Query gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 753
No_of_seqs 247 out of 2778
Neff 6.2
Searched_HMMs 39220
Date Sun May 29 16:32:45 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780353.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01063 gyrA DNA gyrase, A s 100.0 0 0 2307.7 53.3 727 17-753 1-809 (864)
2 PRK05561 DNA topoisomerase IV 100.0 0 0 2051.0 72.5 737 10-753 4-745 (745)
3 PRK05560 DNA gyrase subunit A; 100.0 0 0 2030.2 68.3 730 13-753 5-752 (822)
4 PRK13979 DNA topoisomerase IV 100.0 0 0 1965.8 68.1 734 8-753 4-853 (959)
5 COG0188 GyrA Type IIA topoisom 100.0 0 0 1833.2 62.5 727 17-753 8-747 (804)
6 TIGR01061 parC_Gpos DNA topois 100.0 0 0 1782.3 36.2 722 17-747 1-743 (745)
7 TIGR01062 parC_Gneg DNA topois 100.0 0 0 1662.0 54.4 733 17-750 1-746 (747)
8 PRK09631 DNA topoisomerase IV 100.0 0 0 1274.9 50.4 592 21-692 2-618 (626)
9 PRK09630 DNA topoisomerase IV 100.0 0 0 1203.1 41.8 459 20-521 2-479 (479)
10 smart00434 TOP4c DNA Topoisome 100.0 0 0 1146.5 38.4 437 20-471 1-444 (445)
11 cd00187 TOP4c DNA Topoisomeras 100.0 0 0 1119.5 38.3 441 40-482 2-445 (445)
12 pfam00521 DNA_topoisoIV DNA gy 100.0 0 0 1051.5 39.3 420 41-473 1-424 (428)
13 PRK12758 DNA topoisomerase IV 100.0 0 0 860.9 50.4 603 20-690 23-653 (879)
14 PTZ00108 DNA topoisomerase II; 100.0 0 0 496.8 32.2 439 13-486 721-1208(1506)
15 KOG0355 consensus 100.0 6.1E-30 1.5E-34 244.7 6.6 638 13-683 72-726 (842)
16 KOG0355 consensus 100.0 1E-37 2.6E-42 303.1 -33.2 167 17-210 644-812 (842)
17 PRK13979 DNA topoisomerase IV 99.9 6.8E-24 1.7E-28 199.2 19.1 187 557-743 753-947 (959)
18 PRK05560 DNA gyrase subunit A; 99.9 6E-23 1.5E-27 192.1 19.9 186 517-705 608-807 (822)
19 TIGR01063 gyrA DNA gyrase, A s 99.9 1.3E-21 3.4E-26 181.9 15.5 180 517-699 630-857 (864)
20 PRK05561 DNA topoisomerase IV 99.6 1.1E-12 2.7E-17 115.0 21.9 184 558-753 506-693 (745)
21 COG0188 GyrA Type IIA topoisom 99.6 9.2E-14 2.3E-18 123.0 16.5 176 518-696 601-792 (804)
22 TIGR01061 parC_Gpos DNA topois 99.0 2.2E-08 5.7E-13 82.5 12.8 176 515-693 539-741 (745)
23 TIGR01062 parC_Gneg DNA topois 97.7 0.0022 5.7E-08 44.9 12.9 189 543-743 484-682 (747)
24 pfam03989 DNA_gyraseA_C DNA gy 97.6 0.00021 5.2E-09 52.7 6.1 42 658-699 1-43 (50)
25 PRK09630 DNA topoisomerase IV 97.4 0.0078 2E-07 40.8 12.8 106 359-465 307-427 (479)
26 pfam03989 DNA_gyraseA_C DNA gy 96.9 0.0029 7.4E-08 44.1 6.0 46 612-657 2-49 (50)
27 PRK09631 DNA topoisomerase IV 93.6 0.67 1.7E-05 26.3 19.8 351 310-743 221-618 (626)
28 KOG3863 consensus 89.7 0.9 2.3E-05 25.3 5.3 61 399-462 460-531 (604)
29 KOG0772 consensus 88.9 1.9 4.8E-05 22.9 9.2 15 659-673 470-484 (641)
30 KOG1240 consensus 84.8 3.1 7.8E-05 21.3 11.7 113 606-718 1055-1173(1431)
31 pfam04762 IKI3 IKI3 family. Me 79.5 4.7 0.00012 19.9 13.4 124 549-676 422-557 (918)
32 pfam04201 TPD52 Tumour protein 79.2 2.3 5.8E-05 22.3 3.3 57 425-488 10-68 (162)
33 PRK00215 LexA repressor; Valid 77.5 4.1 0.0001 20.4 4.2 52 636-687 147-200 (204)
34 pfam04799 Fzo_mitofusin fzo-li 76.7 5.6 0.00014 19.4 6.3 54 434-487 112-168 (171)
35 cd07924 PCA_45_Doxase_A The A 76.4 5.7 0.00014 19.3 5.1 32 414-445 44-75 (121)
36 pfam03982 DAGAT Diacylglycerol 75.7 0.65 1.7E-05 26.4 -0.3 67 31-114 13-99 (297)
37 PRK13378 protocatechuate 4,5-d 75.6 6 0.00015 19.2 5.0 32 414-445 47-78 (117)
38 PRK13379 protocatechuate 4,5-d 74.3 6.4 0.00016 18.9 4.9 34 413-446 47-80 (119)
39 cd07925 LigA_like_1 The A subu 74.2 6.4 0.00016 18.9 4.9 32 414-445 36-67 (106)
40 cd07921 PCA_45_Doxase_A_like S 73.8 6.5 0.00017 18.9 4.8 32 414-445 36-67 (106)
41 KOG4010 consensus 73.6 6.5 0.00016 18.9 4.4 52 436-487 38-94 (208)
42 PRK13377 protocatechuate 4,5-d 72.7 6.9 0.00018 18.7 5.0 33 414-446 47-79 (129)
43 pfam01401 Peptidase_M2 Angiote 70.7 3.1 7.9E-05 21.3 2.2 39 442-489 196-234 (595)
44 pfam12395 DUF3658 Protein of u 69.3 2.2 5.7E-05 22.4 1.2 35 68-102 57-92 (111)
45 pfam07746 LigA Aromatic-ring-o 68.5 8 0.0002 18.2 3.9 33 413-445 20-52 (88)
46 cd06461 M2_ACE Peptidase famil 68.4 4.8 0.00012 19.8 2.8 57 100-158 149-206 (477)
47 TIGR00909 2A0306 amino acid tr 66.0 4.6 0.00012 20.0 2.3 35 53-99 316-350 (451)
48 COG3959 Transketolase, N-termi 65.9 9.4 0.00024 17.7 3.8 89 87-191 32-135 (243)
49 cd07923 Gallate_dioxygenase_C 63.2 10 0.00027 17.3 4.7 32 414-445 28-59 (94)
50 PHA00728 hypothetical protein 63.1 9.8 0.00025 17.5 3.5 44 441-487 4-47 (153)
51 COG3953 SLT domain proteins [G 62.6 4 0.0001 20.5 1.4 24 114-137 66-89 (235)
52 KOG3584 consensus 61.1 11 0.00029 17.0 5.0 36 452-487 304-343 (348)
53 pfam03131 bZIP_Maf bZIP Maf tr 60.8 11 0.00029 17.0 5.4 47 432-487 45-91 (95)
54 PRK10834 hypothetical protein; 60.0 3.2 8.1E-05 21.2 0.5 51 79-131 47-104 (239)
55 pfam05133 Phage_prot_Gp6 Phage 59.8 12 0.0003 16.9 3.5 11 123-133 141-151 (435)
56 TIGR01734 D-ala-DACP-lig D-ala 57.7 2.5 6.4E-05 22.0 -0.3 139 129-292 24-181 (513)
57 TIGR00019 prfA peptide chain r 56.2 14 0.00035 16.5 7.4 61 426-488 32-96 (373)
58 pfam06995 Phage_P2_GpU Phage P 56.0 4.8 0.00012 19.8 0.9 33 84-117 49-83 (121)
59 PRK08082 consensus 54.3 11 0.00027 17.3 2.4 23 467-489 334-356 (453)
60 COG5207 UBP14 Isopeptidase T [ 53.9 1.8 4.5E-05 23.1 -1.6 50 90-140 162-221 (749)
61 TIGR00606 rad50 rad50; InterPr 53.8 15 0.00038 16.2 4.8 11 268-278 734-744 (1328)
62 PRK06904 replicative DNA helic 53.7 12 0.0003 17.0 2.6 22 267-288 222-243 (472)
63 COG0576 GrpE Molecular chapero 53.5 15 0.00038 16.2 5.7 41 370-410 67-109 (193)
64 PRK08840 replicative DNA helic 53.1 13 0.00033 16.6 2.7 71 191-289 170-240 (464)
65 pfam03444 DUF293 Domain of unk 52.3 10 0.00026 17.5 2.0 64 50-126 2-65 (79)
66 pfam05600 DUF773 Protein of un 52.3 16 0.0004 16.0 7.9 20 197-216 220-239 (506)
67 COG1944 Uncharacterized conser 52.1 16 0.0004 16.0 3.6 22 180-201 167-189 (398)
68 COG4939 Major membrane immunog 51.6 15 0.00039 16.1 2.9 47 107-153 62-113 (147)
69 cd07321 Extradiol_Dioxygenase_ 50.5 13 0.00034 16.5 2.5 33 414-446 26-58 (77)
70 pfam03853 YjeF_N YjeF-related 50.0 16 0.0004 16.0 2.7 117 92-230 14-144 (170)
71 TIGR02199 rfaE_dom_II rfaE bif 49.1 13 0.00034 16.5 2.3 21 267-287 123-143 (144)
72 PRK07085 diphosphate--fructose 49.0 17 0.00044 15.7 4.0 84 305-402 240-323 (557)
73 pfam08082 PRO8NT PRO8NT (NUC06 48.9 17 0.00044 15.7 3.1 59 50-115 4-64 (152)
74 PRK08006 replicative DNA helic 47.9 16 0.00042 15.9 2.6 22 267-288 225-246 (471)
75 PRK08760 replicative DNA helic 47.8 17 0.00045 15.6 2.7 21 268-288 231-251 (476)
76 TIGR02687 TIGR02687 conserved 47.7 16 0.00041 15.9 2.5 59 331-391 389-450 (911)
77 PRK05748 replicative DNA helic 47.7 17 0.00044 15.7 2.7 22 267-288 204-225 (448)
78 cd04618 CBS_pair_5 The CBS dom 47.5 11 0.00028 17.2 1.6 69 47-117 6-85 (98)
79 KOG4288 consensus 47.1 18 0.00047 15.5 3.7 14 192-205 245-258 (283)
80 PRK08694 consensus 46.5 19 0.00048 15.4 2.8 21 268-288 220-240 (468)
81 pfam08317 Spc7 Spc7 kinetochor 45.3 20 0.0005 15.3 12.7 15 359-373 133-147 (322)
82 pfam01208 URO-D Uroporphyrinog 45.1 20 0.0005 15.3 3.4 12 336-347 188-199 (337)
83 PTZ00094 serine hydroxymethylt 43.7 21 0.00053 15.1 2.9 66 418-489 382-447 (450)
84 PRK07263 consensus 43.7 21 0.00053 15.1 2.8 50 267-331 204-253 (453)
85 pfam07569 Hira TUP1-like enhan 43.4 21 0.00053 15.1 6.2 69 551-624 14-91 (219)
86 KOG0831 consensus 43.3 13 0.00034 16.5 1.5 76 29-113 49-136 (334)
87 KOG1359 consensus 43.2 13 0.00034 16.5 1.5 11 477-487 213-223 (417)
88 KOG0650 consensus 42.9 21 0.00054 15.0 7.9 36 642-677 601-638 (733)
89 KOG2941 consensus 42.9 21 0.00054 15.0 2.9 31 169-199 112-142 (444)
90 KOG1446 consensus 42.8 21 0.00054 15.0 12.8 22 524-545 87-108 (311)
91 cd02639 R3H_RRM R3H domain of 42.7 20 0.00051 15.2 2.4 25 42-69 21-46 (60)
92 PRK07004 replicative DNA helic 42.6 21 0.00055 15.0 2.7 23 467-489 344-366 (460)
93 TIGR00373 TIGR00373 conserved 42.3 12 0.0003 17.0 1.1 19 201-219 20-38 (168)
94 PRK05729 valS valyl-tRNA synth 41.9 22 0.00056 14.9 4.3 53 55-117 155-211 (877)
95 TIGR01341 aconitase_1 aconitat 41.6 5.2 0.00013 19.6 -0.8 79 29-112 20-105 (896)
96 PRK05595 replicative DNA helic 41.1 18 0.00046 15.5 1.9 23 267-289 202-224 (444)
97 pfam10977 DUF2797 Protein of u 40.9 22 0.00055 14.9 2.3 120 426-578 101-227 (233)
98 pfam07798 DUF1640 Protein of u 40.9 23 0.00058 14.8 5.4 13 425-437 102-114 (177)
99 TIGR03643 conserved hypothetic 40.6 20 0.00051 15.2 2.1 35 399-433 1-35 (72)
100 KOG2444 consensus 40.5 23 0.00059 14.8 5.6 97 522-629 34-132 (238)
101 TIGR02225 recomb_XerD tyrosine 40.2 23 0.00059 14.7 4.0 82 191-284 84-192 (305)
102 KOG0977 consensus 39.7 24 0.0006 14.7 13.0 14 179-192 82-95 (546)
103 pfam01768 Birna_VP4 Birnavirus 39.3 7.2 0.00018 18.5 -0.3 68 94-169 5-90 (264)
104 PRK08227 aldolase; Validated 38.4 25 0.00063 14.5 2.3 15 296-310 154-168 (291)
105 KOG4212 consensus 37.5 25 0.00065 14.4 4.1 60 268-332 47-109 (608)
106 cd00765 Pyrophosphate_PFK Phos 36.9 26 0.00066 14.4 4.1 86 305-404 240-325 (550)
107 pfam00416 Ribosomal_S13 Riboso 36.7 26 0.00066 14.3 2.8 41 413-453 13-60 (106)
108 COG2524 Predicted transcriptio 36.4 26 0.00067 14.3 2.2 91 50-165 4-97 (294)
109 PHA02126 hypothetical protein 35.8 20 0.0005 15.3 1.4 51 225-275 50-107 (153)
110 KOG2052 consensus 35.6 16 0.00041 15.9 1.0 16 437-452 489-504 (513)
111 COG3879 Uncharacterized protei 34.9 28 0.0007 14.1 5.3 65 443-531 58-126 (247)
112 cd00225 API3 Ascaris pepsin in 34.9 28 0.00071 14.1 3.1 42 433-474 25-66 (159)
113 TIGR01090 apt adenine phosphor 34.7 14 0.00036 16.3 0.6 49 195-253 30-80 (175)
114 COG0241 HisB Histidinol phosph 34.2 7.5 0.00019 18.4 -0.9 72 153-230 22-100 (181)
115 PRK03992 proteasome-activating 34.2 28 0.00072 14.1 6.8 15 377-391 299-313 (390)
116 KOG2264 consensus 34.2 28 0.00072 14.1 5.5 11 156-166 163-173 (907)
117 pfam04849 HAP1_N HAP1 N-termin 34.0 29 0.00073 14.0 4.9 45 444-488 244-288 (307)
118 PRK06266 transcription initiat 33.3 25 0.00064 14.4 1.7 14 206-219 31-44 (178)
119 KOG0771 consensus 33.3 29 0.00075 14.0 6.9 105 587-693 217-333 (398)
120 PRK09458 pspB phage shock prot 33.2 29 0.00075 14.0 2.0 23 447-469 47-69 (75)
121 TIGR00185 rRNA_methyl_2 RNA me 33.0 19 0.00049 15.3 1.0 40 531-570 42-84 (161)
122 COG2949 SanA Uncharacterized m 33.0 22 0.00057 14.8 1.3 77 52-132 34-117 (235)
123 TIGR02169 SMC_prok_A chromosom 32.9 30 0.00076 13.9 12.3 57 550-606 1057-1123(1202)
124 TIGR00018 panC pantoate--beta- 32.6 24 0.00061 14.6 1.5 99 68-180 19-130 (310)
125 KOG1302 consensus 32.5 30 0.00077 13.9 3.9 32 48-84 15-46 (600)
126 cd07603 BAR_ACAPs The Bin/Amph 32.5 30 0.00077 13.9 3.8 35 427-461 83-117 (200)
127 cd04585 CBS_pair_ACT_assoc2 Th 31.2 32 0.0008 13.7 2.7 39 78-117 68-109 (122)
128 pfam10985 DUF2805 Protein of u 31.1 31 0.00079 13.8 1.8 33 400-432 1-33 (73)
129 COG3546 Mn-containing catalase 31.1 24 0.00062 14.6 1.3 30 118-147 29-61 (277)
130 TIGR01882 peptidase-T peptidas 31.0 32 0.00081 13.7 3.5 58 146-216 87-170 (413)
131 pfam00465 Fe-ADH Iron-containi 30.7 32 0.00082 13.7 1.9 17 191-207 59-75 (312)
132 cd06231 Peptidase_M14-like_4 A 30.1 12 0.0003 16.9 -0.5 119 54-179 26-165 (236)
133 PRK05431 seryl-tRNA synthetase 29.8 33 0.00084 13.6 8.2 14 445-458 45-58 (422)
134 KOG1684 consensus 29.8 23 0.00058 14.8 0.9 57 88-146 64-123 (401)
135 KOG1954 consensus 29.8 33 0.00085 13.6 3.1 74 82-178 63-147 (532)
136 cd04600 CBS_pair_HPP_assoc Thi 29.7 33 0.00085 13.5 2.2 31 91-121 10-41 (124)
137 TIGR02171 Fb_sc_TIGR02171 Fibr 29.6 33 0.00085 13.5 4.9 111 516-650 514-626 (982)
138 TIGR02894 DNA_bind_RsfA transc 29.5 33 0.00085 13.5 4.7 105 365-489 47-153 (163)
139 TIGR01511 ATPase-IB1_Cu copper 29.2 34 0.00086 13.5 5.8 131 211-365 93-237 (545)
140 cd04617 CBS_pair_4 The CBS dom 29.1 20 0.0005 15.2 0.5 27 90-116 75-101 (118)
141 KOG0207 consensus 28.7 34 0.00088 13.4 4.6 85 214-307 399-494 (951)
142 COG5290 IkappaB kinase complex 28.6 35 0.00088 13.4 8.5 20 14-33 357-376 (1243)
143 COG2312 Erythromycin esterase 28.5 15 0.00039 16.1 -0.1 47 74-130 43-91 (405)
144 cd03823 GT1_ExpE7_like This fa 28.3 35 0.00089 13.4 1.7 15 459-473 321-335 (359)
145 TIGR02483 PFK_mixed phosphofru 28.2 35 0.0009 13.4 2.7 29 264-294 199-227 (339)
146 cd04793 LanC LanC is the cycla 27.9 35 0.0009 13.3 1.7 33 176-208 103-137 (382)
147 pfam05565 Sipho_Gp157 Siphovir 27.8 36 0.00091 13.3 5.2 71 443-520 55-125 (162)
148 PRK06321 replicative DNA helic 27.8 36 0.00091 13.3 2.6 21 469-489 361-381 (472)
149 cd03805 GT1_ALG2_like This fam 27.8 30 0.00076 13.9 1.3 28 460-487 357-384 (392)
150 TIGR01037 pyrD_sub1_fam dihydr 27.0 33 0.00085 13.6 1.4 102 224-341 13-131 (308)
151 cd04603 CBS_pair_KefB_assoc Th 26.9 26 0.00065 14.4 0.8 81 31-121 12-103 (111)
152 KOG2280 consensus 26.7 37 0.00095 13.2 12.2 36 167-208 162-200 (829)
153 pfam10168 Nup88 Nuclear pore c 26.7 37 0.00095 13.2 8.7 68 356-427 533-609 (717)
154 TIGR02895 spore_sigI RNA polym 26.6 37 0.00095 13.2 3.8 80 402-489 76-157 (225)
155 cd04629 CBS_pair_16 The CBS do 26.6 23 0.0006 14.7 0.5 31 91-121 9-40 (114)
156 PRK02304 adenine phosphoribosy 26.4 25 0.00064 14.4 0.7 49 194-254 33-81 (174)
157 pfam06374 NDUF_C2 NADH-ubiquin 26.3 36 0.00091 13.3 1.4 41 149-195 5-48 (117)
158 TIGR00977 LeuA_rel 2-isopropyl 26.3 38 0.00096 13.1 5.0 207 29-289 129-351 (543)
159 pfam12325 TMF_TATA_bd TATA ele 26.3 38 0.00096 13.1 8.9 45 442-486 69-113 (121)
160 pfam07914 DUF1679 Protein of u 25.9 25 0.00063 14.5 0.6 61 183-245 161-224 (413)
161 KOG0719 consensus 25.8 38 0.00098 13.1 1.9 13 477-489 226-238 (264)
162 pfam05067 Mn_catalase Manganes 25.8 32 0.00081 13.7 1.1 20 118-137 29-48 (272)
163 pfam01162 consensus 25.8 39 0.00098 13.1 1.6 20 414-433 46-65 (69)
164 PRK05636 replicative DNA helic 25.7 39 0.00099 13.1 2.5 44 355-410 224-267 (507)
165 cd07639 BAR_ACAP1 The Bin/Amph 25.6 39 0.00099 13.0 3.7 40 426-465 82-121 (200)
166 pfam12529 Xylo_C Xylosyltransf 25.3 35 0.0009 13.3 1.3 10 93-102 39-48 (180)
167 smart00787 Spc7 Spc7 kinetocho 25.3 39 0.001 13.0 13.1 46 443-488 219-264 (312)
168 TIGR02470 sucr_synth sucrose s 25.2 40 0.001 13.0 2.8 74 321-396 152-242 (790)
169 PRK09848 glucuronide transport 24.9 40 0.001 12.9 3.1 34 430-463 420-453 (457)
170 TIGR01465 cobM_cbiF precorrin- 24.7 32 0.00081 13.7 0.9 20 85-105 76-95 (252)
171 pfam10458 Val_tRNA-synt_C Valy 24.6 40 0.001 12.9 4.4 46 442-487 4-49 (66)
172 PRK06755 hypothetical protein; 24.6 40 0.001 12.9 2.2 42 477-530 9-50 (209)
173 KOG3915 consensus 24.5 41 0.001 12.9 7.1 43 441-483 527-569 (641)
174 COG2192 Predicted carbamoyl tr 24.5 41 0.001 12.9 4.0 25 266-290 161-185 (555)
175 KOG3314 consensus 23.7 42 0.0011 12.8 2.8 38 52-89 38-75 (194)
176 TIGR01034 metK S-adenosylmethi 23.7 42 0.0011 12.8 5.7 105 179-306 122-230 (393)
177 KOG3957 consensus 23.6 39 0.00099 13.0 1.2 146 224-405 152-309 (387)
178 TIGR00952 S15_bact ribosomal p 23.5 42 0.0011 12.8 1.6 30 411-440 2-37 (86)
179 pfam05400 FliT Flagellar prote 23.5 42 0.0011 12.8 3.1 36 454-489 61-96 (109)
180 cd03814 GT1_like_2 This family 23.5 42 0.0011 12.8 2.1 27 401-427 258-285 (364)
181 PRK10325 heat shock protein Gr 23.4 43 0.0011 12.7 5.5 34 372-405 72-107 (197)
182 KOG3675 consensus 23.2 43 0.0011 12.7 2.7 103 85-207 35-146 (417)
183 TIGR02041 CysI sulfite reducta 23.1 43 0.0011 12.7 3.9 59 128-201 150-222 (550)
184 TIGR03300 assembly_YfgL outer 23.1 43 0.0011 12.7 11.4 59 516-577 63-122 (377)
185 KOG2911 consensus 23.0 43 0.0011 12.7 10.5 89 391-484 290-384 (439)
186 COG2039 Pcp Pyrrolidone-carbox 23.0 40 0.001 13.0 1.2 21 189-209 38-58 (207)
187 TIGR02976 phageshock_pspB phag 22.9 43 0.0011 12.7 2.3 36 429-469 34-69 (75)
188 TIGR00501 met_pdase_II methion 22.8 15 0.00038 16.2 -1.0 27 71-97 173-199 (327)
189 cd04639 CBS_pair_26 The CBS do 22.8 31 0.00079 13.8 0.6 28 90-117 71-98 (111)
190 cd03822 GT1_ecORF704_like This 22.8 39 0.00099 13.0 1.1 28 459-487 326-353 (366)
191 cd04949 GT1_gtfA_like This fam 22.7 44 0.0011 12.7 2.5 11 356-366 82-92 (372)
192 pfam01255 Prenyltransf Putativ 22.7 44 0.0011 12.7 2.5 89 388-488 15-110 (222)
193 KOG0103 consensus 22.7 20 0.00052 15.1 -0.4 110 89-208 8-126 (727)
194 PRK10240 undecaprenyl pyrophos 22.5 44 0.0011 12.6 2.5 24 463-486 84-107 (229)
195 KOG0270 consensus 22.4 44 0.0011 12.6 8.0 161 509-684 289-457 (463)
196 TIGR02515 IV_pilus_PilQ type I 22.4 44 0.0011 12.6 3.8 84 308-411 35-123 (464)
197 cd01437 parp_like Poly(ADP-rib 22.3 45 0.0011 12.6 2.9 14 396-409 107-120 (347)
198 cd04775 HTH_Cfa-like Helix-Tur 22.2 45 0.0011 12.6 5.0 22 445-466 81-102 (102)
199 COG0216 PrfA Protein chain rel 22.0 45 0.0012 12.5 10.3 46 443-488 47-94 (363)
200 TIGR03290 CoB_CoM_SS_C CoB--Co 21.7 46 0.0012 12.5 1.5 85 188-296 54-141 (144)
201 TIGR00034 aroFGH phospho-2-deh 21.7 46 0.0012 12.5 1.8 21 415-435 18-38 (348)
202 pfam11853 DUF3373 Protein of u 21.7 46 0.0012 12.5 3.3 21 443-463 32-52 (485)
203 TIGR01051 topA_bact DNA topois 21.4 27 0.00069 14.2 0.0 132 467-604 347-503 (688)
204 TIGR03449 mycothiol_MshA UDP-N 21.4 43 0.0011 12.7 1.1 10 401-410 294-303 (405)
205 PRK11462 putative transporter; 21.1 47 0.0012 12.4 1.8 28 430-457 421-448 (460)
206 KOG0005 consensus 20.9 35 0.00089 13.4 0.5 19 47-65 33-51 (70)
207 TIGR01055 parE_Gneg DNA topois 20.9 30 0.00077 13.9 0.2 128 45-193 10-172 (647)
208 cd04469 S1_Hex1 S1_Hex1: Hex1, 20.8 48 0.0012 12.4 1.9 26 224-253 29-54 (75)
209 pfam09133 SANTA SANTA (SANT As 20.7 48 0.0012 12.4 1.7 62 528-590 6-71 (93)
210 KOG1712 consensus 20.6 48 0.0012 12.4 1.2 14 223-236 18-31 (183)
211 pfam01025 GrpE GrpE. 20.6 48 0.0012 12.3 7.2 14 518-531 135-148 (162)
212 PRK09165 replicative DNA helic 20.5 48 0.0012 12.3 2.3 61 267-331 206-269 (484)
213 cd00200 WD40 WD40 domain, foun 20.5 48 0.0012 12.3 16.2 61 610-677 146-208 (289)
214 cd07908 Mn_catalase_like Manga 20.4 32 0.00082 13.7 0.2 21 116-136 20-40 (154)
215 TIGR00746 arcC carbamate kinas 20.3 36 0.00091 13.3 0.5 11 285-295 181-191 (321)
216 PRK09956 hypothetical protein; 20.2 32 0.0008 13.7 0.2 43 167-227 113-155 (308)
217 pfam03861 ANTAR ANTAR domain. 20.1 39 0.001 13.0 0.6 22 411-432 16-37 (56)
218 TIGR01127 ilvA_1Cterm threonin 20.1 27 0.00069 14.2 -0.2 90 277-371 234-334 (381)
No 1
>TIGR01063 gyrA DNA gyrase, A subunit; InterPro: IPR005743 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively. This entry represents the A subunit (gyrA) as found predominantly in bacteria, but does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. GyrA has two functional domains: an N-terminal that forms the covalent DNA-protein bridge that is responsible for the breaking- and rejoining function, and a C-terminal that can bind DNA non-specifically . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=2307.74 Aligned_cols=727 Identities=40% Similarity=0.648 Sum_probs=702.8
Q ss_pred EEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHH
Q ss_conf 66531999999888888899985104764112897046899999998689998980354053666542768874789999
Q gi|254780353|r 17 VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYD 96 (753)
Q Consensus 17 i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~ 96 (753)
|.+++|++||++|||+||||||++||||||||||||||||||||||++||++++||+||||||||||||||||||+||||
T Consensus 1 i~pv~ie~E~k~SYLdYAMSVIVsRALPDvRDGLKPVHRRiLYaM~~~Gl~~d~~~kKsARIVGDV~GkYHPHGD~aiYD 80 (864)
T TIGR01063 1 IVPVNIEEEMKRSYLDYAMSVIVSRALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSARIVGDVLGKYHPHGDSAIYD 80 (864)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCEEECCEEEEEECCCCCCCCCCHHHH
T ss_conf 94565788999998644111322211541003688504577667766278998866002428741047824898734676
Q ss_pred HHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHH
Q ss_conf 99961001321661326788708867797100246899855999999842187861752167996324223123452676
Q gi|254780353|r 97 SLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLL 176 (753)
Q Consensus 97 a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL 176 (753)
||||||||||||||||||||||||||||||||||||||||+|+|++||+|||||||||+||||||++||+||||+|||||
T Consensus 81 ~LVRMAQDFSlRYpLvDGQGNFGSiDGD~pAAMRYTEaRl~k~a~~ll~DIdKeTVdF~~NYDg~~~EP~VLPs~fPnLL 160 (864)
T TIGR01063 81 ALVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTKIAEELLRDIDKETVDFVPNYDGSEKEPTVLPSRFPNLL 160 (864)
T ss_pred HHHHHCCCHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf 77650587100354416888647888882676521788888999999862043631654488886258820751241456
Q ss_pred HCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEE
Q ss_conf 42665046777751677788999999999872865320134432036778877601069889998985033415999999
Q gi|254780353|r 177 ANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARW 256 (753)
Q Consensus 177 ~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~ 256 (753)
||||||||||||||||||||+||||||++||+||+||++|||++||||||||||+|+ |.+||++||+||||||+||||+
T Consensus 161 vNGSsGIAVGMATNIPPHNL~Eiida~~~~i~Np~~~i~eLl~~i~GPDFPTgg~I~-G~~GI~~AY~TGRG~i~~Rar~ 239 (864)
T TIGR01063 161 VNGSSGIAVGMATNIPPHNLGEIIDAILAYIDNPDISIEELLEVIKGPDFPTGGIIL-GRSGIREAYETGRGSIVIRARA 239 (864)
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCHHHHHCCCCCCCCCHHHHHC-CCCCHHHHHHCCCCEEEEEEEE
T ss_conf 132476000222578873368999999998718998867995607711371056430-5001377733588138999989
Q ss_pred EEEECCC--CCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCC-CCCEEEEEEEECCCCCHHHHHHHHHHHC
Q ss_conf 9864378--840799952420021689999999986402221345776406-7660588985045458899999875420
Q gi|254780353|r 257 CVEEVGR--GSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDES-AEDVRIVLFPKNRSLDPDLLMESIFMLS 333 (753)
Q Consensus 257 ~~e~~~~--~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeS-d~~~~~vi~~~~r~~~~~~vl~~Lyk~T 333 (753)
+||+.++ ||.+||||||||||||++|||||||||++|||+||+|||||| ||+|+|||+++|||+.|++|||+|||+|
T Consensus 240 ~iE~~~~~~gR~~IIvTE~PYqVNKa~LiekIAeLv~ek~ieGIsdiRDESSDr~GiRiVIE~KRD~~a~VvLN~LYk~T 319 (864)
T TIGR01063 240 EIEEDSKKGGREAIIVTEIPYQVNKARLIEKIAELVREKKIEGISDIRDESSDREGIRIVIELKRDAVAEVVLNNLYKQT 319 (864)
T ss_pred EEEECCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCHHHHHHHCCC
T ss_conf 99864889986248886288852026888999987400000032124425668774379999742898301542121126
Q ss_pred CCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC--
Q ss_conf 000122331133312689722049999998999989999999999999999999999999986410789999752000--
Q gi|254780353|r 334 DMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED-- 411 (753)
Q Consensus 334 ~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~-- 411 (753)
+||++||+||+||++| .||+|+|+++|.+|++||.+||+|||.|+|+||++|.|||+||++|++||||||+|||+|.
