~~vY~~AY~~GCK---GVTVYRDG-------SR~~QVLsl~~Ee~~~~~~~~~~ 792 (857)
T PRK08115 730 DSSISKTVNAPKGYTVEQVEKVYERLYRGGAK---GGTVYVDG-------SRDAQVLSLKAEENDLDEGDDPT 792 (857)
T ss_pred CCCCCCCEECCCCCCHHHHHHHHHHHHHCCCC---EEEEECCC-------CCCCEEEEEECCCCCCHHHHCCC
T ss_conf 34010433288988999999999999976997---79994278-------77611576422033301220444
No 184
>pfam02327 BChl_A Bacteriochlorophyll A protein. Bacteriochlorophyll A protein is involved in the energy transfer system of green photosynthetic bacteria. The protein forms a homotrimer, with each monomer unit containing seven molecules of bacteriochlorophyll A.
Probab=34.32 E-value=26 Score=13.80 Aligned_cols=45 Identities=22% Similarity=0.369 Sum_probs=34.0
Q ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 42000022336655689889999999999986260134789999867
Q gi|254780306|r 517 GRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHEFWE 563 (837)
Q Consensus 517 G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~Fy~ 563 (837)
|+..-+.|.+. .+-+.++--.||..++.|..|-.++.+++++||.
T Consensus 133 GrqfHDi~mkV--PlDnndlIdTWeg~~~a~~~~gaNF~dwIrdfWf 177 (357)
T pfam02327 133 GRQFHDIIMKV--PLDNNDLIDTWEGFQKAIQGGGANFGDWIREFWF 177 (357)
T ss_pred CCCHHHEEEEC--CCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHEE
T ss_conf 74110047855--7996348899999999875489645665566234
No 185
>pfam10872 DUF2740 Protein of unknown function (DUF2740). This family of proteins with unknown function has a highly conserved sequence.
Probab=33.77 E-value=27 Score=13.73 Aligned_cols=28 Identities=29% Similarity=0.288 Sum_probs=19.0
Q ss_pred CCCCHHHHHHHHHH-HHHHHHHHHHHHEE
Q ss_conf 01999999999999-99999985222110
Q gi|254780306|r 367 QFLDSDQFQLYNLI-WKRSVASQMASAKF 394 (837)
Q Consensus 367 ~~L~~de~klY~LI-~~R~lasqm~~a~~ 394 (837)
..|++|+-+|-.-| ..||+.|+-.|..+
T Consensus 3 kqlspdqdklhknilrdrflssfkqpgrf 31 (48)
T pfam10872 3 KQLSPDQDKLHKNILRDRFLSSFKQPGRF 31 (48)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCCHH
T ss_conf 55694587999999999999971485369
No 186
>pfam04606 Ogr_Delta Ogr/Delta-like zinc finger. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F. This family also includes zinc fingers in recombinase proteins.
Probab=33.04 E-value=23 Score=14.32 Aligned_cols=35 Identities=26% Similarity=0.412 Sum_probs=20.6
Q ss_pred ECCCCCCCCEEEEEECC----CCCCCCCCCCCCCCCCCCC
Q ss_conf 43346777313687157----7611123434323332100
Q gi|254780306|r 604 TCPECHTHSLSLKLSSK----YGAFVGCTNYPECKYTRQL 639 (837)
Q Consensus 604 ~Cp~C~~g~L~~k~~gK----~G~FigCSnyPeCk~t~~l 639 (837)
.||.|+........... .-.|..|+|. +|.++-..
T Consensus 1 ~CP~Cg~~a~irts~~~s~~~~e~Y~qC~N~-~Cg~tfv~ 39 (47)
T pfam04606 1 RCPHCGAKARIRTSRRLSALVRELYYQCTNP-ECGHTFVT 39 (47)
T ss_pred CCCCCCCCEEEEEHHHCCHHHHEEEEECCCC-CCCCEEEE
T ss_conf 9598898389968356297553138880896-45968999
No 187
>TIGR01158 SUI1_rel translation initation factor SUI1, putative; InterPro: IPR005872 This family of archaeal and bacterial proteins is homologous to the eukaryotic translation intiation factor SUI1 involved in directing the ribosome to the proper start site of translation by functioning in concert with eIF-2 and the initiator tRNA-Met.; GO: 0003743 translation initiation factor activity, 0006412 translation.
Probab=32.30 E-value=26 Score=13.86 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=20.4
Q ss_pred EECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHH
Q ss_conf 8269742277348877761337899884254899999986
Q gi|254780306|r 668 RSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLL 707 (837)
Q Consensus 668 k~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LL 707 (837)
+.|||| |.++|=++++.++++|+.--+-|
T Consensus 42 ~~GR~G-----------K~VTiI~Gld~~~~~L~~LAk~L 70 (111)
T TIGR01158 42 TRGRKG-----------KGVTIIEGLDLSDIDLKELAKEL 70 (111)
T ss_pred ECCCCC-----------CEEEEEECCCCCHHHHHHHHHHH
T ss_conf 036757-----------54788615783367899999987
No 188
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=32.27 E-value=28 Score=13.56 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=28.2
Q ss_pred HHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCC
Q ss_conf 998709989994699702579999999997551257887169999803798999999862264
Q gi|254780306|r 67 HAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRD 129 (837)
Q Consensus 67 ~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~ 129 (837)
..+..||.||+|+|-+-+++- ...+|+.|. .+.+++.+|..
T Consensus 49 ~~I~~Ad~VIiA~d~~i~~~R--------------F~gk~~~~~--------~~~~ai~~~~~ 89 (96)
T cd05569 49 EDIAEADAVILAADVPVDDER--------------FAGKRVYEV--------SVAEAIKDAEA 89 (96)
T ss_pred HHHHHCCEEEEEECCCCCHHH--------------CCCCEEEEE--------CHHHHHHCHHH
T ss_conf 999859999999367675431--------------499769997--------48999878999
No 189
>TIGR01208 rmlA_long glucose-1-phosphate thymidylyltransferase; InterPro: IPR005908 Synonym: dTDP-D-glucose synthase This group of proteins comprises a tightly conserved but broadly distributed subfamily of known and putative bacterial glucose-1-phosphate thymidylyltransferases (2.7.7.24 from EC). It is well characterised in several species as the first of four enzymes involved in the biosynthesis of dTDP-L-rhamnose, a cell wall constituent and a feedback inhibitor of the enzyme. dTTP + alpha-D-glucose 1-phosphate = diphosphate + dTDP-glucose The family of known and putative glucose-1-phosphate thymidyltransferases shows a deep split into a short form (see IPR005907 from INTERPRO) and a long form described by this model. The homotetrameric short form is found in numerous bacterial species that incorporate dTDP-L-rhamnose, which it helps synthesize, into the cell wall. It is subject to feedback inhibition. The long form, in contrast, is found in many species for which it serves as a sugar-activating enzyme for antibiotic biosynthesis and or other, unknown pathways, and in which dTDP-L-rhamnose is not necessarily produced. .
Probab=32.19 E-value=19 Score=14.87 Aligned_cols=51 Identities=14% Similarity=0.313 Sum_probs=34.2
Q ss_pred CCCCCCCCCCCCCCCCEEEEEECCC-CCEEEECCCCCCCCCCCCCCCCHHHCCHHHHH
Q ss_conf 1234420146899996699982697-42277348877761337899884254899999
Q gi|254780306|r 648 EMKESVLLGNDLETKESVTLRSGRF-GLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAM 704 (837)
Q Consensus 648 ~~~~~~~LG~dP~~G~~I~lk~Gry-GpYvq~Ge~~kpkr~si~k~~~~~~itle~Al 704 (837)
...+|-.+| +++++++.-| |||..+|+.-.-+.+++=.++=+++..++-+-
T Consensus 274 ~i~GPa~IG------~d~~I~nsGyiGPYtSig~~~~I~d~~vE~S~vldes~I~~v~ 325 (361)
T TIGR01208 274 VIRGPAVIG------EDCIIENSGYIGPYTSIGEGVVIRDAEVEHSIVLDESVIEGVE 325 (361)
T ss_pred EEECCEEEC------CCCEEECCCCCCCEEEECCCEEEECCCCCCEEEECCCEEEEHH
T ss_conf 787060877------9527826861177077257538741630203564421143103
No 190
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=31.59 E-value=29 Score=13.48 Aligned_cols=44 Identities=18% Similarity=0.178 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCC-CCHH
Q ss_conf 2103799999887608889999999987621355672122455314755444-4305
Q gi|254780306|r 259 AFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVH-MSPD 314 (837)
Q Consensus 259 Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~-ls~e 314 (837)
|.+++.| ++.+|++...+.++.+.|=+ .||+.+-..+..| |...
T Consensus 40 ~ltl~ei----a~~lglpksT~~RlL~tL~~--------~G~v~~d~~~~~Y~lG~~ 84 (271)
T PRK10163 40 SSSVSDI----SLNLDLPLSTTFRLLKVLQA--------ADFVYQDSQLGWWHIGLG 84 (271)
T ss_pred CCCHHHH----HHHHCCCHHHHHHHHHHHHH--------CCCEEEECCCCCEECCHH
T ss_conf 9799999----99979199999999999996--------898898489991764789
No 191
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme; InterPro: IPR006467 This clade of sequences is closely related to MiaB, a modifier of isopentenylated adenosine-37 of certain eukaryotic and bacterial tRNAs (see IPR006463 from INTERPRO). Sequence alignments suggest that these sequences perform the same chemical transformation as MiaB, perhaps on a different (or differently modified) tRNA base substrate. This clade represents a subfamily that spans low GC Gram-positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium , , ..
Probab=31.53 E-value=29 Score=13.48 Aligned_cols=31 Identities=3% Similarity=0.146 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHCCEEEECCCCCCHHHHH
Q ss_conf 4899999999987099899946997025799
Q gi|254780306|r 58 SQKHLQNIIHAVKSSTILILATDPDREGEAI 88 (837)
Q Consensus 58 ~kk~~~~i~~~~k~a~~iilAtD~DREGE~I 88 (837)
.+..|+.++..=++|--|+=-|=+-.+++.+
T Consensus 54 ~R~~ir~~~r~NP~A~iivTGC~AQ~~~~~l 84 (492)
T TIGR01579 54 ARRAIRRAKRENPKAKIIVTGCYAQLNPKEL 84 (492)
T ss_pred HHHHHHHHHHCCCCEEEEEECCCCCCCHHHH
T ss_conf 9999999982099559999623112687999
No 192
>TIGR01743 purR_Bsub pur operon repressor; InterPro: IPR010078 This entry represents the pur operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.; GO: 0003677 DNA binding, 0016564 transcription repressor activity, 0016481 negative regulation of transcription, 0045982 negative regulation of purine base metabolic process.
Probab=31.37 E-value=29 Score=13.46 Aligned_cols=45 Identities=11% Similarity=0.310 Sum_probs=21.1
Q ss_pred EEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEE
Q ss_conf 94251100786557867666744068877654899999999987099899
Q gi|254780306|r 27 SSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILI 76 (837)
Q Consensus 27 as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~ii 76 (837)
-.+|||.-.|.=.|||. |-|... ..++++.+++|++.+++.+.|+
T Consensus 52 ~~~G~~~T~~GAaGGv~----YiP~~~-~~~~~~fv~~l~~~l~~s~Ri~ 96 (269)
T TIGR01743 52 FDIGKLETVPGAAGGVK----YIPEVS-EKEAKEFVEELCEKLSESERIL 96 (269)
T ss_pred CCCCEEEEECCCCCCEE----EECCCC-CHHHHHHHHHHHHHHCCCCCCC
T ss_conf 68864786147889705----845646-0456889999998622888403
No 193
>TIGR02164 torA trimethylamine-N-oxide reductase TorA; InterPro: IPR011887 Trimethylamine N-oxide (TMAO) is a major low molecular mass compound found in marine fishes and invertebrates where it is thought to act as an osmoprotectant . It has the useful biological function of protecting proteins against denaturation induced by stresses such as high concentrations of urea . Several bacterial species are capable of anaerobic growth using TMAO as the terminal electron acceptor of a respiratory transport chain where it is reduced to the volatile compound trimethylamine . Bacteria which reduce TMAO fall into three ecological niches: marine bacteria, photosynthetic bacteria living in ponds and, surprisingly, enterobacteria. The TMAO reductase torA is an inducible, periplasmic, molydopterin-containing enzyme enzyme which shows a high level of substrate specificity . The crystal structure of the Shewenella massilia enzyme (O87948 from SWISSPROT) has been determined to 2.5 A resolution . This protein has the same overall structure as dimethylsulphoxide (DMSO) reductase, being a spherical protein composed of four domains, with a freely accessible, funnel-like cavity leading to the metal-ion redox centre.; GO: 0030151 molybdenum ion binding, 0050626 trimethylamine-N-oxide reductase (cytochrome c) activity, 0042597 periplasmic space.
Probab=30.89 E-value=30 Score=13.40 Aligned_cols=19 Identities=16% Similarity=0.064 Sum_probs=9.6
Q ss_pred HHHHHHHHHCCCCCEEEEE
Q ss_conf 6677764200156301000
Q gi|254780306|r 229 EADDLISFVKKATYSVEKI 247 (837)
Q Consensus 229 ~a~~~~~~~~~~~~~V~~v 247 (837)
-.+++.+.+......|.+|
T Consensus 251 Yl~QLK~KV~~g~i~Vis~ 269 (847)
T TIGR02164 251 YLAQLKAKVAAGEINVISV 269 (847)
T ss_pred HHHHHHHHHHCCCEEEEEE
T ss_conf 9999999984197169986
No 194
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=30.87 E-value=30 Score=13.40 Aligned_cols=89 Identities=13% Similarity=0.211 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHC----CCCCCHH
Q ss_conf 489999999998709989994699702579999999997551257887169999803798999999862----2646989
Q gi|254780306|r 58 SQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKS----PRDINLD 133 (837)
Q Consensus 58 ~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n----~r~~d~~ 133 (837)
-...+..+-..+..++..+ ++..|+| ..+-.++++|...... |-.+.|||+=|+.. -+.+ |-+-+++
T Consensus 28 p~~~~~RVA~~la~~e~~~-~~~~~~~--~~~~~fy~~l~~~~f~---p~sPtl~naG~~~~---qlssCFv~~v~Dsl~ 98 (733)
T PRK08665 28 PEDMFRRVARTIAAAELKY-DSKADVE--ALADRFYDLMTSLEFL---PNSPTLMNAGRELG---QLSACFVLPVGDSIE 98 (733)
T ss_pred HHHHHHHHHHHHHHHHCCC-CCHHHHH--HHHHHHHHHHHCCCEE---CCCCCCCCCCCCCC---CCCEEEECCCCCCHH
T ss_conf 9999999999998641015-8844299--9999999999859841---69974427999999---855179526899988
Q ss_pred -HHHHH-HHHHHHH--HHHHHHHCHH
Q ss_conf -99999-9999989--8740113789
Q gi|254780306|r 134 -LVNAY-LARRALD--YLVGFNLSPI 155 (837)
Q Consensus 134 -Lv~A~-~aRr~lD--~lvG~~lSp~ 155 (837)
..++. ++-++.- ==+|+++|.+
T Consensus 99 ~I~~~~~~~a~i~k~GGG~G~~~S~l 124 (733)
T PRK08665 99 EIFDAVKHAALIHKSGGGTGFSFSRL 124 (733)
T ss_pred HHHHHHHHHHHHHCCCCEEEEECCCC
T ss_conf 99999999999862377420102354
No 195
>pfam12387 Peptidase_C74 Pestivirus NS2 peptidase. The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the bovine viral diarrhea virus polyprotein, a cleavage that is correlated with cytopathogenicity. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv.
Probab=30.60 E-value=20 Score=14.64 Aligned_cols=16 Identities=6% Similarity=0.276 Sum_probs=8.9
Q ss_pred CHHHHHHHHHHCCEEE
Q ss_conf 1578999997322022
Q gi|254780306|r 490 TYATILETLYKRKYVI 505 (837)
Q Consensus 490 TyA~II~~L~~R~YV~ 505 (837)
.-+-+|..|++-+...
T Consensus 85 ~~SR~iAalIElNW~~ 100 (200)
T pfam12387 85 FLSRLIAALIELNWAF 100 (200)
T ss_pred HHHHHHHHHHHHHHCC
T ss_conf 9999999999863000
No 196
>PRK10811 rne ribonuclease E; Reviewed
Probab=30.34 E-value=21 Score=14.61 Aligned_cols=39 Identities=21% Similarity=0.394 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHH--HCCEEEECCCC-CCHHHHHHHHHHHHHH
Q ss_conf 899999999987--09989994699-7025799999999975
Q gi|254780306|r 59 QKHLQNIIHAVK--SSTILILATDP-DREGEAISWHVLDVLR 97 (837)
Q Consensus 59 kk~~~~i~~~~k--~a~~iilAtD~-DREGE~Iawhi~e~l~ 97 (837)
++.++.+-.-+. +--.+|+=|-. ++.-|.|.|.+-.+++
T Consensus 148 R~rLkeiL~~L~~Peg~GlIVRTAa~g~s~eeL~~Dl~~Ll~ 189 (1063)
T PRK10811 148 RTELKEALASLELPEGMGLIVRTAGVGKSAEALQWDLSFRLK 189 (1063)
T ss_pred HHHHHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHH
T ss_conf 999999997135788826999757689999999999999999
No 197
>TIGR01617 arsC_related conserved hypothetical protein; InterPro: IPR006504 These sequences are a part of the Arsenate reductase family of sequences. The family includes a glutaredoxin-dependent arsenate reductase that works together with an arsenite exporter. It also includes an uncharacterised family associated with nitrogenase system genes in a number of phylogenetically distant species. The function of this group of sequences seems unlikely to be arsenate reductase, although that assignment has been given to a number of members of this family. .
Probab=29.77 E-value=27 Score=13.69 Aligned_cols=59 Identities=17% Similarity=0.275 Sum_probs=38.0
Q ss_pred CCCHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCC-CCCCCCCCCHHHHHHHHHHHH
Q ss_conf 98842548999999861525515777898749991158765261678111248-877514357999999998365
Q gi|254780306|r 692 TWKSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLE-SIEQVLTIDLEQAISCITEKK 765 (837)
Q Consensus 692 ~~~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~-~~~~~~~I~l~~Aieli~~~k 765 (837)
.+.-+.+|-|.-..+|+. + ++|-+=+.+ .++.+|+.|+ ..+...+++.++|++||++.-
T Consensus 30 ~~~~~~~~~e~l~~~l~~---~----~~g~~~l~n--------t~g~~~r~L~i~~~~~~~~~~~~~~~Ll~~~~ 89 (122)
T TIGR01617 30 DLKEDTPTREELKEILSL---L----EDGIDPLLN--------TRGQSYRALDILKNKFEELSDKEALELLAEDP 89 (122)
T ss_pred ECCCCCCCHHHHHHHHHH---H----HHHHHHHHH--------CCCHHHHHCCCCHHHHHCCCHHHHHHHHHHCH
T ss_conf 034589787899999874---0----100123330--------23112442588345664278889999987271
No 198
>COG4337 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.61 E-value=24 Score=14.08 Aligned_cols=50 Identities=34% Similarity=0.436 Sum_probs=29.3
Q ss_pred EEEEECCCHHHHHHHHHCCCC----CCH-----HHHH-HHHHHHHHHHHHHHHHCHHHHH
Q ss_conf 999803798999999862264----698-----9999-9999999898740113789886
Q gi|254780306|r 109 RVSFNAITKQVVLNAMKSPRD----INL-----DLVN-AYLARRALDYLVGFNLSPILWQ 158 (837)
Q Consensus 109 R~~f~eiT~~aI~~A~~n~r~----~d~-----~Lv~-A~~aRr~lD~lvG~~lSp~L~r 158 (837)
-++-+.||++.|..|-..=.+ |.. .... -.+|-+.+|--+||++.|+|.+
T Consensus 45 ~~vn~aiTe~eVLaAQkAWGEALvaIS~ty~a~G~a~AkaLA~~VlD~AYGYq~GpVLFK 104 (206)
T COG4337 45 LVVNNAITEEEVLAAQKAWGEALVAISDTYQAQGIAAAKALANQVLDQAYGYQQGPVLFK 104 (206)
T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf 677434568999999998887787753566531558899999998887624234765640
No 199
>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=29.49 E-value=31 Score=13.23 Aligned_cols=52 Identities=15% Similarity=0.097 Sum_probs=28.6
Q ss_pred CCCCCCCCCCCEEEEEECCCCCEEEECCCCCCCCCCCCCCCCHHHCCHHHHHHHH--HC
Q ss_conf 2014689999669998269742277348877761337899884254899999986--15
Q gi|254780306|r 653 VLLGNDLETKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLL--SL 709 (837)
Q Consensus 653 ~~LG~dP~~G~~I~lk~GryGpYvq~Ge~~kpkr~si~k~~~~~~itle~Al~LL--sL 709 (837)
++.=+.|+ |. |+.-.+--||+|+||.+.+|-. |--.++ .+.+|++|.++. |+
T Consensus 125 ~LflIYpe-GN--fIeas~dtPf~QIGEtKYGKPI-LDR~i~-~~~sl~~A~K~aLvSf 178 (236)
T cd03765 125 RLFLIYPQ-GN--FIEATPDTPFLQIGETKYGKPI-LDRVIT-PDTSLEDAAKCALVSM 178 (236)
T ss_pred EEEEEECC-CC--EEECCCCCCEEEECCCCCCCCE-EEEECC-CCCCHHHHHHHHHHHH
T ss_conf 38999369-86--1860699965885465679853-885357-9999999999877712
No 200
>cd01304 FMDH_A Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in methanogenesis, the formyl-methanofuran synthesis. In this step, CO2 is bound to methanofuran and subsequently reduced to the formyl state with electrons derived from hydrogen.
Probab=29.43 E-value=32 Score=13.23 Aligned_cols=29 Identities=38% Similarity=0.638 Sum_probs=22.3
Q ss_pred HHHHHHHHHCC-----------CCCCCCHHHHHHHHHHCC
Q ss_conf 99874332102-----------566551578999997322
Q gi|254780306|r 474 SSLIKKMEEIG-----------IGRPSTYATILETLYKRK 502 (837)
Q Consensus 474 asLik~mE~~G-----------IGrPSTyA~II~~L~~R~ 502 (837)
.+|++..|++| +|-|-.|.++++|+..-+
T Consensus 212 ~~L~~a~e~LglPH~lHvH~nNLG~PGN~~ttl~T~~~~e 251 (541)
T cd01304 212 KGLAEANEELGLPHSIHVHCNNLGVPGNYETTLETMKAAE 251 (541)
T ss_pred HHHHHHHHHCCCCCCEEHHHHHCCCCCCHHHHHHHHHHCC
T ss_conf 9999999865999603201231799987266776444204
No 201
>pfam11834 DUF3354 Domain of unknown function (DUF3354). This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is about 60 amino acids in length.
Probab=29.41 E-value=15 Score=15.55 Aligned_cols=22 Identities=23% Similarity=0.407 Sum_probs=15.9
Q ss_pred CCCCHHHHHHHHHHHHCCCHHH
Q ss_conf 5210379999988760888999
Q gi|254780306|r 258 PAFTTSTLQQVASSRLGFSASH 279 (837)
Q Consensus 258 ~Pf~tstLQq~As~~lg~sa~~ 279 (837)
.|-++..|...|+.+||+++.+
T Consensus 24 lP~sleeLl~ia~~Kfg~~~~~ 45 (69)
T pfam11834 24 LPDSLEELLEIAGKKFGFSPTK 45 (69)
T ss_pred CCCCHHHHHHHHHHHCCCCCCE
T ss_conf 9857999999999980998518
No 202
>pfam09664 DUF2399 Protein of unknown function C-terminus (DUF2399). Proteins in this entry are encoded within a conserved gene four-gene neighbourhood found sporadically in a phylogenetically broad range of bacteria including: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Beta-proteobacteria). Just the C-terminal region is ioncluded here.
Probab=29.37 E-value=32 Score=13.22 Aligned_cols=68 Identities=21% Similarity=0.231 Sum_probs=47.0
Q ss_pred EEEECCHHHHHHHHHHHCCCCE-EEEEECCCEECCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHCCEEEECCCC
Q ss_conf 8997790478778875089989-999425110078655786766674406887765489999999998709989994699
Q gi|254780306|r 3 VIIVESPAKAKTISKYLGSNYK-VLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATDP 81 (837)
Q Consensus 3 LvIvEsP~kak~I~~~Lg~~y~-V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~~kk~~~~i~~~~k~a~~iilAtD~ 81 (837)
+.|||-|+....+...+|..-. .+-+.|.. +...+.-|..+++.--.++-.+|-
T Consensus 22 V~V~ENP~V~s~a~d~~~~~~~pLvCt~Gqp-------------------------~~A~~~LL~~L~~~g~~l~Y~GDF 76 (155)
T pfam09664 22 VYVCENPAVFSAAADRLGARCAPLVCTSGQP-------------------------SAAALILLDRLAAAGARLYYSGDF 76 (155)
T ss_pred EEEEECHHHHHHHHHHCCCCCCCEEECCCCH-------------------------HHHHHHHHHHHHHCCCEEEEECCC
T ss_conf 9998198999999986478898868689987-------------------------899999999998489869995889
Q ss_pred CCHHHHHHHHHHHH
Q ss_conf 70257999999999
Q gi|254780306|r 82 DREGEAISWHVLDV 95 (837)
Q Consensus 82 DREGE~Iawhi~e~ 95 (837)
|-||=.||-++...
T Consensus 77 D~~Gl~IA~~l~~r 90 (155)
T pfam09664 77 DWPGLRIANRLIAR 90 (155)
T ss_pred CHHHHHHHHHHHHH
T ss_conf 93799999999987
No 203
>pfam01325 Fe_dep_repress Iron dependent repressor, N-terminal DNA binding domain. This family includes the Diphtheria toxin repressor. DNA binding is through a helix-turn-helix motif.
Probab=29.35 E-value=32 Score=13.22 Aligned_cols=29 Identities=28% Similarity=0.379 Sum_probs=20.0
Q ss_pred HHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCC
Q ss_conf 8876088899999999876213556721224553147
Q gi|254780306|r 269 ASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMR 305 (837)
Q Consensus 269 As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpR 305 (837)
-+.+||.|+.-+-...++|-+ .|||.|-+
T Consensus 26 iA~~L~Vs~~SVt~mlkkL~~--------~GlV~~e~ 54 (58)
T pfam01325 26 LAERLNVSPSTVSEMLKKLEK--------DGYVVYEP 54 (58)
T ss_pred HHHHHCCCCHHHHHHHHHHHH--------CCCEEEEC
T ss_conf 999959992529999999998--------89978532
No 204
>PRK03353 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=28.97 E-value=32 Score=13.17 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHCCEEEECCCCCCHHH
Q ss_conf 999999999870998999469970257
Q gi|254780306|r 60 KHLQNIIHAVKSSTILILATDPDREGE 86 (837)
Q Consensus 60 k~~~~i~~~~k~a~~iilAtD~DREGE 86 (837)
..|....+.++.-.-|++.-|.|||+|
T Consensus 14 ~~Ie~Ai~al~~G~~Viv~Dd~dREnE 40 (217)
T PRK03353 14 ERVEAALDALREGRGVLVLDDEDRENE 40 (217)
T ss_pred CHHHHHHHHHHCCCEEEEEECCCCCCC
T ss_conf 159999999987995999838998764
No 205
>PRK00009 phosphoenolpyruvate carboxylase; Reviewed
Probab=28.76 E-value=32 Score=13.15 Aligned_cols=14 Identities=21% Similarity=0.449 Sum_probs=7.7
Q ss_pred CCCEEECCHHHHHC
Q ss_conf 77122201142000
Q gi|254780306|r 508 KRKILPQNTGRIVT 521 (837)
Q Consensus 508 ~~~l~pT~~G~~v~ 521 (837)
++.+.-|+-|.++.