T Consensus 320 ~lQ~~Fg~NmLALv~G-~Pk~lnLk~~l~~f~~HR~~Vi~RRT~feLrKA~eRaHiL~GL~~AL~niDevI~lIr~S~~~ 398 (864)
T TIGR01063 320 QLQVSFGINMLALVDG-LPKVLNLKELLEAFVEHRKDVITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQNT 398 (864)
T ss_pred CCCEECCEEEEEEECC-CCCEECHHHHHHHHHHCCEEEEEEEHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
T ss_conf 4500148123211078-975017889999998423133552100010226557899999999997212899997427898
Q ss_pred -CCCCCCCCC------------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf -011000000------------------------2577577889988789999889999766678999988776544203
Q gi|254780353|r 412 -KPKPVMVSR------------------------FSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLN 466 (753)
Q Consensus 412 -~~k~~L~~~------------------------f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~ 466 (753)
.||+.|+++ |+|||.||+|||||||||||+||.+||++||++|.++|++|+.||+
T Consensus 399 ~~Ak~~L~e~~W~l~di~~ll~~~~~~~l~~~g~F~l~E~QA~AILdMrL~rLTgLE~~Kl~~E~~~L~~~I~~l~~iL~ 478 (864)
T TIGR01063 399 EEAKTRLVERQWELLDILPLLKLVLEVELGERGTFSLSEIQAQAILDMRLQRLTGLEREKLEEEYKELLELIADLEDILA 478 (864)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 89998842168607899999988767532888865448899999999887677888899999999999999999997503
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEEC--------CCCCCC
Q ss_conf 978878999999999987417743345554200001100000011002456670599871010202--------565544
Q gi|254780353|r 467 SGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRS--------LKSHSV 538 (753)
Q Consensus 467 s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr--------~k~~~~ 538 (753)
|+.+++++|++||.+++++|||| |||.|+... ....+.||||.+|+|+|+||++||||| |+++++
T Consensus 479 ~~~r~~~iireEL~~i~~~Fgd~-----RRT~I~~~~--~~~~D~EDLI~~E~vVvt~s~~GYvKR~p~~~Y~~Q~RGGk 551 (864)
T TIGR01063 479 SEERVLEIIREELEEIKEQFGDP-----RRTEIVAEE--SEDIDIEDLIARENVVVTLSHKGYVKRVPVSAYRSQKRGGK 551 (864)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCC-----CCCHHHHCC--CCCCCCHHHHCCCCEEEEEECCCEEEECCHHHHHCCCCCCC
T ss_conf 77689999999999999973885-----321222024--32245034414787899971686478603013325766664
Q ss_pred CCCCCCCCC-CCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCCCCCCCCC-CCCCCEEEEEEE---ECCC
Q ss_conf 553223455-555401211114781789806882787551121212--344442222357-676530789998---5799
Q gi|254780353|r 539 DLSALHFKE-GDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGEAIQLLID-LNHNQDIVTAFV---YDST 611 (753)
Q Consensus 539 ~~~~~~~Ke-gD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~pI~~ll~-l~~~EkIv~~~~---~~~~ 611 (753)
|++|+++++ +|++.++|+|+|||+||||||+|||||++||+||.+ +++|.||.|+|+ +++||+|.++++ |+++
T Consensus 552 G~~g~~~~~G~D~i~~~lvasTHD~~Lfftn~G~vY~lK~Y~iP~~~R~akG~pIvNLL~G~~~dE~I~ai~~v~~f~d~ 631 (864)
T TIGR01063 552 GVSGADLKDGDDFIEQLLVASTHDYLLFFTNRGKVYRLKVYQIPEASRTAKGKPIVNLLEGLQKDERITAILSVKEFEDE 631 (864)
T ss_pred CCCCCCCCCCCCEEEEEEEEECCCEEEEEECCCCEEEEEEEECCCCCCCCCCCHHHHHCCCCCCCCEEEEEECCCCCCCC
T ss_conf 64325312368505677883077607888188826864544178777567871288860578767668887356666855
Q ss_pred C---EEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC-CE-EEEEECCCCEEEEEHH--HCCCCCH-
Q ss_conf 8---5999974897899638874023335627885368980568896189-80-9999569938995578--7783361-
Q gi|254780353|r 612 C---KLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-DH-VAVVGENRKLLIFSID--QIPEMSR- 683 (753)
Q Consensus 612 ~---~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~-d~-iiliT~~Gk~LrF~~~--eIr~~gR- 683 (753)
. |++|+|++|.+||+.+++|.+.+++|+.|++|.+||+|++|..|.+ |+ |+|+|++|+++||+.+ +||+|||
T Consensus 632 ~~~~yl~~aTk~G~vKk~~L~~F~~~rs~GiiAi~L~e~D~L~~v~~~~~~~~~v~l~s~~G~~~RF~~~~~~vR~mgR~ 711 (864)
T TIGR01063 632 AYDLYLFLATKNGVVKKTSLTEFSNIRSNGIIAIKLDEGDELISVRLVDGDDEKVMLGSKNGKAVRFPEEDEEVREMGRA 711 (864)
T ss_pred CCCEEEEEECCCCEEEEEECHHHHHHHHCCEEEEEEECCCEEEEEEEEECCCCEEEEEECCCCEEECCCCCCCHHCCCCC
T ss_conf 26617999726743887400144354527869999708968999999607886588651488479836885311002455
Q ss_pred HHCCEEEECCCC----------------------------CEEEEEEEECCCCC-EEEEECCCCCCCCCHHHHCCCCCCC
Q ss_conf 214133421878----------------------------75689997338883-6999417756645114322544413
Q gi|254780353|r 684 GKGVRLQSYKDG----------------------------GISDVICFKICEGL-TWIDSAGRSYNRSENDLLGWLGKRG 734 (753)
Q Consensus 684 gkGVk~i~Lkd~----------------------------~~~~~~~~~~~e~~-~il~~t~~g~~k~~~~~~~~~~~Rg 734 (753)
++||+||+|+++ |.+ +.+....++. .+|++|++||||++...+|+.++||
T Consensus 712 ~~GV~Gi~L~~~~~v~~~~~~~~i~~~~~D~~~~~L~~NlD~v-v~~~~~~e~~~~lL~vt~nGyGKRt~~~~yr~~~RG 790 (864)
T TIGR01063 712 TRGVRGIKLKNEDSVISMTVLKGINSIKEDRNLEELGVNLDFV-VSLEVVSEESQKLLIVTENGYGKRTSIEEYRLQSRG 790 (864)
T ss_pred CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEE-EEEEEECCCCCEEEEEEECCCCEECCHHHCCCCCCC
T ss_conf 6760135406777400013443212002222465437424344-777862499837899830684200426257632656
Q ss_pred CCCCCCCCCCCCCCCEECC
Q ss_conf 6660275526776861049
Q gi|254780353|r 735 GVGSLVPKGFPRSGKFLSS 753 (753)
Q Consensus 735 gkG~~~~k~~~K~gklV~A 753 (753)
|+|++.++.++|+|.||+|
T Consensus 791 g~Gv~~~~~~~r~G~vVga 809 (864)
T TIGR01063 791 GKGVKSIKITDRNGQVVGA 809 (864)
T ss_pred CCEEEEEEEECCCCCEEEE
T ss_conf 6237889986468968789
No 2
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=100.00 E-value=0 Score=2050.96 Aligned_cols=737 Identities=47% Similarity=0.823 Sum_probs=708.2
Q ss_pred CCCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCC
Q ss_conf 66542456653199999988888889998510476411289704689999999868999898035405366654276887
Q gi|254780353|r 10 NTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH 89 (753)
Q Consensus 10 ~~~~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPH 89 (753)
...+.|+|++++|+++|++||++||||||++||||||||||||||||||||||++||+|+++|+||||||||||||||||
T Consensus 4 ~~~~~e~i~~~~~~~~~~~~yl~Ya~svi~~RalPd~rDGlKPv~RRily~m~~~~l~~~~~~~KsarivG~v~GkyHPH 83 (745)
T PRK05561 4 PDPMSEGIEDLPLEEFLEERYLRYSMYVIMDRALPDVRDGLKPVQRRILYAMSELGLTPDAKFKKSARTVGDVLGKYHPH 83 (745)
T ss_pred CCCHHCCCEEECHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEEEEEEHHHCCCCCCC
T ss_conf 98320581572389999988999899999851277644588609999999999728999999736316641005577898
Q ss_pred HHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEC
Q ss_conf 47899999996100132166132678870886779710024689985599999984218786175216799632422312
Q gi|254780353|r 90 GDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFP 169 (753)
Q Consensus 90 Gd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp 169 (753)
||+|||||||||||+|+||||||||||||||+||||||||||||||||++|++||+|||++||||+||||||++||+|||
T Consensus 84 GD~siY~a~vrmaQ~f~~r~plidg~GNfGsidgd~~AAmRYTE~rls~~~~~~l~di~~~tv~f~~n~D~~~~EP~vLP 163 (745)
T PRK05561 84 GDSAIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAAAMRYTEARLSKIAELLLEEIDEGTVDFVPNFDGTLEEPTVLP 163 (745)
T ss_pred CHHHHHHHHHHHCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEC
T ss_conf 70479999999733013157514278877899998437678898876999999996306475132058799976755430
Q ss_pred CCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCE
Q ss_conf 34526764266504677775167778899999999987286532013443203677887760106988999898503341
Q gi|254780353|r 170 SKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGG 249 (753)
Q Consensus 170 ~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~ 249 (753)
|+|||||+|||+|||||||||||||||+|||+||++||+||++|++|||+|||||||||||.|++|++||+++|+||||+
T Consensus 164 a~~PnlL~NG~~GIAvGmaTnIPpHNl~Ev~~a~i~~i~np~~t~~eL~~~i~GPDFPTGg~Ii~g~~~i~~ay~tGrG~ 243 (745)
T PRK05561 164 ARFPNLLLNGATGIAVGMATDIPPHNLREVIDAAIHLIDNPDATLEELMEFVPGPDFPTGGEIITGRDGIRKAYETGRGS 243 (745)
T ss_pred CCCCHHHCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCEEEECHHHHHHHHHHCCCE
T ss_conf 46874110488624876644879976699999999874499999999983188997998838972889999999847670
Q ss_pred EEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCC--EEEEEEEECCCCCHHHHHH
Q ss_conf 59999999864378840799952420021689999999986402221345776406766--0588985045458899999
Q gi|254780353|r 250 FRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRIVLFPKNRSLDPDLLME 327 (753)
Q Consensus 250 i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~--~~~vi~~~~r~~~~~~vl~ 327 (753)
|++||+|++|+.++|+++||||||||||||++++|+|++||++||++||+||||||||+ +|+|+++|+++++|++|||
T Consensus 244 i~iRak~~iE~~~~g~~~IvItEIPY~vnk~~liekIa~lv~~kki~gI~dvrDESdr~g~iRIVIelK~~~~d~~~vln 323 (745)
T PRK05561 244 IRVRARWEIEDLARGQWQIVITELPYQVSKAKLIEQIAEQMQAKKLPGIADVRDESDRENPVRIVIEPKSNRVDPEALMN 323 (745)
T ss_pred EEEEEEEEEEECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCEECCCCCCCCCCEEEEEEECCCCCCHHHHHH
T ss_conf 99988999996379841799996787684899999999999708664102410366787877999997888879999999
Q ss_pred HHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 87542000012233113331268972204999999899998999999999999999999999999998641078999975
Q gi|254780353|r 328 SIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAII 407 (753)
Q Consensus 328 ~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iI 407 (753)
+|||+|+||+||++||+||+.+++|++|||+++|++|++||++|++||++|+|+|+++|+||||||++|++|||+||+||
T Consensus 324 ~Lyk~T~Lq~sf~~N~~al~~dg~P~~l~Lk~iL~~~l~hR~~vi~rrt~~~L~Ka~~RlhIleGLliA~~~iD~VI~iI 403 (745)
T PRK05561 324 HLFATTDLESSYRVNMNVIGLDGRPRVKGLKEILSEWLDHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIEII 403 (745)
T ss_pred HHHHHCCCHHHCCCEEEEEECCCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_conf 99985762421371489993799755827999999999999999999999999999999999988999996768999999
Q ss_pred HCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 20000110000002577577889988789999889999766678999988776544203978878999999999987417
Q gi|254780353|r 408 RNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 408 R~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
|+|++||.+||++|+|||.||+|||+|||||||+||++++++|+++|.++|++|++||+|+++++++|++||.+++++||
T Consensus 404 R~S~dak~~L~~~f~lse~QA~AIL~mrL~rLt~LE~~kl~~E~~eL~~~I~~l~~IL~s~~~~~~iI~~EL~eik~kfg 483 (745)
T PRK05561 404 RESDEPKANLMARFGLTEIQAEAILELRLRRLAKLEEIEIRKEQDELRKEIAELEAILASERKLWKLIKKELKADAKKFG 483 (745)
T ss_pred HCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 70632667775550879999999999999998766799999999999999999999963899999999999999998638
Q ss_pred CCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEE
Q ss_conf 74334555420000110000001100245667059987101020256554455322345555540121111478178980
Q gi|254780353|r 488 KSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLS 567 (753)
Q Consensus 488 d~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffT 567 (753)
++ |||.|++. ..+.++..|++|++|||+|++|++|||||+++++++.++.++|++|++.+++.|+|||+|+|||
T Consensus 484 d~-----RRT~I~~~-~~~~~i~~edlI~~E~v~V~lS~~GyIKr~k~~~~~~~~~~~Ke~D~v~~~~~~~T~d~LLfFT 557 (745)
T PRK05561 484 DP-----RRTPIEER-EEAKAIDEEALVPDEPVTVVLSKKGWVRRAKGHDIDPAGLGYKEGDSLLFAFEARTTDKLLFFT 557 (745)
T ss_pred CC-----CCCCCCCC-CCCCCCCHHHHCCCCCCEEEECCCEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCEEEEEE
T ss_conf 99-----86302267-4202378777176766189981780499844888675445677785325899980697699995
Q ss_pred CCCEEEEEEHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCC
Q ss_conf 68827875511212123444422223576765307899985799859999748978996388740233356278853689
Q gi|254780353|r 568 TDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSE 647 (753)
Q Consensus 568 s~GkvY~l~a~~Ips~~~kG~pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~ 647 (753)
|.||+|++++|+||+++++|+|+++++++++||+|+++++++++.+++++|++|++|++++++|.+.+++|+++|+|+++
T Consensus 558 n~Grvy~lkv~~IP~~r~~G~pi~nll~L~~~EkIv~vl~~~~~~~lllaTk~G~~kr~~l~e~~~~~k~G~~ai~L~~g 637 (745)
T PRK05561 558 STGRVYSLPVHELPSARGQGEPLTGLIDLEPGEEIVHVLVGDPDQKLLLASSAGYGFVVSEEDLVGRNRAGKAVINLKDG 637 (745)
T ss_pred CCCEEEEEEHHHCCCCCCCCCCHHHCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEEHHHHCCCCCCCEEEEEECCC
T ss_conf 79759998922087866788089880689999969999985898769999789329997869800446267188861899
Q ss_pred CCEEEEEECCC--CEEEEEECCCCEEEEEHHHCCCCCHHHCCEEEECCCCC-EEEEEEEECCCCCEEEEECCCCCCCCCH
Q ss_conf 80568896189--80999956993899557877833612141334218787-5689997338883699941775664511
Q gi|254780353|r 648 EKMKLVVKVTG--DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKDGG-ISDVICFKICEGLTWIDSAGRSYNRSEN 724 (753)
Q Consensus 648 D~li~v~~~~~--d~iiliT~~Gk~LrF~~~eIr~~gRgkGVk~i~Lkd~~-~~~~~~~~~~e~~~il~~t~~g~~k~~~ 724 (753)
|+++++..+++ |+++++|++|+++||++++||+||||+||++|+|++++ ++++.++...+++.|++.++++++++++
T Consensus 638 Delv~~~~i~~~~d~I~lvT~~Gk~lrF~~~evr~~gRgkGVkgikLk~~D~Vv~~~vv~~~~~l~v~s~~~~g~~k~t~ 717 (745)
T PRK05561 638 DKVLAPVPVEGDEDSLAAITQRGRLLVFPLSELPELSRGKGVKLIELKKEEGLADLAVLPPGDGLTLHAGKRKLTLKPKD 717 (745)
T ss_pred CEEEEEEEECCCCCEEEEEECCCCEEEEEHHHCCCCCCCCCCCEEEECCCCEEEEEEEECCCCCEEEEECCCCCCCCCCC
T ss_conf 88988899469998899995898289979888777575468014766899989999998588834999867876345551
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf 43225444136660275526776861049
Q gi|254780353|r 725 DLLGWLGKRGGVGSLVPKGFPRSGKFLSS 753 (753)
Q Consensus 725 ~~~~~~~~RggkG~~~~k~~~K~gklV~A 753 (753)
..+|+ ++||++|+++||+|+|+|++..+
T Consensus 718 l~~y~-~~Rgg~G~~~~k~~~k~gk~~~~ 745 (745)
T PRK05561 718 LEEYR-GKRARRGSLLPRGLQRVDRLSPA 745 (745)
T ss_pred HHHHC-CCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 67746-22477886788888878971789
No 3
>PRK05560 DNA gyrase subunit A; Validated
Probab=100.00 E-value=0 Score=2030.24 Aligned_cols=730 Identities=39% Similarity=0.639 Sum_probs=699.9
Q ss_pred CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHH
Q ss_conf 42456653199999988888889998510476411289704689999999868999898035405366654276887478
Q gi|254780353|r 13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQ 92 (753)
Q Consensus 13 ~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~ 92 (753)
+.++|++++|++||++|||+||||||++|||||+||||||||||||||||+|||+|++||+||||||||||||||||||+
T Consensus 5 ~~~~i~~~~~~~~~~~~yl~Ya~svi~~RAlPdvrDGlKPv~RRily~M~~l~l~~~~~~~K~ArivG~v~gkyHPHGd~ 84 (822)
T PRK05560 5 LADRIIPVNIEEEMKRSYLDYAMSVIVGRALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSARIVGDVMGKYHPHGDS 84 (822)
T ss_pred HHCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCCCCCH
T ss_conf 33444453489999988998889999851288644688508999999998728999999744206641005477898821
Q ss_pred HHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCC
Q ss_conf 99999996100132166132678870886779710024689985599999984218786175216799632422312345
Q gi|254780353|r 93 SVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKF 172 (753)
Q Consensus 93 s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~ 172 (753)
|||||||||||+|+||||||||||||||+||||||||||||||||++|++||+||+++||||+||||||++||+||||+|
T Consensus 85 siY~alvrmaQ~~~~r~plidg~GNfGsidgd~~AAmRYTE~rl~~~~~~ll~di~~~tV~f~~NfD~s~~EP~vLPa~~ 164 (822)
T PRK05560 85 AVYDALVRMAQDFSLRYPLVDGQGNFGSIDGDPAAAMRYTEARLAKIAHELLRDIDKETVDFVPNYDGSEQEPTVLPARF 164 (822)
T ss_pred HHHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 79999999700223047327157888899998006666788887999999985113065255048898765865256566
Q ss_pred CHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEE
Q ss_conf 26764266504677775167778899999999987286532013443203677887760106988999898503341599
Q gi|254780353|r 173 PNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV 252 (753)
Q Consensus 173 P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~ 252 (753)
||||+|||+|||||||||||||||+|||+||++||+||++|+++||+|||||||||||+|+ +.+||+++|+||||+|++
T Consensus 165 PnlLvNGs~GIAVGmATniPpHNL~Evi~a~~~~i~np~~t~~~L~~~i~GPDFPTGG~I~-~~~~i~~~y~tGrG~i~i 243 (822)
T PRK05560 165 PNLLVNGSSGIAVGMATNIPPHNLGEVIDACLALIDNPDITIEELMEIIPGPDFPTGGIIL-GRSGIREAYRTGRGSIIM 243 (822)
T ss_pred CHHHCCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCHHHHHCCCCCCCCCCCEEEE-CCHHHHHHHHHCCCEEEE
T ss_conf 4532057751002110588996889999999986359999999994669899799982897-848799999837670999
Q ss_pred EEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 99999864378840799952420021689999999986402221345776406766058898504545889999987542
Q gi|254780353|r 253 RARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFML 332 (753)
Q Consensus 253 r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~ 332 (753)
||+|++|+.++|+++||||||||||||++++|+|++||++||++||+|+||||||+|+++|+++||+++|+.|||+|||+
T Consensus 244 R~k~~iE~~~~~r~~IvItEIPY~vnk~~liekIa~lv~~kki~gI~dirDESdr~GiRIVIelKr~~~~~~vln~Lyk~ 323 (822)
T PRK05560 244 RAKAEIEEIRKGREAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDIRDESDRDGMRIVIELKRDAVPEVVLNNLYKH 323 (822)
T ss_pred EEEEEEEECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf 88999998579953899996898577999999999998557544510300356877627999967989979999999860
Q ss_pred CCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 00001223311333126897220499999989999899999999999999999999999999864107899997520000
Q gi|254780353|r 333 SDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDK 412 (753)
Q Consensus 333 T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~ 412 (753)
|+||++|++||+||++| +|++|||+++|++|++||.+|++||++|+|+|+++|+||||||++|++|||+||+|||+|++
T Consensus 324 T~Lq~sf~~N~~al~~g-~P~~l~Lk~~L~~fi~hR~~vi~rr~~~~L~ka~~RlhIleGl~~a~~~iDeVI~iIR~S~~ 402 (822)
T PRK05560 324 TQLQTSFGINMLALVDG-QPKLLNLKQILEAFVDHRKEVITRRTRFELRKARERAHILEGLLIALDNIDEVIALIRASPT 402 (822)
T ss_pred CCHHHCCCCEEEEEECC-EEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHCCCC
T ss_conf 84132036117998799-87786499999999999999999999999999998899998899999587999999971898
Q ss_pred ---CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf ---11000000257757788998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r 413 ---PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 413 ---~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
||..||++|+|||.||+|||+|||||||+||+++|++|+++|.++|++|++||+|+++++++|++||.+++++||+|
T Consensus 403 ~~~Ak~~L~~~f~lse~QA~AIL~mrL~rLt~Le~~kl~~E~~eL~~~I~~l~~IL~s~~~l~~iI~~EL~eik~kygd~ 482 (822)
T PRK05560 403 PAEAREGLMERYGLSEIQAQAILDMRLQRLTGLEREKIEDEYKELLAEIADLLDILASPERLMEIIREELEEIKEKFGDP 482 (822)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 78999989887588999999999989999876789999999999999999999886599999999999999999982998
Q ss_pred CCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECC--------CCCCCCCCCCCCCCCCCCEEEEEECCCC
Q ss_conf 33455542000011000000110024566705998710102025--------6554455322345555540121111478
Q gi|254780353|r 490 TDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSL--------KSHSVDLSALHFKEGDSLKIALHAHTTD 561 (753)
Q Consensus 490 ~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~--------k~~~~~~~~~~~KegD~l~~~~~~~t~d 561 (753)
|||.|.+.. .+++.||+|++|+++|++|++|||||+ ++++.|.++.++|++|++.+++.|+|||
T Consensus 483 -----RRT~I~~~~---~ei~~EDLI~~E~vvVtlS~~GYIKR~~~~~yr~Q~RGGkG~~g~~~ke~D~v~~~~~~~Thd 554 (822)
T PRK05560 483 -----RRTEIEAGE---GDIDDEDLIANEDVVVTLTHGGYIKRVPLDEYRAQRRGGKGKSGAGTKEDDFVEHLFVANTHD 554 (822)
T ss_pred -----CCEEEECCC---CCCCHHHCCCCCCEEEEEECCCEEEEECHHHHHHHCCCCCCCCCCCCCCCCHHHHEEEECCCC
T ss_conf -----860441565---656254417776469999468268861326655312677774343045565344326824788
Q ss_pred CEEEEECCCEEEEEEHHHCCCC--CCCCCCCCCCCCCCCCCEEEEEEEE---CCCCEEEEEECCCCEEEEEHHHHHCCCC
Q ss_conf 1789806882787551121212--3444422223576765307899985---7998599997489789963887402333
Q gi|254780353|r 562 RILLLSTDGKAYTLPAGNLLSG--RGHGEAIQLLIDLNHNQDIVTAFVY---DSTCKLLVVSSKGNAFIVEESEIIANTR 636 (753)
Q Consensus 562 ~LLffTs~GkvY~l~a~~Ips~--~~kG~pI~~ll~l~~~EkIv~~~~~---~~~~~lll~Tk~G~ikr~~l~~~~~~~k 636 (753)
+|||||+.||||++++|+||.+ +++|.||.|+++++++|+|++++++ +++.+++|+|++|++||+++++|.+.++
T Consensus 555 ~LLfFTn~Grvy~lkv~eIPe~sr~skG~~i~nll~l~~~EkI~ail~v~~~~~~~~Lv~~Tk~G~IKRt~L~df~~~r~ 634 (822)
T PRK05560 555 TLLFFTNRGRVYRLKVYELPEGSRTAKGRPIVNLLPLEPGEKITAILPVREFDDDLYLFFATKNGTVKKTALSEFSNIRS 634 (822)
T ss_pred EEEEEECCCCEEEEEEEECCCCCCCCCCCCHHHHCCCCCCCEEEEEEECCCCCCCCEEEEEECCCCEEEECHHHCCCCCC
T ss_conf 79999369949998916745668777884899716899997367877125678885699995797279713687225552
Q ss_pred CCEEEEEECCCCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCCEEEEE
Q ss_conf 5627885368980568896189-8099995699389955787783361-2141334218787568999733888369994
Q gi|254780353|r 637 KGKTFLKVSSEEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDS 714 (753)
Q Consensus 637 ~Gk~~ikLk~~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~ 714 (753)
+|+.+++|+++|+|++|..+++ ++++++|++|++|||++++||+||| ++||++|+|++++.+..+++. .++..++++
T Consensus 635 ~G~~AikLke~DeLv~v~l~~~~~dIil~T~~G~alRF~~~eVR~~GR~a~GVkgIkL~~gD~VV~~~vv-~~~~~iL~v 713 (822)
T PRK05560 635 NGLIAINLDEGDELIGVRLTDGDDDVLLFSANGKAIRFPEEDVRPMGRTARGVRGIKLREGDEVVSMSVL-RDEQFVLTV 713 (822)
T ss_pred CCEEEEECCCCCEEEEEEECCCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCCCCEECCCCCEEEEEEEE-CCCCEEEEE
T ss_conf 5519998589977999998489987999978973999506657777887768431551999989999985-799879999
Q ss_pred CCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf 177566451143225444136660275526776861049
Q gi|254780353|r 715 AGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSGKFLSS 753 (753)
Q Consensus 715 t~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~gklV~A 753 (753)
|++||+|+++..+|+.++|||+|++++|.++|+|+||+|
T Consensus 714 Te~G~GKRt~~~eyr~~~RGgkGv~~ik~~~k~G~lv~~ 752 (822)
T PRK05560 714 TENGYGKRTPAEEYRLQGRGGKGVIAIKITERNGKLVGA 752 (822)
T ss_pred ECCCEEEECCHHHCCCCCCCCCCEEEEEECCCCCCEEEE
T ss_conf 189805305288837557787775889964888848999
No 4
>PRK13979 DNA topoisomerase IV subunit A; Provisional,Validated
Probab=100.00 E-value=0 Score=1965.81 Aligned_cols=734 Identities=31% Similarity=0.518 Sum_probs=684.2
Q ss_pred CCCCC-CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCC
Q ss_conf 76665-42456653199999988888889998510476411289704689999999868999898035405366654276
Q gi|254780353|r 8 NSNTL-VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKL 86 (753)
Q Consensus 8 ~~~~~-~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gky 86 (753)
+...+ -+++|++++|++||++|||+||||||++||||||||||||||||||||||++|+.|++||+|||||||||||||
T Consensus 4 ~~~~~p~~~~i~~~~i~~em~~syl~YamsVI~~RAlPDvRDGLKPVhRRiLy~M~~lg~~~~~~~~KsArivGdv~Gky 83 (959)
T PRK13979 4 KKIVIPKDNNIIKFPLEEAMPENYLPYAVEVAKDRALPDVRDGLKPVHRRILYGAYMLKAFPDKPYYKSARIVGDILGKY 83 (959)
T ss_pred CCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCCCC
T ss_conf 56678986875561489999988998889987750077644688518999999998738999999841235511026477
Q ss_pred CCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEE
Q ss_conf 88747899999996100132166132678870886779710024689985599999984218786175216799632422
Q gi|254780353|r 87 HPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPV 166 (753)
Q Consensus 87 hPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~ 166 (753)
|||||+|||||||||||+|+||||||||||||||+||||||||||||||||++|++||+|||++||||+||||||++||+
T Consensus 84 HPHGD~avYdalVrmaQ~fs~r~pLidgqGNfGSidgD~~AAmRYTEarl~~~a~~ll~di~k~tVdf~~NyD~s~~EP~ 163 (959)
T PRK13979 84 HPHGDSSVYDAMVILAQNFTTRMPLIDGHGNWGSIDGDSAAAMRYTEARLTPIAMEMLRDIDKDVVDMVDNYSDSEKEPK 163 (959)
T ss_pred CCCCCHHHHHHHHHHHCCHHHCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
T ss_conf 89870479999999700013127606067867899998103430688888999999983304277476148898876865
Q ss_pred EECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf 31234526764266504677775167778899999999987286532013443203677887760106988999898503
Q gi|254780353|r 167 VFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLG 246 (753)
Q Consensus 167 ~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG 246 (753)
||||+|||||||||+|||||||||||||||+|||+||++||+||+++++|||+|||||||||||+|+ |.+|++++|+||
T Consensus 164 VLPa~~PnLLvNGs~GIAVGMATnIPpHNL~Evida~~a~i~np~~t~~eLm~~i~GPDFPTGGiI~-g~~gi~~aY~TG 242 (959)
T PRK13979 164 VLPARYPNLLVNGAFGIAVGLATNIPPHNLKEVIDGTLAYIDNNEITTKELMNYIKGPDLPTGGILI-GKKSLLSAYETG 242 (959)
T ss_pred CCCCCCCHHHHCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCEEE-CCHHHHHHHHHC
T ss_conf 1357774322137740114122587997889999999999708998899998218799889984898-878799999848
Q ss_pred CCEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCC----CHHHHHHHHCCCCCEEEEEEEECCCCCH
Q ss_conf 341599999998643788407999524200216899999999864022----2134577640676605889850454588
Q gi|254780353|r 247 RGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKR----IPLLEDIRDESAEDVRIVLFPKNRSLDP 322 (753)
Q Consensus 247 ~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~k----i~gi~dirDeSd~~~~~vi~~~~r~~~~ 322 (753)
||+|++||+|++|+.++|+++||||||||||||++++|+|++||++|| ++||+|+||||||+|+++|+++||++++
T Consensus 243 rG~i~iRak~~iE~~~~gr~~IiItEiPY~vnka~lie~Iaelv~~kk~~k~i~gIsdiRDESDr~GiRIVIelKr~a~~ 322 (959)
T PRK13979 243 EGKVTLRAKTTIEKLENGRLGIVITEFPYRRNKAKLLQTISEMTADKKHSKALENISDIRDESDRNGIRAVIEFKKSADE 322 (959)
T ss_pred CCEEEEEEEEEEEECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCH
T ss_conf 98399998889996178844899996687577899999999999713133668860042013677863899997688975
Q ss_pred H---HHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9---9999875420000122331133312689722049999998999989999999999999999999999999986410
Q gi|254780353|r 323 D---LLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLN 399 (753)
Q Consensus 323 ~---~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ 399 (753)
+ .|||+|||+|+||+||++||+||++| +|++|||+++|++|++||.+||+||++|+|+|+++|+||||||++|+++
T Consensus 323 ~v~e~vLn~Lyk~T~LQ~sf~vNmlaL~~g-~P~~l~Lk~iL~~fl~hR~eVI~RRt~~~L~ka~~R~HILeGL~iAl~n 401 (959)
T PRK13979 323 DVAEKVLKYLYKKTDLQCNISFNMVALADG-KPETMGLKAIIKHYVEHQKEVVTRRTKKELEIAEKRFHIVEGFIKAIGI 401 (959)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEEEEEECCC-CCEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 769999999997498836774589973399-1349778999999999999999999999998899899999989999978
Q ss_pred HHHHHHHHHCCC---CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf 789999752000---01100000025775778899887899998899997666789999887765442039788789999
Q gi|254780353|r 400 IDEIIAIIRNED---KPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIA 476 (753)
Q Consensus 400 ID~vI~iIR~s~---~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~ 476 (753)
||+||+|||+|+ +|+..||++|+|||.||+|||+|||||||+||++|+++|+++|.++|++|+.||+|+++++++|+
T Consensus 402 IDevI~iIR~S~~~~~Ak~~L~~~f~lse~QA~AILdmrL~rLT~LE~~ki~~E~~eL~~~I~~l~~IL~s~~~l~~iIk 481 (959)
T PRK13979 402 MDEIIKTIRASKSKKDASENLIEKFGFTDEQAEAILELMLYRLTGLEIKVFEKEYKELEKLIKKLEKILSSEKELLKVIK 481 (959)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_conf 99999999818983799998987619999999999998999987889999999999999999999999679999999999
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECC-----CCCCCCCCCCCCCCCCCC
Q ss_conf 999999874177433455542000011000000110024566705998710102025-----655445532234555554
Q gi|254780353|r 477 CEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSL-----KSHSVDLSALHFKEGDSL 551 (753)
Q Consensus 477 ~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~-----k~~~~~~~~~~~KegD~l 551 (753)
+||.+++++||++ |||.|++.. .+.+++.||||++|+++|++|++|||||+ ++++.|.+++.+|++|++
T Consensus 482 ~EL~eik~kygd~-----RRT~Ii~~~-~~~~~~~EDLI~~EdvVVtlS~~GYIKR~pl~~Y~RgGkG~~g~~~ke~D~v 555 (959)
T PRK13979 482 KELKEVKEKYGDE-----RRTSIIEDD-EKAKIDIEELIVVEDVVITLSNEGFIKRIPLKSYNRSNSNVEDIEYREGDFN 555 (959)
T ss_pred HHHHHHHHHHCCC-----CCEEEECCC-CCCCCCHHHHCCCCCEEEEEECCCEEEECCHHHHCCCCCCCCCCCCCCCCCE
T ss_conf 9999999983998-----742666563-2033657673456655999806964750458881367899778755566510
Q ss_pred EEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCCCCCCCCCC--CCCCEEEEEEEE---CCCCEEEEEECCCCEE
Q ss_conf 01211114781789806882787551121212--3444422223576--765307899985---7998599997489789
Q gi|254780353|r 552 KIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGEAIQLLIDL--NHNQDIVTAFVY---DSTCKLLVVSSKGNAF 624 (753)
Q Consensus 552 ~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~pI~~ll~l--~~~EkIv~~~~~---~~~~~lll~Tk~G~ik 624 (753)
.+++.|+|||+|||||+.|+|||+++|+||.+ +++|.||.|++++ .++|+|+++++. +++.+++|+|++|++|
T Consensus 556 ~~l~~a~THd~lLfFTn~GkvY~lKvyeIPe~sr~aKG~~i~Nll~~l~l~~E~I~~il~v~~f~~~~~lvfaTk~G~VK 635 (959)
T PRK13979 556 KFLIQSNTKDTLLIFTDKGNMYQIKGINIPEFKWKEKGERLDEIIKTIDLEEEKIIEAYSIEDFTPQKDFIFITDSGGIK 635 (959)
T ss_pred EEEEEECCCCEEEEEECCCEEEEEEEEECCCCCCCCCCCCHHHHCCCCCCCCCEEEEEEECCCCCCCCEEEEEECCCEEE
T ss_conf 26899528963999957985999870566777700389573441055788984589977412267775499992898688
Q ss_pred EEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC-C---EEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEE
Q ss_conf 9638874023335627885368980568896189-8---099995699389955787783361-2141334218787568
Q gi|254780353|r 625 IVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-D---HVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISD 699 (753)
Q Consensus 625 r~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~-d---~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~ 699 (753)
|+++++| ..+++|+.+++|+++|+++.|..+.+ + .+++.|.+|+++||+.+++|+||| ++||++|+|+++|.+.