T Consensus 638 ~g~ir~TEQGEvI~ 651 (916)
T PRK00009 638 KGRIRVTEQGEVIR 651 (916)
T ss_pred CCCEEEEECCCCHH
T ss_conf 68436653465377
No 206
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=28.73 E-value=32 Score=13.14 Aligned_cols=78 Identities=10% Similarity=0.089 Sum_probs=45.1
Q ss_pred CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHH
Q ss_conf 54899999999987099899946997025799999999975512578871699998037989999998622646989999
Q gi|254780306|r 57 SSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVN 136 (837)
Q Consensus 57 ~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~ 136 (837)
+.....+.|++ .++..|++|+|...-..-= +...+.. .+.|+.. ..|++.+-.|+...+-.-....|
T Consensus 21 G~~~v~~~ik~--~k~~LVi~A~Das~~tkkk---~~~~c~~----~~Vp~~~----~~tk~eLg~aiGk~~r~vvaI~D 87 (104)
T PRK05583 21 GYNKCEEAVKK--NKIYLFIISNDISENSKNK---FKKYCEK----YNIPYIE----SFSKEELGYALGRDEIKILGVKD 87 (104)
T ss_pred CHHHHHHHHHH--CCEEEEEEECCCCHHHHHH---HHHHHHC----CCCCEEE----ECCHHHHHHHHCCCCEEEEEEEC
T ss_conf 68999999994--9857999956778658999---9999853----6988898----53899999985889816999957
Q ss_pred HHHHHHHHHHH
Q ss_conf 99999998987
Q gi|254780306|r 137 AYLARRALDYL 147 (837)
Q Consensus 137 A~~aRr~lD~l 147 (837)
++.|++++-.+
T Consensus 88 ~gfAk~l~~l~ 98 (104)
T PRK05583 88 KNMANKLLKLW 98 (104)
T ss_pred HHHHHHHHHHH
T ss_conf 77999999999
No 207
>PRK09318 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=28.69 E-value=32 Score=13.14 Aligned_cols=23 Identities=30% Similarity=0.424 Sum_probs=17.4
Q ss_pred HHHHHHHHHCCEEEECCCCCCHHH
Q ss_conf 999999870998999469970257
Q gi|254780306|r 63 QNIIHAVKSSTILILATDPDREGE 86 (837)
Q Consensus 63 ~~i~~~~k~a~~iilAtD~DREGE 86 (837)
.++.+.++.-.-||+- |.|||.|
T Consensus 2 ee~i~~~~~Gk~vivv-DedREnE 24 (387)
T PRK09318 2 EELREAFLEGKPVILI-DRNRENE 24 (387)
T ss_pred HHHHHHHHCCCEEEEE-ECCCCCH
T ss_conf 7799999879929999-3898760
No 208
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=28.67 E-value=32 Score=13.14 Aligned_cols=33 Identities=21% Similarity=0.527 Sum_probs=19.8
Q ss_pred ECCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 43346777313687157761112343432333210012
Q gi|254780306|r 604 TCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTS 641 (837)
Q Consensus 604 ~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk~t~~l~~ 641 (837)
-||+|+.. .....++.+.-+.|+ .|.|..+...
T Consensus 2 FCp~C~n~--l~p~~~~~~~~~~C~---~C~y~~~~~~ 34 (52)
T smart00661 2 FCPKCGNM--LIPKEGKEKRRFVCR---KCGYEEPIEQ 34 (52)
T ss_pred CCCCCCCE--EEEEECCCCEEEECC---CCCCCCCCCC
T ss_conf 78652888--768536995389748---9998436688
No 209
>PRK10336 DNA-binding transcriptional regulator QseB; Provisional
Probab=27.93 E-value=33 Score=13.05 Aligned_cols=28 Identities=18% Similarity=0.202 Sum_probs=23.1
Q ss_pred CCEEEEC-CHHHHHHHHHHHC-CCCEEEEE
Q ss_conf 9189977-9047877887508-99899994
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLG-SNYKVLSS 28 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg-~~y~V~as 28 (837)
|++.||| -|.-+..|..+|. .||.|.++
T Consensus 1 mkILlVEDd~~l~~~l~~~L~~~g~~V~~a 30 (219)
T PRK10336 1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWF 30 (219)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEE
T ss_conf 989999389999999999999879999998
No 210
>COG0765 HisM ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]
Probab=27.44 E-value=34 Score=12.99 Aligned_cols=24 Identities=38% Similarity=0.304 Sum_probs=20.3
Q ss_pred HHHHHHHHHCCCHHHHHHH---HHHHH
Q ss_conf 9999887608889999999---98762
Q gi|254780306|r 265 LQQVASSRLGFSASHTMRI---AQKLY 288 (837)
Q Consensus 265 LQq~As~~lg~sa~~Tm~i---AQ~LY 288 (837)
=|.||++-+|+|..+||+- =|-+.
T Consensus 121 GQ~EAA~aLGls~~q~~r~IIlPQAlr 147 (222)
T COG0765 121 GQWEAARALGLTYWQTMRYVILPQALR 147 (222)
T ss_pred HHHHHHHHCCCCHHHHHHHEEHHHHHH
T ss_conf 689999985999866866300235699
No 211
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=27.16 E-value=27 Score=13.78 Aligned_cols=41 Identities=22% Similarity=0.232 Sum_probs=19.7
Q ss_pred CCCHHHHHHHHHHHHCCCCCCCHHHHHHHHC--CC----CCC--CCC-HHHHHHHHHH
Q ss_conf 8889999999987621355672122455314--75----544--443-0568999976
Q gi|254780306|r 274 GFSASHTMRIAQKLYEGIDVNGEIVGLITYM--RT----DGV--HMS-PDALEAVRRS 322 (837)
Q Consensus 274 g~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYp--RT----DS~--~ls-~ea~~~~r~~ 322 (837)
|+.-.+-....|.+|- ..=|+|| |+ |.. .+| +||++.+.+-
T Consensus 37 G~lC~kG~~~~~~~~~--------pdRl~~Pl~R~g~rG~G~~~~iSWdeAl~~ia~k 86 (454)
T cd02755 37 GKLCARGNAGIQLLYD--------PDRLKKPLIRVGERGEGKFREASWDEALQYIASK 86 (454)
T ss_pred CEECHHHHHHHHHHCC--------CCHHCCCEEECCCCCCCCEEEECHHHHHHHHHHH
T ss_conf 5677735646887459--------7541288885666888987882799999999999
No 212
>PRK00215 LexA repressor; Validated
Probab=27.12 E-value=34 Score=12.95 Aligned_cols=32 Identities=16% Similarity=0.376 Sum_probs=25.2
Q ss_pred HHHHHCCCCCCCCHHHHHHHHHHCCEEECCCC
Q ss_conf 43321025665515789999973220221477
Q gi|254780306|r 478 KKMEEIGIGRPSTYATILETLYKRKYVIAEKR 509 (837)
Q Consensus 478 k~mE~~GIGrPSTyA~II~~L~~R~YV~~~~~ 509 (837)
.-++..||--|||-...++.|.++||+.+..+
T Consensus 28 EI~~~~g~~S~~tV~~~l~~Le~kG~i~r~~~ 59 (204)
T PRK00215 28 EIADALGLRSPSAVHEHLKALERKGFIRRDPG 59 (204)
T ss_pred HHHHHHCCCCCHHHHHHHHHHHHCCCEECCCC
T ss_conf 99998099981899999999987978870699
No 213
>PRK09880 L-idonate 5-dehydrogenase; Provisional
Probab=27.05 E-value=23 Score=14.22 Aligned_cols=74 Identities=16% Similarity=0.178 Sum_probs=32.4
Q ss_pred CCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 5665515789999973220221477122201142000022336655689889999999999986260134789999
Q gi|254780306|r 485 IGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLDEISTGKLNWKEVLHE 560 (837)
Q Consensus 485 IGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld~Ia~G~~~~~~~L~~ 560 (837)
.|.|++...-++-+..+|-+..-+-.-.+.+ +-...++.+...=+-++.++.+|+..|+.|++|+.+...++..
T Consensus 243 ~G~~~~~~~al~~~r~gG~iv~vG~~~~~~~--~~~~~l~~kei~i~Gs~~~~~~~~~~l~li~~g~i~~~~lIt~ 316 (343)
T PRK09880 243 SGHPSSVNTCLEVTRAKGVMVQVGMGGAMPE--FPMMTLISKEISLKGSFRFTSEFNTAVSWLANGVINPLPLLSA 316 (343)
T ss_pred CCCHHHHHHHHHHCCCCEEEEEEECCCCCCC--CCHHHHHHCCCEEEEECCCHHHHHHHHHHHHCCCCCHHHEEEE
T ss_conf 1999999999973779839999972798887--0899998588499990486799999999998599980455887
No 214
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=26.54 E-value=35 Score=12.87 Aligned_cols=30 Identities=23% Similarity=0.606 Sum_probs=17.5
Q ss_pred CCCEECCCCCCCCE-EEEEEC--CCC-CCCCCCC
Q ss_conf 66114334677731-368715--776-1112343
Q gi|254780306|r 600 EDSRTCPECHTHSL-SLKLSS--KYG-AFVGCTN 629 (837)
Q Consensus 600 ~~~~~Cp~C~~g~L-~~k~~g--K~G-~FigCSn 629 (837)
.....||.||+--+ +....| -.| .|+.||-
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~Csl 216 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSL 216 (308)
T ss_pred CCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHH
T ss_conf 6641077768877431346347533430212066
No 215
>PRK10427 putative fructose-like phosphotransferase EIIB subunit 3; Provisional
Probab=26.48 E-value=35 Score=12.87 Aligned_cols=42 Identities=14% Similarity=0.412 Sum_probs=28.1
Q ss_pred HHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCC
Q ss_conf 998709989994699702579999999997551257887169999803798999999862264
Q gi|254780306|r 67 HAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRD 129 (837)
Q Consensus 67 ~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~ 129 (837)
..++.||.||+|+|-+-+|. +.+ ..+|+.++ .+.+|+.+|..
T Consensus 53 ~dI~~AD~VIiA~D~~i~~~-------eRF------~Gk~v~~~--------~v~~ai~~p~~ 94 (114)
T PRK10427 53 EDIRRADVVLLITDIELAGA-------ERF------EHCRYVQC--------SIYAFLREPQR 94 (114)
T ss_pred HHHHHCCEEEEEECCCCCCC-------CCC------CCCEEEEE--------CHHHHHHCHHH
T ss_conf 99986999999845877851-------014------99878992--------58998879999
No 216
>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]
Probab=26.18 E-value=36 Score=12.83 Aligned_cols=58 Identities=10% Similarity=0.141 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHCCCCC-----------CCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCC
Q ss_conf 017899874332102566-----------5515789999973220221477122201142000022336
Q gi|254780306|r 470 RYSESSLIKKMEEIGIGR-----------PSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENF 527 (837)
Q Consensus 470 rytEasLik~mE~~GIGr-----------PSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~ 527 (837)
++.|.-+...|...|+-- -+-....+..+.+.|++..++..+..|+.|+.+.+.+...
T Consensus 340 ~~~e~~i~gLr~~~gv~~~~~~~~~~~~~~~~~~~~l~~~~~~Gll~~~~~~~~lt~~g~~~~~~i~~~ 408 (416)
T COG0635 340 LIREALILGLRLNFGVDLAELEERFGIFKFAEILELLAELIADGLLELDGDRLRLTEKGRLLLRSIAEA 408 (416)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCEEECCCEEEECCCHHHHHHHHHHH
T ss_conf 999999986577448678999998486056667999999986896896398799885306479999999
No 217
>PRK05978 hypothetical protein; Provisional
Probab=25.99 E-value=23 Score=14.22 Aligned_cols=11 Identities=36% Similarity=0.939 Sum_probs=9.0
Q ss_pred EECCCCCCCCE
Q ss_conf 14334677731
Q gi|254780306|r 603 RTCPECHTHSL 613 (837)
Q Consensus 603 ~~Cp~C~~g~L 613 (837)
+.||.|+.|.|
T Consensus 35 ~rCP~CG~G~L 45 (149)
T PRK05978 35 GRCPHCGEGKL 45 (149)
T ss_pred CCCCCCCCCHH
T ss_conf 75989999415
No 218
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=25.24 E-value=37 Score=12.71 Aligned_cols=80 Identities=14% Similarity=0.264 Sum_probs=50.8
Q ss_pred CCEEEEC-CHHHHHHHHHHHC--CCCEEEEEECCCEE---CC-CCCCCCC---CCCCCCEEEEECCCHHHHHHHHHHHHH
Q ss_conf 9189977-9047877887508--99899994251100---78-6557867---666744068877654899999999987
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLG--SNYKVLSSFGHIRD---LP-AKKGSVL---PEKEFEMIWNIDPSSQKHLQNIIHAVK 70 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg--~~y~V~as~GHird---Lp-~~~~~v~---~~~~f~p~y~v~~~~kk~~~~i~~~~k 70 (837)
|+++||| -|..+..+..||. .+|.|.++.+-..+ +- .....+| .| .|-...+.-+.++.|+..-.
T Consensus 2 irVLIVEDD~~v~~~~~~~l~~~~gf~vv~~a~t~~eA~~~l~~~~~~~DLILLD-----i~mPd~~Glell~~lR~~~~ 76 (239)
T PRK10430 2 INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEKAKEIIFNSDTPIDLILLD-----IYMQQENGLDLLPVLHEAGC 76 (239)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHCCCCCCCEEEEC-----CCCCCCCHHHHHHHHHHHCC
T ss_conf 8799992989999999999851899089999899999999996579998589978-----99999978999999998589
Q ss_pred HCCEEEECCCCCCHH
Q ss_conf 099899946997025
Q gi|254780306|r 71 SSTILILATDPDREG 85 (837)
Q Consensus 71 ~a~~iilAtD~DREG 85 (837)
.++.|++-...|.+-
T Consensus 77 ~~~VI~ITa~~d~~~ 91 (239)
T PRK10430 77 KSDVIVISSAADAAT 91 (239)
T ss_pred CCEEEEEEECCCHHH
T ss_conf 981999972688999
No 219
>PTZ00093 nucleoside diphosphate kinase; Provisional
Probab=25.20 E-value=37 Score=12.70 Aligned_cols=82 Identities=13% Similarity=0.179 Sum_probs=45.7
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCC
Q ss_conf 66677764200156301000023322246852103799999887608889999999987621355672122455314755
Q gi|254780306|r 228 KEADDLISFVKKATYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMRTD 307 (837)
Q Consensus 228 ~~a~~~~~~~~~~~~~V~~v~~k~~~~~Pp~Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTD 307 (837)
....+|++.+....|.|...+.- .++ ...|..+|+.|+-.-.-..|++||-..
T Consensus 17 ~l~g~Ii~~i~~~Gf~I~~~k~~-----------------------~lt----~e~a~~fY~~h~gkpff~~Lv~~mtSG 69 (149)
T PTZ00093 17 GLVGEIIKRFEKKGYKLVALKFL-----------------------QPT----TEQAEEHYKEHKSKPFFPGLVSYISSG 69 (149)
T ss_pred CCHHHHHHHHHHCCCEEEEEEEE-----------------------CCC----HHHHHHHHHHHCCCCCHHHHHHHHCCC
T ss_conf 88799999999879989998742-----------------------589----999999999971883288899986789
Q ss_pred CCCC-----CHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 4444-----30568999976552001123763111
Q gi|254780306|r 308 GVHM-----SPDALEAVRRSITSHYGDHYLPEKPR 337 (837)
Q Consensus 308 S~~l-----s~ea~~~~r~~i~~~~g~~~l~~~~r 337 (837)
.-+ .++++...|+++...-..+-.|.+.|
T Consensus 70 -Pvvalvleg~naI~~~R~l~GpT~p~~a~p~tIR 103 (149)
T PTZ00093 70 -PVVCMVWEGKNVVKSGRVLLGATNPADSAPGTIR 103 (149)
T ss_pred -CEEEEEEECCCHHHHHHHHHCCCCCCCCCCCCHH
T ss_conf -8799996278889999998589996768998828
No 220
>PRK09836 DNA-binding transcriptional activator CusR; Provisional
Probab=25.19 E-value=37 Score=12.70 Aligned_cols=29 Identities=24% Similarity=0.289 Sum_probs=23.4
Q ss_pred CCEEEEC-CHHHHHHHHHHHC-CCCEEEEEE
Q ss_conf 9189977-9047877887508-998999942
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLG-SNYKVLSSF 29 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg-~~y~V~as~ 29 (837)
|++.||| -|..+..|..+|. .||.|.++.
T Consensus 1 MkILiVEDd~~l~~~l~~~L~~~G~~v~~a~ 31 (226)
T PRK09836 1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLAD 31 (226)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEEC
T ss_conf 9899993999999999999987899999989
No 221
>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=24.97 E-value=37 Score=12.67 Aligned_cols=78 Identities=19% Similarity=0.278 Sum_probs=40.5
Q ss_pred CEEEECCHHHHHHHHHHHCCCC-EEEEEECCCEECCCCCCCCCCCCCCCEEEEECCC---HHHHHHHHHHHH--------
Q ss_conf 1899779047877887508998-9999425110078655786766674406887765---489999999998--------
Q gi|254780306|r 2 NVIIVESPAKAKTISKYLGSNY-KVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPS---SQKHLQNIIHAV-------- 69 (837)
Q Consensus 2 ~LvIvEsP~kak~I~~~Lg~~y-~V~as~GHirdLp~~~~~v~~~~~f~p~y~v~~~---~kk~~~~i~~~~-------- 69 (837)
-|+|||--|-+-.+...-...| -|.+-.|-+.. + |....+ +-+-+..|.+.+
T Consensus 2 eL~l~EGDSA~g~a~~~Rd~~~qgv~PLrGK~lN---------v-------~~~~~~ki~~N~Ei~~l~~~lGl~~~~~~ 65 (114)
T cd03366 2 ELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILN---------V-------EKARLDKILKNEEIRALITALGTGIGEDF 65 (114)
T ss_pred EEEEECCCCCHHHHHCCCCCCCEEEEECCCCCHH---------H-------HHCCHHHHHCCHHHHHHHHHHCCCCCCCC
T ss_conf 2899727674055652178786899870785000---------6-------42878788629679999999687878645
Q ss_pred --H--HCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf --7--0998999469970257999999999
Q gi|254780306|r 70 --K--SSTILILATDPDREGEAISWHVLDV 95 (837)
Q Consensus 70 --k--~a~~iilAtD~DREGE~Iawhi~e~ 95 (837)
+ .-..|+++||+|.-|--|.=-++..
T Consensus 66 d~~~LRYgkIiImtDaD~DG~HI~~Lli~f 95 (114)
T cd03366 66 DLEKLRYHKIIIMTDADVDGAHIRTLLLTF 95 (114)
T ss_pred CHHHCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf 400078786999968998806899999999
No 222
>TIGR00091 TIGR00091 tRNA (guanine-N(7)-)-methyltransferase; InterPro: IPR004395 This predicted S-adenosylmethionine-dependent methyltransferase is found in a single copy in most Bacteria . It is also found, with a short amino-terminal extension in eukaryotes. Its function is unknown. In Escherichia coli, this protein flanks the DNA repair protein MutY, also called micA.; GO: 0008168 methyltransferase activity.
Probab=24.81 E-value=33 Score=13.10 Aligned_cols=39 Identities=23% Similarity=0.355 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf 889999999987621355672122455314755444430568999976
Q gi|254780306|r 275 FSASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSPDALEAVRRS 322 (837)
Q Consensus 275 ~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ea~~~~r~~ 322 (837)
.++.=.-.++|.|=+| |+| |++||...|.+..+..+.+.
T Consensus 125 ~~~~Fl~~~~~~L~~~--------G~i-~~~TD~~~lfE~mL~~l~~~ 163 (216)
T TIGR00091 125 TQPHFLKEVANVLKKG--------GVI-ELKTDNEPLFEDMLKVLSEN 163 (216)
T ss_pred CCHHHHHHHHHHCCCC--------CEE-EEECCCHHHHHHHHHHHHHC
T ss_conf 5678999999970459--------689-99707846789999999653
No 223
>KOG0978 consensus
Probab=24.61 E-value=28 Score=13.67 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=7.1
Q ss_pred CCEECCCCCC
Q ss_conf 6114334677
Q gi|254780306|r 601 DSRTCPECHT 610 (837)
Q Consensus 601 ~~~~Cp~C~~ 610 (837)
..-+||.|+.
T Consensus 642 ~~LkCs~Cn~ 651 (698)
T KOG0978 642 ELLKCSVCNT 651 (698)
T ss_pred HCEECCCCCC
T ss_conf 5102877667
No 224
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase; InterPro: IPR010237 This family of proteins includes the SDT1/SSM1 gene from yeast, which has been shown to code for a pyrimidine (UMP/CMP) 5'nucleotidase. The family spans plants, fungi and bacteria. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily..
Probab=24.60 E-value=38 Score=12.62 Aligned_cols=43 Identities=14% Similarity=0.390 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHH-CCCC
Q ss_conf 79999988760888999999998762135567212245531-4755
Q gi|254780306|r 263 STLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITY-MRTD 307 (837)
Q Consensus 263 stLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITY-pRTD 307 (837)
..+|.-..++||+|+.+.-.+-+.+|-.+..+ .+||+.- +-=|
T Consensus 24 ~~i~~F~~~~L~l~~eeA~~L~~~yY~~YG~t--l~GL~~~gh~i~ 67 (205)
T TIGR01993 24 RNITEFVAAKLKLSEEEARKLRKDYYKEYGTT--LAGLMILGHEID 67 (205)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH--HHHHHHHCCCCC
T ss_conf 99999999870899889999999987857589--999998579978
No 225
>TIGR01384 TFS_arch transcription factor S; InterPro: IPR006288 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. These sequences are the archaeal DNA-directed RNA polymerase, subunit M (also known as transcription factor S), a protein related in size and sequence to certain eukaryotic RNA polymerase small subunits, and in sequence and function to the much larger eukaryotic transcription factor IIS (TFIIS). Although originally suggested to be a subunit of the archaeal RNA polymerase, it elutes separately from active polymerase in gel filtration experiments and acts, like TFIIs, as an induction factor for RNA cleavage by RNA polymerase . ; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0003899 DNA-directed RNA polymerase activity, 0006350 transcription.
Probab=24.46 E-value=27 Score=13.71 Aligned_cols=30 Identities=33% Similarity=0.915 Sum_probs=14.1
Q ss_pred CCCCCCCCEEEEEECCCC--CCCCCCCCCCCCCCCCCCC
Q ss_conf 334677731368715776--1112343432333210012
Q gi|254780306|r 605 CPECHTHSLSLKLSSKYG--AFVGCTNYPECKYTRQLTS 641 (837)
Q Consensus 605 Cp~C~~g~L~~k~~gK~G--~FigCSnyPeCk~t~~l~~ 641 (837)
||+||+-++=-| +.| .| -|. .|.|=.+++.
T Consensus 3 CPKCgs~M~P~K---~~Gkn~~-~C~---~CGYE~~~T~ 34 (111)
T TIGR01384 3 CPKCGSLMVPDK---KNGKNKY-KCR---KCGYEKEITK 34 (111)
T ss_pred CCCCCCCCCCCC---CCCCCEE-ECC---CCCCCCCCCC
T ss_conf 786697158543---0695011-628---8887330466
No 226
>PRK10474 putative fructose-like phosphotransferase EIIB subunit 2; Provisional
Probab=24.39 E-value=38 Score=12.59 Aligned_cols=42 Identities=26% Similarity=0.310 Sum_probs=28.8
Q ss_pred HHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCC
Q ss_conf 998709989994699702579999999997551257887169999803798999999862264
Q gi|254780306|r 67 HAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRD 129 (837)
Q Consensus 67 ~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~ 129 (837)
..++.||.||+|.|-+-+++ +.+ ..+|+.++ .+.+|+.+|..
T Consensus 34 ~dI~~AD~VIiA~Dv~i~~~-------eRF------~gK~v~~~--------~v~~aI~~p~~ 75 (88)
T PRK10474 34 EDVASADMVILTKDIGIKFE-------ERF------AGKTIVRV--------NISDAVKRADA 75 (88)
T ss_pred HHHHHCCEEEEEECCCCCCH-------HHC------CCCEEEEE--------CHHHHHHCHHH
T ss_conf 99985999999843877822-------323------99857993--------48999879999
No 227
>COG1710 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.32 E-value=38 Score=12.59 Aligned_cols=11 Identities=27% Similarity=0.492 Sum_probs=4.9
Q ss_pred EEEECCCCCCH
Q ss_conf 89994699702
Q gi|254780306|r 74 ILILATDPDRE 84 (837)
Q Consensus 74 ~iilAtD~DRE 84 (837)
+|++-.-|+||
T Consensus 30 eiyinlr~tr~ 40 (139)
T COG1710 30 EIYINLRPTRE 40 (139)
T ss_pred EEEEEECCCHH
T ss_conf 27886045489
No 228
>pfam08063 PADR1 PADR1 (NUC008) domain. This domain is found in poly(ADP-ribose)-synthetases. The function of this domain is unknown.
Probab=24.21 E-value=33 Score=13.07 Aligned_cols=29 Identities=31% Similarity=0.854 Sum_probs=17.2
Q ss_pred EECCCCCCCCEEEEEECCCCCCCCCCCC----CCCCCC
Q ss_conf 1433467773136871577611123434----323332
Q gi|254780306|r 603 RTCPECHTHSLSLKLSSKYGAFVGCTNY----PECKYT 636 (837)
Q Consensus 603 ~~Cp~C~~g~L~~k~~gK~G~FigCSny----PeCk~t 636 (837)
..||.|+++.+... +. + +.|++| -.|.|+
T Consensus 15 ~~Cp~C~~~~~~~~--~~-~--Y~C~G~~sewtkC~~~ 47 (55)
T pfam08063 15 GPCPTCSGGQLVFN--GD-A--YVCTGYISEWTKCTYS 47 (55)
T ss_pred CCCCCCCCCEEEEC--CC-C--EEECCCCCCCCCCEEE
T ss_conf 87987899707888--97-2--5865357852112416
No 229
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=24.18 E-value=39 Score=12.57 Aligned_cols=25 Identities=16% Similarity=0.384 Sum_probs=9.5
Q ss_pred HHHCCCCCCCCHHHHHHHHHHCCEEE
Q ss_conf 32102566551578999997322022
Q gi|254780306|r 480 MEEIGIGRPSTYATILETLYKRKYVI 505 (837)
Q Consensus 480 mE~~GIGrPSTyA~II~~L~~R~YV~ 505 (837)
++..|++|++=| .=|..|...|+|+
T Consensus 41 A~~lgVSR~~VR-EAL~~L~~~GlV~ 65 (254)
T PRK09464 41 AKQFDVSRPSLR-EAIQRLEAKGLLL 65 (254)
T ss_pred HHHHCCCCHHHH-HHHHHHHHCCCEE
T ss_conf 998689955999-9999999889989
No 230
>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase; InterPro: IPR005990 Synonyms: Inosine-5'-monophosphate dehydrogenase, Inosinic acid dehydrogenase IMP dehydrogenase (1.1.1.205 from EC,IMPDH) catalyzes the rate-limiting reaction of de novo GTP biosynthesis, the NAD-dependent reduction of IMP into XMP . Inosine 5-phosphate + NAD+ + H2O = xanthosine 5-phosphate + NADH IMP dehydrogenase is associated with cell proliferation and is a possible target for cancer chemotherapy. Mammalian and bacterial IMPDHs are tetramers of identical chains. There are two IMP dehydrogenase isozymes in humans . IMP dehydrogenase nearly always contains a long insertion that has two CBS domains within it and adopts a TIM barrel structure.; GO: 0003938 IMP dehydrogenase activity, 0006177 GMP biosynthetic process.
Probab=24.17 E-value=39 Score=12.57 Aligned_cols=20 Identities=20% Similarity=0.150 Sum_probs=9.8
Q ss_pred HCCCHHHHHHHHHHHHCCCC
Q ss_conf 08889999999987621355
Q gi|254780306|r 273 LGFSASHTMRIAQKLYEGID 292 (837)
Q Consensus 273 lg~sa~~Tm~iAQ~LYE~~~ 292 (837)
+=++|..|..-+.+|=|.+.