T Consensus 636 Kt~L~~f-~~~~sgiiAIkL~egDeLI~V~l~~~~~~~~~i~l~T~~G~~irf~e~~vR~mGR~a~GVrgi~L~~~D~Vv 714 (959)
T PRK13979 636 KTSLDKF-NTNYSKLMALKLKKGEELIKVKLVDRTREEKFLKIKTKKGLSFTVEEPELEPVDRNILGYQLFNLSPNDSIK 714 (959)
T ss_pred CCCHHHC-CCCCCCCEEEECCCCCEEEEEEEECCCCCCEEEEEECCCCEEEECCCHHCCCCCCCCCCEEEEECCCCCEEE
T ss_conf 3738982-855678366666999879878973588875079996589659971420224578766675214339999898
Q ss_pred EEEEEC--------------------------------------------------------------------------
Q ss_conf 999733--------------------------------------------------------------------------
Q gi|254780353|r 700 VICFKI-------------------------------------------------------------------------- 705 (753)
Q Consensus 700 ~~~~~~-------------------------------------------------------------------------- 705 (753)
.+.+..
T Consensus 715 sm~i~~~~e~~~~~~~i~~~g~i~~~~~~~~~~~~~~~~~~~~~ili~~~~G~~~~~~~~~~~~~~~~g~~i~~~~~~~~ 794 (959)
T PRK13979 715 KVDFCDNYEYKEFYININKKGIIKISDLKKNKSHISLKTNSSKNLLLFSDKGKVYKIPAFMLQNIEESGINISALTGDFE 794 (959)
T ss_pred EECCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCEEEECCCCCEEECCHHHCCCCCCCCCCCHHHHHHHC
T ss_conf 61022444200000233420023322100111111113566311354325772330324320233555645022221210
Q ss_pred --------------CCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf --------------888369994177566451143225444136660275526776861049
Q gi|254780353|r 706 --------------CEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSGKFLSS 753 (753)
Q Consensus 706 --------------~e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~gklV~A 753 (753)
.++..+++++++||+|++...+|+.++|++.|.+ ...++|.+|++
T Consensus 795 ~~e~vi~~~~~~~~~e~~~il~vTe~G~GKRT~~~eyr~~g~~~~~~k---~~~~~~~~v~~ 853 (959)
T PRK13979 795 KKESIINAISIFEFEEDLSIYFFSKKGLVKKTLLSEFKGEGNSTQVYK---FKHKEDELVSV 853 (959)
T ss_pred CCCCEEEEEECCCCCCCCEEEEEECCCCCCCCCHHHHCCCCCCEEEEE---EEECCCCEEEE
T ss_conf 223024665203577761599993589746665677334678648999---88448978999
No 5
>COG0188 GyrA Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=1833.17 Aligned_cols=727 Identities=42% Similarity=0.682 Sum_probs=693.0
Q ss_pred EEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHH
Q ss_conf 66531999999888888899985104764112897046899999998689998980354053666542768874789999
Q gi|254780353|r 17 VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYD 96 (753)
Q Consensus 17 i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~ 96 (753)
|.+++|+++|++||++||||||++|||||||||||||||||||||+++|++|+++|+||||+|||||||||||||+||||
T Consensus 8 i~~v~i~~e~~~syl~YAmsVIv~RALPdVRDGLKPVqRRILYaM~e~gl~~d~~~kKsAriVGdvmGkyHPHGDssiYd 87 (804)
T COG0188 8 IEPIDIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVQRRILYAMFELGLTPDKKYKKSARIVGDVMGKYHPHGDSSIYD 87 (804)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCHHHHH
T ss_conf 51265999999999988799886401775234786089998899997499989970003066775335678887168999
Q ss_pred HHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHH
Q ss_conf 99961001321661326788708867797100246899855999999842187861752167996324223123452676
Q gi|254780353|r 97 SLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLL 176 (753)
Q Consensus 97 a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL 176 (753)
||||||||||||||||||||||||+|||||||||||||||||+|.+||.||+++||||+|||||+++||+||||+|||||
T Consensus 88 alVRMAQdfs~RypLVdgqGNFGSiDgD~aAAMRYTEaRLs~ia~elL~di~kdtVdf~~NyDg~~~EP~VLPa~~PnLL 167 (804)
T COG0188 88 ALVRMAQDFSLRYPLVDGQGNFGSIDGDPAAAMRYTEARLSKIAEELLEDIDKDTVDFVPNYDGSEKEPEVLPARFPNLL 167 (804)
T ss_pred HHHHHHHHHHHCCCCEECCCCCCCCCCCHHHHHHHHHHHCHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCEEE
T ss_conf 99997104341576231687788999973787778886231989998744465705144079998558740346687067
Q ss_pred HCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEE
Q ss_conf 42665046777751677788999999999872865320134432036778877601069889998985033415999999
Q gi|254780353|r 177 ANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARW 256 (753)
Q Consensus 177 ~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~ 256 (753)
+|||+|||||||||||||||.|||+||+++|+||++++++||++||||||||||+|+ |.+||+++|+||||+|++||+|
T Consensus 168 vNGssGIAVGmATnIPPHNl~Ev~da~~~li~np~~~~~~lm~~i~GPDFPTgg~I~-g~~~I~~aY~tGrG~i~vRa~~ 246 (804)
T COG0188 168 VNGSSGIAVGMATNIPPHNLGEVIDALIALIDNPDATIDELMEIIKGPDFPTGGIII-GRSGIREAYETGRGSIRVRAKA 246 (804)
T ss_pred ECCCCCEECCEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCEEE-CCHHHHHHHCCCCCEEEEEEEE
T ss_conf 606874101230577998989999999999709997467773106999899866685-4145678770078459999899
Q ss_pred EEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCC
Q ss_conf 98643788407999524200216899999999864022213457764067660588985045458899999875420000
Q gi|254780353|r 257 CVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDME 336 (753)
Q Consensus 257 ~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq 336 (753)
++|+.+.|+++||||||||||||++++|+|++|+++||+.||+++|||||++|+++++++|+++.++.+||+|||+|+||
T Consensus 247 ~iE~~~~gr~~IvItEiPyqvnka~lie~Iaelv~~kki~gis~vrDEsdr~giRivIelk~~~~~~~vln~Lfk~T~LQ 326 (804)
T COG0188 247 EIEDTKNGREQIVITEIPYQVNKAKLIEKIAELVKEKKIEGISDIRDESDREGIRIVIELKRDAVAEVVLNNLFKLTDLQ 326 (804)
T ss_pred EEEECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHCHHH
T ss_conf 99953788338999966970158999999999985487357300001026887079999777641789999998744187
Q ss_pred CCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---C
Q ss_conf 1223311333126897220499999989999899999999999999999999999999864107899997520000---1
Q gi|254780353|r 337 TRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDK---P 413 (753)
Q Consensus 337 ~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~---~ 413 (753)
++|++||+||+. ++|++++|++||++|++||+++++||++|+|+|+++|+||||||++|+++||+||+|||+|++ |
T Consensus 327 ~~f~~nm~ai~~-~~P~~~~L~~iL~~~~~hr~~vi~rR~~~~L~Ka~~R~hileGl~~a~~~iDevI~iIr~s~~~~~a 405 (804)
T COG0188 327 TSFNVNMLALVN-GRPKVLNLKEILSEFLEHRLEVVTRRTEYELNKAEERLHILEGLLIALLNIDEVIEIIRESKDKPEA 405 (804)
T ss_pred HHHCCEEEEECC-CCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
T ss_conf 750710687317-8031537999999999999999889999999999999989988999997147889888708981678
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 10000002577577889988789999889999766678999988776544203978878999999999987417743345
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLG 493 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~ 493 (753)
+..||++|+|||.||+|||+|||||||+||++++++|+++|.++|++|+.||+|+.++++++++||.+++++||++
T Consensus 406 ~~~L~~~f~lse~Qa~aIl~mrL~rLt~le~~~i~~E~~~L~~~i~~l~~iL~s~~~~~~~i~~eL~~~~~k~gd~---- 481 (804)
T COG0188 406 KEELMARFGLSEKQAEAILDLRLRRLTGLEEEKIEKELKELEKEIADLEKILASEERLLDIIKKELLEIKKKFGDE---- 481 (804)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC----
T ss_conf 9999987389678899998626777640408788889999999999999875388999999999999999871853----
Q ss_pred CCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCC---CCCCCCCCCCCCEEEEEECCCCCEEEEECCC
Q ss_conf 5542000011000000110024566705998710102025655445---5322345555540121111478178980688
Q gi|254780353|r 494 RRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVD---LSALHFKEGDSLKIALHAHTTDRILLLSTDG 570 (753)
Q Consensus 494 ~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~---~~~~~~KegD~l~~~~~~~t~d~LLffTs~G 570 (753)
|||.|...... ....|++|++|+++|++|+.||+||++...+. .++..+|++|++...+.|+|||+++|||+.|
T Consensus 482 -Rrt~i~~~~~~--~~~~edli~~e~vvv~ls~~gyikr~~~~~~~~q~~~~~~~ke~d~~~~~~~~~t~d~ll~ft~~G 558 (804)
T COG0188 482 -RRTEIVEEEED--EIEDEDLIAEEDVVVTLSHKGYIKRVPLKGYEAQRVSGLGLKEGDFLERLFEANTHDTLLFFTSKG 558 (804)
T ss_pred -CEEHHCCCCCC--CCCHHHHCCCCCEEEEECCCCEEEECCHHHHHHHHHHHCCCCCCCHHHHEEEECCCCEEEEECCCC
T ss_conf -20001156532--232133133554499981653278634566433022111324340334305504664699982788
Q ss_pred EEEEEEHHHCC--CCCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCC
Q ss_conf 27875511212--1234444222235767653078999857998599997489789963887402333562788536898
Q gi|254780353|r 571 KAYTLPAGNLL--SGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEE 648 (753)
Q Consensus 571 kvY~l~a~~Ip--s~~~kG~pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D 648 (753)
++|++++|++| +++++|+|+.++++++++|+|+.+++.+++.+++|+|++|++|++.+++|.+.+++|+.+++|+++|
T Consensus 559 ~~y~~~~~~lp~~~~~~~G~~i~~ll~~~~~E~i~~v~~~~~~~~l~~~T~~G~vK~~~l~~f~~~~~~g~~ai~L~~~d 638 (804)
T COG0188 559 RVYKLKVYELPEGSRRSRGEPIVNLLSLEKGEKITAVLPVNDDQYLFLATKKGYVKKTSLSEFKNIRSKGKIAIKLKEGD 638 (804)
T ss_pred CEEEECCEECCCCCCCCCCHHHHHHCCCCCCCEEEEEEECCCCEEEEEEECCCCEEEEEHHHHHCCCCCCEEEEECCCCC
T ss_conf 48973130335556666781035424578885479999707860599991699479820355312356770689717776
Q ss_pred CEEEEEECC--CCEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCC-EEEEECCCCCCCCCH
Q ss_conf 056889618--98099995699389955787783361-21413342187875689997338883-699941775664511
Q gi|254780353|r 649 KMKLVVKVT--GDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGL-TWIDSAGRSYNRSEN 724 (753)
Q Consensus 649 ~li~v~~~~--~d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~-~il~~t~~g~~k~~~ 724 (753)
.+.++..+. +++++++|++|+++||+.+++|.||| ++||++|+|++++.+..+.+ ..++. .+++++++|++|+++
T Consensus 639 ~l~~~~~~~~~~~~i~~~t~~G~~~~F~~~~v~~~gr~a~Gv~~i~l~~~d~~~~~~~-~~~~~~~~l~~t~~g~~kr~~ 717 (804)
T COG0188 639 ELVSVSLTSDGDDDILLVTSNGKALRFPESEVREMGRGAKGVKGIKLKEGDKVVSLSV-VEDDEAKLLTVTERGYGKRTK 717 (804)
T ss_pred CEEEEEECCCCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCCCEEECCCCCEEEEEEE-CCCCCEEEEEEECCCCEEECC
T ss_conf 3012452157876089991487378740344221154136864064376575665320-147860589984367200041
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCC-CCEECC
Q ss_conf 43225444136660275526776-861049
Q gi|254780353|r 725 DLLGWLGKRGGVGSLVPKGFPRS-GKFLSS 753 (753)
Q Consensus 725 ~~~~~~~~RggkG~~~~k~~~K~-gklV~A 753 (753)
..+|+.++||++|++.++.++|+ |.++++
T Consensus 718 ~~~~~~~~Rg~~G~~~~~~~~~~~~~~~~~ 747 (804)
T COG0188 718 ISEYPVTKRGGKGVILIKGTKRNRGKVVAA 747 (804)
T ss_pred HHHCCCCCCCCCCEECCCCCCCCCCEEEEE
T ss_conf 421342466766412454555655337764
No 6
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit; InterPro: IPR005741 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit A (parC) of topoisomerase IV from Gram positive bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=1782.33 Aligned_cols=722 Identities=32% Similarity=0.543 Sum_probs=682.5
Q ss_pred EEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHH
Q ss_conf 66531999999888888899985104764112897046899999998689998980354053666542768874789999
Q gi|254780353|r 17 VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYD 96 (753)
Q Consensus 17 i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~ 96 (753)
+++.+|++.|.+||-.||.|+|+||||||+|||||||||||||||+++|+++++||+||||.||+|||||||||||||||
T Consensus 1 ~~~~~Le~v~g~~F~kYaKYIIQDRALPD~RDGLKPVQRRILYaM~~~G~~fdk~YkKSAr~VGev~GkYHPHGDSSiYd 80 (745)
T TIGR01061 1 IINLPLEEVVGESFGKYAKYIIQDRALPDIRDGLKPVQRRILYAMSEDGNTFDKPYKKSARTVGEVIGKYHPHGDSSIYD 80 (745)
T ss_pred CCCCCHHHHHHCCCCCCCCCEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCHHHH
T ss_conf 97875035440000000251340456665111577035778766532378668870012011102226712898644778
Q ss_pred HHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHH
Q ss_conf 99961001321661326788708867797100246899855999999842187861752167996324223123452676
Q gi|254780353|r 97 SLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLL 176 (753)
Q Consensus 97 a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL 176 (753)
|||||+|+|.+|..||+.|||.||+||||||||||||||||++|.+||+||||+||.|+||||+|++||+||||.|||||
T Consensus 81 AmvRMSQ~WKn~~~lv~mHGNnGSiDGDnaAAMRYTEaRLS~iA~~LL~di~K~~V~F~~NFDDseKEP~vLP~lfPNLL 160 (745)
T TIGR01061 81 AMVRMSQDWKNNLVLVEMHGNNGSIDGDNAAAMRYTEARLSKIASELLKDIDKKTVKFIPNFDDSEKEPTVLPALFPNLL 160 (745)
T ss_pred HHHHCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 86414746334318998506667889985155432476677999999740477831033687788877742344213456
Q ss_pred HCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEE
Q ss_conf 42665046777751677788999999999872865320134432036778877601069889998985033415999999
Q gi|254780353|r 177 ANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARW 256 (753)
Q Consensus 177 ~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~ 256 (753)
||||||||.||||||||||++||+||++..||.|+|++++||+++|||||||||.| ++.+||++||+||+|+|.||||+
T Consensus 161 iNGatGIaAGYATnIpPHn~~Ev~Da~i~rId~P~c~v~~L~e~~kgPDFPTGG~i-~~~~~~~~aY~tGkGk~iirak~ 239 (745)
T TIGR01061 161 INGATGIAAGYATNIPPHNLNEVIDALIYRIDHPDCSVDKLMEIVKGPDFPTGGII-QGEDGIKKAYETGKGKFIIRAKI 239 (745)
T ss_pred HHHHHHHHCCHHCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCEE-ECHHHHHHHHHCCCCEEEEEEEE
T ss_conf 52013320000047788876689999986138988417889854484115887246-14154788985498139998642
Q ss_pred EEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCC
Q ss_conf 98643788407999524200216899999999864022213457764067660588985045458899999875420000
Q gi|254780353|r 257 CVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDME 336 (753)
Q Consensus 257 ~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq 336 (753)
++|-.++|++|||||||||.||||.++++|+|..-++|+.||.+|||||||+|.+|+++.|++++.+.|||+|||+|+||
T Consensus 240 ~~e~~~ng~~QI~It~IPYE~nKAnlvK~iedi~~d~kv~gi~eVrDeSDr~GlriiI~~Kk~~~~e~v~nyLyK~T~Lq 319 (745)
T TIGR01061 240 EIEVNKNGLNQIVITEIPYETNKANLVKKIEDIIVDKKVAGIEEVRDESDRKGLRIIIELKKDANAEKVLNYLYKKTDLQ 319 (745)
T ss_pred EEEEECCCCCEEEECCCCHHHHHHHHEEEEEEEEECCEEHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHCCCCCCE
T ss_conf 55320588204897457467766764000002676450000010034457575546560545247556787541343543
Q ss_pred CCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---CC
Q ss_conf 122331133312689722049999998999989999999999999999999999999986410789999752000---01
Q gi|254780353|r 337 TRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED---KP 413 (753)
Q Consensus 337 ~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~---~~ 413 (753)
.+|+.||+||. ++.|.++||..+|++|+.|++|||.+|..|||+||++|+||+|||++|++-|||||++||+|. ||
T Consensus 320 i~YN~n~vaI~-nr~P~lv~L~~yLd~yi~h~~evi~~~~~Ydl~ka~~R~~IveGLik~isilDeiI~~IRas~~k~DA 398 (745)
T TIGR01061 320 INYNFNMVAIA-NRTPILVGLLSYLDAYIKHSKEVIINRSLYDLEKAKKRLEIVEGLIKAISILDEIIKLIRASEDKSDA 398 (745)
T ss_pred EEECCCCEEEC-CCCCEEECHHHHHHHHHHHHHHHEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCH
T ss_conf 86432417840-47633644016888887230232002464238889878898888999999987898877302453360
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 10000002577577889988789999889999766678999988776544203978878999999999987417743345
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLG 493 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~ 493 (753)
|+.|+..|+||+.|||||+.|||||||+.|+-.|++|.+||.++++.|+.+|+|+..+.++|+++|.++||+|+++
T Consensus 399 k~~Li~~f~FT~~QAEAIv~LrLY~LTnTDi~~L~~E~~eL~~~~~~l~~~i~~~k~~~~~lk~~l~~~KK~F~~~---- 474 (745)
T TIGR01061 399 KENLIDKFEFTENQAEAIVSLRLYRLTNTDIFELKEEEEELEKKIKSLEEIIASEKARKKLLKKKLKELKKKFAQE---- 474 (745)
T ss_pred HHHHCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----
T ss_conf 3431011377725799999988603732037777878999999999999987657899999899999872310575----
Q ss_pred CCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCC-EEECCCCCCCCCC---CCCCCCCCCCEEEEEECCCCCEEEEECC
Q ss_conf 55420000110000001100245667059987101-0202565544553---2234555554012111147817898068
Q gi|254780353|r 494 RRRTTFCEVSRADKATLQQAMIEKEPITVVISNRG-WIRSLKSHSVDLS---ALHFKEGDSLKIALHAHTTDRILLLSTD 569 (753)
Q Consensus 494 ~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~G-yIKr~k~~~~~~~---~~~~KegD~l~~~~~~~t~d~LLffTs~ 569 (753)
|||.|.+. -...++++++||+++++.|++|++| |+|+.+..++..+ .++.|++|-+.+...++|||.||+|||.
T Consensus 475 -R~s~l~~~-~~~~~i~~~~li~~~~~~v~itk~GnY~K~~S~~sf~ss~~~d~g~~~~d~l~~~~~~nttd~lL~~Ts~ 552 (745)
T TIGR01061 475 -RRSKLEDE-IEKIKINEDELIEKEDLYVVITKDGNYIKRTSKRSFASSKYDDFGLKDDDILFYQTIANTTDKLLIFTSK 552 (745)
T ss_pred -HHHHHHHH-HHHEECCHHHHHHHCCCEEEEEECCCEEHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCEEEEEECC
T ss_conf -04567511-6530104678532146407998447630001266762047311577553345354652122537887616
Q ss_pred CEEEEEEHHHCCCCCCC--CCCCCCCCC-CCCCCEEEEEEEE---C-CCCEEEEEECCCCEEEEEHHHHHCCC---CCCE
Q ss_conf 82787551121212344--442222357-6765307899985---7-99859999748978996388740233---3562
Q gi|254780353|r 570 GKAYTLPAGNLLSGRGH--GEAIQLLID-LNHNQDIVTAFVY---D-STCKLLVVSSKGNAFIVEESEIIANT---RKGK 639 (753)
Q Consensus 570 GkvY~l~a~~Ips~~~k--G~pI~~ll~-l~~~EkIv~~~~~---~-~~~~lll~Tk~G~ikr~~l~~~~~~~---k~Gk 639 (753)
|++..+|+|+||+.||+ |+|+++.+. ++.+|+|+.+.+. + +...|+++|+.|++||+++++|...+ .+..
T Consensus 553 g~~In~pvh~La~~rwkd~g~hls~~~~n~~~~E~iv~v~~~~~fdv~~~~L~l~sklg~vKriel~~l~~~~~y~sK~~ 632 (745)
T TIGR01061 553 GNLINLPVHKLADIRWKDLGEHLSNKITNFDENETIVAVEILNEFDVDEAILVLASKLGMVKRIELTELDIKRNYRSKAI 632 (745)
T ss_pred CCEEEEEEEECCCCCHHHHHHHHCCHHHHHHCCCCEEEEEEECCCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCHHHHH
T ss_conf 66642130314566566899872000110210684899986132257468989987558747876032477865101223
Q ss_pred EEEEECCCCCEEEEEECCC---CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCCEEEEEC
Q ss_conf 7885368980568896189---8099995699389955787783361-21413342187875689997338883699941
Q gi|254780353|r 640 TFLKVSSEEKMKLVVKVTG---DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDSA 715 (753)
Q Consensus 640 ~~ikLk~~D~li~v~~~~~---d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~t 715 (753)
.+++|+++|.++.+....+ +.|+++|+.|++|+|.++|||..|+ |+|||+|+||++|.+.++.+....+..++ .+
T Consensus 633 ~~~~L~D~d~li~a~~~~~Gh~~~i~lvS~~gy~l~F~~~Ei~~~~~~A~GvK~mkLK~~D~v~~~~i~~~~~~~vl-l~ 711 (745)
T TIGR01061 633 LILKLKDEDELISAFLQKKGHDKLIILVSKLGYALLFLVEEINVVGAKAAGVKGMKLKEDDEVKSGLILEANESLVL-LT 711 (745)
T ss_pred HHHHCCCCCCEEEEEEECCCCCCEEEEEEECCCEEEECCEEECCCCCCCCCEEEEECCCCCEEEEEEEECCCCCEEE-EE
T ss_conf 32111789543899984188844189997368357730203323144667311330576763899999827995589-97
Q ss_pred CCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 77566451143225444136660275526776
Q gi|254780353|r 716 GRSYNRSENDLLGWLGKRGGVGSLVPKGFPRS 747 (753)
Q Consensus 716 ~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~ 747 (753)
.+|-.|+.+..|...++|+.+|+.+.|...|.
T Consensus 712 ~~Gs~k~~~~~El~~~sRa~~~~~llRp~kk~ 743 (745)
T TIGR01061 712 QRGSVKRLSISELKVTSRAATGVKLLRPLKKK 743 (745)
T ss_pred ECCCEEEEEHHHHHHHHHHCCCCHHHCCCCCC
T ss_conf 36825651036555534311651111000047
No 7
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit; InterPro: IPR005742 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit A (parC) of topoisomerase IV from Gram negative bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=100.00 E-value=0 Score=1661.97 Aligned_cols=733 Identities=41% Similarity=0.737 Sum_probs=703.8
Q ss_pred EEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHH
Q ss_conf 66531999999888888899985104764112897046899999998689998980354053666542768874789999
Q gi|254780353|r 17 VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYD 96 (753)
Q Consensus 17 i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~ 96 (753)
|..+++.+.+++.||.||||||.+||||+|+||||||||||+|||.+|+|.++++||||||+||||+||||||||+||||
T Consensus 1 iE~~~l~~~~~~~YL~Y~~~~IM~RaLP~i~DGLKPV~RR~~YAM~~L~L~a~a~yKKsAR~VGDVlGKyHPHGD~A~Y~ 80 (747)
T TIGR01062 1 IENLDLRNFTEEAYLNYSLYVIMDRALPFIGDGLKPVQRRIVYAMSELGLNANAKYKKSARTVGDVLGKYHPHGDSAVYE 80 (747)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEECCEECCCCCCCCCCCCHHHHH
T ss_conf 97651578988888888888887423772025775146899888887164767775200102102124605896248999
Q ss_pred HHHHHCCHHHCCCCCCCCCCCCCCCCC-CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHH
Q ss_conf 999610013216613267887088677-9710024689985599999984218786175216799632422312345267
Q gi|254780353|r 97 SLVRLAQPFVQRYPLISGQGNFGNIDG-DSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNL 175 (753)
Q Consensus 97 a~v~maq~~~~~~pli~g~GnfGs~~~-d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~l 175 (753)
|||+|||+||+|||||||||||||+|+ |++|||||||.|||++|+.||.||+++||||+||||||..||.+|||+|||+
T Consensus 81 ~~V~~AQ~FS~RYPLvDGQGN~Ga~DdP~~~AAMRYTESRl~~~s~lLl~~l~~~TvD~~~~fD~~~~EP~~lPA~lP~~ 160 (747)
T TIGR01062 81 ALVLLAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESRLSKISELLLEELGQGTVDFRPNFDGTLLEPKILPARLPNI 160 (747)
T ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf 99986211123476201677868898742123433246678999999998618872133457887424644253112055
Q ss_pred HHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE
Q ss_conf 64266504677775167778899999999987286532013443203677887760106988999898503341599999
Q gi|254780353|r 176 LANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRAR 255 (753)
Q Consensus 176 L~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k 255 (753)
|+||++||||||||+||||||.|||+|++++||+|+++++++|++|+||||||||+|+...+.|+.+|++|||||++||.
T Consensus 161 L~NG~~GIAVGMAT~IPPHNl~E~adA~~~LiD~P~agl~d~l~~v~GPDfPT~a~II~~~~~I~~~Y~~GRGS~r~Ra~ 240 (747)
T TIGR01062 161 LLNGTTGIAVGMATDIPPHNLRELADAALYLIDNPKAGLDDILNIVQGPDFPTEAEIIDKKEEIRKIYETGRGSVRMRAR 240 (747)
T ss_pred HCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCEEECCHHHHHHHHHCCCCEEEEEEE
T ss_conf 60688724752217888623799999999985288321689999734857898765747189999998569833897226
Q ss_pred EEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCC--EEEEEEEECCCCCHHHHHHHHHHHC
Q ss_conf 99864378840799952420021689999999986402221345776406766--0588985045458899999875420
Q gi|254780353|r 256 WCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRIVLFPKNRSLDPDLLMESIFMLS 333 (753)
Q Consensus 256 ~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~--~~~vi~~~~r~~~~~~vl~~Lyk~T 333 (753)
|+-|+.+.|.++||||+||||++++++|++||.++++||+|.|+|+|||||++ +|+|++++.+..|++.||++||+.|
T Consensus 241 W~KE~~syGty~ivi~~lP~Q~~~sk~i~QIA~~~~~KKlP~~~~iRDEsDH~~~iR~Vi~PR~~~~D~~~vM~~LF~~T 320 (747)
T TIGR01062 241 WKKEDGSYGTYQIVISALPHQISKSKVIEQIAIQLKDKKLPLISDIRDESDHENPIRVVIVPRSNRVDPDIVMEHLFATT 320 (747)
T ss_pred EEECCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCHHHCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf 53014666502676522775354015889999999717887024203423677856899843887768799999986542
Q ss_pred CCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 00012233113331268972204999999899998999999999999999999999999998641078999975200001
Q gi|254780353|r 334 DMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKP 413 (753)
Q Consensus 334 ~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~~ 413 (753)
+||.+|.+|||+|..+.+|.+++|.|||++|+.||+++|+||.+|+|+|...|||||+||.+|+.||||||+|||+.|+|
T Consensus 321 ~LE~~~~~N~N~IG~~~~P~V~nlLEIL~E~L~fR~~~v~RR~~Y~L~Kv~~RL~IL~~L~i~fLN~DEvIEIIR~EDeP 400 (747)
T TIGR01062 321 DLEKSYRLNMNMIGLDNKPAVKNLLEILQEWLVFRRNTVIRRLTYRLNKVLKRLHILEGLLIAFLNIDEVIEIIREEDEP 400 (747)
T ss_pred CHHHHEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCC
T ss_conf 20011233224640698960454899999999855888787888779999989988764755202100101222379984
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 10000002577577889988789999889999766678999988776544203978878999999999987417743345
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLG 493 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~ 493 (753)
|+.||++|+||+.||++||++|||+|.+||+.++..|+.+|+++...|++||.|+.++|+++|+|+++..++||+..-.|
T Consensus 401 K~~lM~RF~ls~~Q~e~IL~~rLR~L~KLEE~~i~~E~~~L~K~~~~L~~IL~~~~~l~~l~KKEi~~~~~~yg~ntiiG 480 (747)
T TIGR01062 401 KTILMERFKLSEIQAEAILNLRLRHLAKLEEHKIKDEQSELEKERAILEKILKSERKLNQLVKKEIQADAKKYGLNTIIG 480 (747)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEC
T ss_conf 28998550635899999986555565457788887656677899999999987568999999899999998740242203
Q ss_pred CCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEE
Q ss_conf 55420000110000001100245667059987101020256554455322345555540121111478178980688278
Q gi|254780353|r 494 RRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAY 573 (753)
Q Consensus 494 ~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY 573 (753)
.|||.+.|.+.+....+..++++.|||||++|+-||+|+.|||..+.+++++|+||..++.+.+.|+|.++|++|+||.|
T Consensus 481 ~R~~~l~E~~~~~~~~~~t~~~~~EPvTii~S~MGWVRs~KGH~~D~~~l~YK~GD~~~~~~~~~~~~~v~~i~S~GR~y 560 (747)
T TIGR01062 481 ARRSSLEEREEAKQVSEITDMIPKEPVTIILSKMGWVRSAKGHDIDLSTLKYKAGDSEKAIIEGKSNQKVVFIDSTGRSY 560 (747)
T ss_pred CCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCEEECCCCCCCCCCCCCCCCCCEEEEEEECCCCEEEEEECCCCEE
T ss_conf 55451356788888876653036788179982777355046656671435413686123345512775179997288526
Q ss_pred EEEHHHCCCCCCCCCCCCCCCCCCCC-CEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEE
Q ss_conf 75511212123444422223576765-30789998579985999974897899638874023335627885368980568
Q gi|254780353|r 574 TLPAGNLLSGRGHGEAIQLLIDLNHN-QDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKL 652 (753)
Q Consensus 574 ~l~a~~Ips~~~kG~pI~~ll~l~~~-EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~ 652 (753)
.+.+..||++++.|+|++..|.++.| ..|.+++...+++.||++|.-|+||.+..+++.+.+|.||.+|++.|+-.++.
T Consensus 561 ~l~~~~l~~a~g~G~Pl~~KL~l~~Gn~~i~~~l~~~~~Q~LL~AS~~G~GF~~~~~~liA~~k~GK~l~~lPE~~~~~~ 640 (747)
T TIGR01062 561 ALDPLNLPSARGQGEPLTGKLLLPIGNATIENILMESENQKLLLASDAGYGFLVKFNDLIARNKAGKALINLPENASVLA 640 (747)
T ss_pred EECCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEEECCCCCEEEECCCCCCEEEECHHHHHHCHHCHHHCCCCCCCEEEC
T ss_conf 63112043456778722688732688623107776358853210001686247400433331100402001788861104
Q ss_pred EEECCCCE--EEEEECCCCEEEEEHHHCCCCCHHHCCEEEECCC-------CCEEEEEEEECCCCCEEEEECCCCCCCCC
Q ss_conf 89618980--9999569938995578778336121413342187-------87568999733888369994177566451
Q gi|254780353|r 653 VVKVTGDH--VAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKD-------GGISDVICFKICEGLTWIDSAGRSYNRSE 723 (753)
Q Consensus 653 v~~~~~d~--iiliT~~Gk~LrF~~~eIr~~gRgkGVk~i~Lkd-------~~~~~~~~~~~~e~~~il~~t~~g~~k~~ 723 (753)
|..+.++. ++++|+.|++|.|+++++|.|.||+|+++++++. +.+..+..+...+++.|- .+++....+.