T Consensus 93 ~t~~P~~tv~~~~~l~~~~g 112 (476)
T TIGR01302 93 VTISPETTVEDVLELMERKG 112 (476)
T ss_pred EEECCCCHHHHHHHHCCCCC
T ss_conf 68479851899997322157
No 231
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=24.09 E-value=39 Score=12.56 Aligned_cols=53 Identities=25% Similarity=0.386 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCC
Q ss_conf 548999999999870998999469970257999999999755125788716999980379899999986226
Q gi|254780306|r 57 SSQKHLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPR 128 (837)
Q Consensus 57 ~~kk~~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r 128 (837)
.+.+.|+.-.+.++.-.-|++--|.|||+|. +++ +.-.-+|++.|.-.+.+-+
T Consensus 11 ~~~~~V~~Ai~alr~G~~Viv~Dd~dREnEg------Dlv-------------~aAe~~T~e~i~fm~~~~~ 63 (214)
T PRK01792 11 TSEERVINAINAFKQGNGVLVLDDEDRENEG------DLI-------------FPAETITPEQMAKLIRYGS 63 (214)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECCCCCCCC------CEE-------------EEHHHCCHHHHHHHHHHCC
T ss_conf 9788999999999879969998289987640------679-------------6855499999999999589
No 232
>TIGR01828 pyru_phos_dikin pyruvate, phosphate dikinase; InterPro: IPR010121 Pyruvate phosphate dikinase (PPDK, or pyruvate orthophosphate dikinase) is found in plants, bacteria and archaea. The amino acid sequence identity between bacterial and plant enzymes is high, and they are similar in sequence to other PEP-utilizing enzymes. PPDK catalyses the reversible conversion of ATP and pyruvate to AMP and PEP (phosphoenolpyruvate). In bacteria such as Clostridium symbiosum, PPDK uses Mg2+ and NH4+ ions as cofactors . The enzyme has three domains: the N- and C-terminal domains each have an active site centre that catalyses a different step in the reaction, and the middle domain has a carrier histidine residue that moves between the two active centres. In plants, PPDK is localised predominantly in chloroplast stroma where it catalyses the rate-limiting step in the C4 photosynthetic pathway, namely the synthesis of PEP, which acts as the primary CO2 acceptor in C4 photosynthesis . PPDK activity in C4 plants is strictly regulated by light, its activity decreasing in darkness. This response is regulated by phosphorylation and dephosphorylation of the enzyme using ADP; such regulation is not seen in the bacterial form of the enzyme. PPDK is also found in C3 plants, but it is not known to have a photosynthetic role .; GO: 0050242 pyruvate phosphate dikinase activity.
Probab=23.64 E-value=34 Score=13.03 Aligned_cols=40 Identities=30% Similarity=0.401 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHH----HCCCCCCCCC
Q ss_conf 21037999998876088899999999876213556721224553----1475544443
Q gi|254780306|r 259 AFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLIT----YMRTDGVHMS 312 (837)
Q Consensus 259 Pf~tstLQq~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlIT----YpRTDS~~ls 312 (837)
+|. ||-... +-||+-+.+||=.|++ .|+|| =||=+...|.
T Consensus 354 LYm---LQTR~G---KRTA~AA~rIAvDmv~--------Eg~It~eeA~~Rv~p~~ld 397 (920)
T TIGR01828 354 LYM---LQTRNG---KRTAKAAVRIAVDMVK--------EGLITKEEAIMRVEPESLD 397 (920)
T ss_pred EEE---EECCCC---CCCHHHHHHHHHHHHH--------CCCCCHHHHHHCCCHHHHH
T ss_conf 013---335552---2355889999999873--------5887757864215747875
No 233
>cd01943 MAK32 MAK32 kinase. MAK32 is a protein found primarily in fungi that is necessary for the structural stability of L-A particles. The L-A virus particule is a specialized compartment for the transcription and replication of double-stranded RNA, known to infect yeast and other fungi. MAK32 is part of the host machinery used by the virus to multiply.
Probab=23.63 E-value=39 Score=12.49 Aligned_cols=12 Identities=58% Similarity=1.104 Sum_probs=4.3
Q ss_pred EEEEECCCCCEE
Q ss_conf 999826974227
Q gi|254780306|r 665 VTLRSGRFGLYV 676 (837)
Q Consensus 665 I~lk~GryGpYv 676 (837)
|++|.|.+|.++
T Consensus 228 vVIK~G~~Ga~~ 239 (328)
T cd01943 228 VVLRCGKLGCYV 239 (328)
T ss_pred EEEEECCCCEEE
T ss_conf 999617875599
No 234
>COG3120 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.57 E-value=40 Score=12.49 Aligned_cols=12 Identities=42% Similarity=0.548 Sum_probs=9.2
Q ss_pred CCHHHHHHHHHH
Q ss_conf 702579999999
Q gi|254780306|r 82 DREGEAISWHVL 93 (837)
Q Consensus 82 DREGE~Iawhi~ 93 (837)
-||||+|-.++-
T Consensus 22 hreGE~iTRyie 33 (149)
T COG3120 22 HREGELITRYIE 33 (149)
T ss_pred HCCCCHHHHHHH
T ss_conf 305541599999
No 235
>PHA00626 hypothetical protein
Probab=23.56 E-value=29 Score=13.52 Aligned_cols=13 Identities=23% Similarity=0.920 Sum_probs=10.2
Q ss_pred ECCCCCCCCEEEE
Q ss_conf 4334677731368
Q gi|254780306|r 604 TCPECHTHSLSLK 616 (837)
Q Consensus 604 ~Cp~C~~g~L~~k 616 (837)
.||+|+.|.+-..
T Consensus 2 scpkcgsgniake 14 (59)
T PHA00626 2 SCPKCGSGNIAKE 14 (59)
T ss_pred CCCCCCCCCHHHH
T ss_conf 8875688641244
No 236
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=23.54 E-value=40 Score=12.48 Aligned_cols=21 Identities=29% Similarity=0.414 Sum_probs=17.0
Q ss_pred HHHHHHHHCCEEECCCCCEEE
Q ss_conf 899999732202214771222
Q gi|254780306|r 493 TILETLYKRKYVIAEKRKILP 513 (837)
Q Consensus 493 ~II~~L~~R~YV~~~~~~l~p 513 (837)
.+|.+|.+||.|...|++=.|
T Consensus 113 ~~i~~LlergLI~~~Gr~~~~ 133 (182)
T PRK00135 113 GALQTLLAKGLIKEAGRKEVP 133 (182)
T ss_pred HHHHHHHHCCCEEECCCCCCC
T ss_conf 999999986995887606999
No 237
>pfam04864 Alliinase_C Allinase. Allicin is a thiosulphinate that gives rise to dithiines, allyl sulphides and ajoenes, the three groups of active compounds in Allium species. Allicin is synthesized from sulfoxide cysteine derivatives by alliinase (EC:4.4.1.4), whose C-S lyase activity cleaves C(beta)-S(gamma) bonds. It is thought that this enzyme forms part of a primitive plant defence system.
Probab=23.53 E-value=18 Score=14.98 Aligned_cols=28 Identities=32% Similarity=0.489 Sum_probs=9.9
Q ss_pred CCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf 1037999998876088899999999876
Q gi|254780306|r 260 FTTSTLQQVASSRLGFSASHTMRIAQKL 287 (837)
Q Consensus 260 f~tstLQq~As~~lg~sa~~Tm~iAQ~L 287 (837)
|++|-+--.|..|+||-.-+--.+||++
T Consensus 190 FTlSK~TGHAGsRiGWALVKD~~VakkM 217 (363)
T pfam04864 190 FTMSKYTGHAGSRFGWALVKDEEVAKKM 217 (363)
T ss_pred EEECCCCCCCCCCEEEEEECCHHHHHHH
T ss_conf 9861223676252347886379999999
No 238
>pfam04475 DUF555 Protein of unknown function (DUF555). Family of uncharacterized, hypothetical archaeal proteins.
Probab=23.52 E-value=40 Score=12.48 Aligned_cols=39 Identities=31% Similarity=0.466 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEECCCCCCCC
Q ss_conf 57667755666776556766410245555676611433467773
Q gi|254780306|r 569 IDSIKKLRISNVLDILNDTLSSVIFPPKENNEDSRTCPECHTHS 612 (837)
Q Consensus 569 i~~~~~~~~~~v~d~l~~~~~~~~~~~~~~~~~~~~Cp~C~~g~ 612 (837)
+++.....+.+....++..+. |- +.......||.|+...
T Consensus 19 ~dDAI~iAIseaGkrLn~~l~---~V--eIevG~~~cP~Cge~~ 57 (102)
T pfam04475 19 VDDAIGVAISEAGKRLNPKLD---FV--EIEVGSTACPKCGEEL 57 (102)
T ss_pred HHHHHHHHHHHHHHHHCCCCC---EE--EEECCCCCCCCCCCCC
T ss_conf 788999999999886498988---79--9825751088767866
No 239
>COG1799 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.46 E-value=40 Score=12.47 Aligned_cols=30 Identities=27% Similarity=0.598 Sum_probs=13.2
Q ss_pred HHHHHHCCCCCCHHH--HHHHHHHHHHHHHHH
Q ss_conf 999986226469899--999999999898740
Q gi|254780306|r 120 VLNAMKSPRDINLDL--VNAYLARRALDYLVG 149 (837)
Q Consensus 120 I~~A~~n~r~~d~~L--v~A~~aRr~lD~lvG 149 (837)
|-..|.+-+-+-.|| .+-.+|||++|+|-|
T Consensus 90 ia~~lk~~k~Vvinl~~m~~~qArRivDFlaG 121 (167)
T COG1799 90 IADYLKNRKAVVINLQRMDPAQARRIVDFLAG 121 (167)
T ss_pred HHHHHHCCCEEEEEEEECCHHHHHHHHHHHCC
T ss_conf 99998459649987031898998899988600
No 240
>PRK02888 nitrous-oxide reductase; Validated
Probab=23.39 E-value=40 Score=12.46 Aligned_cols=36 Identities=17% Similarity=0.300 Sum_probs=19.3
Q ss_pred CCCHHHHHHHHHHHHCCCHHHHHHHHHH-HHCCCCCCCHHHHHHHHCCCCCCC
Q ss_conf 2103799999887608889999999987-621355672122455314755444
Q gi|254780306|r 259 AFTTSTLQQVASSRLGFSASHTMRIAQK-LYEGIDVNGEIVGLITYMRTDGVH 310 (837)
Q Consensus 259 Pf~tstLQq~As~~lg~sa~~Tm~iAQ~-LYE~~~~~~~~~GlITYpRTDS~~ 310 (837)
-|+. ++..-|||+- +++++... +.. .-.|+--|+-|
T Consensus 100 VF~~-----~~~~GwG~t~-ESk~vL~~~~~~----------~~~~~wGDtHH 136 (637)
T PRK02888 100 VFNR-----DSATGWGITN-ESKKVLGEGLLP----------QGKYLNGDLHH 136 (637)
T ss_pred EECC-----CCCCCCCCCH-HHHHHHHCCCCC----------CCCCCCCCCCC
T ss_conf 2457-----8653557765-578886266556----------76403687578
No 241
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=23.39 E-value=40 Score=12.46 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHCCEEEECCCCCCHHHH
Q ss_conf 999999998709989994699702579
Q gi|254780306|r 61 HLQNIIHAVKSSTILILATDPDREGEA 87 (837)
Q Consensus 61 ~~~~i~~~~k~a~~iilAtD~DREGE~ 87 (837)
.+......++.-.-|++--|.|||+|.
T Consensus 5 ~ie~ai~al~~G~~Viv~DdedREnEg 31 (203)
T COG0108 5 RVEEAIEALRAGKPVIVVDDEDRENEG 31 (203)
T ss_pred HHHHHHHHHHCCCEEEEECCCCCCCCC
T ss_conf 299999999879869997388877860
No 242
>cd04728 ThiG Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes the formation of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP) and dehydroglycine, with the help of the sulfur carrier protein ThiS that carries the sulfur needed for thiazole assembly on its carboxy terminus (ThiS-COSH).
Probab=23.29 E-value=26 Score=13.86 Aligned_cols=27 Identities=11% Similarity=0.105 Sum_probs=11.4
Q ss_pred CCEEEEEEEEECCEEECCCCHHHHHHHHHHHHH
Q ss_conf 965422331035833033101135666777642
Q gi|254780306|r 204 NDKFTAHLTDFNGQRIEKKSISNKKEADDLISF 236 (837)
Q Consensus 204 ~~~f~a~l~~~~~~~~~~~~~~~~~~a~~~~~~ 236 (837)
+..|..+|.- ..+++.|.+...+.++.
T Consensus 5 g~~f~SRLil------GTgky~s~~~~~~ai~a 31 (248)
T cd04728 5 GKTFSSRLLL------GTGKYPSPAIMKEAIEA 31 (248)
T ss_pred CEEEECCEEE------ECCCCCCHHHHHHHHHH
T ss_conf 9887743378------64899999999999999
No 243
>TIGR02041 CysI sulfite reductase (NADPH) hemoprotein, beta-component; InterPro: IPR011786 Sulphite reductase (NADPH) catalyzes a six electron reduction of sulphite to sulphide in prokaryotic organisms. It is a complex oligomeric enzyme composed of two different peptides with a subunit composition of alpha(8)-beta(4). The alpha component, encoded by cysJ, is a flavoprotein containing both FMN and FAD, while the beta component, encoded by cysI, is a siroheme, iron-sulphur protein.; GO: 0004783 sulfite reductase (NADPH) activity, 0050661 NADP binding, 0051539 4 iron 4 sulfur cluster binding, 0008652 amino acid biosynthetic process, 0009337 sulfite reductase complex (NADPH).