T Consensus 641 p~~~~~~s~~~~aI~~a~R~L~F~~~~lP~l~KG~G~~~~~~~~a~A~~~~~~L~~l~~~~~Q~~L~~~-~Gk~KI~L~~ 719 (747)
T TIGR01062 641 PLVVNDDSDLIVAITEAGRLLVFPIDDLPELSKGKGNKLIRIPAANAKDREELLLDLKILNKQDGLSFN-DGKRKIKLKP 719 (747)
T ss_pred CEEECCCCCEEEEECCCCEEEEECHHHCCCCCCCCCCEEEEECCHHHCCCCCCCEEEEEECCCCCEEEC-CCCEEEEECH
T ss_conf 434237610244411367068742111776347873057750541001200010123453577732420-4822452357
Q ss_pred HHHHCCCCCCCCCCCCCCCCCCCCCCE
Q ss_conf 143225444136660275526776861
Q gi|254780353|r 724 NDLLGWLGKRGGVGSLVPKGFPRSGKF 750 (753)
Q Consensus 724 ~~~~~~~~~RggkG~~~~k~~~K~gkl 750 (753)
+++..+.++||++|...|++++++.++
T Consensus 720 ~~l~~~~g~RG~~G~~~~~Gl~~~~~~ 746 (747)
T TIGR01062 720 EELQKFLGERGRKGTTLPRGLPKNNRV 746 (747)
T ss_pred HHHHHHHHCCCCCCCCCCCCCCHHHCC
T ss_conf 767755304688788675454411015
No 8
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=0 Score=1274.91 Aligned_cols=592 Identities=28% Similarity=0.414 Sum_probs=486.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf 19999998888888999851047641128970468999999986899989803540536665427688747899999996
Q gi|254780353|r 21 SLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVR 100 (753)
Q Consensus 21 ~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~ 100 (753)
+|+++|++|||+||||||++|||||||||||||||||||||++|+ +++|+|||||||+|| |||||||+||||||||
T Consensus 2 ~i~~~~~~~~l~Ya~~VI~~RAlPdv~DGLKPvqRRiL~~m~~~~---~~~~~K~A~ivG~~m-kyHPHGd~siy~alV~ 77 (626)
T PRK09631 2 DIKTLLKDNFLQYSSYVIKDRAIASVIDGFKPVQRRIIHSLFEMH---DGNFHKVANVVGNTM-KYHPHGDTSIYEALVN 77 (626)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCC---CCCCCEEEEEECCCC-CCCCCCCHHHHHHHHH
T ss_conf 868999999998889998850277521488659999999998648---999857628850511-2689982479999999
Q ss_pred HCCHHHCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCC
Q ss_conf 100132166132678870886-7797100246899855999999842187861752167996324223123452676426
Q gi|254780353|r 101 LAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANG 179 (753)
Q Consensus 101 maq~~~~~~pli~g~GnfGs~-~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng 179 (753)
||| |||||||||||||+ |||+||||||||||||++|.+|| ++++||||+|||||+++||+||||+|||||+||
T Consensus 78 maq----~~~lid~qGNfGsi~~gD~aAA~RYtEaRls~~a~e~l--~~~~tv~~~~nyDg~~~EP~vLP~~~PnLL~nG 151 (626)
T PRK09631 78 IAN----KDLFIEKQGNFGNLFTGDPASASRYIECRLTPLAFEVL--YSKEITSYEPSYDGRNNEPLIFPAKIPVILIQG 151 (626)
T ss_pred HHC----CCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCCCCEECCCCCCCCCCCEEEECCCCHHHHCC
T ss_conf 856----57605278888899998834566689897799999983--787851201278987446405553573777526
Q ss_pred CCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEE
Q ss_conf 65046777751677788999999999872865320134432036778877601069889998985033415999999986
Q gi|254780353|r 180 TSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVE 259 (753)
Q Consensus 180 ~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e 259 (753)
|+|||||||||||||||+|||+|++++|++|++++ +|||||||+|. . +.|+||+|+|++||+++++
T Consensus 152 ~~GIAVGmaT~IpPHNl~Evida~i~~l~~~~~~~--------~PDFPTGG~i~-~-----~~Y~tG~G~i~vRak~e~~ 217 (626)
T PRK09631 152 SEGIAVGMAAKILPHNFNEILEAVKSELLGESYDL--------YPDFPTGGIVD-V-----NEYADGNGKVLVRAKIETT 217 (626)
T ss_pred CCCHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCC--------CCCCCCCCCCC-H-----HHHHCCCEEEEEEEEEEEC
T ss_conf 74221222106899888999999998533898766--------99999875103-3-----2563486279999999981
Q ss_pred ECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCC
Q ss_conf 43788407999524200216899999999864022213457764067660588985045458899999875420000122
Q gi|254780353|r 260 EVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRF 339 (753)
Q Consensus 260 ~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf 339 (753)
+ +++|||||||||+|+++++|+|++++++|||+ |+++||||++++++|+++ +|+++|+++||+||++|+||+||
T Consensus 218 ~----~~~ivItEiPy~v~k~~lie~I~~~~~~~ki~-I~~i~D~s~~~vrIvi~l-k~~~~~~~vln~Ly~~T~lq~sf 291 (626)
T PRK09631 218 D----EKTIVIRELPFGETTESLIASIEKAIRKNYIK-VSSINDFTAENVEIELKL-PRGVYASEVIEKLYHYTNCQVSI 291 (626)
T ss_pred C----CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCEEEEEEE-CCCCCHHHHHHHHHHHCCHHHEE
T ss_conf 7----83599995687777899999999999725676-211414689827999998-99999899999987509713217
Q ss_pred CCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCCCCCCCCCC
Q ss_conf 33113331268972204999999899998999999999999999999999999998641-07899997520000110000
Q gi|254780353|r 340 PLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYL-NIDEIIAIIRNEDKPKPVMV 418 (753)
Q Consensus 340 ~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~-~ID~vI~iIR~s~~~k~~L~ 418 (753)
|+||+||++| +|++|||+|+|++|++||.++++||++|+|+++++|+|+..+..+.+. .|+++|+.++++++....+.
T Consensus 292 ~~n~~ai~~~-~P~~l~l~eiL~~~~~h~~~vl~r~le~~l~k~~er~H~~sLe~IfIe~rIy~~Ie~~~~~e~v~~~i~ 370 (626)
T PRK09631 292 SVNLLLLSDR-YPVIYTVTDIIKFHAEHLQKILKMELELERSKILEKIFSKTLEQIFIEKKIYKILETISKEEDVVSIVL 370 (626)
T ss_pred CCEEEEEECC-EEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf 6268999899-827987999999999999999999999889989986899999999866668999884201688999999
Q ss_pred CC---------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 00---------257757788998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r 419 SR---------FSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 419 ~~---------f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
+. ..+||.|+++||+|||+|||++|++|..+|+++|.++|++++..|+ .+..++++++++++++||+.
T Consensus 371 ~~l~pf~~~l~r~ite~d~~aLleirL~RIT~~didK~~eei~~L~~eI~eI~~~L~---~l~~~~I~~l~~Lk~kYG~~ 447 (626)
T PRK09631 371 SELLPFKSSLSRDVTEDDVENLLKIPIRKISLFDIDKNNKDIRILNKELKSIESNIK---SIKGYAINFIDKLLAKYSKE 447 (626)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHCCC
T ss_conf 877767887630157999999999899885343088799999999999999986377---68999999999999873547
Q ss_pred CCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEEC--------CCCCCCCCCCCCCCCCCCCEEEEEECCCC
Q ss_conf 3345554200001100000011002456670599871010202--------56554455322345555540121111478
Q gi|254780353|r 490 TDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRS--------LKSHSVDLSALHFKEGDSLKIALHAHTTD 561 (753)
Q Consensus 490 ~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr--------~k~~~~~~~~~~~KegD~l~~~~~~~t~d 561 (753)
+ .|||.|. +++++|+|+ +.+.+.|..|+++|++|++ +.|++||
T Consensus 448 ~---~RKTEI~-----------------------lfd~i~aKrVa~~n~Kly~nr~~GFiGtslKkdDfV---~~CSd~D 498 (626)
T PRK09631 448 Y---KRKTEIS-----------------------LIKSKNVREIATKNMKVYLNLETGFVGTSLIDGEFI---GNASYYD 498 (626)
T ss_pred C---CCEEEEE-----------------------EECCEEEEEEECCCCEEEECCCCCEEEECCCCCCEE---EECCCCC
T ss_conf 7---7257999-----------------------764443699570233256658885561035678456---7335665
Q ss_pred CEEEEECCCEEEEEEHHHCCCCCCCCCCC--CCCCCCCCC-CEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCC
Q ss_conf 17898068827875511212123444422--223576765-307899985799859999748978996388740233356
Q gi|254780353|r 562 RILLLSTDGKAYTLPAGNLLSGRGHGEAI--QLLIDLNHN-QDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKG 638 (753)
Q Consensus 562 ~LLffTs~GkvY~l~a~~Ips~~~kG~pI--~~ll~l~~~-EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~G 638 (753)
+|+||++ |+. .+.++|+..--|..+ .+++...++ +.|.+++--+.+. ...|+||.....+.. .
T Consensus 499 dILvF~d-G~y---kV~kV~~K~Fvgk~i~~v~v~~k~d~~~tiyn~IYrDgk~------g~~yiKRF~V~~~tr---d- 564 (626)
T PRK09631 499 KILIFKD-GSY---VLKNIEDKTFIDKKNVCVLVYDINNSKEQVFSIIYRDKLD------NFYYVKRFKIDKFIL---D- 564 (626)
T ss_pred EEEEEEC-CEE---EEEECCCCCEECCCCEEEEEEECCCCCCEEEEEEEECCCC------CCEEEEEEEECCEEE---C-
T ss_conf 3999989-859---9998577605468837999985278765079999986998------836899988323884---2-
Q ss_pred EEEEEECCCCCEEEEEECCCCEEEEEECCCCEE--EEEHHHCCCCCH-HHCCEEEEC
Q ss_conf 278853689805688961898099995699389--955787783361-214133421
Q gi|254780353|r 639 KTFLKVSSEEKMKLVVKVTGDHVAVVGENRKLL--IFSIDQIPEMSR-GKGVRLQSY 692 (753)
Q Consensus 639 k~~ikLk~~D~li~v~~~~~d~iiliT~~Gk~L--rF~~~eIr~~gR-gkGVk~i~L 692 (753)
|..--..++.++.....-.. +.-+..-+-+ -|+-+++...|| ++|+.+-+.
T Consensus 565 K~Y~l~~~~s~~l~fs~n~n---l~~~~~~k~~~~~~df~~~~iKgr~skGn~vtk~ 618 (626)
T PRK09631 565 KVYEFLPENDEFLDFSLNPE---FVPFSRSKDIVKMIEIDNFMVKSRSSKGKRISSR 618 (626)
T ss_pred CCCCCCCCCCEEEEEEECCC---CCCCCCCCCEEEEECHHHEEEECCCCCCEEEECC
T ss_conf 52245799987999997776---5745442451477321140341444555176314
No 9
>PRK09630 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=0 Score=1203.05 Aligned_cols=459 Identities=26% Similarity=0.432 Sum_probs=408.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 31999999888888899985104764112897046899999998689998980354053666542768874789999999
Q gi|254780353|r 20 VSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99 (753)
Q Consensus 20 ~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v 99 (753)
.+|+++|++|||+||||||++|||||+|||||||||||||||++++ +++|+|||||||+||| ||||||+|||||||
T Consensus 2 ~~i~~~~~~~yl~Ya~~vI~~RAlPdvrDGLKPVqRRiLy~m~~~~---~~~~~K~ArvvG~v~g-yHPHGd~siy~alv 77 (479)
T PRK09630 2 SDVSDLFKTHFMHYASYVILERAIPHILDGLKPVQRRLLWTLFRMD---DGKMHKVANIAGRTMA-LHPHGDAPIVEALV 77 (479)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCC---CCCCCEEEEEECCEEC-CCCCCHHHHHHHHH
T ss_conf 6279999999998889999851177532588609999999983068---9987134244213511-48887278999999
Q ss_pred HHCCHHHCCCCCCCCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHC
Q ss_conf 610013216613267887088-6779710024689985599999984218786175216799632422312345267642
Q gi|254780353|r 100 RLAQPFVQRYPLISGQGNFGN-IDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLAN 178 (753)
Q Consensus 100 ~maq~~~~~~pli~g~GnfGs-~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~N 178 (753)
|||| ||||||||||||| +||||||||||||||||++|.+|| ++++||||+||||||++||+||||+|||||+|
T Consensus 78 rmaq----r~~LvdgqGNfGs~~dgd~~AAmRYtE~rls~~a~~~l--~~~dtv~f~~NyDgs~~EP~vLPa~~PnLLvN 151 (479)
T PRK09630 78 VLAN----KGYLIDTQGNFGNPLTGDPHAAARYIEARLSPLAKEVL--FNTDLMTFHDSYDGREKEPDILPAKLPLLLLH 151 (479)
T ss_pred HHHC----CCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH--CCCCCCCCCCCCCCCCCCCCEEECCCCHHHHC
T ss_conf 9856----76156467888999899804677899987589999983--55685467789899855771211457187754
Q ss_pred CCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEE
Q ss_conf 66504677775167778899999999987286532013443203677887760106988999898503341599999998
Q gi|254780353|r 179 GTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCV 258 (753)
Q Consensus 179 g~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~ 258 (753)
||+|||||||||||||||+|||+|++++|+||+++. ||||||||+|. +.+ |+||||+|++||+|++
T Consensus 152 Gs~GIAVGmAT~IpPHNl~EvidA~i~~i~~~~~~~--------~PDFPTGGii~-~~~-----Y~tGrG~i~vRak~~~ 217 (479)
T PRK09630 152 GVDGIAVGMTTKIFPHNFCELLEAQIAILNDQPFTL--------LPDFPSGGLMD-ASE-----YQDGLGSITLRASIDI 217 (479)
T ss_pred CCCCHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCC--------CCCCCCCCEEC-HHH-----HCCCCCEEEEEEEEEE
T ss_conf 775222345525899898999999999762898775--------89999977305-466-----5578981899999999
Q ss_pred EECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCC
Q ss_conf 64378840799952420021689999999986402221345776406766058898504545889999987542000012
Q gi|254780353|r 259 EEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETR 338 (753)
Q Consensus 259 e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~s 338 (753)
++ +++||||||||||++++++++|+++++++++ +|+++||||++++++++++ +|+++|+.+||+|||+|+||+|
T Consensus 218 ~~----~k~ivItEiPy~v~k~~lie~I~~~~~~~~~-~I~~i~D~s~~~~rivI~l-kr~~~~~~vl~~Lyk~T~Lq~s 291 (479)
T PRK09630 218 IN----DKTLLIKEICPSTTTETLIRSIENAAKRGII-KIDSIQDFSTDLPHIEIKL-PKGIYAKDLLPPLFEHTECQVI 291 (479)
T ss_pred EE----CCEEEEEECCCCCCHHHHHHHHHHHHHCCCC-CCCCEEECCCCCCEEEEEC-CCCCCHHHHHHHHHHCCCHHHE
T ss_conf 71----4438997068656699999999999864876-6885113357985599847-9999999999999836962412
Q ss_pred CCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH---HHHHHHHHHHHHHCCC-
Q ss_conf 23311333126897220499999989999899999999999999999999---9999998---6410789999752000-
Q gi|254780353|r 339 FPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVE---ILKGLLI---AYLNIDEIIAIIRNED- 411 (753)
Q Consensus 339 f~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~Rlh---IleGl~~---a~~~ID~vI~iIR~s~- 411 (753)
|++||+||++| +|++++|+++|+.|++||.++++||+++.. +..+|.| .||++.+ ++++||+||++||+++
T Consensus 292 f~~N~~aI~~g-~P~~l~l~eiL~~~~~~~~~~lrr~l~~~~-~~~~r~~~~k~Le~l~I~~~~~d~I~eiI~~i~~~~~ 369 (479)
T PRK09630 292 LTSKPTAIYQN-KPVETSISEILKLHTEALQGYLKKELLILQ-DSLTREHYHKTLEYIFIKHKLYDTVREMLSKRKTKPS 369 (479)
T ss_pred ECCCEEEEECC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 23323788889-086666899999999987554346689998-9999999998888999987789999999998853898
Q ss_pred --CCCCCCCCCCC--------CCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf --01100000025--------775778899-8878999988999976667899998877654420397887899999999
Q gi|254780353|r 412 --KPKPVMVSRFS--------LTENQVDAI-LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIR 480 (753)
Q Consensus 412 --~~k~~L~~~f~--------lse~QA~aI-L~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~ 480 (753)
+++.+++..|. ..+.||.++ ++|+|++|++||.+++++|+++|.+++++++++|+ .+++++++||+
T Consensus 370 ~ed~~~~l~~~~~~~~~~~~~~i~~q~~~~L~~l~l~kL~~Le~~k~~~El~~l~~~i~~l~~~l~---~l~kiii~eL~ 446 (479)
T PRK09630 370 ASDLHNAVLHALEPFLHTLPTAPDKQATSQLASLTIKKILCFNENAYTKELAAIEKKQAAVQKDLS---QLKKYTVKYLK 446 (479)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_conf 999999999876566787754338999999999899987513399999999999999999999999---99999999999
Q ss_pred HHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCE
Q ss_conf 99874177433455542000011000000110024566705
Q gi|254780353|r 481 EVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPIT 521 (753)
Q Consensus 481 eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~ 521 (753)
+++++||+. ++|||.|.++. ..++++++.|+++
T Consensus 447 ~ikekYGd~---~eRRTeI~~~~-----~~~~~~~~~e~~v 479 (479)
T PRK09630 447 GLLERYGHL---GHRKTQITKFK-----AKKTSILKQQTLI 479 (479)
T ss_pred HHHHHHCCC---CCCCCCCCCCC-----CHHHHCCCHHCCC
T ss_conf 999985899---87767560243-----2343024200259
No 10
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=100.00 E-value=0 Score=1146.52 Aligned_cols=437 Identities=46% Similarity=0.765 Sum_probs=417.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 31999999888888899985104764112897046899999998689998980354053666542768874789999999
Q gi|254780353|r 20 VSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99 (753)
Q Consensus 20 ~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v 99 (753)
++|+++|.++|++||||||.+|||||+|||||||||||||||+++|+.++++|+||||+||+|||+||||||+|+|||||
T Consensus 1 i~i~d~~~~~~~~ys~~vi~~RaiP~~~DGLKPvqRriLy~~~~~~l~~~~~~~k~a~~~g~~~~~YHpHGd~s~~~aiv 80 (445)
T smart00434 1 IDIEDFINKEYLDYSMSVINGRAIPDVRDGLKPVQRRILYAMFKRGLTPDEPKVKSARGVGDVMGKYHPHGDSSLYDAIV 80 (445)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEEEEEEHHCCCCCCCHHHHHHHHH
T ss_conf 97799998999998899876034884002787899999999997389889862788888861001788886889999999
Q ss_pred HHCCHHHCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHC
Q ss_conf 6100132166132678870886-779710024689985599999984218786175216799632422312345267642
Q gi|254780353|r 100 RLAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLAN 178 (753)
Q Consensus 100 ~maq~~~~~~pli~g~GnfGs~-~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~N 178 (753)
||||+||||+||++|||||||+ |||+||||||||||||++|..||.|+|+++|+|+|||||++.||+|||++|||||||
T Consensus 81 ~mAQ~fs~n~~Ll~~~GnFGs~~~G~~aAa~RYie~rLs~~~~~~~~~~d~~~~~~~~n~Dg~~~EP~~~~p~iP~lLvN 160 (445)
T smart00434 81 RMAQDFSNNYPLLDGQGNFGSRLDGDDAAAMRYTETRLSPLARELLPDIDKDTVDFVPNYDGQEIEPTVLPPIIPNLLVN 160 (445)
T ss_pred HHHHHHHCCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCHHCCCCCCHHEEE
T ss_conf 98474340554230588867889998203367888637799999876438780755438898726751027766730030
Q ss_pred CCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEE
Q ss_conf 66504677775167778899999999987286532013443203677887760106988999898503341599999998
Q gi|254780353|r 179 GTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCV 258 (753)
Q Consensus 179 g~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~ 258 (753)
||+||||||||+||||||.|||+||+++|++|+++.++|+.+++||||||||.++ |+|+|++||+|++
T Consensus 161 Gs~GIavG~sT~IPphN~~evi~a~~~~l~~~~~~~~~l~~~p~~pdF~gg~~~~------------g~g~~~~rg~~~~ 228 (445)
T smart00434 161 GSSGIAVGMATNIPPHNLREVIDAVRRLIDNPEASIDELMMIPWGPDFPTGGEII------------GPGSYVVRGKIEI 228 (445)
T ss_pred CCCCEEEEEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCEEEE------------CCCEEEEEEEEEE
T ss_conf 7874254230477887889999988766518878889996388428999816993------------3986999999999
Q ss_pred EECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCC-CCCEEEEEEEECCCCCHHHHHHHHHHHCCCCC
Q ss_conf 64378840799952420021689999999986402221345776406-76605889850454588999998754200001
Q gi|254780353|r 259 EEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDES-AEDVRIVLFPKNRSLDPDLLMESIFMLSDMET 337 (753)
Q Consensus 259 e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeS-d~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~ 337 (753)
|+ ++++|+||||||++|+++++|+|+++++++|+++|.|++||| ++++.++++..+++++++.++++|||+|+||+
T Consensus 229 ~~---~~~~i~ItELP~g~~t~~~~e~i~~lv~~~ki~~i~~~~des~~~~~vrivI~lk~~~~~~~~~~~L~k~tkL~~ 305 (445)
T smart00434 229 ED---GRNTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDESHDRTGVRIVIELKRGAMAEVVLNGLYKLTKLQS 305 (445)
T ss_pred EC---CCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHE
T ss_conf 87---962799994687674899999999985135666501035432887752699998899898999999998720143
Q ss_pred CCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHCCCC----
Q ss_conf 22331133312689722049999998999989999999999999999-9999999999864107899997520000----
Q gi|254780353|r 338 RFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAID-RRVEILKGLLIAYLNIDEIIAIIRNEDK---- 412 (753)
Q Consensus 338 sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~-~RlhIleGl~~a~~~ID~vI~iIR~s~~---- 412 (753)
||++||++|+++++|++++++|||++|++||.++++||++|+|++++ +|+|+++|++++..++|+||.++|++++
T Consensus 306 s~s~N~~~l~~~g~p~~~~~~eIL~~f~~~R~~~~~kR~~~~L~kl~~~r~~i~~~~fi~~~~~d~ii~~~r~~~~~~~~ 385 (445)
T smart00434 306 TFSINMLALFDNGKPKKYNLKEILKEFLDHRLEVYTRRKEYLLGKLEAERLHILEGLFIALSIIDEIIVLIRSSKDLAKE 385 (445)
T ss_pred ECCEEEEEEECCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCCHHHH
T ss_conf 41517999976993578525999999999999999999999999999999999886999997346577655368726999
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
Q ss_conf 11000000257757788998878999988999976667899998877654420397887
Q gi|254780353|r 413 PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQ 471 (753)
Q Consensus 413 ~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l 471 (753)
++..++.+|++|+.||+|||+|||+|||++|++|+++|+++|++++++|+++|.++..+
T Consensus 386 lk~~l~~~~~~s~~q~~yLL~M~L~~LT~~e~~kL~~E~~~l~~ei~~l~~~l~~~~wl 444 (445)
T smart00434 386 AKELLMERFELSEEQADAILDMRLRRLTKLEVEKLEKELKELEKEIEDLEKILASELWL 444 (445)
T ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCC
T ss_conf 99818866799999999999668998728899999999999999999998468696544
No 11
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=100.00 E-value=0 Score=1119.54 Aligned_cols=441 Identities=46% Similarity=0.757 Sum_probs=425.6
Q ss_pred HCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCC
Q ss_conf 10476411289704689999999868999898035405366654276887478999999961001321661326788708
Q gi|254780353|r 40 ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFG 119 (753)
Q Consensus 40 ~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfG 119 (753)
+|||||++||||||||||||||++++|.++++|+||||+||+|||+||||||+|+|||||||||+||+|+||++||||||
T Consensus 2 ~RaiP~~~DGlKP~qRkiL~~~~~~~l~~~~~~~Kva~l~G~v~~~~~~HGe~sl~~aiv~mAQ~fsnn~~Ll~~~GnFG 81 (445)
T cd00187 2 GRALPDVRDGLKPVQRRILYAMFKRGLTPDKPEKKVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNFG 81 (445)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCEECCCCCC
T ss_conf 87788611488789999999999707988998515510046565046898688999999998676550575331689889
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHH
Q ss_conf 86779710024689985599999984218786175216799632422312345267642665046777751677788999
Q gi|254780353|r 120 NIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEI 199 (753)
Q Consensus 120 s~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev 199 (753)
|++||+||||||||||||+++..||.++|+++|+|++||||++.||+|||+++|++|||||+||||||||+||||||.||
T Consensus 82 sr~g~~aAa~RYi~trLs~~~~~lf~~~d~~~l~y~~nyDg~~~EP~~~~p~iP~iLvNGa~GIgtG~sT~IP~hNp~ei 161 (445)
T cd00187 82 SRDGDDAAAMRYTETRLSPIARLLLPDIDDPTVDFVPNYDGQEVEPEVLPPIFPNLLVNGSSGIAVGMATNIPPHNLREV 161 (445)
T ss_pred CCCCCCCCCHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHCCCCHHHHHCCCEEEEEEECCCCCCCCHHHH
T ss_conf 99998321034565320076999864026450335358899736742205433077634661334200056788788999
Q ss_pred HHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCH
Q ss_conf 99999987286532013443203677887760106988999898503341599999998643788407999524200216
Q gi|254780353|r 200 CEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQK 279 (753)
Q Consensus 200 ~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k 279 (753)
++|++++|++|+++.+++|++++||||||||.|. +.+++.++|+||+|+|++||+|++++.+ ++++|+|||||||+|+
T Consensus 162 i~~~~~~i~~~~~~~~~l~~~~~~P~f~~~g~I~-~~~~~~~~~~tG~g~~~~rg~~~~~~~~-~~~~I~ITELP~g~~t 239 (445)
T cd00187 162 IDALRALIDNPEASIDELMEIIKGPDFPTGGIIE-GRAGIREAYETGRGRYIIRGKYEIEDDE-GRNTIEITELPYQVNK 239 (445)
T ss_pred HHHHHHHHCCCCCCHHHHHCCCCCCCCCCCCEEE-CCCCCHHHEECCCCEEEEEEEEEEEECC-CCCEEEEEECCCCCCH
T ss_conf 9999877607776578873678899899994685-5654012123279738997899998048-8627999955887889
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHH
Q ss_conf 89999999986402221345776406766058898504545889999987542000012233113331268972204999
Q gi|254780353|r 280 SRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDG 359 (753)
Q Consensus 280 ~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~e 359 (753)
++++|+|++++++||+++|+|++|+|++++.++++..+++++++.++++|||+|+||++|++||+|++.+++|+.+++.+
T Consensus 240 ~~~~e~i~~lv~~kk~~~I~d~~D~st~~~v~~vI~lk~~~~~~~~~~~L~k~tkL~~s~s~Nm~~~~~~g~p~~~~~~e 319 (445)
T cd00187 240 AKLKEKIAELVKDKKIEGISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQTTFGINMVAFDPNGRPKKLNLKE 319 (445)
T ss_pred HHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCHHEEECCEEEEEECCCCEEECCHHH
T ss_conf 99999999986247787466522268877247999977986668899999987150103033389993799775506999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC---CCCCHHHHHHHHHHHH
Q ss_conf 9998999989999999999999999999999999986410789999752000011000000---2577577889988789
Q gi|254780353|r 360 ILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSR---FSLTENQVDAILNLRL 436 (753)
Q Consensus 360 il~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~~k~~L~~~---f~lse~QA~aIL~mrL 436 (753)
||+.|++||.+++.||.+|+|+++++|+|||+|+++++.+||+||++||.++++++.+++. |+|++.||+|||+|||
T Consensus 320 IL~~f~~~R~~~y~kR~~~~L~kl~~rl~il~~~~~fi~~id~ii~~ir~~~~~k~~l~~~l~~~~~~~~q~dyLL~M~L 399 (445)
T cd00187 320 ILQEFLDHRLEVYTRRKEYELGKAEARLHILEGLLKAILNIDEVINLIRSSDEAKKALIEELEKLGFSEIQADAILDMRL 399 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf 99999999999999999999999999999986499999979999999985351799999998767999999999997669
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf 9998899997666789999887765442039788789999999999
Q gi|254780353|r 437 RSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREV 482 (753)
Q Consensus 437 ~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~ei 482 (753)
++||++|++++++|+++|++++++|+++|+|++++++++++||.|.
T Consensus 400 ~~LT~~e~~kL~~e~~~l~~ei~~L~~~l~~~~~~~~~~~~EL~ef 445 (445)
T cd00187 400 RRLTKLEREKLLKELKELEAEIEDLEKILASEERPKDLWKEELDEF 445 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCC
T ss_conf 9875899999999999999999999998679688999999998509
No 12
>pfam00521 DNA_topoisoIV DNA gyrase/topoisomerase IV, subunit A.
Probab=100.00 E-value=0 Score=1051.50 Aligned_cols=420 Identities=48% Similarity=0.790 Sum_probs=401.8
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCC
Q ss_conf 04764112897046899999998689998980354053666542768874789999999610013216613267887088
Q gi|254780353|r 41 RAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGN 120 (753)
Q Consensus 41 Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs 120 (753)
|||||++||||||||||||||+++++.++++|.|||++||+|||+||||||+|+|+|||+|||+|++|+||++|||||||
T Consensus 1 RaiP~~~DGLKP~qRkil~~~~~~~l~~~~~~~Kva~l~G~v~~~YHpHGe~sl~~tiv~mAQ~f~~n~~Ll~~~GnFGs 80 (428)
T pfam00521 1 RAIPDVRDGLKPVQRRILYAMFELGLNLDKKYKKVARLVGDVMGKYHPHGDASIYDALVRMAQDFVGNIPLLDGQGNFGS 80 (428)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf 99985234787899999999997278889986056433365663568885899999999986763156553216888888
Q ss_pred C-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHH
Q ss_conf 6-779710024689985599999984218786175216799632422312345267642665046777751677788999
Q gi|254780353|r 121 I-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEI 199 (753)
Q Consensus 121 ~-~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev 199 (753)
+ +|++||||||||||||+++..||.++|.++|+|++||||+..||+|||++||++|||||+||||||||+||||||.||
T Consensus 81 r~~g~~~AA~RYi~trLs~~~~~if~~~d~~~l~~~~~yDg~~~EP~~y~piiP~iLvNG~~GIgtG~sT~IP~hNp~ei 160 (428)
T pfam00521 81 RLDGDKAAAMRYTEARLSKIARELFKDIDKDTVDFVPNYDGSEKEPTVLPPIIPNLLVNGASGIAVGMATNIPPHNLGEV 160 (428)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHCCCCCCHHHHCCCCCCEEHEECCCCCCCHHHH
T ss_conf 88898327788999757499999976426350155057898706751106655676623787301000027788888999
Q ss_pred HHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCH
Q ss_conf 99999987286532013443203677887760106988999898503341599999998643788407999524200216
Q gi|254780353|r 200 CEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQK 279 (753)
Q Consensus 200 ~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k 279 (753)
|+||+++|++|++++ +..++||||||||.++ +.+++.++|.||+|+|++||+|++++ +++|+||||||++|+
T Consensus 161 i~~~~~~l~~~~~~~---~~~~~~P~f~~f~g~i-~~~~~~~~y~tG~G~~~~rg~~~i~~----~~~i~ITELP~g~~t 232 (428)
T pfam00521 161 IDALIALLDGPEITL---LLKIPGPDFPTGGGII-GSGGIREAYKTGRGKITVRAKIEIEE----RKTIVITELPYGVWT 232 (428)
T ss_pred HHHHHHHHCCCCCCC---CCCCCCCCCCCCCEEE-CCCCHHHHHHCCCCEEEEEEEEEEEC----CCEEEEEECCCCCCH
T ss_conf 999999853997223---5757899799986245-66116777643883599987999940----526999944777789
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHH
Q ss_conf 89999999986402221345776406766058898504545889999987542000012233113331268972204999
Q gi|254780353|r 280 SRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDG 359 (753)
Q Consensus 280 ~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~e 359 (753)
++++|+|+++++++|+++ +|+||+||++++++|.++ ++++++.++++|||+|+||+||++|++++.++ .|+++++++
T Consensus 233 ~~~~e~l~~l~~~~ki~~-~di~D~Sd~~vr~vI~lk-~~~~~~~~~~~L~k~~kL~~s~s~nnm~l~d~-~pk~~s~~e 309 (428)
T pfam00521 233 EKLIESIEELVKNGKIKG-SDIRDESDRGVRIVIELK-RGADPEVVLNKLYKKTKLQSSFSTNNLVLFDG-GPKYLNLKE 309 (428)
T ss_pred HHHHHHHHHHHHCCCCCC-CCCCCCCCCCEEEEEEEC-CCCCHHHHHHHHHHHHHHHEECCCEEEEEECC-CCCHHHHHH
T ss_conf 999999999984588787-731016788567999857-87656789999998630010046379999679-873742999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCCCCCCCCCCCHHHHHHHHHHHH
Q ss_conf 99989999899999999999999999999999999864107899997520000---110000002577577889988789
Q gi|254780353|r 360 ILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDK---PKPVMVSRFSLTENQVDAILNLRL 436 (753)
Q Consensus 360 il~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~---~k~~L~~~f~lse~QA~aIL~mrL 436 (753)
||++|++||.++++||++|+|+++++|+|||+||++|++++|+||++||++.+ +|..|++ .|++.|++|||+|||
T Consensus 310 IL~~f~~~R~~~y~kR~~~~l~kl~~~l~iL~gl~~~~~~idfIi~iI~~s~~~~~~k~~L~~--~L~~~q~dyLL~m~L 387 (428)
T pfam00521 310 ILKEFLEHRLEVYKRRKEYLLEKLEERLHILEGLLKALNKIDFVIEVIRGSIDLNKAKKELIE--ELSEIQADYLLDMRL 387 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH--HCCHHHHHHHHHHHH
T ss_conf 999999999999999999999999999999988999998499999999768961689999999--748998999997689
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
Q ss_conf 9998899997666789999887765442039788789
Q gi|254780353|r 437 RSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWN 473 (753)
Q Consensus 437 ~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~ 473 (753)
++||++|++++++|+++|++++++|+++|+|+.++|.