Probab=23.07 E-value=14 Score=15.97 Aligned_cols=97 Identities=21% Similarity=0.376 Sum_probs=48.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC--CCC--CCCCCCCCCCCCCCCEEEEEEC--CCCCEEEECCCCCCCCCCCCCCCCHHH
Q ss_conf 1123434323332100122100--001--2344201468999966999826--974227734887776133789988425
Q gi|254780306|r 624 FVGCTNYPECKYTRQLTSNPQD--IPE--MKESVLLGNDLETKESVTLRSG--RFGLYVQRGDGKDAKRCSLPKTWKSDS 697 (837)
Q Consensus 624 FigCSnyPeCk~t~~l~~~~~~--~~~--~~~~~~LG~dP~~G~~I~lk~G--ryGpYvq~Ge~~kpkr~si~k~~~~~~ 697 (837)
=++|-.+|.|--. --+++ ++. .+-++++-+|--..+.|++|.. |.| .-|+.| .+
T Consensus 423 smaCValPTCpLA----MAEAER~LP~Fi~~~~~i~~k~Gl~~~~I~~R~tGCPNG----------C~R~~L------AE 482 (550)
T TIGR02041 423 SMACVALPTCPLA----MAEAERYLPDFIDKLDNIMEKHGLADEEIVLRITGCPNG----------CGRPYL------AE 482 (550)
T ss_pred CCCEECCCCCHHH----HHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCH----------HHHHHH------HH
T ss_conf 7744446775236----999974558999999999996088876078985279863----------257768------77
Q ss_pred CCHHHHHHHHHCCHHHCCCCCCCCEEEEEECCCCCEEEECCEECCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 489999998615255157778987499911587652616781112488775143579999999983
Q gi|254780306|r 698 VDYDKAMSLLSLPREIGIHPETQKNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITE 763 (837)
Q Consensus 698 itle~Al~LLsLPr~lG~~pe~g~~I~~~~GryGpYi~~~~~~~sl~~~~~~~~I~l~~Aieli~~ 763 (837)
| =-||+ ..|||--||-=+..-..|++--. .+||..+-+.-|.+
T Consensus 483 i------------gLvGK----------apGRYNL~lGG~~~G~Rl~~lYr-ENitE~eIL~~L~~ 525 (550)
T TIGR02041 483 I------------GLVGK----------APGRYNLYLGGNRRGSRLPRLYR-ENITEEEILAELDE 525 (550)
T ss_pred H------------HHHCC----------CCCCHHHHCCCCCCCCCCHHHHH-CCCCHHHHHHHHHH
T ss_conf 4------------33326----------64401000167878862313432-06898899999999
No 244
>COG4904 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.03 E-value=40 Score=12.41 Aligned_cols=69 Identities=22% Similarity=0.434 Sum_probs=27.7
Q ss_pred CCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH-------HHHCCCHHHHHH
Q ss_conf 5665515789999973220221477122201142000022336655689889999999999-------986260134789
Q gi|254780306|r 485 IGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADLEEKLD-------EISTGKLNWKEV 557 (837)
Q Consensus 485 IGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fTa~~E~~ld-------~Ia~G~~~~~~~ 557 (837)
+|||.-|+++-.-+ ..-|.+..+|.-.-+.|++. |. +|.+.++.+-..+. .-..-+.-|..+
T Consensus 3 ~~r~~fyl~vs~If---------~~ll~~~a~g~D~~~~ld~~-~~-~d~~l~~~l~~evr~~~~~kDl~k~~~~v~~k~ 71 (174)
T COG4904 3 NLRPTFYLGVSNIF---------SALLLSKATGDDIDDGLDDI-PP-ADEKLVAELKEEVRSLSCRKDLTKAAKLVWRKT 71 (174)
T ss_pred CCCHHHHHHHHHHH---------HHHCCHHHCCCCHHHHHHCC-CC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 76048999999999---------98726030375155663037-71-106799999999976587732579999999999
Q ss_pred HHHHHHH
Q ss_conf 9998676
Q gi|254780306|r 558 LHEFWEE 564 (837)
Q Consensus 558 L~~Fy~~ 564 (837)
|++||+.
T Consensus 72 ~~~FYEn 78 (174)
T COG4904 72 VEAFYEN 78 (174)
T ss_pred HHHHHHH
T ss_conf 9999997
No 245
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=22.96 E-value=41 Score=12.40 Aligned_cols=49 Identities=18% Similarity=0.228 Sum_probs=31.0
Q ss_pred HHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCC
Q ss_conf 99999998709989994699702579999999997551257887169999803798999999862264
Q gi|254780306|r 62 LQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRD 129 (837)
Q Consensus 62 ~~~i~~~~k~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~ 129 (837)
|++..+.+++-.-|++--|.|||+|. +++ +.-.-+|++.|.--+.+.+-
T Consensus 4 Ie~ai~alr~G~~Viv~DdedREnEg------Dlv-------------~aAe~vtpe~i~fm~r~a~G 52 (218)
T PRK05773 4 IEEARKALRQGRPVLIYDGDGREEEV------DMV-------------FYAGAVTWKSVYWLRKNAGG 52 (218)
T ss_pred HHHHHHHHHCCCEEEEEECCCCCCCC------CEE-------------EEHHHCCHHHHHHHHHHCCC
T ss_conf 89999999879969998489987760------668-------------67654999999999980897
No 246
>PRK11122 artM arginine transporter permease subunit ArtM; Provisional
Probab=22.82 E-value=41 Score=12.38 Aligned_cols=23 Identities=30% Similarity=0.286 Sum_probs=19.2
Q ss_pred HHHHHHHHHCCCHHHHHHHH--HHH
Q ss_conf 99998876088899999999--876
Q gi|254780306|r 265 LQQVASSRLGFSASHTMRIA--QKL 287 (837)
Q Consensus 265 LQq~As~~lg~sa~~Tm~iA--Q~L 287 (837)
=|.||++-+|||..++|+|- |-+
T Consensus 120 GQ~EAA~slGls~~q~~rIilPQa~ 144 (222)
T PRK11122 120 GQWQSCSALGMSKKQTLAILLPYAF 144 (222)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf 7999999869899999998999999
No 247
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=22.63 E-value=29 Score=13.49 Aligned_cols=11 Identities=18% Similarity=0.241 Sum_probs=4.8
Q ss_pred HHHHHHHHHHC
Q ss_conf 99999987621
Q gi|254780306|r 279 HTMRIAQKLYE 289 (837)
Q Consensus 279 ~Tm~iAQ~LYE 289 (837)
+-+...|.+|-
T Consensus 53 KG~~~~~~~y~ 63 (461)
T cd02750 53 RGASFSWYLYS 63 (461)
T ss_pred CHHHHHHHHCC
T ss_conf 73442876459
No 248
>KOG3347 consensus
Probab=22.51 E-value=37 Score=12.71 Aligned_cols=16 Identities=13% Similarity=0.214 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHCCC
Q ss_conf 9999999999986260
Q gi|254780306|r 536 FTADLEEKLDEISTGK 551 (837)
Q Consensus 536 fTa~~E~~ld~Ia~G~ 551 (837)
.+..|+..++.|-++.
T Consensus 152 ~~Eem~~ni~ri~~w~ 167 (176)
T KOG3347 152 TKEEMESNISRILNWT 167 (176)
T ss_pred CHHHHHHHHHHHHHHH
T ss_conf 7899999899999999
No 249
>PRK06582 coproporphyrinogen III oxidase; Provisional
Probab=22.43 E-value=42 Score=12.33 Aligned_cols=32 Identities=9% Similarity=0.248 Sum_probs=25.6
Q ss_pred HHHHHHHHHCCEEECCCCCEEECCHHHHHCCCC
Q ss_conf 789999973220221477122201142000022
Q gi|254780306|r 492 ATILETLYKRKYVIAEKRKILPQNTGRIVTAFL 524 (837)
Q Consensus 492 A~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L 524 (837)
...++.+.+.|+|+.++ ++..|+.|+.+.+.+
T Consensus 353 ~~~l~~l~~~gLi~~d~-~i~LT~kG~ll~n~I 384 (390)
T PRK06582 353 MNNLKHYQALDLIRLDE-NIYLTDKGLMLHSYI 384 (390)
T ss_pred HHHHHHHHHCCCEEECC-EEEECHHHHHHHHHH
T ss_conf 89999999797989899-899996688899999
No 250
>KOG1643 consensus
Probab=22.19 E-value=42 Score=12.30 Aligned_cols=26 Identities=15% Similarity=0.157 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHEECCCEEEE
Q ss_conf 999999999999852221100100136
Q gi|254780306|r 375 QLYNLIWKRSVASQMASAKFERTTVNI 401 (837)
Q Consensus 375 klY~LI~~R~lasqm~~a~~~~~~v~i 401 (837)
-+-.-| |+++++-..++.-..+.|..
T Consensus 182 EVh~~i-R~wl~~~vs~~Va~~~RIiY 207 (247)
T KOG1643 182 EVHAEI-RKWLKSNVSDAVASSTRIIY 207 (247)
T ss_pred HHHHHH-HHHHHHCCHHHHHHCEEEEE
T ss_conf 999999-99986311166653337896
No 251
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=22.17 E-value=37 Score=12.68 Aligned_cols=47 Identities=17% Similarity=0.386 Sum_probs=17.9
Q ss_pred HHHHHHHHHHCCCCCCCCHHHHHHHHH---HCCEEECCCCCEEECCHHHHH
Q ss_conf 899874332102566551578999997---322022147712220114200
Q gi|254780306|r 473 ESSLIKKMEEIGIGRPSTYATILETLY---KRKYVIAEKRKILPQNTGRIV 520 (837)
Q Consensus 473 EasLik~mE~~GIGrPSTyA~II~~L~---~R~YV~~~~~~l~pT~~G~~v 520 (837)
+.|.-++-|.+|+--|| -+.-|..|. +-.-..+.++.+.||+.|..+
T Consensus 36 ~~svtrAA~~L~vSQpA-vS~aL~rLr~~~gd~LFvR~grg~~pT~~a~~L 85 (314)
T PRK09508 36 EQNITRAAHNLGMSQPA-VSNAVARLKVMFNDELFVRYGRGIQPTARARQL 85 (314)
T ss_pred CCCHHHHHHHHCCCHHH-HHHHHHHHHHHHCCEEEEECCCCEEHHHHHHHH
T ss_conf 29999999997898669-999999999981995488349935429989999
No 252
>PRK13532 nitrate reductase; Provisional
Probab=22.10 E-value=39 Score=12.53 Aligned_cols=21 Identities=24% Similarity=0.363 Sum_probs=15.0
Q ss_pred HHHHHHCCCHHHHHHHHHHHHC
Q ss_conf 9887608889999999987621
Q gi|254780306|r 268 VASSRLGFSASHTMRIAQKLYE 289 (837)
Q Consensus 268 ~As~~lg~sa~~Tm~iAQ~LYE 289 (837)
.|+..-|.++...-++| ++|-
T Consensus 340 ~aa~itGvp~e~I~~~A-~~~a 360 (828)
T PRK13532 340 KTAKMSGVPKEQLEQLA-KLYA 360 (828)
T ss_pred HHHHHHCCCHHHHHHHH-HHHH
T ss_conf 99998794999999999-9984
No 253
>pfam03833 PolC_DP2 DNA polymerase II large subunit DP2.
Probab=22.03 E-value=42 Score=12.27 Aligned_cols=41 Identities=22% Similarity=0.234 Sum_probs=26.7
Q ss_pred CCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHCCCCC
Q ss_conf 45688211001101112346431017899874332102566
Q gi|254780306|r 447 ISANEQLIATETNASQHFTEPPPRYSESSLIKKMEEIGIGR 487 (837)
Q Consensus 447 l~~g~~~~~~~~~~~~~~TkPP~rytEasLik~mE~~GIGr 487 (837)
+-.||.|.--.=-++...+-.|+-|++-=-++.|++.|.+.
T Consensus 395 ~~lGeili~~Gdf~enn~~l~p~~y~~eww~qel~~a~~~~ 435 (852)
T pfam03833 395 LDLGEILIAYGDFLENNHPLLPASYCEEWWIQELPAALKGN 435 (852)
T ss_pred EECCCEEEECHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf 87576765002575379868888667899999998602467
No 254
>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional
Probab=22.02 E-value=42 Score=12.27 Aligned_cols=29 Identities=21% Similarity=0.226 Sum_probs=23.2
Q ss_pred CCEEEEC-CHHHHHHHHHHHC-CCCEEEEEE
Q ss_conf 9189977-9047877887508-998999942
Q gi|254780306|r 1 MNVIIVE-SPAKAKTISKYLG-SNYKVLSSF 29 (837)
Q Consensus 1 M~LvIvE-sP~kak~I~~~Lg-~~y~V~as~ 29 (837)
|+.+||| -++-+..|..+|. .+|.|.++.
T Consensus 1 mkILivEdd~~~~~~l~~~L~~~g~~V~~a~ 31 (223)
T PRK10816 1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAE 31 (223)
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCEEEEEC
T ss_conf 9899995989999999999997899999989
No 255
>PRK09954 hypothetical protein; Provisional
Probab=21.90 E-value=42 Score=12.25 Aligned_cols=23 Identities=22% Similarity=0.108 Sum_probs=12.9
Q ss_pred HHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 99988760888999999998762
Q gi|254780306|r 266 QQVASSRLGFSASHTMRIAQKLY 288 (837)
Q Consensus 266 Qq~As~~lg~sa~~Tm~iAQ~LY 288 (837)
|||-..+||.|=.-+-..--.|-
T Consensus 20 q~ela~~lgisrs~va~hi~~l~ 42 (362)
T PRK09954 20 QNEIADILQISRSRVAAHIMDLM 42 (362)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 99999997987999999999887
No 256
>PRK09249 coproporphyrinogen III oxidase; Provisional
Probab=21.81 E-value=28 Score=13.56 Aligned_cols=44 Identities=23% Similarity=0.256 Sum_probs=30.1
Q ss_pred CCCCCCCCHHHH---HHHHHHCCEEECCCCCEEECCHHHHHCCCCCC
Q ss_conf 025665515789---99997322022147712220114200002233
Q gi|254780306|r 483 IGIGRPSTYATI---LETLYKRKYVIAEKRKILPQNTGRIVTAFLEN 526 (837)
Q Consensus 483 ~GIGrPSTyA~I---I~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~ 526 (837)
.||--..-++.. ++.+.++|.|+.++..|..|+.|+.+.+.+-.
T Consensus 392 ~g~~~~~~f~~~~~~L~~l~~~GLl~~~~~~l~lT~~Gr~l~r~Ia~ 438 (456)
T PRK09249 392 FGIDFAEYFAEELELLAPLEDDGLVELDEDGITVTPTGRLLVRNIAM 438 (456)
T ss_pred HCCCHHHHHHHHHHHHHHHHHCCCEEEECCEEEECHHHHHHHHHHHH
T ss_conf 69899999999999999999799899989999999406799999999
No 257
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein; InterPro: IPR012693 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain . The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , . The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.; GO: 0005524 ATP binding, 0015416 phosphonate transmembrane-transporting ATPase activity, 0015716 phosphonate transport, 0016020 membrane.
Probab=21.80 E-value=43 Score=12.24 Aligned_cols=29 Identities=10% Similarity=0.060 Sum_probs=16.1
Q ss_pred CCCEEEEEEECCCHHHHHHHHHCCCCCCH
Q ss_conf 87169999803798999999862264698
Q gi|254780306|r 104 KTKIQRVSFNAITKQVVLNAMKSPRDINL 132 (837)
Q Consensus 104 ~~~v~R~~f~eiT~~aI~~A~~n~r~~d~ 132 (837)
.++.=|.+|.-.+++.-.+||+.+..++.