T Consensus 388 ~~LT~~e~~kL~~e~~~l~~ei~~l~~~l~s~~~lw~ 424 (428)
T pfam00521 388 RRLTKEEIEKLEKEIEELEKEIAELEKILASEKKLWI 424 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_conf 9872889999999999999999999977389999988
No 13
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=0 Score=860.95 Aligned_cols=603 Identities=26% Similarity=0.433 Sum_probs=475.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 31999999888888899985104764112897046899999998689998980354053666542768874789999999
Q gi|254780353|r 20 VSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99 (753)
Q Consensus 20 ~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v 99 (753)
..+..--+++||+||+|||.+||+|+++||||||||||||+|++| .+.+|.|+|+|||++| +||||||+|||||||
T Consensus 23 ~~~~gmy~~wfldYasyvil~RAvp~i~DGlKPvqRril~sm~~~---~dgr~~KvAnivG~tm-~yhPHGdasi~dalv 98 (879)
T PRK12758 23 THVGGMYQNWFLDYASYVILERAVPHIEDGLKPVQRRILHSMKRL---DDGRYNKVANIVGHTM-QYHPHGDASIGDALV 98 (879)
T ss_pred EECHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH---HCCCCCEEEEECCCCC-CCCCCCCCHHHHHHH
T ss_conf 450134788888776865335205640027853899999999861---0776302320102320-248887423899999
Q ss_pred HHCCHHHCCCCCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHC
Q ss_conf 6100132166132678870886-779710024689985599999984218786175216799632422312345267642
Q gi|254780353|r 100 RLAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLAN 178 (753)
Q Consensus 100 ~maq~~~~~~pli~g~GnfGs~-~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~N 178 (753)
+|+| +..|||+|||||++ .||+||||||+|||||++|.+++ ++++|++|+++|||+.+||++||++||+||++
T Consensus 99 ~~~q----k~~lid~qGN~Gni~tgd~aaA~RYiE~rls~fa~ev~--fn~~~t~~~~sYDgr~kEP~~lP~kfPllL~~ 172 (879)
T PRK12758 99 QLGQ----KDLLIDCQGNWGNILTGDGAAAPRYIEARLSKFALEVL--FNPKTTEWQLSYDGRKKEPVTLPVKFPLLLAQ 172 (879)
T ss_pred HHHC----CCEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHE--ECCCCCEEEECCCCCCCCCCCCCCCCHHHHHC
T ss_conf 8624----33368647776676878722314467564207779870--38775534545687657864255211677761
Q ss_pred CCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCC--CEEEEEEEE
Q ss_conf 665046777751677788999999999872865320134432036778877601069889998985033--415999999
Q gi|254780353|r 179 GTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGR--GGFRVRARW 256 (753)
Q Consensus 179 g~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~--G~i~~r~k~ 256 (753)
|++||||||||+|||||+.|+|+|.++++++...++. |||||||.+- . .-|..|+ |++++||+.
T Consensus 173 g~eGIAVGlstkilphNf~El~~a~i~~l~~~~~~l~--------PDF~tgG~~d--~----s~YndG~rgG~v~vRaki 238 (879)
T PRK12758 173 GVEGIAVGLSSKILPHNFNELIDASIAYLRGEEFKLY--------PDFQTGGSID--V----SNYNDGERGGRVKVRAKI 238 (879)
T ss_pred CCCCEEEEEECCCCCCCHHHHHHHHHHHHCCCCCEEC--------CCCCCCCEEC--H----HHHHCCCCCCEEEEEEEE
T ss_conf 6762685001464887889999999999759985488--------7898875405--6----451044458548999999
Q ss_pred EEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCC
Q ss_conf 98643788407999524200216899999999864022213457764067660588985045458899999875420000
Q gi|254780353|r 257 CVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDME 336 (753)
Q Consensus 257 ~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq 336 (753)
+..+ ++.|+|+||||++++++||++|..+.+.|||+ |+.|.|.+..++.+.|.+ .++.+|+..+..||++|+||
T Consensus 239 ~~~d----~~tl~I~eiP~g~tt~sLi~SI~kAn~kGKIK-Ikki~DnTa~~VEI~i~L-~~Gvs~dktidaLYAFTdCE 312 (879)
T PRK12758 239 NKLD----NKTLVITEIPYGTTTSSLIDSILKANDKGKIK-IKKVDDNTAADVEILVHL-APGVSSDKTIDALYAFTDCE 312 (879)
T ss_pred EEEC----CCEEEEEECCCCCCHHHHHHHHHHHHHCCCCC-EEEECCCCCCCEEEEEEC-CCCCCHHHHHHHHHHHCCCE
T ss_conf 9805----96699985499875799999999998759711-466324677740699983-89998789899876303562
Q ss_pred CCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH---HHH--------HHHHH
Q ss_conf 12233113331268972204999999899998999999999999999999999--999998---641--------07899
Q gi|254780353|r 337 TRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEI--LKGLLI---AYL--------NIDEI 403 (753)
Q Consensus 337 ~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhI--leGl~~---a~~--------~ID~v 403 (753)
+|+|.|..+|.++ .|..+++.|+|+.-.+|-.+++++.++.+|.+.+++||. ||-+.+ .+. .-++|
T Consensus 313 vSISPn~cVI~dn-kP~fl~VseiLk~std~t~~LLk~ELei~l~eLeekwH~~SLErIFIEnRIYrd~~IEe~~t~E~V 391 (879)
T PRK12758 313 VSISPNCCVIDDD-KPHFLGVSEVLRISTDRTLDLLKQELEIQLEELLEQLHFASLEKIFIEERIYKDKEFEESETWEDA 391 (879)
T ss_pred ECCCCCEEEEECC-CCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHCCCCCHHHH
T ss_conf 2058764999899-443842899999999999999999999889999999999989999977565144000355689999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 99752000011000000257757788998878999988999976667899998877654420397887899999999998
Q gi|254780353|r 404 IAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVK 483 (753)
Q Consensus 404 I~iIR~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eik 483 (753)
++.|...-.|-.....+ .+++.--.-.+++|++|+++++++|-.++++.|.++|++.+.-|++ +...-+.-++.++
T Consensus 392 i~~I~~gL~Pf~~~L~R-eVt~eDI~rLtEIkIkRISkFDidKa~e~I~~le~~I~eVk~nL~n---lt~YaI~yf~~Lk 467 (879)
T PRK12758 392 LLHIDDRLEPFKKQFIR-EVTEDDILRLTEIKMKRILKFNSDKAEELIARLEEDIAEVEHHLEH---IIDYTIAWFTMLK 467 (879)
T ss_pred HHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
T ss_conf 99999999998886337-8888999998631377755418788999999999999999988887---8999999999999
Q ss_pred HHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCE
Q ss_conf 74177433455542000011000000110024566705998710102025655445532234555554012111147817
Q gi|254780353|r 484 EIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRI 563 (753)
Q Consensus 484 kkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~L 563 (753)
++||..+ .|||.|-.++..+.. ...+.++.+ |+-|.. |--|.++|.+. +++.|+.-|.+
T Consensus 468 kKYGkg~---~RKTEI~~Fd~I~A~---kVa~~N~KL--------YvNRee----GFiGt~lKkdE---fv~dCSdiDDI 526 (879)
T PRK12758 468 EKYGKGF---PRRTELRNFDTIEAT---KVVEANEKL--------YINREE----GFIGTGLKKDE---FVADCSDIDDV 526 (879)
T ss_pred HHHCCCC---CCCCEEEECCCEEHH---HHHHHHCEE--------EEECCC----CEECCCCCCCC---EEEECCCCCEE
T ss_conf 9866999---764034100315277---773531779--------982456----61101324774---44303571228
Q ss_pred EEEECCCEEEEEEHHHCCCCCCCCCCCC--CCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEE-
Q ss_conf 8980688278755112121234444222--2357676530789998579985999974897899638874023335627-
Q gi|254780353|r 564 LLLSTDGKAYTLPAGNLLSGRGHGEAIQ--LLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKT- 640 (753)
Q Consensus 564 LffTs~GkvY~l~a~~Ips~~~kG~pI~--~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~- 640 (753)
++|+..|++-..++.+ ..--|..|. ++++-.+...|-+|+--+.... .-|+||.....+. |.-..
T Consensus 527 IvF~kDG~~~VtKV~d---K~FVGKdIihv~vfkK~D~rtiYN~IYrDGk~g------~syiKRF~Vtgvt---RDk~Y~ 594 (879)
T PRK12758 527 IVFYRDGKYMVTKVAD---KKFVGKDIIYVAVFKKNDKRTIYNVIYRDGKSG------PSYIKRFNVTGVT---RDKEYD 594 (879)
T ss_pred EEEECCCCEEEEECCC---CEEECCCCEEEEEEECCCCCEEEEEEEECCCCC------CEEEEEEECCCEE---ECCCCC
T ss_conf 9992388589998167---445336757999750588732889999738888------5655763124143---134024
Q ss_pred EEEECCCCCEEEEEECC-CC-EEEE--EECCC--CEEEEEH--HHCCCCCH-HHCCEEE
Q ss_conf 88536898056889618-98-0999--95699--3899557--87783361-2141334
Q gi|254780353|r 641 FLKVSSEEKMKLVVKVT-GD-HVAV--VGENR--KLLIFSI--DQIPEMSR-GKGVRLQ 690 (753)
Q Consensus 641 ~ikLk~~D~li~v~~~~-~d-~iil--iT~~G--k~LrF~~--~eIr~~gR-gkGVk~i 690 (753)
..+-..+..+.....-. |+ +++- +..++ +-+.|+. +++...|| ++|..+-
T Consensus 595 lt~g~~gSkvlYfsaNpNGEAE~V~v~Lr~~~~~kkl~~d~DFsdi~IKGR~skGNivT 653 (879)
T PRK12758 595 LTQGTPGSRVLYFSANPNGEAEVVTVTLKPNPRIRKLVFEKDFSEIAIKGRQSQGNILT 653 (879)
T ss_pred CCCCCCCCEEEEEECCCCCCEEEEEEEECCCCCCCCEEEECCHHHHHCCCCCCCCEEEE
T ss_conf 66799998899995189986268999964585534156413677710014455651675
No 14
>PTZ00108 DNA topoisomerase II; Provisional
Probab=100.00 E-value=0 Score=496.76 Aligned_cols=439 Identities=21% Similarity=0.341 Sum_probs=337.9
Q ss_pred CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHH--HCCCCCCH
Q ss_conf 4245665319999998888888999851047641128970468999999986899989803540536665--42768874
Q gi|254780353|r 13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEV--IGKLHPHG 90 (753)
Q Consensus 13 ~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v--~gkyhPHG 90 (753)
.+-....+++.+.+....+-|+++= ..|+||++.|||||.||+|||+++..++..+ .|+|..+|-| +..|| ||
T Consensus 721 ld~~~~~i~~~dFinkELi~FS~~D-~~RSIPs~~DGlKp~QRKvl~~~fkrn~~~e---iKVaQlaGyVse~saYH-HG 795 (1506)
T PTZ00108 721 VDHKEKDLSYYDFVNKELIYYSRYD-TERSIPNIMDGWKPGQRKVLYGCFKRNLKNE---CKVAQLVGYIAEHSAYH-HG 795 (1506)
T ss_pred CCCCCCCCCHHHHHHHHHHHCCHHH-HHHHCCHHHCCCCHHHHHHHHHHHHHCCCCC---EEHHHHHHHHHHHCCCC-CC
T ss_conf 3566785438774437888642887-6512411330577124424498786347762---23215088987630467-63
Q ss_pred HHHHHHHHHHHCCHH--HCCCCCCCCCCCCCCC--CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC---CCCEE
Q ss_conf 789999999610013--2166132678870886--7797100246899855999999842187861752167---99632
Q gi|254780353|r 91 DQSVYDSLVRLAQPF--VQRYPLISGQGNFGNI--DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTY---NEEDS 163 (753)
Q Consensus 91 d~s~y~a~v~maq~~--~~~~pli~g~GnfGs~--~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~---D~~~~ 163 (753)
++|+.+|+|.|||+| |+|.+|+.+.|+|||+ +|++|||+||++++|++++..+|..-|.. +.+| ||...
T Consensus 796 E~SL~~tIv~mAQ~fvGsNNinlL~P~GqFGtR~~GGkDaas~RYIfT~l~~~~r~iF~~~Dd~----lL~y~~ddg~~i 871 (1506)
T PTZ00108 796 ESSLQQTIINMAQTFVGSNNINFLEPCGQFGSRKEGGKDASAARYIFTKLASSTRSIFNEYDDP----ILKYLNEEGQKI 871 (1506)
T ss_pred HHHHHHHHHHHHHHCCCCCCHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCHHHHHHCCCCCHH----HHHCCCCCCCCC
T ss_conf 8999999999987535656631045578752545588755560257663158888538933022----550203689631
Q ss_pred EEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 42231234526764266504677775167778899999999987286532013443203677887760106988999898
Q gi|254780353|r 164 EPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESY 243 (753)
Q Consensus 164 EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y 243 (753)
||.++.+.+|++|||||.||++||+|+||||||.||++++.++|++.+. ..+..+.+| | + |.| .
T Consensus 872 EP~~Y~PiiPmvLvNG~~GIGTGwSt~ip~ynp~dii~ni~r~l~ge~~--~~m~Pwy~g--f-~-G~i----------~ 935 (1506)
T PTZ00108 872 EPQYYIPVIPTILVNGCEGIGTGYSSFIPNYNYKDIIDNIKRYINKEPL--IPMIPWYKD--F-K-GRI----------E 935 (1506)
T ss_pred CCCEECCCCCEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCC--CCCCCCCCC--C-C-CEE----------E
T ss_conf 5430205566787337762026634778999999999999998569988--627755379--6-2-169----------9
Q ss_pred HCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCC-CCEEEEEEEECCCCCH
Q ss_conf 503341599999998643788407999524200216899999999864022213457764067-6605889850454588
Q gi|254780353|r 244 RLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESA-EDVRIVLFPKNRSLDP 322 (753)
Q Consensus 244 ~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd-~~~~~vi~~~~r~~~~ 322 (753)
.+|.+++.+.|.++.- +.+.+.|||||.++|+..+-|.+..++.+++-+.|.|++++++ ..++.+|..-. +.-.
T Consensus 936 ~~~~~~y~~~G~~~~~----~~~t~~ItELPi~~WT~~yKe~le~~~~~~~~~~i~d~~e~~t~~~V~F~i~~~~-~~~~ 1010 (1506)
T PTZ00108 936 SNGKTGYETIGIIHKI----DDDTLEINELPIKKWTQDYKEFLEELLTDEKHQLILDYIDNSSHEDICFTIKMDP-AKLK 1010 (1506)
T ss_pred ECCCCEEEEEEEEEEE----CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHCCCCCEEEEEEEECH-HHHH
T ss_conf 8689718998799995----7987999858987626999999998750467774000043179975899999588-9989
Q ss_pred HHHHHHHHHHCCCCCCCCC-CEEEEE-CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHH
Q ss_conf 9999987542000012233-113331-268972204999999899998999999999999999999999999---99864
Q gi|254780353|r 323 DLLMESIFMLSDMETRFPL-NMNVLS-MGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKG---LLIAY 397 (753)
Q Consensus 323 ~~vl~~Lyk~T~Lq~sf~~-N~~~l~-~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleG---l~~a~ 397 (753)
...-.-|.+.-.|++++++ ||++++ .|+.-+.-+..+||++|+..|.+.+.+|..|.|.+.+..+.+|+- |+.++
T Consensus 1011 ~~~~~gl~k~fKL~~~i~t~Nm~~Fd~~g~i~kY~~~~~Il~eF~~~Rl~~Y~kRK~~l~~~l~~~~~~l~nqaRFI~~v 1090 (1506)
T PTZ00108 1011 KAEEEGLEKVFKLKSTLTTTNMTLFDPNLKLQRYSTELDILKDFCFHRLKAYENRKSYLISKLEKEKKIISNKSKFILAI 1090 (1506)
T ss_pred HHHHHCHHHHHCCCCEEEECCEEEECCCCCEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 98760666651123134205268988999966459999999999999999999999999999999999864255656640
Q ss_pred HH---------HHHHHHHHHCCC-CC-------C-CCCCC----------------CCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 10---------789999752000-01-------1-00000----------------025775778899887899998899
Q gi|254780353|r 398 LN---------IDEIIAIIRNED-KP-------K-PVMVS----------------RFSLTENQVDAILNLRLRSLRKLE 443 (753)
Q Consensus 398 ~~---------ID~vI~iIR~s~-~~-------k-~~L~~----------------~f~lse~QA~aIL~mrL~rLt~le 443 (753)
-+ =.++|+-.+... +| + ....+ .-+++...-+|+|.|+|..||..-
T Consensus 1091 i~~~l~v~nkkk~~li~eL~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ydYLL~M~iwsLT~Er 1170 (1506)
T PTZ00108 1091 VNNELIVNKKKKKVLVEELYRKGYDPYKDINKIKKEEIFEQELLDAADNPEDNEEIIAGISVKDYDYLLSMPIFSLTLEK 1170 (1506)
T ss_pred CCCEEEEECCCHHHHHHHHHHCCCCCCCCHHHHHHHCCCHHHHHCCCCCCCCCHHHCCCCCCCCCHHHHCCCHHHCCHHH
T ss_conf 06758993576899999999749997741124333010002210122355442010146776784366388123200999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 9976667899998877654420397887899999999998741
Q gi|254780353|r 444 EYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIF 486 (753)
Q Consensus 444 ~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkf 486 (753)
.++|..|.++..+|.++|.+ .+...+|.- +|.++-+.|
T Consensus 1171 ~~~L~~~~~~k~~El~~L~~--~s~~dlW~~---DLd~fee~~ 1208 (1506)
T PTZ00108 1171 VEDLLAQHKEKEKELEILKN--ITVETMWLK---DIEKVEEAI 1208 (1506)
T ss_pred HHHHHHHHHHHHHHHHHHHC--CCHHHHHHH---HHHHHHHHH
T ss_conf 99999999999999999976--898999999---999999999
No 15
>KOG0355 consensus
Probab=99.96 E-value=6.1e-30 Score=244.70 Aligned_cols=638 Identities=8% Similarity=-0.095 Sum_probs=455.4
Q ss_pred CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHH
Q ss_conf 42456653199999988888889998510476411289704689999999868999898035405366654276887478
Q gi|254780353|r 13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQ 92 (753)
Q Consensus 13 ~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~ 92 (753)
.+-+++++.|..|-.+.++-|+-++|-.|+.|+.+++++|+++++|+||+..+-...+.+.++++.++.+.+.+|||++.
T Consensus 72 ~~m~~i~v~i~~e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~ekK~tggrngygakLcniFs~~f~~ 151 (842)
T KOG0355 72 PKMNTIKVTIDKEKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFTV 151 (842)
T ss_pred CCCCEEEEEECCCCCEEEEEECCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEECCCCCEE
T ss_conf 77652688871677679999579721312234222453478876644115678875432367775020343211454036
Q ss_pred HHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH-HHHHHCCCCCCCCCCCCCCCEEEEEEECCC
Q ss_conf 9999999610013216613267887088677971002468998559999-998421878617521679963242231234
Q gi|254780353|r 93 SVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAE-LILQGVDEDAVDFRDTYNEEDSEPVVFPSK 171 (753)
Q Consensus 93 s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~-~ll~di~~~~v~~~~n~D~~~~EP~~lp~~ 171 (753)
.+||..++|||.++.+-|+.-++++|++.+.|++ ||+++++|-.+ ..+.++|.+||+++.+++-...+|. .|++
T Consensus 152 Et~d~~~~~~~kQ~w~~nm~~~~~~~i~~~~~~~----yTkitF~PDl~~F~m~eLD~Div~l~~rr~~d~a~~~-~~vk 226 (842)
T KOG0355 152 ETADREYKMAFKQTWINNMTRDEEPKIVPSTDED----YTKITFSPDLEKFKMKELDDDIVALMARRAYDLAGSV-KSVK 226 (842)
T ss_pred EEEEHHHHHHHHHHHHCCCCCCCCCEEECCCCCC----CCEEEECCCHHHCCCHHHCCHHHHHHHHHHHHHCCCC-CCEE
T ss_conf 5300677778777652687656786552258999----5369968476752722322318876776666523442-1215
Q ss_pred CCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEE
Q ss_conf 52676426650467777516777889999999998728653201344320367788776010698899989850334159
Q gi|254780353|r 172 FPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFR 251 (753)
Q Consensus 172 ~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~ 251 (753)
+|..+-|++++++++||+++|| ++ -.+.....|.++..+-.|+.-...-++|++ |..........+-|+.+.++
T Consensus 227 v~ln~~~~~~~~f~~yv~~~~~-~~--~~~~~~~~ihe~~~~RwEv~~a~s~~~fqq---isfvNsI~T~kGGThVd~V~ 300 (842)
T KOG0355 227 VELNGKNIPVKGFYDYVKMYLE-VL--WLNDDLKPLHEVLNFRWEVALALSDVGFQQ---VSFVNSIATTKGGTHVDYVV 300 (842)
T ss_pred EEECCCCCCCHHHHHHHHHCCC-CC--CCCCCCHHHHCCCCHHHHHHHHHCCCCCCE---EEEECCCEECCCCCCCCHHH
T ss_conf 6516887752017788762353-22--246752222004324888865504466533---54200101047986544166
Q ss_pred EEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHH
Q ss_conf 99999986437884079995242002168999999998640222134577640676605889850454588999998754
Q gi|254780353|r 252 VRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFM 331 (753)
Q Consensus 252 ~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk 331 (753)
-+.+.+++++-...+.-.++++|++.+++-+.-.|..++++...++.+.-++.++...+.+...++....+...++. +-
T Consensus 301 D~iv~~l~~vvkKk~~~~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~ 379 (842)
T KOG0355 301 DQIVAKLIDVVKKKKVKKDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VV 379 (842)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCHHHHHCCEEEEEEEEECCCCCCCCCHHHCCCCCCCCCCEEEEHHHHHHHHHHCC-HH
T ss_conf 55777888874211346654446453303569999887427663443310126663454326763167799998676-49
Q ss_pred HCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H
Q ss_conf 2000012233113331268972204999999899998999999999999999999999999998641078999975---2
Q gi|254780353|r 332 LSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAII---R 408 (753)
Q Consensus 332 ~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iI---R 408 (753)
.+-+|.++++++..|.+. .++.++..+.+..+.+.+.....+..+-.| -+.++-|..++-.-.+...++..--| |
T Consensus 380 esils~s~~~~~~dL~kk-~~~~~s~~e~I~KleDa~~ag~k~s~kctl-IltEgdsaksLavsGl~vvgRd~~gVfplr 457 (842)
T KOG0355 380 ESILSKSLNKYKDDLAKK-RGKLTSRSKGIPKLEDANDAGTKTSEKCTL-ILTEGDSAKSLAVSGLSVVGRDYYGVFPLR 457 (842)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHCCCCCHHHHHHCCCCCCCCCCCEEE-EEECCCCCHHHEECCCCCCCEEEEEECCCC
T ss_conf 999998888898765444-344433201306765233244345543168-886155203320135554660467550112
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH-HHHHHHHHHHCC
Q ss_conf 0000110000002577577889988789999889999766678999988776544203978878999-999999987417
Q gi|254780353|r 409 NEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQI-ACEIREVKEIFS 487 (753)
Q Consensus 409 ~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI-~~EL~eikkkfg 487 (753)
..--...++-.+..+...|+++|+.+=..++++.+...-.--|-++ +--....+ |-+..+.+| --+..+....|.
T Consensus 458 gklLNv~e~s~kqilkn~EI~aIikIlgl~~~~~y~~~eslryg~~---mimtDQd~-dgshikgllInf~~~~~psl~~ 533 (842)
T KOG0355 458 GKLLNVREASHKQILKNAEINAIIKILGLQYKKKYFDVESLRYGKL---MIMTDQDH-DGSHIKGLLINFIHHFWPSLLQ 533 (842)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHE---EEEECCCC-CCCHHHHHHHHHHHHHHHHHHC
T ss_conf 3134457777988877999999999998877533133122242224---66512345-6434777889889876588635
Q ss_pred CCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCC-------CCCCCCCCCCCCCCEEEEEECCC
Q ss_conf 74334555420000110000001100245667059987101020256554-------45532234555554012111147
Q gi|254780353|r 488 KSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHS-------VDLSALHFKEGDSLKIALHAHTT 560 (753)
Q Consensus 488 d~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~-------~~~~~~~~KegD~l~~~~~~~t~ 560 (753)
.| -+.+..... +..+.-+ +..-..|-.+|.|+.+... ...+|+++...|.....|.|.-|
T Consensus 534 ~~--------fleefitpi--~k~~~~~---~~~~fys~pey~kw~~~~~~~~~~~ikyykglgts~~~e~keyf~~~~~ 600 (842)
T KOG0355 534 IP--------FLEEFITPI--VKATKGK---QEVSFYSLPEYEKWKKNTDNWKSWKIKYYKGLGTSTSKEAKEYFSDLDR 600 (842)
T ss_pred CC--------CHHHCCCCC--EEECCCC---CCEEEECCHHHHHHHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHCHHH
T ss_conf 87--------421047764--5740477---4314544565788875484424422377514774547899998616001
Q ss_pred CCEEEEECCCEEEEEEHHHCCCC--CCCCCCCCCCCCCCCCCEEEEEEEECC--CCEEEEEECCCCEEEEEHHHHHCCCC
Q ss_conf 81789806882787551121212--344442222357676530789998579--98599997489789963887402333
Q gi|254780353|r 561 DRILLLSTDGKAYTLPAGNLLSG--RGHGEAIQLLIDLNHNQDIVTAFVYDS--TCKLLVVSSKGNAFIVEESEIIANTR 636 (753)
Q Consensus 561 d~LLffTs~GkvY~l~a~~Ips~--~~kG~pI~~ll~l~~~EkIv~~~~~~~--~~~lll~Tk~G~ikr~~l~~~~~~~k 636 (753)
+.++|+.+.|..+....+.++.. .+++++|.++.+...+ +....+++++ +.+++|.+.+ -+..+...-+...++
T Consensus 601 h~~~F~~~~~~d~~~i~~af~k~k~~~rk~wL~~~~~~~~~-~~~~~v~~sdf~~elilf~~~~-sIp~~~dglkpgqRk 678 (842)
T KOG0355 601 HRILFKYDGGIDDEAIDMAFSKKKIDARKEWLRKYMPEYLY-KTTKFVTISDFVKELILFSNAD-SIPSLVDGLKPGQRK 678 (842)
T ss_pred HEEEEECCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHCC-CCCCEEEHHHHHHHHHHHHHCC-CCHHHHHCCCCCCHH
T ss_conf 23787525750477886422310066677689986566413-6652557899999999987215-207677235866223
Q ss_pred CCEEEEEECCCCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCH
Q ss_conf 5627885368980568896189-8099995699389955787783361
Q gi|254780353|r 637 KGKTFLKVSSEEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSR 683 (753)
Q Consensus 637 ~Gk~~ikLk~~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gR 683 (753)
-+..+++..+++++.++.++.. +++.....+++.+.--+..++...+
T Consensus 679 v~~~~~k~n~~~E~Kv~ql~g~v~~~s~yhhge~sl~~ti~~l~q~~~ 726 (842)
T KOG0355 679 VLFTCFKRNDKREVKVAQLAGSVAEMSAYHHGEQSLMSTIVNLAQDFV 726 (842)
T ss_pred HHHHHHHHCCCCCEEEEEECCHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf 346767644766255433024788888774342769999998887505
No 16
>KOG0355 consensus
Probab=99.96 E-value=1e-37 Score=303.14 Aligned_cols=167 Identities=29% Similarity=0.471 Sum_probs=141.2
Q ss_pred EEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHH--HCCCCCCHHHHH
Q ss_conf 665319999998888888999851047641128970468999999986899989803540536665--427688747899
Q gi|254780353|r 17 VKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEV--IGKLHPHGDQSV 94 (753)
Q Consensus 17 i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v--~gkyhPHGd~s~ 94 (753)
-..+++.+.. +.|+-+++.= +||.+.|||||.||++||++.+++...+ .|.||.+|.| +..|| ||++|+
T Consensus 644 ~~~v~~sdf~-~elilf~~~~----sIp~~~dglkpgqRkv~~~~~k~n~~~E---~Kv~ql~g~v~~~s~yh-hge~sl 714 (842)
T KOG0355 644 TKFVTISDFV-KELILFSNAD----SIPSLVDGLKPGQRKVLFTCFKRNDKRE---VKVAQLAGSVAEMSAYH-HGEQSL 714 (842)
T ss_pred CCEEEHHHHH-HHHHHHHHCC----CCHHHHHCCCCCCHHHHHHHHHHCCCCC---EEEEEECCHHHHHHHHH-CCCHHH
T ss_conf 5255789999-9999987215----2076772358662233467676447662---55433024788888774-342769
Q ss_pred HHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf 99999610013216613267887088677971002468998559999998421878617521679963242231234526
Q gi|254780353|r 95 YDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPN 174 (753)
Q Consensus 95 y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~ 174 (753)
..|+|+|||+|.. .+||++||+|++|++.+..++.--|...-. -.|=||...||++.| .+||
T Consensus 715 ~~ti~~l~q~~~g----------------kdaa~~ryi~t~l~~~tr~~f~~~dd~ll~-~~~~~~~~vep~y~p-i~p~ 776 (842)
T KOG0355 715 MSTIVNLAQDFVG----------------KDAASARYIFTKLSPLTRLLFPPADDLLLK-YLNEDGQRVEPEYCP-IIPM 776 (842)
T ss_pred HHHHHHHHHHHCC----------------CCCHHHHHHHHHCCHHHHHCCCCCCHHHHH-HHCCCCCCCCCCCCC-CEEE
T ss_conf 9999988875058----------------840236789885273654027888326766-522578671752244-1468
Q ss_pred HHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf 764266504677775167778899999999987286
Q gi|254780353|r 175 LLANGTSGIAVGMATSIPSHNVQEICEAALALIDNP 210 (753)
Q Consensus 175 lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~ 210 (753)
+|+||+.||++||+|+||++|+.||++.+.+++++.
T Consensus 777 vlvngaegiGtGws~~i~n~n~~~iv~~~r~~~~~~ 812 (842)
T KOG0355 777 VLVNGAEGIGTGWSTFIPNYNPREIVKNIRRLINGE 812 (842)
T ss_pred EEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 885056545567656688889899999998863699
No 17
>PRK13979 DNA topoisomerase IV subunit A; Provisional,Validated
Probab=99.93 E-value=6.8e-24 Score=199.18 Aligned_cols=187 Identities=17% Similarity=0.161 Sum_probs=149.0
Q ss_pred ECCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCC-CCCCCEEEEEEE---ECCCCEEEEEECCCCEEEEEHHHHH
Q ss_conf 114781789806882787551121212344442222357-676530789998---5799859999748978996388740
Q gi|254780353|r 557 AHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLID-LNHNQDIVTAFV---YDSTCKLLVVSSKGNAFIVEESEII 632 (753)
Q Consensus 557 ~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~-l~~~EkIv~~~~---~~~~~~lll~Tk~G~ikr~~l~~~~ 632 (753)
+++.+.+++|++.|++|.++++.+.+..+.|.++..+.. +..+|+|+.++. ++++.+++.+|++|++|||.+.+|.
T Consensus 753 ~~~~~~ili~~~~G~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~e~vi~~~~~~~~~e~~~il~vTe~G~GKRT~~~eyr 832 (959)
T PRK13979 753 TNSSKNLLLFSDKGKVYKIPAFMLQNIEESGINISALTGDFEKKESIINAISIFEFEEDLSIYFFSKKGLVKKTLLSEFK 832 (959)
T ss_pred CCCCCCEEEECCCCCEEECCHHHCCCCCCCCCCCHHHHHHHCCCCCEEEEEECCCCCCCCEEEEEECCCCCCCCCHHHHC
T ss_conf 56631135432577233032432023355564502222121022302466520357776159999358974666567733
Q ss_pred CCCCCCEEEEEECCCCCEEEEEE-C-CCCEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCC-EEEEEEEECCCC
Q ss_conf 23335627885368980568896-1-898099995699389955787783361-2141334218787-568999733888
Q gi|254780353|r 633 ANTRKGKTFLKVSSEEKMKLVVK-V-TGDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGG-ISDVICFKICEG 708 (753)
Q Consensus 633 ~~~k~Gk~~ikLk~~D~li~v~~-~-~~d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~-~~~~~~~~~~e~ 708 (753)
...+.|+.+..-...+.++++.. . ++|+++++|++|+++||+.++|+.+|| ++||++|+|++++ ++.+..+..++.
T Consensus 833 ~~g~~~~~~k~~~~~~~~v~~~~~~~~~d~imliT~~G~~IR~~v~~I~~~GR~tqGV~li~L~~~dkVV~~~~i~~~~~ 912 (959)
T PRK13979 833 GEGNSTQVYKFKHKEDELVSVDINEHEQKNILIITKKGMAIRFKSEAVNPMGKIASGVTGISLKDEDKVIFGSIIDENDT 912 (959)
T ss_pred CCCCCEEEEEEEECCCCEEEEEEECCCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCEEEEECCCCCEEEEEEEECCCCC
T ss_conf 46786489998844897899997048996389990798799987243470260368806897389987999999747777
Q ss_pred CEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCCC
Q ss_conf 36999417756645114322544413666027552
Q gi|254780353|r 709 LTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKG 743 (753)
Q Consensus 709 ~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k~ 743 (753)
..+...++++.++..+..+..+|+|+|+|..+|-.