T Consensus 117 ~~~~~~~~~~~F~~~dk~~Al~~L~rVGl 145 (253)
T TIGR02315 117 YKSTWRSLLGRFSEEDKERALSLLERVGL 145 (253)
T ss_pred CCHHHHHHHCCCCHHHHHHHHHHHHHCCH
T ss_conf 45034556325899899999987652387
No 258
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=21.78 E-value=43 Score=12.24 Aligned_cols=75 Identities=19% Similarity=0.234 Sum_probs=45.6
Q ss_pred EEEEECCCHHHHHHHHH----HHHH-------HCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHH
Q ss_conf 06887765489999999----9987-------099899946997025799999999975512578871699998037989
Q gi|254780306|r 50 MIWNIDPSSQKHLQNII----HAVK-------SSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQ 118 (837)
Q Consensus 50 p~y~v~~~~kk~~~~i~----~~~k-------~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~ 118 (837)
..|+++......+...+ .++. +..-+|+|.--|..+.....+|.+.|..... .+.+++=.-.|++|.+
T Consensus 72 iI~VvDssd~~~~~~~~~~l~~ll~~~~~~~~~~PiLI~~NK~D~~~~~~~~ei~~~l~l~~~-~~~~~~i~~~SA~tG~ 150 (162)
T cd04157 72 IIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENI-KDKPWHIFASNALTGE 150 (162)
T ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCHHHCCCCCEEEEEEECCCCCCCCCHHHHHHHHCHHHH-CCCCEEEEEEECCCCC
T ss_conf 899970763888999999999997176551798459999814778899999999988586652-4896499997897897
Q ss_pred HHHHHHH
Q ss_conf 9999986
Q gi|254780306|r 119 VVLNAMK 125 (837)
Q Consensus 119 aI~~A~~ 125 (837)
.|.+||.
T Consensus 151 Gi~e~f~ 157 (162)
T cd04157 151 GLDEGVQ 157 (162)
T ss_pred CHHHHHH
T ss_conf 9899999
No 259
>TIGR01968 minD_bact septum site-determining protein MinD; InterPro: IPR010223 This entry describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. In Escherichia coli, the cell division site is determined by the cooperative activity of min operon products MinC, MinD, and MinE . MinD is a membrane-associated ATPase and is a septum site-determining factor through the activation and regulation of MinC and MinE. MinD is also known to undergo a rapid pole-to-pole oscillation movement in vivo as observed by fluorescent microscopy. In plants, chloroplast division requires the dimerisation of stromal MinD . The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.; GO: 0016887 ATPase activity, 0000918 selection of site for barrier septum formation.
Probab=21.67 E-value=43 Score=12.22 Aligned_cols=33 Identities=33% Similarity=0.645 Sum_probs=25.7
Q ss_pred CHHHCCHHHHHHHHHCCHHHCCCCCCCCEEEEEE
Q ss_conf 8425489999998615255157778987499911
Q gi|254780306|r 694 KSDSVDYDKAMSLLSLPREIGIHPETQKNIIAGT 727 (837)
Q Consensus 694 ~~~~itle~Al~LLsLPr~lG~~pe~g~~I~~~~ 727 (837)
.-|-++.+|..+.||+| -+|.=||+..-|.+.|
T Consensus 189 ~G~Mlsi~Dv~~~L~i~-LiGviPeD~~iI~stN 221 (272)
T TIGR01968 189 KGDMLSIDDVLEILSIP-LIGVIPEDEEIIVSTN 221 (272)
T ss_pred CCCCCCHHHHHHHCCCC-CEEEECCCCCEEEEEC
T ss_conf 68982789999860886-1686329986576645
No 260
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=21.64 E-value=40 Score=12.46 Aligned_cols=52 Identities=19% Similarity=0.327 Sum_probs=26.4
Q ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHH---CCEEECCCCCEEECCHHHHHCCCCCC
Q ss_conf 998743321025665515789999973---22022147712220114200002233
Q gi|254780306|r 474 SSLIKKMEEIGIGRPSTYATILETLYK---RKYVIAEKRKILPQNTGRIVTAFLEN 526 (837)
Q Consensus 474 asLik~mE~~GIGrPSTyA~II~~L~~---R~YV~~~~~~l~pT~~G~~v~~~L~~ 526 (837)
+|+-++=|.+++- +||-+.-|..|-+ ..-.++.++.+.+|+.|..+.++-+.
T Consensus 19 gs~~~Aa~~L~~t-q~~vS~qi~~LE~~lg~~Lf~R~~r~~~lT~~G~~~~~~a~~ 73 (296)
T PRK11062 19 GSVVGAAEALFLT-PQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVFRYADK 73 (296)
T ss_pred CCHHHHHHHHCCC-CHHHHHHHHHHHHHHCCCCEEECCCCEEECHHHHHHHHHHHH
T ss_conf 9999999996898-179999999999995991099889982885899999999999
No 261
>TIGR02655 circ_KaiC circadian clock protein KaiC; InterPro: IPR013503 The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of the KaiC domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. Kai proteins (KaiA and KaiC) appear to positively and negatively regulate kaiBC transcription which is consistent with a transcription/translation oscillatory (TTO) feedback model, believed to be at the core of all self-sustained circadian timers. However, the cyanobacterial circadian clock is able to function without de novo synthesis of clock gene mRNAs and the clock proteins, and the period is accurately determined without TTO feedback and the system is also temperature-compensated. It has been demonstrated that these three purified proteins form a temperature-compensated molecular oscillator in vitro that exhibits rhythmic phosphorylation and dephosphorylation of KaiC. A negative-stain electron microscopy study of Synechococcus elongatus and Thermosynechococcus elongatus BP-1 KaiAKaiC complexes in combination with site-directed mutagenesis reveals that KaiA binds exclusively to the CII half of the KaiC hexamer. The EM-based model of the KaiAKaiC complex reveals proteinprotein interactions at two sites: the known interaction of the flexible C-terminal KaiC peptide with KaiA, and a second postulated interaction between the apical region of KaiA and the ATP binding cleft on KaiC. This model brings KaiA mutation sites that alter clock period or abolish rhythmicity into contact with KaiC and suggests how KaiA might regulate KaiC phosphorylation . ; GO: 0000287 magnesium ion binding, 0003677 DNA binding, 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0042752 regulation of circadian rhythm, 0045449 regulation of transcription.
Probab=21.41 E-value=43 Score=12.20 Aligned_cols=73 Identities=26% Similarity=0.478 Sum_probs=45.8
Q ss_pred HHHHHHHHHCCEEEECCCCCCHHHHHH--HHH---HHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHCCCCCCHHHHHH
Q ss_conf 999999870998999469970257999--999---999755125788716999980379899999986226469899999
Q gi|254780306|r 63 QNIIHAVKSSTILILATDPDREGEAIS--WHV---LDVLRQKNLIEKTKIQRVSFNAITKQVVLNAMKSPRDINLDLVNA 137 (837)
Q Consensus 63 ~~i~~~~k~a~~iilAtD~DREGE~Ia--whi---~e~l~~~~~~~~~~v~R~~f~eiT~~aI~~A~~n~r~~d~~Lv~A 137 (837)
-.|.+++.+....|+-.-||-||+-|+ |.+ .|.+++. ..+-..+|+.+.++| +|-..++. +
T Consensus 74 W~l~~l~~~~klfildasPdP~Gq~~~G~fdls~lier~~ya--i~ky~a~rv~ids~t--~vfqqy~a----------~ 139 (484)
T TIGR02655 74 WDLQKLVDEGKLFILDASPDPEGQDVVGEFDLSALIERINYA--IRKYKAKRVSIDSVT--AVFQQYDA----------V 139 (484)
T ss_pred CHHHHHHHCCCEEEEECCCCCCCCEEEECCCHHHHHHHHHHH--HHHHHCCEEEHHHHH--HHHHHHHH----------H
T ss_conf 007888515967999668899755144031078999999999--876410000034666--56764212----------5
Q ss_pred HHHHHHHHHHHH
Q ss_conf 999999898740
Q gi|254780306|r 138 YLARRALDYLVG 149 (837)
Q Consensus 138 ~~aRr~lD~lvG 149 (837)
...||.+=||+-
T Consensus 140 ~vvrre~frl~a 151 (484)
T TIGR02655 140 SVVRREIFRLVA 151 (484)
T ss_pred HHHHHHHHHHHH
T ss_conf 678899999999
No 262
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=21.35 E-value=44 Score=12.18 Aligned_cols=27 Identities=30% Similarity=0.527 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHCCEEEECCCCCCHHH
Q ss_conf 999999999870998999469970257
Q gi|254780306|r 60 KHLQNIIHAVKSSTILILATDPDREGE 86 (837)
Q Consensus 60 k~~~~i~~~~k~a~~iilAtD~DREGE 86 (837)
..|....+.++.-.-|++--|.|||+|
T Consensus 15 s~Ie~Ai~al~~Gk~Viv~DdedREnE 41 (218)
T PRK00910 15 TRVENALQALREGRGVLLLDDEDRENE 41 (218)
T ss_pred CHHHHHHHHHHCCCEEEEEECCCCCCH
T ss_conf 529999999988995999978998761
No 263
>pfam01047 MarR MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.
Probab=21.35 E-value=44 Score=12.18 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=13.3
Q ss_pred CCCCHHHHHHHHHHCCEEECCC
Q ss_conf 6551578999997322022147
Q gi|254780306|r 487 RPSTYATILETLYKRKYVIAEK 508 (837)
Q Consensus 487 rPSTyA~II~~L~~R~YV~~~~ 508 (837)
.|+|-+.+|..|.++|||.+..
T Consensus 30 ~~~~vs~~i~~Le~~glv~R~~ 51 (59)
T pfam01047 30 DRSTVTRVLDRLEKKGLIERSR 51 (59)
T ss_pred CHHHHHHHHHHHHHCCCEEECC
T ss_conf 8654999999998897988627
No 264
>KOG0114 consensus
Probab=21.31 E-value=44 Score=12.17 Aligned_cols=17 Identities=35% Similarity=0.632 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHCH
Q ss_conf 99999989874011378
Q gi|254780306|r 138 YLARRALDYLVGFNLSP 154 (837)
Q Consensus 138 ~~aRr~lD~lvG~~lSp 154 (837)
+.||.+.|.|.|||+.+
T Consensus 68 ~dAk~A~dhlsg~n~~~ 84 (124)
T KOG0114 68 FDAKKACDHLSGYNVDN 84 (124)
T ss_pred HHHHHHHHHHCCCCCCC
T ss_conf 66899999841553478
No 265
>KOG3139 consensus
Probab=21.24 E-value=44 Score=12.16 Aligned_cols=39 Identities=26% Similarity=0.210 Sum_probs=25.1
Q ss_pred HHHHHHCCC-----HHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCH
Q ss_conf 988760888-----9999999987621355672122455314755444430
Q gi|254780306|r 268 VASSRLGFS-----ASHTMRIAQKLYEGIDVNGEIVGLITYMRTDGVHMSP 313 (837)
Q Consensus 268 ~As~~lg~s-----a~~Tm~iAQ~LYE~~~~~~~~~GlITYpRTDS~~ls~ 313 (837)
++.+..|++ ..-|..-|.+|||+ -|++++=|+..-|+..
T Consensus 111 d~m~~~g~~eVvLeTe~~n~~A~~LY~s-------LGF~r~~r~~~YYlng 154 (165)
T KOG3139 111 DAMRSRGYSEVVLETEVTNLSALRLYES-------LGFKRDKRLFRYYLNG 154 (165)
T ss_pred HHHHHCCCCEEEEECCCCCHHHHHHHHH-------CCCEEECCEEEEEECC
T ss_conf 9999779968998324334189999885-------4946733124789778
No 266
>KOG1973 consensus
Probab=21.24 E-value=44 Score=12.16 Aligned_cols=27 Identities=30% Similarity=0.784 Sum_probs=16.9
Q ss_pred CCCCCCCEECCCCCCCCEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 556766114334677731368715776111234343233
Q gi|254780306|r 596 KENNEDSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECK 634 (837)
Q Consensus 596 ~~~~~~~~~Cp~C~~g~L~~k~~gK~G~FigCSnyPeCk 634 (837)
..+.+....|+ | ..||.+|||.| |+|.
T Consensus 215 d~~e~~yC~Cn-q----------vsyg~Mi~CDn-~~C~ 241 (274)
T KOG1973 215 DPDEPTYCICN-Q----------VSYGKMIGCDN-PGCP 241 (274)
T ss_pred CCCCCEEEEEC-C----------CCCCCCCCCCC-CCCC
T ss_conf 89987688716-7----------66565022079-9998
No 267
>PRK11123 arginine transporter permease subunit ArtQ; Provisional
Probab=21.19 E-value=44 Score=12.15 Aligned_cols=25 Identities=24% Similarity=0.070 Sum_probs=19.8
Q ss_pred HHHHHHHHHHCCCHHHHHHH---HHHHH
Q ss_conf 99999887608889999999---98762
Q gi|254780306|r 264 TLQQVASSRLGFSASHTMRI---AQKLY 288 (837)
Q Consensus 264 tLQq~As~~lg~sa~~Tm~i---AQ~LY 288 (837)
.=|.||++-+|||..++|.- =|-+-
T Consensus 132 ~GQ~EAa~alGms~~q~~r~IilPQa~r 159 (238)
T PRK11123 132 VGQWESGQALGLSKSAIFFRLVMPQMWR 159 (238)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf 9999999984989999999999899999
No 268
>pfam08772 NOB1_Zn_bind Nin one binding (NOB1) Zn-ribbon like. This domain corresponds to a zinc ribbon and is found on the RNA binding protein NOB1.
Probab=21.05 E-value=43 Score=12.22 Aligned_cols=16 Identities=25% Similarity=0.644 Sum_probs=10.9
Q ss_pred CCEECCCCCCCCEEEE
Q ss_conf 6114334677731368
Q gi|254780306|r 601 DSRTCPECHTHSLSLK 616 (837)
Q Consensus 601 ~~~~Cp~C~~g~L~~k 616 (837)
+..-||+||...|...