T Consensus 913 ~~~~~~~k~~~~~~~~~~~~~~q~~~g~g~~~~~~ 947 (959)
T PRK13979 913 RKIKLKSKAKDKGEIEIEDIKLQNRAGRGNSLMPL 947 (959)
T ss_pred CEEEEEECCCCCCEEEHHHHHHCCCCCCCCEEEEE
T ss_conf 45999973886627871131100026787247886
No 18
>PRK05560 DNA gyrase subunit A; Validated
Probab=99.92 E-value=6e-23 Score=192.08 Aligned_cols=186 Identities=22% Similarity=0.307 Sum_probs=155.0
Q ss_pred CCCCEEEEECCCEEECCCCCCC------CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCC-C-CCCCC
Q ss_conf 6670599871010202565544------55322345555540121111478178980688278755112121-2-34444
Q gi|254780353|r 517 KEPITVVISNRGWIRSLKSHSV------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLS-G-RGHGE 588 (753)
Q Consensus 517 ~E~v~V~LS~~GyIKr~k~~~~------~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips-~-~~kG~ 588 (753)
++.-.+++|++|+||+.+...+ |...++++++|.+..+..|+..+.++++|+.|++...+..++|. | .++|.
T Consensus 608 ~~~~Lv~~Tk~G~IKRt~L~df~~~r~~G~~AikLke~DeLv~v~l~~~~~dIil~T~~G~alRF~~~eVR~~GR~a~GV 687 (822)
T PRK05560 608 DDLYLFFATKNGTVKKTALSEFSNIRSNGLIAINLDEGDELIGVRLTDGDDDVLLFSANGKAIRFPEEDVRPMGRTARGV 687 (822)
T ss_pred CCCEEEEEECCCCEEEECHHHCCCCCCCCEEEEECCCCCEEEEEEECCCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCC
T ss_conf 88569999579727971368722555255199985899779999984899879999789739995066577778877684
Q ss_pred CCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCC--EEEEEECC-CCCEEEEEECCC-CEEEEE
Q ss_conf 22223576765307899985799859999748978996388740233356--27885368-980568896189-809999
Q gi|254780353|r 589 AIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKG--KTFLKVSS-EEKMKLVVKVTG-DHVAVV 664 (753)
Q Consensus 589 pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~G--k~~ikLk~-~D~li~v~~~~~-d~iili 664 (753)
-- +.|.++++|+++...+++.++|++|++|++||+++++|....|.| ...+++.+ ++.++++..+.+ |+++++
T Consensus 688 kg---IkL~~gD~VV~~~vv~~~~~iL~vTe~G~GKRt~~~eyr~~~RGgkGv~~ik~~~k~G~lv~~~~V~~~deI~li 764 (822)
T PRK05560 688 RG---IKLREGDEVVSMSVLRDEQFVLTVTENGYGKRTPAEEYRLQGRGGKGVIAIKITERNGKLVGAVPVDDDDEIMLI 764 (822)
T ss_pred CC---EECCCCCEEEEEEEECCCCEEEEEECCCEEEECCHHHCCCCCCCCCCEEEEEECCCCCCEEEEEECCCCCEEEEE
T ss_conf 31---551999989999985799879999189805305288837557787775889964888848999991799869999
Q ss_pred ECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEE-EEEEEEC
Q ss_conf 5699389955787783361-214133421878756-8999733
Q gi|254780353|r 665 GENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGIS-DVICFKI 705 (753)
Q Consensus 665 T~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~-~~~~~~~ 705 (753)
|++|+++|+++++||.+|| ++||++|+|++++.+ .+..+..
T Consensus 765 T~~G~~iRi~v~~I~~~gR~t~GVrl~~L~~~d~v~~va~v~~ 807 (822)
T PRK05560 765 TDAGKLIRTRVSEIRITGRNTQGVTLIRLDEGEKVVSVARVAE 807 (822)
T ss_pred ECCCEEEEEEHHHCCCCCCCCCCEEEEECCCCCEEEEEEEECC
T ss_conf 2798799987100475675788708998599998999998078
No 19
>TIGR01063 gyrA DNA gyrase, A subunit; InterPro: IPR005743 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively. This entry represents the A subunit (gyrA) as found predominantly in bacteria, but does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. GyrA has two functional domains: an N-terminal that forms the covalent DNA-protein bridge that is responsible for the breaking- and rejoining function, and a C-terminal that can bind DNA non-specifically . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=99.89 E-value=1.3e-21 Score=181.95 Aligned_cols=180 Identities=21% Similarity=0.290 Sum_probs=135.8
Q ss_pred CCC---CEEEEECCCEEECCCCCC------CCCCCCCCCCCCCCEEEEEECCCCC-EEEEECCCEEEEEEHH--HC-C-C
Q ss_conf 667---059987101020256554------4553223455555401211114781-7898068827875511--21-2-1
Q gi|254780353|r 517 KEP---ITVVISNRGWIRSLKSHS------VDLSALHFKEGDSLKIALHAHTTDR-ILLLSTDGKAYTLPAG--NL-L-S 582 (753)
Q Consensus 517 ~E~---v~V~LS~~GyIKr~k~~~------~~~~~~~~KegD~l~~~~~~~t~d~-LLffTs~GkvY~l~a~--~I-p-s 582 (753)
|+. -+++.|++|+|||..... .|.-++++.|||++..+..|...|. +++||..|++..++.. ++ | +
T Consensus 630 d~~~~~yl~~aTk~G~vKk~~L~~F~~~rs~GiiAi~L~e~D~L~~v~~~~~~~~~v~l~s~~G~~~RF~~~~~~vR~mg 709 (864)
T TIGR01063 630 DEAYDLYLFLATKNGVVKKTSLTEFSNIRSNGIIAIKLDEGDELISVRLVDGDDEKVMLGSKNGKAVRFPEEDEEVREMG 709 (864)
T ss_pred CCCCCEEEEEECCCCEEEEEECHHHHHHHHCCEEEEEEECCCEEEEEEEEECCCCEEEEEECCCCEEECCCCCCCHHCCC
T ss_conf 55266179997267438874001443545278699997089689999996078865886514884798368853110024
Q ss_pred CCCCCCCCCCCCCCCCC----------------------------CEEEEEEEECCCC-EEEEEECCCCEEEEEHHHHHC
Q ss_conf 23444422223576765----------------------------3078999857998-599997489789963887402
Q gi|254780353|r 583 GRGHGEAIQLLIDLNHN----------------------------QDIVTAFVYDSTC-KLLVVSSKGNAFIVEESEIIA 633 (753)
Q Consensus 583 ~~~kG~pI~~ll~l~~~----------------------------EkIv~~~~~~~~~-~lll~Tk~G~ikr~~l~~~~~ 633 (753)
+.+.|.-= +.|..+ +.++++....++. ++|.+|.+|||||++.++|..
T Consensus 710 R~~~GV~G---i~L~~~~~v~~~~~~~~i~~~~~D~~~~~L~~NlD~vv~~~~~~e~~~~lL~vt~nGyGKRt~~~~yr~ 786 (864)
T TIGR01063 710 RATRGVRG---IKLKNEDSVISMTVLKGINSIKEDRNLEELGVNLDFVVSLEVVSEESQKLLIVTENGYGKRTSIEEYRL 786 (864)
T ss_pred CCCCCEEE---EEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCEEEEEEECCCCEECCHHHCCC
T ss_conf 55676013---540677740001344321200222246543742434477786249983789983068420042625763
Q ss_pred CCCCCEEEEEEC--C-CCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEE
Q ss_conf 333562788536--8-980568896189-8099995699389955787783361-2141334218787568
Q gi|254780353|r 634 NTRKGKTFLKVS--S-EEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISD 699 (753)
Q Consensus 634 ~~k~Gk~~ikLk--~-~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~ 699 (753)
..|.|+.+..++ + +..|+++..+.+ |+++++|+.|+++|.++.+|+.+|| ++|||+++|++++.+.
T Consensus 787 ~~RGg~Gv~~~~~~~r~G~vVga~~V~~~d~lm~iT~~G~~iR~~~~~vs~~GR~t~GVrL~~l~e~d~vv 857 (864)
T TIGR01063 787 QSRGGKGVKSIKITDRNGQVVGAIAVDDDDELMLITSSGKLIRTSVQDVSIQGRNTQGVRLIRLDEDDKVV 857 (864)
T ss_pred CCCCCCEEEEEEEECCCCCEEEEEEECCCCHHHHEECCCCEEEEEEEHHCCCCCCCCCEEEEEECCCCCEE
T ss_conf 26566237889986468968789874587400010108837997610321156535655898517876356
No 20
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=99.61 E-value=1.1e-12 Score=114.98 Aligned_cols=184 Identities=13% Similarity=0.068 Sum_probs=140.9
Q ss_pred CCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCC
Q ss_conf 14781789806882787551121212344442222357676530789998579985999974897899638874023335
Q gi|254780353|r 558 HTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRK 637 (753)
Q Consensus 558 ~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~ 637 (753)
..-+-.+.+|..|-+-+++.+.... . -+.+.+++.+..++......+++|+|.+|.++.....++.+.+..
T Consensus 506 ~~E~v~V~lS~~GyIKr~k~~~~~~---~------~~~~Ke~D~v~~~~~~~T~d~LLfFTn~Grvy~lkv~~IP~~r~~ 576 (745)
T PRK05561 506 PDEPVTVVLSKKGWVRRAKGHDIDP---A------GLGYKEGDSLLFAFEARTTDKLLFFTSTGRVYSLPVHELPSARGQ 576 (745)
T ss_pred CCCCCEEEECCCEEEEEECCCCCCC---C------CCCCCCCCCEEEEEEEECCCEEEEEECCCEEEEEEHHHCCCCCCC
T ss_conf 6766189981780499844888675---4------456777853258999806976999957975999892208786678
Q ss_pred CEE---EEEECCCCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCHHHCCEEEECCCCCEEEEEEEECCCCCEEEE
Q ss_conf 627---885368980568896189-8099995699389955787783361214133421878756899973388836999
Q gi|254780353|r 638 GKT---FLKVSSEEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKDGGISDVICFKICEGLTWID 713 (753)
Q Consensus 638 Gk~---~ikLk~~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gRgkGVk~i~Lkd~~~~~~~~~~~~e~~~il~ 713 (753)
|.. .+.+.+++.++++...++ ++++++|++|+..+++.+++.. .|.+|.++|+|++++..............++.
T Consensus 577 G~pi~nll~L~~~EkIv~vl~~~~~~~lllaTk~G~~kr~~l~e~~~-~~k~G~~ai~L~~gDelv~~~~i~~~~d~I~l 655 (745)
T PRK05561 577 GEPLTGLIDLEPGEEIVHVLVGDPDQKLLLASSAGYGFVVSEEDLVG-RNRAGKAVINLKDGDKVLAPVPVEGDEDSLAA 655 (745)
T ss_pred CCCHHHCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEEHHHHCC-CCCCCEEEEEECCCCEEEEEEEECCCCCEEEE
T ss_conf 80898806899999699999858987699997893299978698004-46267188861899889888994699988999
Q ss_pred ECCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf 4177566451143225444136660275526776861049
Q gi|254780353|r 714 SAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSGKFLSS 753 (753)
Q Consensus 714 ~t~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~gklV~A 753 (753)
+|.+|+..+.+..+.+.++| ++||+.++. .+.++++++
T Consensus 656 vT~~Gk~lrF~~~evr~~gR-gkGVkgikL-k~~D~Vv~~ 693 (745)
T PRK05561 656 ITQRGRLLVFPLSELPELSR-GKGVKLIEL-KKEEGLADL 693 (745)
T ss_pred EECCCCEEEEEHHHCCCCCC-CCCCCEEEE-CCCCEEEEE
T ss_conf 95898289979888777575-468014766-899989999
No 21
>COG0188 GyrA Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]
Probab=99.61 E-value=9.2e-14 Score=123.03 Aligned_cols=176 Identities=23% Similarity=0.380 Sum_probs=89.7
Q ss_pred CCCEEEEECCCEEECCCCCC------CCCCCCCCCCCCCCEEEEEEC-CCCCEEEEECCCEEEEEEHHHCCC-C-CCCCC
Q ss_conf 67059987101020256554------455322345555540121111-478178980688278755112121-2-34444
Q gi|254780353|r 518 EPITVVISNRGWIRSLKSHS------VDLSALHFKEGDSLKIALHAH-TTDRILLLSTDGKAYTLPAGNLLS-G-RGHGE 588 (753)
Q Consensus 518 E~v~V~LS~~GyIKr~k~~~------~~~~~~~~KegD~l~~~~~~~-t~d~LLffTs~GkvY~l~a~~Ips-~-~~kG~ 588 (753)
+.-.++.|+.||+|+.+... .+...++++++|.+.....+. ..+.++++|+.|++...+..++|. + .++|.
T Consensus 601 ~~~l~~~T~~G~vK~~~l~~f~~~~~~g~~ai~L~~~d~l~~~~~~~~~~~~i~~~t~~G~~~~F~~~~v~~~gr~a~Gv 680 (804)
T COG0188 601 DQYLFLATKKGYVKKTSLSEFKNIRSKGKIAIKLKEGDELVSVSLTSDGDDDILLVTSNGKALRFPESEVREMGRGAKGV 680 (804)
T ss_pred CEEEEEEECCCCEEEEEHHHHHCCCCCCEEEEECCCCCCEEEEEECCCCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCC
T ss_conf 60599991699479820355312356770689717776301245215787608999148737874034422115413686
Q ss_pred CCCCCCCCCCCCEEEEEEEECCCC-EEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCC----EEEEEECCC-CEEE
Q ss_conf 222235767653078999857998-5999974897899638874023335627885368980----568896189-8099
Q gi|254780353|r 589 AIQLLIDLNHNQDIVTAFVYDSTC-KLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEK----MKLVVKVTG-DHVA 662 (753)
Q Consensus 589 pI~~ll~l~~~EkIv~~~~~~~~~-~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~----li~v~~~~~-d~ii 662 (753)
.. +.+.+++.++++....++. +++.+|++|++|+++..+|...+|.|+..+..+..+. ++....+.+ |+++
T Consensus 681 ~~---i~l~~~d~~~~~~~~~~~~~~~l~~t~~g~~kr~~~~~~~~~~Rg~~G~~~~~~~~~~~~~~~~~~~v~~~~~~~ 757 (804)
T COG0188 681 KG---IKLKEGDKVVSLSVVEDDEAKLLTVTERGYGKRTKISEYPVTKRGGKGVILIKGTKRNRGKVVAAITVDEDDEIM 757 (804)
T ss_pred CE---EECCCCCEEEEEEECCCCCEEEEEEECCCCEEECCHHHCCCCCCCCCCEECCCCCCCCCCEEEEEECCCCCCEEE
T ss_conf 40---643765756653201478605899843672000414213424667664124545556553377641368875389
Q ss_pred EEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCC
Q ss_conf 995699389955787783361-2141334218787
Q gi|254780353|r 663 VVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGG 696 (753)
Q Consensus 663 liT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~ 696 (753)
++|+.|+++|...++++.+|| ++||+.+++.+++
T Consensus 758 ~~t~~g~~ir~~~~~i~~~~r~t~gv~~~~~~~~~ 792 (804)
T COG0188 758 LITSRGKLIRTAVSEISITGRNTQGVKLINLDEDE 792 (804)
T ss_pred EECCCCEEEEEECCCCCCCCCCCCCEEEEECCCCC
T ss_conf 98269638985314323124445662765317997
No 22
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit; InterPro: IPR005741 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit A (parC) of topoisomerase IV from Gram positive bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=98.98 E-value=2.2e-08 Score=82.53 Aligned_cols=176 Identities=19% Similarity=0.299 Sum_probs=134.6
Q ss_pred CCC-CCCEEEEECCCEEECCCCCCC-----------CCCCCC-CCCCCCCEEEEEECCCC----CEEEEECCCEEEEEEH
Q ss_conf 456-670599871010202565544-----------553223-45555540121111478----1789806882787551
Q gi|254780353|r 515 IEK-EPITVVISNRGWIRSLKSHSV-----------DLSALH-FKEGDSLKIALHAHTTD----RILLLSTDGKAYTLPA 577 (753)
Q Consensus 515 I~~-E~v~V~LS~~GyIKr~k~~~~-----------~~~~~~-~KegD~l~~~~~~~t~d----~LLffTs~GkvY~l~a 577 (753)
+.+ -+..+++|..|-+=-.+-|.. =..... +-++..+..+...+.-| .|+++|..|.+=++..
T Consensus 539 ~~nttd~lL~~Ts~g~~In~pvh~La~~rwkd~g~hls~~~~n~~~~E~iv~v~~~~~fdv~~~~L~l~sklg~vKriel 618 (745)
T TIGR01061 539 IANTTDKLLIFTSKGNLINLPVHKLADIRWKDLGEHLSNKITNFDENETIVAVEILNEFDVDEAILVLASKLGMVKRIEL 618 (745)
T ss_pred HHHCCCEEEEEECCCCEEEEEEEECCCCCHHHHHHHHCCHHHHHHCCCCEEEEEEECCCCCCHHHHHHHHHCCCEEEEEC
T ss_conf 52122537887616666421303145665668998720001102106848999861322574689899875587478760
Q ss_pred HHCCCCC---CCCCCCCCCCCCCCCCEEEEEEEECC--CCEEEEEECCCCEEEEEHHHHH--CCCCCCEEEEEECCCCCE
Q ss_conf 1212123---44442222357676530789998579--9859999748978996388740--233356278853689805
Q gi|254780353|r 578 GNLLSGR---GHGEAIQLLIDLNHNQDIVTAFVYDS--TCKLLVVSSKGNAFIVEESEII--ANTRKGKTFLKVSSEEKM 650 (753)
Q Consensus 578 ~~Ips~~---~kG~pI~~ll~l~~~EkIv~~~~~~~--~~~lll~Tk~G~ikr~~l~~~~--~~~k~Gk~~ikLk~~D~l 650 (753)
.++...+ +|-. ..++|.+++..++++.... ++.++++|..||+-....+|.. +....|.++|+||++|.+
T Consensus 619 ~~l~~~~~y~sK~~---~~~~L~D~d~li~a~~~~~Gh~~~i~lvS~~gy~l~F~~~Ei~~~~~~A~GvK~mkLK~~D~v 695 (745)
T TIGR01061 619 TELDIKRNYRSKAI---LILKLKDEDELISAFLQKKGHDKLIILVSKLGYALLFLVEEINVVGAKAAGVKGMKLKEDDEV 695 (745)
T ss_pred CCCCCCCCCHHHHH---HHHHCCCCCCEEEEEEECCCCCCEEEEEEECCCEEEECCEEECCCCCCCCCEEEEECCCCCEE
T ss_conf 32477865101223---321117895438999841888441899973683577302033231446673113305767638
Q ss_pred EEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCHH-HCCEEE-ECC
Q ss_conf 68896189-80999956993899557877833612-141334-218
Q gi|254780353|r 651 KLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSRG-KGVRLQ-SYK 693 (753)
Q Consensus 651 i~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gRg-kGVk~i-~Lk 693 (753)
.++..++. +.++++|+.|-+.+|+.+|+...+|+ +|+++. .++
T Consensus 696 ~~~~i~~~~~~~vll~~~Gs~k~~~~~El~~~sRa~~~~~llRp~k 741 (745)
T TIGR01061 696 KSGLILEANESLVLLTQRGSVKRLSISELKVTSRAATGVKLLRPLK 741 (745)
T ss_pred EEEEEECCCCCEEEEEECCCEEEEEHHHHHHHHHHCCCCHHHCCCC
T ss_conf 9999982799558997368256510365555343116511110000
No 23
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit; InterPro: IPR005742 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit A (parC) of topoisomerase IV from Gram negative bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=97.70 E-value=0.0022 Score=44.95 Aligned_cols=189 Identities=8% Similarity=0.058 Sum_probs=130.8
Q ss_pred CCCCCCCCCEEEE---EECCCCCE-EEEECCCEEEEEEHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEE
Q ss_conf 2345555540121---11147817-8980688278755112121234444222235767653078999857998599997
Q gi|254780353|r 543 LHFKEGDSLKIAL---HAHTTDRI-LLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVS 618 (753)
Q Consensus 543 ~~~KegD~l~~~~---~~~t~d~L-LffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~l~~~EkIv~~~~~~~~~~lll~T 618 (753)
..+.|-|.-..+. ...+...+ ++.|.-|.|=+++.|++.... ++...|+.....+....++.++|+.
T Consensus 484 ~~l~E~~~~~~~~~~t~~~~~EPvTii~S~MGWVRs~KGH~~D~~~---------l~YK~GD~~~~~~~~~~~~~v~~i~ 554 (747)
T TIGR01062 484 SSLEEREEAKQVSEITDMIPKEPVTIILSKMGWVRSAKGHDIDLST---------LKYKAGDSEKAIIEGKSNQKVVFID 554 (747)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCEEECCCCCCCCCC---------CCCCCCCCEEEEEEECCCCEEEEEE
T ss_conf 5135678888887665303678817998277735504665667143---------5413686123345512775179997
Q ss_pred CCCCEEEEEHHHHHCCCCCCE-EEEE--ECCC-CCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCHHHCCEEEECC
Q ss_conf 489789963887402333562-7885--3689-80568896189-80999956993899557877833612141334218
Q gi|254780353|r 619 SKGNAFIVEESEIIANTRKGK-TFLK--VSSE-EKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYK 693 (753)
Q Consensus 619 k~G~ikr~~l~~~~~~~k~Gk-~~ik--Lk~~-D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gRgkGVk~i~Lk 693 (753)
+.|..+-..-..+.+.+..|- ..+| +.-| ..+-.+....+ +.++++|+.|+-..+..+++=...| .|=.+|+|+
T Consensus 555 S~GR~y~l~~~~l~~a~g~G~Pl~~KL~l~~Gn~~i~~~l~~~~~Q~LL~AS~~G~GF~~~~~~liA~~k-~GK~l~~lP 633 (747)
T TIGR01062 555 STGRSYALDPLNLPSARGQGEPLTGKLLLPIGNATIENILMESENQKLLLASDAGYGFLVKFNDLIARNK-AGKALINLP 633 (747)
T ss_pred CCCCEEEECCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEEECCCCCEEEECCCCCCEEEECHHHHHHCH-HCHHHCCCC
T ss_conf 2885266311204345677872268873268862310777635885321000168624740043333110-040200178
Q ss_pred CCCEEEEEEEECCCCC-EEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCCC
Q ss_conf 7875689997338883-6999417756645114322544413666027552
Q gi|254780353|r 694 DGGISDVICFKICEGL-TWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKG 743 (753)
Q Consensus 694 d~~~~~~~~~~~~e~~-~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k~ 743 (753)
++..+ +.|....+.. .++..+..+.-.-.+..+.+.-+. |+|++..+.
T Consensus 634 E~~~~-~~p~~~~~~s~~~~aI~~a~R~L~F~~~~lP~l~K-G~G~~~~~~ 682 (747)
T TIGR01062 634 ENASV-LAPLVVNDDSDLIVAITEAGRLLVFPIDDLPELSK-GKGNKLIRI 682 (747)
T ss_pred CCCEE-ECCEEECCCCCEEEEECCCCEEEEECHHHCCCCCC-CCCCEEEEE
T ss_conf 88611-04434237610244411367068742111776347-873057750
No 24
>pfam03989 DNA_gyraseA_C DNA gyrase C-terminal domain, beta-propeller. This repeat is found as 6 tandem copies at the C-termini of GyrA and ParC DNA gyrases. It is predicted to form 4 beta strands and to probably form a beta-propeller structure. This region has been shown to bind DNA non-specifically and may stabilize the DNA-topoisomerase complex.
Probab=97.58 E-value=0.00021 Score=52.72 Aligned_cols=42 Identities=21% Similarity=0.352 Sum_probs=36.4
Q ss_pred CCEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEE
Q ss_conf 98099995699389955787783361-2141334218787568
Q gi|254780353|r 658 GDHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISD 699 (753)
Q Consensus 658 ~d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~ 699 (753)
+++++++|++|++.||+.+++|.++| ++||++|++++++.+.
T Consensus 1 ~~~lll~T~~G~~~r~~~~~~~~~~r~~~Gv~~~~l~~~d~v~ 43 (50)
T pfam03989 1 EDDLLLITSKGYVKRTPLSEFPEQGRGAKGVKAINLKEGDKVV 43 (50)
T ss_pred CCEEEEEECCCEEEEEECHHCCCCCCCCCCEEEEECCCCCEEE
T ss_conf 9789999089989998931545468768787978879999999
No 25
>PRK09630 DNA topoisomerase IV subunit A; Provisional
Probab=97.45 E-value=0.0078 Score=40.84 Aligned_cols=106 Identities=11% Similarity=-0.004 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHCCCCCCCCC-CCCCCCCHH----
Q ss_conf 99998999989999999999999999999999999986410-------789999752000011000-000257757----
Q gi|254780353|r 359 GILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLN-------IDEIIAIIRNEDKPKPVM-VSRFSLTEN---- 426 (753)
Q Consensus 359 eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~-------ID~vI~iIR~s~~~k~~L-~~~f~lse~---- 426 (753)
--|.+|+.|+.+.+....++++....+|+.--. +...+.. +|.|+++|+.....+..- ....-+...
T Consensus 307 l~l~eiL~~~~~~~~~~lrr~l~~~~~~~~r~~-~~k~Le~l~I~~~~~d~I~eiI~~i~~~~~~ed~~~~l~~~~~~~~ 385 (479)
T PRK09630 307 TSISEILKLHTEALQGYLKKELLILQDSLTREH-YHKTLEYIFIKHKLYDTVREMLSKRKTKPSASDLHNAVLHALEPFL 385 (479)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH
T ss_conf 668999999999875543466899989999999-9988889999877899999999988538989999999998765667
Q ss_pred --HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf --788998878999988999976-667899998877654420
Q gi|254780353|r 427 --QVDAILNLRLRSLRKLEEYQI-KSELDNLLAEKEKIDSLL 465 (753)
Q Consensus 427 --QA~aIL~mrL~rLt~le~~kl-~~E~~eL~~~i~~L~~IL 465 (753)
|+++++++++++|+.|+..+| .-|..++.++++++++-+
T Consensus 386 ~~~~~~i~~q~~~~L~~l~l~kL~~Le~~k~~~El~~l~~~i 427 (479)
T PRK09630 386 HTLPTAPDKQATSQLASLTIKKILCFNENAYTKELAAIEKKQ 427 (479)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 877543389999999998999875133999999999999999
No 26
>pfam03989 DNA_gyraseA_C DNA gyrase C-terminal domain, beta-propeller. This repeat is found as 6 tandem copies at the C-termini of GyrA and ParC DNA gyrases. It is predicted to form 4 beta strands and to probably form a beta-propeller structure. This region has been shown to bind DNA non-specifically and may stabilize the DNA-topoisomerase complex.
Probab=96.90 E-value=0.0029 Score=44.07 Aligned_cols=46 Identities=28% Similarity=0.319 Sum_probs=32.2
Q ss_pred CEEEEEECCCCEEEEEHHHHHCCCC--CCEEEEEECCCCCEEEEEECC
Q ss_conf 8599997489789963887402333--562788536898056889618
Q gi|254780353|r 612 CKLLVVSSKGNAFIVEESEIIANTR--KGKTFLKVSSEEKMKLVVKVT 657 (753)
Q Consensus 612 ~~lll~Tk~G~ikr~~l~~~~~~~k--~Gk~~ikLk~~D~li~v~~~~ 657 (753)
.+++++|++|++++++.+++....+ +|..+++++++|+++.+..+.
T Consensus 2 ~~lll~T~~G~~~r~~~~~~~~~~r~~~Gv~~~~l~~~d~v~~~~~~~ 49 (50)
T pfam03989 2 DDLLLITSKGYVKRTPLSEFPEQGRGAKGVKAINLKEGDKVVSVLVVN 49 (50)
T ss_pred CEEEEEECCCEEEEEECHHCCCCCCCCCCEEEEECCCCCEEEEEEECC
T ss_conf 789999089989998931545468768787978879999999999917
No 27
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=93.59 E-value=0.67 Score=26.32 Aligned_cols=351 Identities=11% Similarity=0.085 Sum_probs=142.1
Q ss_pred EEEEEEECCCCCHHHHHHHHHH--------HCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHH-------------
Q ss_conf 5889850454588999998754--------2000012233113331268972204999999899998-------------
Q gi|254780353|r 310 RIVLFPKNRSLDPDLLMESIFM--------LSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHR------------- 368 (753)
Q Consensus 310 ~~vi~~~~r~~~~~~vl~~Lyk--------~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R------------- 368 (753)
.+||.+..-.++...++.+.-+ -+++...=.-++-.++ . .|+-.+-..+|...+.|-
T Consensus 221 ~ivItEiPy~v~k~~lie~I~~~~~~~ki~I~~i~D~s~~~vrIvi-~-lk~~~~~~~vln~Ly~~T~lq~sf~~n~~ai 298 (626)
T PRK09631 221 TIVIRELPFGETTESLIASIEKAIRKNYIKVSSINDFTAENVEIEL-K-LPRGVYASEVIEKLYHYTNCQVSISVNLLLL 298 (626)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEE-E-ECCCCCHHHHHHHHHHHCCHHHEECCEEEEE
T ss_conf 5999956877778999999999997256762114146898279999-9-8999998999999875097132176268999
Q ss_pred ----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH------HHHHHHCCCCCCCCCCCCCCCC----H
Q ss_conf ----------9999999999999999999999999986410---789------9997520000110000002577----5
Q gi|254780353|r 369 ----------REVLFRRSSFRMQAIDRRVEILKGLLIAYLN---IDE------IIAIIRNEDKPKPVMVSRFSLT----E 425 (753)
Q Consensus 369 ----------~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~---ID~------vI~iIR~s~~~k~~L~~~f~ls----e 425 (753)
.+++..-+.|+.+-...|+++-.+=+..-.+ ++. +++.|++++.....+..-..-- .
T Consensus 299 ~~~~P~~l~l~eiL~~~~~h~~~vl~r~le~~l~k~~er~H~~sLe~IfIe~rIy~~Ie~~~~~e~v~~~i~~~l~pf~~ 378 (626)
T PRK09631 299 SDRYPVIYTVTDIIKFHAEHLQKILKMELELERSKILEKIFSKTLEQIFIEKKIYKILETISKEEDVVSIVLSELLPFKS 378 (626)
T ss_pred ECCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 89982798799999999999999999999988998998689999999986666899988420168899999987776788
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCH
Q ss_conf 77889988789999889999766678999988776544203978878999999999987417743345554200001100
Q gi|254780353|r 426 NQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRA 505 (753)
Q Consensus 426 ~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~ 505 (753)
.+...+-+.++.+|+.+....| ..++. .........+.+||.++++.+++- ++..|.+..
T Consensus 379 ~l~r~ite~d~~aLleirL~RI-----------T~~di--dK~~eei~~L~~eI~eI~~~L~~l-----~~~~I~~l~-- 438 (626)
T PRK09631 379 SLSRDVTEDDVENLLKIPIRKI-----------SLFDI--DKNNKDIRILNKELKSIESNIKSI-----KGYAINFID-- 438 (626)
T ss_pred HHHHCCCHHHHHHHHHHHHHHH-----------HHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH--
T ss_conf 7630157999999999899885-----------34308--879999999999999998637768-----999999999--
Q ss_pred HHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCC
Q ss_conf 00001100245667059987101020256554455322345555540121111478178980688278755112121234
Q gi|254780353|r 506 DKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRG 585 (753)
Q Consensus 506 ~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~ 585 (753)
++..+. |-.+ + .+.. +-.++.+-+-.+++.+......
T Consensus 439 -------~Lk~kY---------G~~~--~----RKTE---------------------I~lfd~i~aKrVa~~n~Kly~n 475 (626)
T PRK09631 439 -------KLLAKY---------SKEY--K----RKTE---------------------ISLIKSKNVREIATKNMKVYLN 475 (626)
T ss_pred -------HHHHHH---------CCCC--C----CEEE---------------------EEEECCEEEEEEECCCCEEEEC
T ss_conf -------999873---------5477--7----2579---------------------9976444369957023325665
Q ss_pred CCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCC--C-EEEEEECCCCEEE
Q ss_conf 444222235767653078999857998599997489789963887402333562788536898--0-5688961898099
Q gi|254780353|r 586 HGEAIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEE--K-MKLVVKVTGDHVA 662 (753)
Q Consensus 586 kG~pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D--~-li~v~~~~~d~ii 662 (753)
.|+.+.. .++.++|-|..| ++-.+++++ ++|..+.+...+-.-.-+.-..+...+.+| + +-.+.-.+|.
T Consensus 476 r~~GFiG-tslKkdDfV~~C---Sd~DdILvF-~dG~ykV~kV~~K~Fvgk~i~~v~v~~k~d~~~tiyn~IYrDgk--- 547 (626)
T PRK09631 476 LETGFVG-TSLIDGEFIGNA---SYYDKILIF-KDGSYVLKNIEDKTFIDKKNVCVLVYDINNSKEQVFSIIYRDKL--- 547 (626)
T ss_pred CCCCEEE-ECCCCCCEEEEC---CCCCEEEEE-ECCEEEEEECCCCCEECCCCEEEEEEECCCCCCEEEEEEEECCC---
T ss_conf 8885561-035678456733---566539999-89859999857760546883799998527876507999998699---
Q ss_pred EEECCCCEEEEEHHHCCCCCHHHCCEEEECCCCCEEEEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCC
Q ss_conf 99569938995578778336121413342187875689997338883699941775664511432254441366602755
Q gi|254780353|r 663 VVGENRKLLIFSIDQIPEMSRGKGVRLQSYKDGGISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPK 742 (753)
Q Consensus 663 liT~~Gk~LrF~~~eIr~~gRgkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k 742 (753)
+...++-||....+- |.+.=.+. +++. .+..|..+.++.-. ...+.........+..+.+|+.+|.++-|
T Consensus 548 --~g~~yiKRF~V~~~t---rdK~Y~l~--~~~s--~~l~fs~n~nl~~~-~~~k~~~~~~df~~~~iKgr~skGn~vtk 617 (626)
T PRK09631 548 --DNFYYVKRFKIDKFI---LDKVYEFL--PEND--EFLDFSLNPEFVPF-SRSKDIVKMIEIDNFMVKSRSSKGKRISS 617 (626)
T ss_pred --CCCEEEEEEEECCEE---ECCCCCCC--CCCC--EEEEEEECCCCCCC-CCCCCEEEEECHHHEEEECCCCCCEEEEC
T ss_conf --883689998832388---42522457--9998--79999977765745-44245147732114034144455517631
Q ss_pred C
Q ss_conf 2
Q gi|254780353|r 743 G 743 (753)
Q Consensus 743 ~ 743 (753)
.