T Consensus 23 ~k~FCpkCGn~TL~rv 38 (73)
T pfam08772 23 TKQFCPKCGNATLRRV 38 (73)
T ss_pred CCCCCCCCCCCCEEEE
T ss_conf 6612753699901699
No 269
>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=20.97 E-value=44 Score=12.12 Aligned_cols=28 Identities=29% Similarity=0.354 Sum_probs=14.5
Q ss_pred HHHHHHHCCCCCCCCHHHHHHHHHHCCEE
Q ss_conf 87433210256655157899999732202
Q gi|254780306|r 476 LIKKMEEIGIGRPSTYATILETLYKRKYV 504 (837)
Q Consensus 476 Lik~mE~~GIGrPSTyA~II~~L~~R~YV 504 (837)
|+-.|-.. .|--.|-|+=+..||+|=--
T Consensus 263 lLGr~PSa-vGYQpTLatemg~lQERIts 290 (468)
T COG0055 263 LLGRMPSA-VGYQPTLATEMGQLQERITS 290 (468)
T ss_pred HHCCCCCC-CCCCCHHHHHHHHHHHHHHC
T ss_conf 84569641-45674067788889999753
No 270
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=20.96 E-value=44 Score=12.12 Aligned_cols=31 Identities=29% Similarity=0.338 Sum_probs=22.7
Q ss_pred HHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHCC
Q ss_conf 998876088899999999876213556721224553147
Q gi|254780306|r 267 QVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGLITYMR 305 (837)
Q Consensus 267 q~As~~lg~sa~~Tm~iAQ~LYE~~~~~~~~~GlITYpR 305 (837)
++.++++|.|.+.+.+..+.|=+ .|||+=-+
T Consensus 23 ~ela~~l~~S~qta~R~l~~le~--------~~~I~R~~ 53 (214)
T COG1339 23 SELAKRLGVSSQTAARKLKELED--------EGYITRTI 53 (214)
T ss_pred HHHHHHHCCCCHHHHHHHHHHCC--------CCCEEEEE
T ss_conf 99998857470778899886411--------78478883
No 271
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=20.90 E-value=44 Score=12.11 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=10.8
Q ss_pred CCCCCCHHHHHHHHHH
Q ss_conf 5143579999999983
Q gi|254780306|r 748 QVLTIDLEQAISCITE 763 (837)
Q Consensus 748 ~~~~I~l~~Aieli~~ 763 (837)
.|...+||+|++.|+.
T Consensus 558 ~p~~msLE~Ale~i~d 573 (603)
T COG1217 558 PPIRMTLERALEFIAD 573 (603)
T ss_pred CCCCCCHHHHHHHCCC
T ss_conf 8410669999854587
No 272
>TIGR01084 mutY A/G-specific adenine glycosylase; InterPro: IPR005760 The DNA repair enzyme MutY plays an important role in the prevention of DNA mutations resulting from the presence of the oxidatively damaged lesion 7,8-dihydro-8-oxo-2'-deoxyguanosine (8-OxoG). 8-OxoG can mispair with 2'-deoxycytidine 5'-triphosphate or with 2'-deoxyadenosine triphosphate during DNA replication, forming C*8-oxoG and A*8-oxoG mispairs. Human MutY is responsible for recognition and removal of the inappropriately inserted adenine in an A=8-oxoG mispair. If unrepaired, the A=8-oxoG mispairs can result in deleterious C:G to A:T transversions. Multiple forms of mammalian MutY are formed by alternative splicing and locate to the nucleus or mitochondrion, where they have been shown to interact with several other proteins involved in the repair of DNA damage . The HhH-GPD domain within the protein binds the phosphate backbone of the substrate. This family represents bacterial MutY and a limited number of murine homologs. In rat, the Escherichia coli MutY DNA glycosylase homolog (MYH) is induced in response to mitochondrial DNA damage . ; GO: 0019104 DNA N-glycosylase activity, 0006284 base-excision repair, 0005622 intracellular.
Probab=20.88 E-value=44 Score=12.11 Aligned_cols=30 Identities=27% Similarity=0.306 Sum_probs=25.5
Q ss_pred CCCCCCCCHHHHHHHHHHCCEEECCCCCEEE
Q ss_conf 0256655157899999732202214771222
Q gi|254780306|r 483 IGIGRPSTYATILETLYKRKYVIAEKRKILP 513 (837)
Q Consensus 483 ~GIGrPSTyA~II~~L~~R~YV~~~~~~l~p 513 (837)
.|||| ||=+.|.+--.++.+-..+||-...
T Consensus 124 ~GVG~-yTAgAils~a~~~~~p~~DGNV~RV 153 (297)
T TIGR01084 124 PGVGR-YTAGAILSFAYNKPVPILDGNVKRV 153 (297)
T ss_pred CCCCH-HHHHHHHHHHHCCCCCCCCCCHHHH
T ss_conf 89762-1799999987268762015407889
No 273
>pfam08576 DUF1764 Eukaryotic protein of unknown function (DUF1764). This is a family of eukaryotic proteins of unknown function. This family contains many hypothetical proteins.
Probab=20.71 E-value=24 Score=14.06 Aligned_cols=18 Identities=33% Similarity=0.453 Sum_probs=8.9
Q ss_pred CCHHHHHHHHHHCCCCCC
Q ss_conf 178998743321025665
Q gi|254780306|r 471 YSESSLIKKMEEIGIGRP 488 (837)
Q Consensus 471 ytEasLik~mE~~GIGrP 488 (837)
+-++-.|=.||++|||.|
T Consensus 65 ~~dg~~iy~~~el~~~~~ 82 (98)
T pfam08576 65 TEDGLPIYTEEELKIGNP 82 (98)
T ss_pred CCCCCEECCHHHHCCCCC
T ss_conf 577863446999288887
No 274
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=20.44 E-value=45 Score=12.04 Aligned_cols=17 Identities=24% Similarity=0.497 Sum_probs=7.5
Q ss_pred EECCCCCEEECCHHHHH
Q ss_conf 22147712220114200
Q gi|254780306|r 504 VIAEKRKILPQNTGRIV 520 (837)
Q Consensus 504 V~~~~~~l~pT~~G~~v 520 (837)
+.+.++.+.+|+-|..+
T Consensus 38 f~R~~r~v~LT~~G~~l 54 (278)
T PRK09986 38 FIRHSRSVALTHAGKIL 54 (278)
T ss_pred EEECCCCEEECHHHHHH
T ss_conf 99999977089889999
No 275
>TIGR00100 hypA hydrogenase nickel insertion protein HypA; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions . One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanococcus jannaschii. ; GO: 0016151 nickel ion binding, 0006464 protein modification process.
Probab=20.38 E-value=45 Score=12.03 Aligned_cols=15 Identities=13% Similarity=0.366 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHCCCH
Q ss_conf 999999999862601
Q gi|254780306|r 538 ADLEEKLDEISTGKL 552 (837)
Q Consensus 538 a~~E~~ld~Ia~G~~ 552 (837)
..+.-.+|-+++|..
T Consensus 49 ~~l~FaFev~~~gT~ 63 (128)
T TIGR00100 49 EQLQFAFEVVREGTV 63 (128)
T ss_pred HHHHHHHHHHCCCCE
T ss_conf 999888987246742
No 276
>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]
Probab=20.36 E-value=23 Score=14.21 Aligned_cols=23 Identities=13% Similarity=0.293 Sum_probs=12.1
Q ss_pred CCEEEEECCCCCCHHCCCCCHHHH
Q ss_conf 524773023464000001999999
Q gi|254780306|r 351 EAIRPNDFDFLPSKMKQFLDSDQF 374 (837)
Q Consensus 351 eAIrPT~~~~~p~~~~~~L~~de~ 374 (837)
+.|+|.++...|+. .+.-+.+|.
T Consensus 63 ~~l~~~~~~~LPNT-aGc~taeEA 85 (262)
T COG2022 63 DLLIPLGVTLLPNT-AGCRTAEEA 85 (262)
T ss_pred HHHHHCCCEECCCC-CCCCCHHHH
T ss_conf 77411386767876-455889999
No 277
>TIGR02169 SMC_prok_A chromosome segregation protein SMC; InterPro: IPR011891 The SMC (structural maintenance of chromosomes) family of proteins, exist in virtually all organisms including both bacteria and archaea. The SMC proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms and form three types of heterodimer (SMC1SMC3, SMC2SMC4, SMC5SMC6), which are core components of large multiprotein complexes. The best known complexes are cohesin, which is responsible for sister-chromatid cohesion, and condensin, which is required for full chromosome condensation in mitosis. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and share a five-domain structure, with globular N- and C-terminal (IPR003395 from INTERPRO) domains separated by a long (circa 100 nm or 900 residues) coiled coil segment in the centre of which is a globular ''hinge'' domain, characterised by a set of four highly conserved glycine residues that are typical of flexible regions in a protein. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif (XXXXD, where X is any hydrophobic residue), and a LSGG motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases . All SMC proteins appear to form dimers, either forming homodimers with themselves, as in the case of prokaryotic SMC proteins, or heterodimers between different but related SMC proteins. The dimers are arranged in an antiparallel alignment. This orientation brings the N- and C-terminal globular domains (from either different or identical protamers) together, which unites an ATP binding site (Walker A motif) within the N-terminal domain with a Walker B motif (DA box) within the C-terminal domain, to form a potentially functional ATPase. Protein interaction and microscopy data suggest that SMC dimers form a ring-like structure which might embrace DNA molecules. Non-SMC subunits associate with the SMC amino- and carboxy-terminal domains. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. SMCs share not only sequence similarity but also structural similarity with ABC proteins. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression . This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by IPR011890 from INTERPRO. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent ..
Probab=20.35 E-value=46 Score=12.03 Aligned_cols=81 Identities=21% Similarity=0.273 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHH-HCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHH---HH---HHCCCCCC
Q ss_conf 899999999987-099899946997025799999999975512578871699998037989999---99---86226469
Q gi|254780306|r 59 QKHLQNIIHAVK-SSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVVL---NA---MKSPRDIN 131 (837)
Q Consensus 59 kk~~~~i~~~~k-~a~~iilAtD~DREGE~Iawhi~e~l~~~~~~~~~~v~R~~f~eiT~~aI~---~A---~~n~r~~d 131 (837)
..++..|..++- ..+.||..+|.+-. ++| ++|+... .-|++|==|++=.-. +- +...+-||
T Consensus 563 e~Y~~A~E~AaG~RL~~VVV~dd~vA~-~aI-----~~LK~~k------~GRaTFLPLNkmr~~~~~~~~s~~~~~G~id 630 (1202)
T TIGR02169 563 ERYALAIEVAAGNRLNNVVVEDDAVAK-EAI-----ELLKRRK------AGRATFLPLNKMRSKKARRDLSILAEDGVID 630 (1202)
T ss_pred HHHHHHHHHHHHHHCCCEEECCHHHHH-HHH-----HHHHHCC------CCCCCCCCHHHCCCCCCCCCCCCCCCCCCCE
T ss_conf 999999999974122685415758999-999-----9999707------8987656614305642357666554578526
Q ss_pred --HHHHHH-HHHHHHHHHHHHHH
Q ss_conf --899999-99999989874011
Q gi|254780306|r 132 --LDLVNA-YLARRALDYLVGFN 151 (837)
Q Consensus 132 --~~Lv~A-~~aRr~lD~lvG~~ 151 (837)
+|||+= .+=+.+.-|.+|=|
T Consensus 631 fA~dLv~FD~ky~~af~yvfgDT 653 (1202)
T TIGR02169 631 FAVDLVEFDPKYEPAFKYVFGDT 653 (1202)
T ss_pred EEHHHHHHHHHHHHHHHHHHCCH
T ss_conf 31000102377888888886132
No 278
>pfam03965 Pencillinase_R Penicillinase repressor. The penicillinase repressor negatively regulates expression of the penicillinase gene. The N-terminal region of this protein is involved in operator recognition, while the C-terminal is responsible for dimerization of the protein.
Probab=20.17 E-value=46 Score=12.00 Aligned_cols=77 Identities=21% Similarity=0.274 Sum_probs=41.8
Q ss_pred CHHHHHHHHHHC-CCCCCCCHHHHHHHHHHCCEEECCCCCEEECCHHHHHCCCCCCCCCCCCCHHHH-HHHHHHHHHHHC
Q ss_conf 789987433210-256655157899999732202214771222011420000223366556898899-999999999862
Q gi|254780306|r 472 SESSLIKKMEEI-GIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFT-ADLEEKLDEIST 549 (837)
Q Consensus 472 tEasLik~mE~~-GIGrPSTyA~II~~L~~R~YV~~~~~~l~pT~~G~~v~~~L~~~f~~~~~~~fT-a~~E~~ld~Ia~ 549 (837)
|=..++..|.+. +. -++|-++++..|.++|||..++. |+.-+ |.|.+-.-++. ..+.+-+|.+-.
T Consensus 19 t~~ei~~~l~~~~~~-~~tTv~T~L~rL~~KG~l~~~~~-------gr~~~-----Y~p~v~~~~~~~~~~~~~~~~~f~ 85 (115)
T pfam03965 19 TVKEVVEELPEPRDW-AYSTVKTLLTRLVKKGLLSREKD-------GRAYI-----YSPLVSREEAVASAVKQLLDRLFG 85 (115)
T ss_pred CHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCEEEEEC-------CCCEE-----EEECCCHHHHHHHHHHHHHHHHHC
T ss_conf 799999985145688-57289999999997786268733-------99479-----874688999999999999999979
Q ss_pred CCHHHHHHHHHHHH
Q ss_conf 60134789999867
Q gi|254780306|r 550 GKLNWKEVLHEFWE 563 (837)
Q Consensus 550 G~~~~~~~L~~Fy~ 563 (837)
|. ..+++..|..
T Consensus 86 gs--~~~lv~~l~~ 97 (115)
T pfam03965 86 GS--VGALVANFVE 97 (115)
T ss_pred CC--HHHHHHHHHH
T ss_conf 89--9999999986
No 279
>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=20.11 E-value=46 Score=12.00 Aligned_cols=25 Identities=24% Similarity=0.389 Sum_probs=18.0
Q ss_pred HCCEEEECCCCCCHHHHHHHHHHHH
Q ss_conf 0998999469970257999999999
Q gi|254780306|r 71 SSTILILATDPDREGEAISWHVLDV 95 (837)
Q Consensus 71 ~a~~iilAtD~DREGE~Iawhi~e~ 95 (837)
.-..|+++||+|-.|-.|.=-++..
T Consensus 76 RYgkIiI~tDaDvDG~HI~~Llltf 100 (120)
T cd03365 76 RYGRLMIMTDQDHDGSHIKGLLINF 100 (120)
T ss_pred CCCEEEEEECCCCCHHHHHHHHHHH
T ss_conf 8885899878988657899999999
Done!