T Consensus 618 ~ 618 (626)
T PRK09631 618 R 618 (626)
T ss_pred C
T ss_conf 4
No 28
>KOG3863 consensus
Probab=89.75 E-value=0.9 Score=25.34 Aligned_cols=61 Identities=34% Similarity=0.537 Sum_probs=40.3
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHH----------HHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_conf 078999975200001100000025775778899887899----------9988999-976667899998877654
Q gi|254780353|r 399 NIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLR----------SLRKLEE-YQIKSELDNLLAEKEKID 462 (753)
Q Consensus 399 ~ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~mrL~----------rLt~le~-~kl~~E~~eL~~~i~~L~ 462 (753)
..|+||.+.+++ -..++++|.|||.|-.-|=|+|=| |=.+|+. ..|+.|...|.++.+.|.
T Consensus 460 ~vd~IinLp~~d---Fne~ls~~~lte~QLslIrDIRRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl 531 (604)
T KOG3863 460 SVDEIINLPVDD---FNEMLSKYKLTEEQLSLIRDIRRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLL 531 (604)
T ss_pred CHHHHCCCCHHH---HHHHHHHCCCCHHHHHHHHCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 667653786889---999998502689887776502104565100132035677899988899998888889889
No 29
>KOG0772 consensus
Probab=88.92 E-value=1.9 Score=22.90 Aligned_cols=15 Identities=0% Similarity=0.158 Sum_probs=10.2
Q ss_pred CEEEEEECCCCEEEE
Q ss_conf 809999569938995
Q gi|254780353|r 659 DHVAVVGENRKLLIF 673 (753)
Q Consensus 659 d~iiliT~~Gk~LrF 673 (753)
.+|++-+.+|-+-.+
T Consensus 470 NQi~~gsgdG~~~vy 484 (641)
T KOG0772 470 NQIFAGSGDGTAHVY 484 (641)
T ss_pred HHEEEECCCCCEEEE
T ss_conf 301662379826898
No 30
>KOG1240 consensus
Probab=84.82 E-value=3.1 Score=21.32 Aligned_cols=113 Identities=18% Similarity=0.217 Sum_probs=73.9
Q ss_pred EEECCC-CEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEEC-CCCCEEEEEECC-CCEEEEEECCCCEEEEEHHHCCCCC
Q ss_conf 985799-8599997489789963887402333562788536-898056889618-9809999569938995578778336
Q gi|254780353|r 606 FVYDST-CKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVS-SEEKMKLVVKVT-GDHVAVVGENRKLLIFSIDQIPEMS 682 (753)
Q Consensus 606 ~~~~~~-~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk-~~D~li~v~~~~-~d~iiliT~~Gk~LrF~~~eIr~~g 682 (753)
....++ .+++-.+..|.+|.=.+.++......-..-..+. ++..+..+..|. ++.+++.|++|.+..+.++....-.
T Consensus 1055 a~s~~~~s~FvsgS~DGtVKvW~~~k~~~~~~s~rS~ltys~~~sr~~~vt~~~~~~~~Av~t~DG~v~~~~id~~~~~~ 1134 (1431)
T KOG1240 1055 AVSSEHTSLFVSGSDDGTVKVWNLRKLEGEGGSARSELTYSPEGSRVEKVTMCGNGDQFAVSTKDGSVRVLRIDHYNVSK 1134 (1431)
T ss_pred EECCCCCCEEEEECCCCEEEEEEEHHHHCCCCEEEEEEEEECCCCCEEEEEECCCCCEEEEECCCCEEEEEECCCCCCCC
T ss_conf 42489876579705886589865111216764035568871268846899851688768897278728999725434331
Q ss_pred H-HHCCEEEECC-CCCEEEEEEEECCCCC-EEEEECCCC
Q ss_conf 1-2141334218-7875689997338883-699941775
Q gi|254780353|r 683 R-GKGVRLQSYK-DGGISDVICFKICEGL-TWIDSAGRS 718 (753)
Q Consensus 683 R-gkGVk~i~Lk-d~~~~~~~~~~~~e~~-~il~~t~~g 718 (753)
+ +.-++..+++ +|.++..-.+...... .++..+..+
T Consensus 1135 ~~~~~~ri~n~~~~g~vv~m~a~~~~~~S~~lvy~T~~~ 1173 (1431)
T KOG1240 1135 RVATQVRIPNLKKDGVVVSMHAFTAIVQSHVLVYATDLS 1173 (1431)
T ss_pred CEEEEEECCCCCCCCCEEEEECCCCCCCCEEEEEEEECC
T ss_conf 002333135665788368863342003652699997126
No 31
>pfam04762 IKI3 IKI3 family. Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation. This region contains WD40 like repeats.
Probab=79.52 E-value=4.7 Score=19.94 Aligned_cols=124 Identities=14% Similarity=0.210 Sum_probs=49.6
Q ss_pred CCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCCC-CCCCCCC--------CCCCEEEEEEEECCCCEEEEE
Q ss_conf 55401211114781789806882787551121212--344442-2223576--------765307899985799859999
Q gi|254780353|r 549 DSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGEA-IQLLIDL--------NHNQDIVTAFVYDSTCKLLVV 617 (753)
Q Consensus 549 D~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~p-I~~ll~l--------~~~EkIv~~~~~~~~~~lll~ 617 (753)
..+..+.-..+++.+.++++.|.++... ++.+ +....| +...+++ ........-+.+..+..++++
T Consensus 422 ~~i~~vaf~~~~~~~avl~sdg~i~~~~---~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 498 (918)
T pfam04762 422 SNINDVAFSKSNSKVAVLTSDGDISIYE---LSLKARPAGSPPKLTSKFSLGSVDNSDSEVALGSLRQLAFLNDSELLVL 498 (918)
T ss_pred CCCEEEEEECCCCEEEEEECCCCEEEEE---CCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCEEEEEEECCCEEEEE
T ss_conf 9603899965898899997589899998---2566777678962100201122366533355675689999569879999
Q ss_pred ECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC-CEEEEEECCCCEEEEEHH
Q ss_conf 74897899638874023335627885368980568896189-809999569938995578
Q gi|254780353|r 618 SSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-DHVAVVGENRKLLIFSID 676 (753)
Q Consensus 618 Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~ 676 (753)
...+...+..+.... ..............+.++......+ +.+++-+..|+++..+.+
T Consensus 499 ~~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~q~~~G~v~~l~~~ 557 (918)
T pfam04762 499 SDSDNLSEIVLVDVD-DTENPLSVSSITELDGIVLILSSNDYKHVFVQTRDGKVFSLSAE 557 (918)
T ss_pred EECCCCCEEEEEECC-CCCCCEEEEEEECCCCEEEEEEECCCCEEEEEECCCEEEEEECC
T ss_conf 967998579999825-77762356566416862899940898569999579849995058
No 32
>pfam04201 TPD52 Tumour protein D52 family. The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family. These proteins have an amino terminal coiled-coil that allows members to form homo- and heterodimers with each other.
Probab=79.21 E-value=2.3 Score=22.31 Aligned_cols=57 Identities=19% Similarity=0.242 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 57788998878999--98899997666789999887765442039788789999999999874177
Q gi|254780353|r 425 ENQVDAILNLRLRS--LRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 425 e~QA~aIL~mrL~r--Lt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd 488 (753)
|.-.+++-+.-+.. |+--|++.++.|+.++.++|..|+..|..+.+.. .+||.+.|.
T Consensus 10 e~~e~~~~~~~~~~~~lseee~eel~~EL~kvEeEI~tLrqvLaaKer~~-------~elKrkLGi 68 (162)
T pfam04201 10 EPKEDQNDSSSATKIVLSEAEKEELRTELAKLEEEISTLRQVLAAKEKHL-------AELKRKLGL 68 (162)
T ss_pred CCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHCC
T ss_conf 87702330035353327899999999999999999999999999999999-------999998687
No 33
>PRK00215 LexA repressor; Validated
Probab=77.47 E-value=4.1 Score=20.38 Aligned_cols=52 Identities=19% Similarity=0.332 Sum_probs=26.0
Q ss_pred CCCEEEEEECCCCCEEEEEECCCCEEEEEECCCC--EEEEEHHHCCCCCHHHCC
Q ss_conf 3562788536898056889618980999956993--899557877833612141
Q gi|254780353|r 636 RKGKTFLKVSSEEKMKLVVKVTGDHVAVVGENRK--LLIFSIDQIPEMSRGKGV 687 (753)
Q Consensus 636 k~Gk~~ikLk~~D~li~v~~~~~d~iiliT~~Gk--~LrF~~~eIr~~gRgkGV 687 (753)
++|..+..+-+++-.+--...+++.+.|.+.|-. -+.|+.++++.+|+--|+
T Consensus 147 ~~G~Ivva~i~~e~tlKr~~~~~~~i~L~p~N~~y~pi~~~~~~~~I~G~vvg~ 200 (204)
T PRK00215 147 RNGQIVVALIDDEATVKRFRREGGHIRLLPENPAYEPIIVDPDDVTIEGKVVGL 200 (204)
T ss_pred CCCCEEEEEECCCCEEEEEEEECCEEEEECCCCCCCCEEECCCCEEEEEEEEEE
T ss_conf 899699999737758999999799999984899999877277837999999999
No 34
>pfam04799 Fzo_mitofusin fzo-like conserved region. Family of putative transmembrane GTPase. The fzo protein is a mediator of mitochondrial fusion. This conserved region is also found in the human mitofusin protein.
Probab=76.73 E-value=5.6 Score=19.37 Aligned_cols=54 Identities=17% Similarity=0.302 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHHHHHHCC
Q ss_conf 7899998899997666789999887765442039788789---99999999987417
Q gi|254780353|r 434 LRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWN---QIACEIREVKEIFS 487 (753)
Q Consensus 434 mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~---iI~~EL~eikkkfg 487 (753)
=||.+....-..++++|.++|.++|..|+.+-+.-+.+++ .+..||....+.|=
T Consensus 112 arLc~qVd~~~~~le~ei~~L~~ei~~LE~iq~~~K~LRnKA~~l~~eL~~F~~~yL 168 (171)
T pfam04799 112 ARLCQQVDVTSKDLEEEIAELTKEIQRLETIQSRSKLLRNKANLLENELEDFTKTFL 168 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 999999868999999999999999999999999989998689899999999999745
No 35
>cd07924 PCA_45_Doxase_A The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit. The A subunit is the non-catalytic subunit of Protocatechuate (PCA) 4,5-dioxygenase (LigAB), which is composed of A and B subunits that form a tetramer. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As a member of the Class III extradiol dioxygenase family, LigAB uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon.
Probab=76.44 E-value=5.7 Score=19.32 Aligned_cols=32 Identities=19% Similarity=0.303 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 10000002577577889988789999889999
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
..+.+.+|+|||.|-+||++....+|-.+--+
T Consensus 44 e~Ay~d~~~Lteeqk~aV~~RD~~~li~lGgn 75 (121)
T cd07924 44 ERAYLDKWPMTEEQKQAVLARDYNRMLALGGN 75 (121)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCC
T ss_conf 99999876999999999997479999992682
No 36
>pfam03982 DAGAT Diacylglycerol acyltransferase. The terminal step of triacylglycerol (TAG) formation is catalysed by the enzyme diacylglycerol acyltransferase (DAGAT).
Probab=75.74 E-value=0.65 Score=26.40 Aligned_cols=67 Identities=25% Similarity=0.404 Sum_probs=39.1
Q ss_pred HHHHHHHHHHCCCCCCCCCCCHHHHHHHHH----HH-------------HCCCCCCCCEEEEEHHHHHHHCCCCCCHHHH
Q ss_conf 888899985104764112897046899999----99-------------8689998980354053666542768874789
Q gi|254780353|r 31 LAYALSTIKERAIPDLRDGFKPVHRRIIHA----MS-------------EMGLDFGAAFKKSARIVGEVIGKLHPHGDQS 93 (753)
Q Consensus 31 ~~ya~~vi~~Ralpd~~DGlKpvqRril~~----m~-------------~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s 93 (753)
+-|+.+...||.-|.- .| ||.-|. ++ .-.|.|++.| +.| |||||=.+
T Consensus 13 ~~Y~~w~~~d~~tp~~-gg-----r~~~w~R~~~iwk~~~~YFPi~Lvkt~~L~p~~nY---------ifg-~hPHGil~ 76 (297)
T pfam03982 13 VLYALWLFYDWNSPKR-GG-----YRSNWARNWRIWKWFANYFPVKLHKTAELPPNRNY---------LFG-YHPHGILS 76 (297)
T ss_pred HHHHHHHHEECCCCCC-CC-----CCCHHEECCHHHHHHHHHCCCEEEECCCCCCCCCE---------EEE-ECCCCEEC
T ss_conf 9999774046788889-99-----71511013777887875188147875668998454---------888-76851032
Q ss_pred HHHHHHHHCCH---HHCCCCCCCC
Q ss_conf 99999961001---3216613267
Q gi|254780353|r 94 VYDSLVRLAQP---FVQRYPLISG 114 (753)
Q Consensus 94 ~y~a~v~maq~---~~~~~pli~g 114 (753)
.+|.+.+|.+ |+--+|-+..
T Consensus 77 -~Ga~~~f~t~~~~f~~lfPgi~~ 99 (297)
T pfam03982 77 -VGAFSNFSTNATGFMDKFPGIRP 99 (297)
T ss_pred -CCHHEEECCCCCCCHHHCCCCCC
T ss_conf -42110323455585756799987
No 37
>PRK13378 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=75.58 E-value=6 Score=19.16 Aligned_cols=32 Identities=22% Similarity=0.258 Sum_probs=26.2
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 10000002577577889988789999889999
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
..+.+.+|+|||+|-+||++....+|-.+--+
T Consensus 47 e~AY~d~~~Lteeqr~aV~~RD~~~ll~lGgn 78 (117)
T PRK13378 47 EAAYCRKYGLNEEQKEAIRNRDVLQLLAAGGN 78 (117)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf 99999876999999999997379999994674
No 38
>PRK13379 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=74.34 E-value=6.4 Score=18.94 Aligned_cols=34 Identities=15% Similarity=0.092 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 1100000025775778899887899998899997
Q gi|254780353|r 413 PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQ 446 (753)
Q Consensus 413 ~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~k 446 (753)
...+++.+|+|||+|.++|++.....|..+-.+=
T Consensus 47 De~Ay~d~~~LTeEqk~aV~~RDw~~li~~Ggni 80 (119)
T PRK13379 47 DAEALMQEADLTEQEKELIRARDWLGLVQYGANF 80 (119)
T ss_pred CHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCHH
T ss_conf 9999997759999999999961599999847639
No 39
>cd07925 LigA_like_1 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB). The proteins of unknown function in this subfamily are similar to the A subunit of the Protocatechuate (PCA) 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds.
Probab=74.16 E-value=6.4 Score=18.91 Aligned_cols=32 Identities=19% Similarity=0.224 Sum_probs=26.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 10000002577577889988789999889999
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
..+.+.+|+||++|-+||++....+|-.+--+
T Consensus 36 e~Ay~d~~~Lt~eqk~aV~~RD~~~ll~~Ggn 67 (106)
T cd07925 36 EEAYCEKFGLTPEQKQAVRNRDVLRMLEAGGN 67 (106)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf 99999876999999999997369999990663
No 40
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=73.83 E-value=6.5 Score=18.85 Aligned_cols=32 Identities=28% Similarity=0.358 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 10000002577577889988789999889999
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
..+.+.+|+|||+|-+||++....+|-.+--+
T Consensus 36 e~Ay~d~~~Lt~eqk~aV~~RD~~~ll~~Ggn 67 (106)
T cd07921 36 EEAYCDKFGLTEEQKQAVLDRDWLRLLELGGN 67 (106)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf 99999876999999999997369999990663
No 41
>KOG4010 consensus
Probab=73.61 E-value=6.5 Score=18.90 Aligned_cols=52 Identities=17% Similarity=0.307 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH-----HHHHHHHHCC
Q ss_conf 999988999976667899998877654420397887899999-----9999987417
Q gi|254780353|r 436 LRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIAC-----EIREVKEIFS 487 (753)
Q Consensus 436 L~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~-----EL~eikkkfg 487 (753)
.--|+--|.+.+..|+.++.++|..|...|+.+.+...-|+. -|.|++..+.
T Consensus 38 ~~~LSe~Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLGlt~~~EL~qnis 94 (208)
T KOG4010 38 FEALSEEEKEELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLGLTVLKELKQNIS 94 (208)
T ss_pred HHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 765068889999999999999999999999998888999999867416999999898
No 42
>PRK13377 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=72.72 E-value=6.9 Score=18.67 Aligned_cols=33 Identities=21% Similarity=0.246 Sum_probs=26.8
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 100000025775778899887899998899997
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQ 446 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~k 446 (753)
..+.+.+|+|||.|-+||++....+|-.+--+-
T Consensus 47 e~AY~d~~~Lteeqk~aV~~RD~~~li~lGgni 79 (129)
T PRK13377 47 ERAYLDEWPMTEEQKQAVLARDLNRCIALGGNI 79 (129)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCHH
T ss_conf 999998769999999999973799999926739
No 43
>pfam01401 Peptidase_M2 Angiotensin-converting enzyme. Members of this family are dipeptidyl carboxydipeptidases (cleave carboxyl dipeptides) and most notably convert angiotensin I to angiotensin II. Many members of this family contain a tandem duplication of the 600 amino acid peptidase domain, both of these are catalytically active. Most members are secreted membrane bound ectoenzymes.
Probab=70.74 E-value=3.1 Score=21.28 Aligned_cols=39 Identities=10% Similarity=0.161 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 999976667899998877654420397887899999999998741774
Q gi|254780353|r 442 LEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 442 le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
.|...++++.+.|-++++=|=.- |...+..+ +.++||+.
T Consensus 196 Ye~~~f~~~~e~lw~qvkPLY~~------LHayVR~k---L~~~YG~~ 234 (595)
T pfam01401 196 YESPTLEQDLERLYQELQPLYLN------LHAYVRRA---LHRHYGDQ 234 (595)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH---HHHHCCCC
T ss_conf 31143999999999998899999------99999999---99866621
No 44
>pfam12395 DUF3658 Protein of unknown function. This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with pfam08874. There are two completely conserved residues (D and R) that may be functionally important.
Probab=69.32 E-value=2.2 Score=22.38 Aligned_cols=35 Identities=37% Similarity=0.525 Sum_probs=22.3
Q ss_pred CCCCEEEEEHHHHHHHCCCC-CCHHHHHHHHHHHHC
Q ss_conf 98980354053666542768-874789999999610
Q gi|254780353|r 68 FGAAFKKSARIVGEVIGKLH-PHGDQSVYDSLVRLA 102 (753)
Q Consensus 68 ~~~~~~K~ar~vg~v~gkyh-PHGd~s~y~a~v~ma 102 (753)
....|.|+||+||+|||++. +-||.=+.=-+=-|+
T Consensus 57 ~~~~~~~a~rvIg~v~g~~~~~v~D~fl~~Rir~Li 92 (111)
T pfam12395 57 ATDEFQKAARVVGEVMGHLEQLVGDTFLEYRIRELI 92 (111)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf 835445999999999986677777899999999999
No 45
>pfam07746 LigA Aromatic-ring-opening dioxygenase LigAB, LigA subunit. This is a family of aromatic ring opening dioxygenases which catalyse the ring-opening reaction of protocatechuate and related compounds.
Probab=68.53 E-value=8 Score=18.21 Aligned_cols=33 Identities=21% Similarity=0.229 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 110000002577577889988789999889999
Q gi|254780353|r 413 PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 413 ~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
-..+++.+|+||+.|-+||++....+|..+-.+
T Consensus 20 D~eay~~~~~Lt~eqr~av~~rD~~~L~~~G~n 52 (88)
T pfam07746 20 DEEAYLDEYGLTEEQKAAVRARDWNGLIALGGN 52 (88)
T ss_pred CHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf 999998727999999999982669999994585
No 46
>cd06461 M2_ACE Peptidase family M2 Angiotensin converting enzyme (ACE, EC 3.4.15.1) is a membrane-bound, zinc dependent dipeptidase that catalyzes the conversion of the decapeptide angiotensin I to the potent vasopressor ocatapeptide angiotensin II, by removing two C-terminal amino acids. There are two forms of the enzyme in humans, the ubiquitous somatic ACE and the sperm-specific germinal ACE, both encoded by the same gene through transcription from alternative promoters. Somatic ACE has two tandem active sites with distinct catalytic properties, whereas germinal ACE, the function of which is largely unknown, has just a single active site. Recently, an ACE homolog, ACE2, has been identified in humans that differs from ACE; it preferentially removes carboxy-terminal hydrophobic or basic amino acids and appears to be important in cardiac function. ACE homologs (also known as members of the M2 gluzincin family) have been found in a wide variety of species, including those that neither h
Probab=68.42 E-value=4.8 Score=19.83 Aligned_cols=57 Identities=21% Similarity=0.228 Sum_probs=43.1
Q ss_pred HHCCHHHCCCCCCCCCCCCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 610013216613267887088677971-00246899855999999842187861752167
Q gi|254780353|r 100 RLAQPFVQRYPLISGQGNFGNIDGDSA-AAYRYTEARMTQVAELILQGVDEDAVDFRDTY 158 (753)
Q Consensus 100 ~maq~~~~~~pli~g~GnfGs~~~d~~-Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~ 158 (753)
.-||+|++-|+++.+..+-+++|-.+. -.--||..+|-+.|++.+..|.-.- +-++|
T Consensus 149 mWaQ~W~ni~dl~~P~p~~~~~Dvt~~m~~q~~t~~~mf~~ae~FF~SLGl~~--mp~~F 206 (477)
T cd06461 149 MWAQSWSNIYDLVKPYPGKPLLDVTDAMVEQGYTAKRMFKEAEEFFTSLGLPP--MPPSF 206 (477)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHCCCCC--CCHHH
T ss_conf 66543665420135799988888159999859989999999999999679976--99778
No 47
>TIGR00909 2A0306 amino acid transporter; InterPro: IPR004758 Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related , , . These proteins seem to contain up to 12 transmembrane segments. The best conserved region in this family is located in the second transmembrane segment. Some proteins in this group are involved in the transport of the cationic amino acids (arginine,lysine and ornithine)..
Probab=65.96 E-value=4.6 Score=20.00 Aligned_cols=35 Identities=29% Similarity=0.369 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 46899999998689998980354053666542768874789999999
Q gi|254780353|r 53 VHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99 (753)
Q Consensus 53 vqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v 99 (753)
.|=|+||||.+-|+.|. ++.|-||.=++.-+.+++
T Consensus 316 g~~RvlFAmSRDGllP~------------slSkvH~k~~tP~~~~~~ 350 (451)
T TIGR00909 316 GTSRVLFAMSRDGLLPK------------SLSKVHPKTKTPHVSILI 350 (451)
T ss_pred HHHHHHHHHHHCCCCCC------------HHHHHCCCCCCCCHHHHH
T ss_conf 89999999986177530------------376323446875048999
No 48
>COG3959 Transketolase, N-terminal subunit [Carbohydrate transport and metabolism]
Probab=65.90 E-value=9.4 Score=17.68 Aligned_cols=89 Identities=24% Similarity=0.215 Sum_probs=42.5
Q ss_pred CCCHHHHHHHHHHHHCCHHHCCCCCCCCCC-CCCCCCC----CCCCCHHHHHHHHHHH---HHHHHHHCCCCCCCCCCCC
Q ss_conf 887478999999961001321661326788-7088677----9710024689985599---9999842187861752167
Q gi|254780353|r 87 HPHGDQSVYDSLVRLAQPFVQRYPLISGQG-NFGNIDG----DSAAAYRYTEARMTQV---AELILQGVDEDAVDFRDTY 158 (753)
Q Consensus 87 hPHGd~s~y~a~v~maq~~~~~~pli~g~G-nfGs~~~----d~~Aa~RYte~rl~~~---~~~ll~di~~~~v~~~~n~ 158 (753)
||||..|+-|-|.-+=-. -||+ ++.. ++..+|- +.-||+-| +|-|... .++-|.-+.+
T Consensus 32 H~G~SLS~~eILa~LYf~-~m~~---~p~~p~~~~RDrfiLSKGHaa~Al-Ya~Lae~G~~p~eeL~~~~~--------- 97 (243)
T COG3959 32 HVGGSLSVVEILAVLYFK-IMNI---DPDDPKWPGRDRFILSKGHAAPAL-YATLAEKGYFPEEELETFRR--------- 97 (243)
T ss_pred CCCCCCHHHHHHHHHHHH-HHCC---CCCCCCCCCCCEEEEECCCCHHHH-HHHHHHCCCCCHHHHHHHCC---------
T ss_conf 757621099999999998-7266---878887777776998366413899-99999818988899997516---------
Q ss_pred CCCEE--EEEEECCCCCHHHHCCCC-----CHHHHHHHHC
Q ss_conf 99632--422312345267642665-----0467777516
Q gi|254780353|r 159 NEEDS--EPVVFPSKFPNLLANGTS-----GIAVGMATSI 191 (753)
Q Consensus 159 D~~~~--EP~~lp~~~P~lL~Ng~~-----GIavG~at~i 191 (753)
+||.. -|+. .+.|-+.+|+.| +||||||+..
T Consensus 98 ~~srL~~Hp~~--~~~pgve~stGSLGqGLsvavGmAlg~ 135 (243)
T COG3959 98 IGSRLPGHPER--NKTPGVEVSTGSLGQGLSVAVGMALGA 135 (243)
T ss_pred CCCCCCCCCCC--CCCCCEEECCCCCCCCCHHHHHHHHHH
T ss_conf 89858899765--789865626876556610788888887
No 49
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=63.24 E-value=10 Score=17.32 Aligned_cols=32 Identities=16% Similarity=0.112 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 10000002577577889988789999889999
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEY 445 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~ 445 (753)
..+.+.+|+|||+|-+||++....+|-.+-.+
T Consensus 28 e~Ay~d~~~Lt~eqk~av~~RDw~~mi~~Ggn 59 (94)
T cd07923 28 PEALFDEAGLTEEERTLIRNRDWIGMIRYGVI 59 (94)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf 99999876999999999996169999983764
No 50
>PHA00728 hypothetical protein
Probab=63.12 E-value=9.8 Score=17.54 Aligned_cols=44 Identities=27% Similarity=0.389 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 89999766678999988776544203978878999999999987417
Q gi|254780353|r 441 KLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 441 ~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
+.|.++++.|-++|.++.++|+.+++++..-. -+++.++..-|.
T Consensus 4 ~teveql~keneelkkkla~leal~nne~~~~---~e~~~eiEnPYT 47 (153)
T PHA00728 4 KTEVEQLKKENEELKKKLAKLEALLNNESAEE---EEELQEIENPYT 47 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH---HHHHHHHCCCCE
T ss_conf 46899999866999999999999974788503---566877238712
No 51
>COG3953 SLT domain proteins [General function prediction only]
Probab=62.60 E-value=4 Score=20.46 Aligned_cols=24 Identities=46% Similarity=0.566 Sum_probs=10.9
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 788708867797100246899855
Q gi|254780353|r 114 GQGNFGNIDGDSAAAYRYTEARMT 137 (753)
Q Consensus 114 g~GnfGs~~~d~~Aa~RYte~rl~ 137 (753)
|||||=..-...+||||||+.|.-
T Consensus 66 g~~ni~Npidna~AAi~yi~~rYG 89 (235)
T COG3953 66 GQGNILNPIDNAAAAIRYIKTRYG 89 (235)
T ss_pred CCCCHHCHHHHHHHHHHHHHHHCC
T ss_conf 740000326689999998862225
No 52
>KOG3584 consensus
Probab=61.07 E-value=11 Score=17.05 Aligned_cols=36 Identities=17% Similarity=0.271 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHCCH----HHHHHHHHHHHHHHHHHCC
Q ss_conf 99998877654420397----8878999999999987417
Q gi|254780353|r 452 DNLLAEKEKIDSLLNSG----KQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 452 ~eL~~~i~~L~~IL~s~----~~l~~iI~~EL~eikkkfg 487 (753)
.|-..+.+||-+.|.++ +.+++-+++||+.+|+.|.
T Consensus 304 RECRRKKKEYVKCLENRVAVLENQNKaLIEELKtLKeLYc 343 (348)
T KOG3584 304 RECRRKKKEYVKCLENRVAVLENQNKALIEELKTLKELYC 343 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf 9998867689998875778875145899999998999862
No 53
>pfam03131 bZIP_Maf bZIP Maf transcription factor. Maf transcription factors contain a conserved basic region leucine zipper (bZIP) domain, which mediates their dimerization and DNA binding property. Thus, this family is probably related to pfam00170.
Probab=60.81 E-value=11 Score=17.02 Aligned_cols=47 Identities=13% Similarity=0.241 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 88789999889999766678999988776544203978878999999999987417
Q gi|254780353|r 432 LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 432 L~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
.+=|-+|+. +...++.|..+|..+++.|.. -...+..|...++.+|.
T Consensus 45 q~CR~KR~~--q~~~LE~e~~~L~~e~e~Lk~-------E~~~~~~E~d~~k~K~e 91 (95)
T pfam03131 45 QSCRSKRVQ--QRHELEKEKSQLQQQVEQLKQ-------ENARLRRERDALKAKYE 91 (95)
T ss_pred HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
T ss_conf 988999999--999999999999999999999-------99999999999999998
No 54
>PRK10834 hypothetical protein; Provisional
Probab=60.03 E-value=3.2 Score=21.23 Aligned_cols=51 Identities=24% Similarity=0.258 Sum_probs=35.0
Q ss_pred HHHHHC--CCCCCHHHH-HH----HHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 666542--768874789-99----999961001321661326788708867797100246
Q gi|254780353|r 79 VGEVIG--KLHPHGDQS-VY----DSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRY 131 (753)
Q Consensus 79 vg~v~g--kyhPHGd~s-~y----~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RY 131 (753)
||-|+| ||++.|.-| .| ||.+.+=+.=.-++-|+.|. .|+.+.|.|.+||-
T Consensus 47 valVLGtak~~~~G~pn~~~~~RldaA~~LY~~GKv~~iLvSGD--n~~~~YnEp~~Mk~ 104 (239)
T PRK10834 47 VGVVLGTAKYYRTGVINQYYRYRIQGAINAYNSGKVNYLLLSGD--NALQSYNEPMTMRK 104 (239)
T ss_pred EEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCC--CCCCCCCCHHHHHH
T ss_conf 69994576467899819899999999999998699748986689--99888982899999
No 55
>pfam05133 Phage_prot_Gp6 Phage portal protein, SPP1 Gp6-like. This protein forms a hole, or portal, that enables DNA passage during packaging and ejection. It also forms the junction between the phage head (capsid) and the tail proteins. During SPP1 morphogenesis, Gp6 participates in the procapsid assembly reaction. This family also includes family Phage_min_cap, pfam05126.
Probab=59.84 E-value=12 Score=16.90 Aligned_cols=11 Identities=45% Similarity=0.492 Sum_probs=6.3
Q ss_pred CCCCCCHHHHH
Q ss_conf 79710024689
Q gi|254780353|r 123 GDSAAAYRYTE 133 (753)
Q Consensus 123 ~d~~Aa~RYte 133 (753)
+.++|+.||..
T Consensus 141 ~~~~~~vr~~~ 151 (435)
T pfam05133 141 RELAAAVRYYT 151 (435)
T ss_pred CCEEEEEEEEE
T ss_conf 76359999999
No 56
>TIGR01734 D-ala-DACP-lig D-alanine-activating enzyme; InterPro: IPR010072 This entry represents the enzyme (also called D-alanine-D-alanyl carrier protein ligase) which activates D-alanine as an adenylate via the reaction D-ala + ATP to D-ala-AMP + PPi, and further catalyses the condensation of the amino acid adenylate with the D-alanyl carrier protein (D-ala-ACP). The D-alanine is then further transferred to teichoic acid in the biosynthesis of lipoteichoic acid (LTA) and wall teichoic acid (WTA) in Gram-positive bacteria, both polysacchatides .; GO: 0016208 AMP binding, 0047473 D-alanine-poly(phosphoribitol) ligase activity, 0019350 teichoic acid biosynthetic process.
Probab=57.65 E-value=2.5 Score=21.99 Aligned_cols=139 Identities=18% Similarity=0.216 Sum_probs=61.1
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEE-EE-EECCCCCHHHHCCCCCHHHHHHHH------CC--CCCHHH
Q ss_conf 246899855999999842187861752167996324-22-312345267642665046777751------67--778899
Q gi|254780353|r 129 YRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSE-PV-VFPSKFPNLLANGTSGIAVGMATS------IP--SHNVQE 198 (753)
Q Consensus 129 ~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~E-P~-~lp~~~P~lL~Ng~~GIavG~at~------ip--phnl~e 198 (753)
-+||+.-|-.-++.+=.-|++. -...+| |. |+=-.=|..| ++=.|+. || .|-|.|
T Consensus 24 ~~lTY~~L~~~Sd~la~~i~~~--------~l~~k~kPiivfG~~~~~Ml-------~~flg~~KsGhaYiPvD~s~P~E 88 (513)
T TIGR01734 24 QELTYQQLKEQSDRLAAFIQER--------LLPEKEKPIIVFGHMEPEML-------VAFLGSIKSGHAYIPVDTSIPLE 88 (513)
T ss_pred CCCHHHHHHHHHHHHHHHHHHC--------CCCCCCCCEEEECCCCHHHH-------HHHHHHHHCCCCCCCCCCCCCHH
T ss_conf 6102789999999999999860--------57666775788648868999-------99999751689643436688167
Q ss_pred HHHHHHHHHHCCC--CCCHHHHHHCCCCCCCCCC-CCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECC--
Q ss_conf 9999999872865--3201344320367788776-0106988999898503341599999998643788407999524--
Q gi|254780353|r 199 ICEAALALIDNPE--ISIEKLLEYIIGPDFPTGG-IIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEI-- 273 (753)
Q Consensus 199 v~~a~~~~i~~~~--~~~~~l~~~i~gPDFPTGG-~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivItei-- 273 (753)
=|..++.-.+ |. +.+.+|= =|++... -|+ ..+-+.++.+.+.|.+.--..+-- +.+.+-||-|.=
T Consensus 89 Ri~~I~~~a~-p~~vi~~~~ls-----~~~~~~~~~~~-~~~~~~~~~~~~~G~~~~~~~~V~---~dD~yYIIyTSGtT 158 (513)
T TIGR01734 89 RIEQIKEAAK-PELVIETAELS-----IDLVETETDVI-TLEALEDALTSGAGPAVDFDHAVK---GDDNYYIIYTSGTT 158 (513)
T ss_pred HHHHHHHHCC-CCEEEEECCCC-----CCCCCCCCCEE-CHHHHHHHHHHCCCCCCCCCCCCC---CCCCEEEEEEECCC
T ss_conf 9999986338-11274311377-----53111467511-189999999706878642100005---79966899853664
Q ss_pred --CCC--CCHHHHHHHHHHHHHH
Q ss_conf --200--2168999999998640
Q gi|254780353|r 274 --PYQ--VQKSRLIEKIAELIIA 292 (753)
Q Consensus 274 --Py~--v~k~~~ie~I~~lv~~ 292 (753)
|=| ++.+.|+.-..=.+.+
T Consensus 159 G~PKGVQIS~dNL~sFtnW~~~D 181 (513)
T TIGR01734 159 GKPKGVQISHDNLVSFTNWMLED 181 (513)
T ss_pred CCCCCEEEECCCCCHHHHHHHHC
T ss_conf 88873475200021177775302
No 57
>TIGR00019 prfA peptide chain release factor 1; InterPro: IPR004373 This family describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognise and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cut-off for this model. RF-1 does not have a translational frameshift.; GO: 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm.
Probab=56.25 E-value=14 Score=16.48 Aligned_cols=61 Identities=16% Similarity=0.142 Sum_probs=47.5
Q ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 778899-88789999889999766678999988776544203---9788789999999999874177
Q gi|254780353|r 426 NQVDAI-LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLN---SGKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 426 ~QA~aI-L~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~---s~~~l~~iI~~EL~eikkkfgd 488 (753)
.|.++. +.-...+| .++.....+|+.+.+.|++=+.||. ++..|..++++||.++.++..+
T Consensus 32 d~~k~~~~~ke~~~l--~~i~~~~~~~~~~~~~~~~A~~~l~E~~~D~El~elak~El~~l~~~~~~ 96 (373)
T TIGR00019 32 DQDKLRKLSKEYSQL--EEIVDKYEEYKKAQEDLKEAKELLEEKGDDKELRELAKEELEELEKEIEE 96 (373)
T ss_pred CHHHHHHHHHHHCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 679999998862065--68999999999999999999999974258865899999999999988888
No 58
>pfam06995 Phage_P2_GpU Phage P2 GpU. This family consists of several bacterial and phage proteins of around 130 residues in length which seem to be related to the bacteriophage P2 GpU protein which is thought to be involved in tail assembly.
Probab=56.05 E-value=4.8 Score=19.84 Aligned_cols=33 Identities=33% Similarity=0.631 Sum_probs=15.6
Q ss_pred CCCCCC--HHHHHHHHHHHHCCHHHCCCCCCCCCCC
Q ss_conf 276887--4789999999610013216613267887
Q gi|254780353|r 84 GKLHPH--GDQSVYDSLVRLAQPFVQRYPLISGQGN 117 (753)
Q Consensus 84 gkyhPH--Gd~s~y~a~v~maq~~~~~~pli~g~Gn 117 (753)
|..||| |...-+++|-.||.. ..-+|||+|.|+
T Consensus 49 G~l~p~~~gg~~~l~~Lr~~~~~-g~p~~Lv~G~G~ 83 (121)
T pfam06995 49 GVLYPEFTGGLASLDALRAMADA-GKALPLVDGNGD 83 (121)
T ss_pred EEEEHHHCCCHHHHHHHHHHHHC-CCCEEEEECCCC
T ss_conf 99965881989999999999975-996189977983
No 59
>PRK08082 consensus
Probab=54.30 E-value=11 Score=17.28 Aligned_cols=23 Identities=9% Similarity=0.206 Sum_probs=14.1
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 97887899999999998741774
Q gi|254780353|r 467 SGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 467 s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
++......|...|+.+.+.++-|
T Consensus 334 ~r~~ev~~isr~LK~lAkel~ip 356 (453)
T PRK08082 334 NRQQEVSEISRTLKALARELEVP 356 (453)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 89999999999999999996997
No 60
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=53.90 E-value=1.8 Score=23.10 Aligned_cols=50 Identities=18% Similarity=0.186 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHCCH----HHCCCCCCCCCCCCCC------CCCCCCCCHHHHHHHHHHHH
Q ss_conf 478999999961001----3216613267887088------67797100246899855999
Q gi|254780353|r 90 GDQSVYDSLVRLAQP----FVQRYPLISGQGNFGN------IDGDSAAAYRYTEARMTQVA 140 (753)
Q Consensus 90 Gd~s~y~a~v~maq~----~~~~~pli~g~GnfGs------~~~d~~Aa~RYte~rl~~~~ 140 (753)
|..|+|..-+..+|- ...|.=+---.|+.|. .+|.+-|-..|-+.- +|+|
T Consensus 162 ~~~s~~~~ni~~~~Cs~CDl~~nLW~Cl~CG~vgCGR~QyG~~GngHAlsHY~~t~-Hpla 221 (749)
T COG5207 162 GPSSIEMGNIGGLKCSLCDLKTNLWVCLSCGYVGCGRMQYGAEGNGHALSHYEETQ-HPLA 221 (749)
T ss_pred CCCCCCCCCCCCCEECCCCCHHCEEEEEECCCCCCCCEEECCCCCCCHHHHHHCCC-CCEE
T ss_conf 99863013557732020102011478774376344503435788751333343139-9548
No 61
>TIGR00606 rad50 rad50; InterPro: IPR004584 Rad50 is involved in recombination, recombinational repair, and/or non-homologous end joining. It is a component of an exonuclease complex with MRE11 homologs. The Saccharomyces cerevisiae Rad50/MRE11 complex possesses single-stranded endonuclease activity and ATP-dependent double-strand-specific exonuclease activity. Rad50 provides an ATP-dependent control of MRE11 by unwinding and repositioning DNA ends into the MRE11 active site. This family is distantly related to the SbcC family of bacterial proteins. When the N- and C-terminal globular regions of Rad50 from Pyrococcus furiosus P58301 from SWISSPROT are co-expressed in Escherichia coli, they spontaneously associate to form a stable complex that possesses ATP-binding and weak ATP-hydrolysing activities. The structure formed is known as the Rad50 catalytic domain (Rad50cd1). In the presence of ATP, two Rad50cd1 molecules interact via their ATP-binding and highly conserved 'signature' motifs to form a dimer. As ATP is buried deep within this dimer interface, the two Rad50cd1 molecules may have to completely disengage after ATP hydrolysis to allow the release of ADP before binding of a new ATP molecule. ATP binding is also accompanied by a 30° rotation of two distinct domains within each Rad50cd1 part of the dimer. This rotation and dimerisation creates a positively charged surface which, potentially, could provide a DNA-binding site capable of accommodating two DNA molecules. The Mre11-docking site within Rad50 has been mapped to two 40-residue heptad-repeat sequences that lie adjacent to the N- and C-terminal ATPase segments. A distinct region within this domain forms a conserved hydrophobic patch that is believed to be the actual Mre11-binding site and lies immediately adjacent to the putative DNA-binding site of Rad50. As Rad50 dimerises in the presence of ATP and forms a stoichiometric complex with Mre11 (one Mre11 subunit binding to one Rad50 subunit), it is possible that the MR complex forms a closely coordinated DNA-binding unit that has the potential to act on two DNA molecules simultaneously. Within this unit, ATP-dependent control of nuclease action might be achieved via Rad50 unwinding or repositioning DNA ends into the active-site of Mre11 . ; GO: 0005524 ATP binding, 0006281 DNA repair, 0030870 Mre11 complex.
Probab=53.82 E-value=15 Score=16.20 Aligned_cols=11 Identities=0% Similarity=-0.203 Sum_probs=4.2
Q ss_pred EEEECCCCCCC
Q ss_conf 99952420021
Q gi|254780353|r 268 IVVTEIPYQVQ 278 (753)
Q Consensus 268 ivIteiPy~v~ 278 (753)
++|--.|.+.+
T Consensus 734 ~~l~~~~~~~~ 744 (1328)
T TIGR00606 734 EILGLAEGRQS 744 (1328)
T ss_pred HHEEECCHHHH
T ss_conf 41010311567
No 62
>PRK06904 replicative DNA helicase; Validated
Probab=53.69 E-value=12 Score=16.98 Aligned_cols=22 Identities=9% Similarity=0.202 Sum_probs=14.1
Q ss_pred EEEEECCCCCCCHHHHHHHHHH
Q ss_conf 7999524200216899999999
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAE 288 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~ 288 (753)
.++|--=.+.+.|+.+.-.|+.
T Consensus 222 ~LiViAaRPsmGKTa~alnia~ 243 (472)
T PRK06904 222 DLIIVAARPSMGKTTFAMNLCE 243 (472)
T ss_pred CEEEEEECCCCCHHHHHHHHHH
T ss_conf 5799973798756899999999
No 63
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=53.48 E-value=15 Score=16.16 Aligned_cols=41 Identities=17% Similarity=0.243 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 999999999999999999--99999998641078999975200
Q gi|254780353|r 370 EVLFRRSSFRMQAIDRRV--EILKGLLIAYLNIDEIIAIIRNE 410 (753)
Q Consensus 370 ~vi~rr~~~~L~k~~~Rl--hIleGl~~a~~~ID~vI~iIR~s 410 (753)
+-++||++-+.+++.+.. -++.-|+-+++|++..+..+...
T Consensus 67 eN~rkR~~re~e~~~k~a~e~~~~dlLpviDnlerAl~~~~~~ 109 (193)
T COG0576 67 ENLRKRTEREREEAKKYAIEKFAKDLLPVIDNLERALEAAEDD 109 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 9999999999999999999999999888887999999712345
No 64
>PRK08840 replicative DNA helicase; Provisional
Probab=53.06 E-value=13 Score=16.63 Aligned_cols=71 Identities=17% Similarity=0.160 Sum_probs=34.1
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEE
Q ss_conf 67778899999999987286532013443203677887760106988999898503341599999998643788407999
Q gi|254780353|r 191 IPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVV 270 (753)
Q Consensus 191 ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivI 270 (753)
-.|.+..++++..+..++.-.-...+ -+ +-.||| ...+.++ ..| + . ...++|
T Consensus 170 ~~~~~~~~~~~~~~e~ie~~~~~~~~---~~--~Gi~TG------~~~LD~~-~~G---l-----------~--~G~Liv 221 (464)
T PRK08840 170 EGPQNVDSILEKTLERIELLYKSPQD---GV--TGVSTG------FTDLNKK-TAG---L-----------Q--GSDLII 221 (464)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCC---CC--CCCCCC------HHHHHHH-CCC---C-----------C--CCCEEE
T ss_conf 64001999999999999999857799---97--368889------8999875-369---8-----------7--576799
Q ss_pred ECCCCCCCHHHHHHHHHHH
Q ss_conf 5242002168999999998
Q gi|254780353|r 271 TEIPYQVQKSRLIEKIAEL 289 (753)
Q Consensus 271 teiPy~v~k~~~ie~I~~l 289 (753)
--=.+.+.|+.+.-.|+.-
T Consensus 222 iaaRPsmGKTalalnia~n 240 (464)
T PRK08840 222 VAARPSMGKTTFAMNLCEN 240 (464)
T ss_pred EEECCCCCHHHHHHHHHHH
T ss_conf 9837987368999999999
No 65
>pfam03444 DUF293 Domain of unknown function. This domain is always found with a pair of CBS domains pfam00571. this region may be distantly related to the HrcA proteins of prokaryotes (Bateman A pers. obs.).
Probab=52.26 E-value=10 Score=17.46 Aligned_cols=64 Identities=25% Similarity=0.402 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 97046899999998689998980354053666542768874789999999610013216613267887088677971
Q gi|254780353|r 50 FKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSA 126 (753)
Q Consensus 50 lKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~ 126 (753)
|-|+||.||.+.-++=...+.| .||..|. +.++ -+|- ++=+.-|+.. -.-||+|+ =|.-.|--|
T Consensus 2 LT~~Qr~IL~aLI~lY~~~~~p-Vks~~IA-e~l~-~spg-------TIRN~M~~L~-~LGLVe~~--pgp~gGy~P 65 (79)
T pfam03444 2 LTPVQKEILQALINLYRKKGRA-VKGEEIA-DIIG-RNPG-------TVRNQMQSLK-ALGLVEGV--PGPKGGYKP 65 (79)
T ss_pred CCHHHHHHHHHHHHHHHHCCCC-CCHHHHH-HHHC-CCHH-------HHHHHHHHHH-HCCCCCCC--CCCCCCCCC
T ss_conf 7789999999999999972998-6679999-9987-8908-------8999999999-85886578--899888765
No 66
>pfam05600 DUF773 Protein of unknown function (DUF773). This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=52.26 E-value=16 Score=16.03 Aligned_cols=20 Identities=0% Similarity=0.062 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHCCCCCCHH
Q ss_conf 99999999987286532013
Q gi|254780353|r 197 QEICEAALALIDNPEISIEK 216 (753)
Q Consensus 197 ~ev~~a~~~~i~~~~~~~~~ 216 (753)
.+++-.+.+++++++.|+.+
T Consensus 220 ~~~Lp~L~~l~~~Gnttvye 239 (506)
T pfam05600 220 KQVLPLLRHVQERGNTTVYE 239 (506)
T ss_pred CCCCHHHHHHHHCCCCEEEE
T ss_conf 45045999998679972761
No 67
>COG1944 Uncharacterized conserved protein [Function unknown]
Probab=52.05 E-value=16 Score=16.01 Aligned_cols=22 Identities=32% Similarity=0.436 Sum_probs=8.8
Q ss_pred CCCHHHHHHHHC-CCCCHHHHHH
Q ss_conf 650467777516-7778899999
Q gi|254780353|r 180 TSGIAVGMATSI-PSHNVQEICE 201 (753)
Q Consensus 180 ~~GIavG~at~i-pphnl~ev~~ 201 (753)
.+|-|.|-+-.= --|-|-||++
T Consensus 167 tnGLAaGn~~~eA~lhgLlEviE 189 (398)
T COG1944 167 TNGLAAGNTREEAILHGLLEVIE 189 (398)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 84112475388899999999999
No 68
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=51.57 E-value=15 Score=16.12 Aligned_cols=47 Identities=23% Similarity=0.369 Sum_probs=31.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCHHHH-----HHHHHHHHHHHHHHCCCCCCC
Q ss_conf 16613267887088677971002468-----998559999998421878617
Q gi|254780353|r 107 QRYPLISGQGNFGNIDGDSAAAYRYT-----EARMTQVAELILQGVDEDAVD 153 (753)
Q Consensus 107 ~~~pli~g~GnfGs~~~d~~Aa~RYt-----e~rl~~~~~~ll~di~~~~v~ 153 (753)
-+|-+-++.|||-|-|.|-+-+|.|- +--++.+|+.|++-=+.+-||
T Consensus 62 ~~ydy~~k~G~~Ks~DAdy~~~mk~~~g~gp~~~f~~laD~Lve~q~p~~Vd 113 (147)
T COG4939 62 CTYDYRDKKGNIKSDDADYAGEMKYMKGQGPVQGFSTLADKLVEVQDPNEVD 113 (147)
T ss_pred EEEEEECCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCEE
T ss_conf 8855064778736653336777777416377899999999987248945055
No 69
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=50.53 E-value=13 Score=16.50 Aligned_cols=33 Identities=18% Similarity=0.249 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 100000025775778899887899998899997
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQ 446 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~k 446 (753)
..+++++|+||+.|-+||++--...|..+..+-
T Consensus 26 ~~a~l~~~~Lt~ee~~al~~~D~~~L~~lGvn~ 58 (77)
T cd07321 26 PEAVLAEYGLTPEEKAALLARDVGALYVLGVNP 58 (77)
T ss_pred HHHHHHHCCCCHHHHHHHHCCCHHHHHHCCCCH
T ss_conf 999998769999999998856899999979969
No 70
>pfam03853 YjeF_N YjeF-related protein N-terminus.
Probab=49.98 E-value=16 Score=16.04 Aligned_cols=117 Identities=19% Similarity=0.310 Sum_probs=57.0
Q ss_pred HHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHH--------------HHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 8999999961001321661326788708867797100246899--------------85599999984218786175216
Q gi|254780353|r 92 QSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEA--------------RMTQVAELILQGVDEDAVDFRDT 157 (753)
Q Consensus 92 ~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~--------------rl~~~~~~ll~di~~~~v~~~~n 157 (753)
.++++.+.++-.+-..+...+-|.||.|. |.-++.||--. ++++-+...++-..+--+.+.+
T Consensus 14 ~~~a~~i~~~~~~~~~~v~il~G~GNNGG---DGlv~Ar~L~~~g~~V~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 89 (170)
T pfam03853 14 RAVARVIRKLLSPAGKRVLVLCGPGNNGG---DGLAAARHLAQRGYKVTVLLLNPDEKLSEDARRALEIAKKLGGKIVS- 89 (170)
T ss_pred HHHHHHHHHHCCCCCCEEEEEECCCCCHH---HHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHCCCCEEE-
T ss_conf 99999999861877886999987998728---89999999998799079999678555999999999999986996761-
Q ss_pred CCCCEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCC
Q ss_conf 7996324223123452676426650467777516777889999999998728653201344320367788776
Q gi|254780353|r 158 YNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGG 230 (753)
Q Consensus 158 ~D~~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG 230 (753)
++... +..+ .=+-+.|-|--|+ |+.-. +++-+..++.++...+.. +-.=|-|+|=
T Consensus 90 ~~~~~--~~~~--~~~d~iVDal~G~--Gl~~~-----l~~~~~~~i~~iN~~~~~-------visiDiPSGl 144 (170)
T pfam03853 90 LNPDE--DLSK--ALADLIIDALFGT--GLSRP-----LRGEYAELIEWINASKAP-------VLAVDIPSGL 144 (170)
T ss_pred CCCCC--CCCC--CCCCEEEEEEEEC--CCCCC-----CCHHHHHHHHHHHCCCCC-------EEEEECCCCC
T ss_conf 58632--0125--6662899743523--67988-----988999999999738996-------7997378875
No 71
>TIGR02199 rfaE_dom_II rfaE bifunctional protein, domain II; InterPro: IPR011914 RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in some other genome. Domain I (IPR011913 from INTERPRO) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .; GO: 0016773 phosphotransferase activity alcohol group as acceptor, 0016779 nucleotidyltransferase activity, 0005975 carbohydrate metabolic process.
Probab=49.10 E-value=13 Score=16.53 Aligned_cols=21 Identities=24% Similarity=0.243 Sum_probs=13.6
Q ss_pred EEEEECCCCCCCHHHHHHHHH
Q ss_conf 799952420021689999999
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIA 287 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~ 287 (753)
++++=++=.+-+++++|+||.
T Consensus 123 ~V~~l~f~~g~STT~ii~ki~ 143 (144)
T TIGR02199 123 QVVLLPFVEGRSTTAIIEKIL 143 (144)
T ss_pred EEEEEEEECCCCCHHHHHHHH
T ss_conf 798985217984078999982
No 72
>PRK07085 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=48.99 E-value=17 Score=15.67 Aligned_cols=84 Identities=19% Similarity=0.173 Sum_probs=45.1
Q ss_pred CCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 67660588985045458899999875420000122331133312689722049999998999989999999999999999
Q gi|254780353|r 305 SAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAID 384 (753)
Q Consensus 305 Sd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~ 384 (753)
|.+..-..|-+--|.++ +..|+- .|||. .|++.|.+.=..+-++|+++.+.-+ ++|.+|... .|--
T Consensus 240 Sa~KYwHFVrlMGRsAS-HiaLEC-----aLQTh--PNi~lI~EEv~~k~~TL~~Iv~~I~----d~I~~Ra~~--Gkny 305 (557)
T PRK07085 240 SAKKYWHFIKLMGRSAS-HIALEC-----ALQTH--PNICLISEEIAEKNISLDDIVHYIA----SVIADRAAK--GKNF 305 (557)
T ss_pred CCCCEEEEEEEECCCCH-HHHHHH-----HHHCC--CCEEEEHHHHHHCCCCHHHHHHHHH----HHHHHHHHC--CCCC
T ss_conf 15760799998168610-788888-----75138--8789767999871796999999999----999999975--9986
Q ss_pred HHHHHHHHHHHHHHHHHH
Q ss_conf 999999999986410789
Q gi|254780353|r 385 RRVEILKGLLIAYLNIDE 402 (753)
Q Consensus 385 ~RlhIleGl~~a~~~ID~ 402 (753)
--.-|=|||+--+-.+-.
T Consensus 306 GviLIPEGLiefIPe~k~ 323 (557)
T PRK07085 306 GVILIPEGLIEFIPEMKS 323 (557)
T ss_pred EEEEECCHHHHHCHHHHH
T ss_conf 599946238762778999
No 73
>pfam08082 PRO8NT PRO8NT (NUC069), PrP8 N-terminal domain. The PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly variable proline-rich region.
Probab=48.86 E-value=17 Score=15.66 Aligned_cols=59 Identities=25% Similarity=0.392 Sum_probs=39.9
Q ss_pred CCHHH-HHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHH-HCCCCCCCCC
Q ss_conf 97046-899999998689998980354053666542768874789999999610013-2166132678
Q gi|254780353|r 50 FKPVH-RRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPF-VQRYPLISGQ 115 (753)
Q Consensus 50 lKpvq-Rril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~-~~~~pli~g~ 115 (753)
+-|-| |+|+- +-|-.++++|..--|+.=..+ ||-|| |+|--|-+|-|+| +.||.=|-=|
T Consensus 4 mPPEhlRKIi~---dhgDmsskkf~~dkr~~lgaL-kY~Ph---Av~KLLEnmPmPWE~~r~V~VlYH 64 (152)
T pfam08082 4 MPPEHLRKIIK---DHGDMSSKKFASDKRSYLGAL-KYMPH---ALLKLLENMPMPWEQVRYVKVLYH 64 (152)
T ss_pred CCHHHHHHHHH---HCCCCCHHHCCHHHHHHHHHH-HHHHH---HHHHHHHCCCCCHHHHCCEEEEEE
T ss_conf 98799999997---445744011011358887677-54268---999998718985777403247886
No 74
>PRK08006 replicative DNA helicase; Provisional
Probab=47.85 E-value=16 Score=15.86 Aligned_cols=22 Identities=9% Similarity=0.202 Sum_probs=12.2
Q ss_pred EEEEECCCCCCCHHHHHHHHHH
Q ss_conf 7999524200216899999999
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAE 288 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~ 288 (753)
.++|--=-+.+.|+.+.-.|+.
T Consensus 225 ~LiviaaRPsmGKTalalnia~ 246 (471)
T PRK08006 225 DLIIVAARPSMGKTTFAMNLCE 246 (471)
T ss_pred CEEEEEECCCCCHHHHHHHHHH
T ss_conf 3899994699876999999999
No 75
>PRK08760 replicative DNA helicase; Provisional
Probab=47.79 E-value=17 Score=15.65 Aligned_cols=21 Identities=19% Similarity=0.271 Sum_probs=9.7
Q ss_pred EEEECCCCCCCHHHHHHHHHH
Q ss_conf 999524200216899999999
Q gi|254780353|r 268 IVVTEIPYQVQKSRLIEKIAE 288 (753)
Q Consensus 268 ivIteiPy~v~k~~~ie~I~~ 288 (753)
++|--=.+.+.|+.+.-.|+.
T Consensus 231 LiViaaRPsmGKTalalnia~ 251 (476)
T PRK08760 231 LIILAARPAMGKTTFALNIAE 251 (476)
T ss_pred EEEEEECCCCCHHHHHHHHHH
T ss_conf 799987788747899999999
No 76
>TIGR02687 TIGR02687 conserved hypothetical protein TIGR02687; InterPro: IPR014060 Members of this family are uncharacterised proteins sporadically distributed in bacteria and archaea, about 880 amino acids in length. Proteins in this entry are encoded by genes that are repeatedly found upstream of another uncharacterised gene which encodes proteins of about 470 amino acids in length (see IPR014061 from INTERPRO)..
Probab=47.67 E-value=16 Score=15.89 Aligned_cols=59 Identities=17% Similarity=0.347 Sum_probs=31.1
Q ss_pred HHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHH--HHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf 420000122331133312689722049999998999--989999999999999999-9999999
Q gi|254780353|r 331 MLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLA--HRREVLFRRSSFRMQAID-RRVEILK 391 (753)
Q Consensus 331 k~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~--~R~~vi~rr~~~~L~k~~-~RlhIle 391 (753)
++++|.-.|-.++.+=+. .--+-+|.+.++.|.. ||.|-+=|...|-..+.+ +..-|+.
T Consensus 389 ~l~~~~~r~~~~~~~~~~--~~ntrslyd~~kaY~~~~y~~DqlYR~F~~~~~~~~~~~~~l~~ 450 (911)
T TIGR02687 389 KLFNLKARYEDGFKAADA--AENTRSLYDLLKAYAEELYRFDQLYRKFTYYAEKVESKGAILLK 450 (911)
T ss_pred HHHHHHHHCCCCCCHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_conf 999986411237232237--77778899999999999888778888899999862204688762
No 77
>PRK05748 replicative DNA helicase; Provisional
Probab=47.65 E-value=17 Score=15.69 Aligned_cols=22 Identities=18% Similarity=0.229 Sum_probs=13.4
Q ss_pred EEEEECCCCCCCHHHHHHHHHH
Q ss_conf 7999524200216899999999
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAE 288 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~ 288 (753)
.++|--=.+++.|+.+.-.|+.
T Consensus 204 ~LiviaaRP~mGKTa~alnia~ 225 (448)
T PRK05748 204 DLIIVAARPSVGKTAFALNIAQ 225 (448)
T ss_pred CEEEEEECCCCCHHHHHHHHHH
T ss_conf 3799984799876899999999
No 78
>cd04618 CBS_pair_5 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=47.54 E-value=11 Score=17.17 Aligned_cols=69 Identities=23% Similarity=0.414 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHCCCCCCC--CEEEEEHHH-----HHH---HCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCC-
Q ss_conf 128970468999999986899989--803540536-----665---427688747899999996100132166132678-
Q gi|254780353|r 47 RDGFKPVHRRIIHAMSEMGLDFGA--AFKKSARIV-----GEV---IGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQ- 115 (753)
Q Consensus 47 ~DGlKpvqRril~~m~~~~~~~~~--~~~K~ar~v-----g~v---~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~- 115 (753)
-|+--|| ++-+++|.+.|..+.- ..+++ +-| +|- +--.|-|-+.|+|||.-.|-|+-.-|.|++|..
T Consensus 6 ~D~~l~v-k~Af~al~~ngi~~aplWds~~~-~fvGmLt~~DfI~il~lv~i~P~~sL~da~~~l~~~~ihrlPvid~~~ 83 (98)
T cd04618 6 FDTKLPV-KKAFNALVENGIRSAPLWDSRKQ-QFVGMLTITDFILILRLVSIHPERSLFDAALLLLKNKIHRLPVIDPST 83 (98)
T ss_pred EECCCCH-HHHHHHHHHCCCEEEEEECCCCC-EEEEEEEHHHHHHHHHHEECCCCCHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf 9489758-99999999869269998728876-788886479999887624448761299999999867875052164799
Q ss_pred CC
Q ss_conf 87
Q gi|254780353|r 116 GN 117 (753)
Q Consensus 116 Gn 117 (753)
||
T Consensus 84 ~~ 85 (98)
T cd04618 84 GT 85 (98)
T ss_pred CC
T ss_conf 96
No 79
>KOG4288 consensus
Probab=47.10 E-value=18 Score=15.47 Aligned_cols=14 Identities=43% Similarity=0.579 Sum_probs=5.6
Q ss_pred CCCCHHHHHHHHHH
Q ss_conf 77788999999999
Q gi|254780353|r 192 PSHNVQEICEAALA 205 (753)
Q Consensus 192 pphnl~ev~~a~~~ 205 (753)
||-|..+|..+.+.
T Consensus 245 ppvnve~VA~aal~ 258 (283)
T KOG4288 245 PPVNVESVALAALK 258 (283)
T ss_pred CCCCHHHHHHHHHH
T ss_conf 98678999999997
No 80
>PRK08694 consensus
Probab=46.53 E-value=19 Score=15.41 Aligned_cols=21 Identities=19% Similarity=0.219 Sum_probs=11.6
Q ss_pred EEEECCCCCCCHHHHHHHHHH
Q ss_conf 999524200216899999999
Q gi|254780353|r 268 IVVTEIPYQVQKSRLIEKIAE 288 (753)
Q Consensus 268 ivIteiPy~v~k~~~ie~I~~ 288 (753)
++|--=-+.+.|+.+.-.|+.
T Consensus 220 LiVIaaRPsmGKTalalnia~ 240 (468)
T PRK08694 220 LIIVAGRPSMGKTAFSINIAE 240 (468)
T ss_pred EEEEEECCCCCHHHHHHHHHH
T ss_conf 799961786537899999999
No 81
>pfam08317 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=45.25 E-value=20 Score=15.27 Aligned_cols=15 Identities=27% Similarity=0.395 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHH
Q ss_conf 999989999899999
Q gi|254780353|r 359 GILKEWLAHRREVLF 373 (753)
Q Consensus 359 eil~~f~~~R~~vi~ 373 (753)
.-=..|++||...+.
T Consensus 133 ~aK~~WYeWR~qlle 147 (322)
T pfam08317 133 QSKKTWYEWRMKLLE 147 (322)
T ss_pred HHHHHHHHHHHHHHH
T ss_conf 999899999999998
No 82
>pfam01208 URO-D Uroporphyrinogen decarboxylase (URO-D).
Probab=45.14 E-value=20 Score=15.26 Aligned_cols=12 Identities=0% Similarity=-0.175 Sum_probs=4.8
Q ss_pred CCCCCCCEEEEE
Q ss_conf 012233113331
Q gi|254780353|r 336 ETRFPLNMNVLS 347 (753)
Q Consensus 336 q~sf~~N~~~l~ 347 (753)
|..-+++.+.+.
T Consensus 188 qi~aGad~i~i~ 199 (337)
T pfam01208 188 QIEAGADAIQIF 199 (337)
T ss_pred HHHHCCCEEEEE
T ss_conf 998299679983
No 83
>PTZ00094 serine hydroxymethyltransferase; Provisional
Probab=43.74 E-value=21 Score=15.11 Aligned_cols=66 Identities=12% Similarity=0.164 Sum_probs=38.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 000257757788998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r 418 VSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 418 ~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
+..-++.|.+-..|.++=-+-|.- -.++++ +..+.+.++.+-+.+.+. ..-+++|..++.++|--|
T Consensus 382 ~TtrGm~e~em~~ia~lI~~~i~~--~~~~~~---~~~~~~~~f~~~~~~~~~-i~~lr~~V~~~~~~fp~p 447 (450)
T PTZ00094 382 LTSRGAVEEDFEFVADFLDRAVKL--AQDIQK---EVGKKLVDFVKALEASED-IQQLRKEVVEFASQFPIP 447 (450)
T ss_pred HHHCCCCHHHHHHHHHHHHHHHHH--HHHHHH---HHCHHHHHHHHCCCCHHH-HHHHHHHHHHHHHCCCCC
T ss_conf 883899889999999999999999--998766---501248889862045599-999999999999729999
No 84
>PRK07263 consensus
Probab=43.68 E-value=21 Score=15.10 Aligned_cols=50 Identities=12% Similarity=0.206 Sum_probs=26.2
Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHH
Q ss_conf 79995242002168999999998640222134577640676605889850454588999998754
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFM 331 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk 331 (753)
.++|=-=.+.+.|+.+.-.|+.-+- .+.+.-|.+. +-+-..+.++..+..
T Consensus 204 dLiviaaRPsmGKTa~alnia~~iA--------------~~~~~~V~~f-SlEMs~~ql~~R~la 253 (453)
T PRK07263 204 QLIILAARPAVGKTAFVLNIAQNVG--------------TKQKKTVAIF-SLEMGAESLVDRMLA 253 (453)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHHH--------------HHCCCEEEEE-ECCCCHHHHHHHHHH
T ss_conf 6899972788847899999999999--------------8559828999-246998999999999
No 85
>pfam07569 Hira TUP1-like enhancer of split. The Hira proteins are found in a range of eukaryotes and are implicated in the assembly of repressive chromatin. These proteins also contain pfam00400.
Probab=43.37 E-value=21 Score=15.07 Aligned_cols=69 Identities=20% Similarity=0.242 Sum_probs=34.7
Q ss_pred CEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCCC--CCCCCCCC-------CCCCEEEEEEEECCCCEEEEEECCC
Q ss_conf 40121111478178980688278755112121234444--22223576-------7653078999857998599997489
Q gi|254780353|r 551 LKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGE--AIQLLIDL-------NHNQDIVTAFVYDSTCKLLVVSSKG 621 (753)
Q Consensus 551 l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~--pI~~ll~l-------~~~EkIv~~~~~~~~~~lll~Tk~G 621 (753)
...++.|+. .+|+++|..|-+|. |++...+..-. .+..+++. .+.+.|+.+..- +.+.-++.-++|
T Consensus 14 ~~~~Le~~~-~~Ll~iT~~G~l~v---Wnv~~~~~~~~~~Sl~plL~~~~~~~~~~~~~~v~~~~vt-~~G~Plv~lSnG 88 (219)
T pfam07569 14 PASFLESNG-SYLLCVTSVGLLYV---WNVKTKKALLPPVSLAPLLDSSSRYSDDTSGPNVTQASVT-SSGIPLVTLSNG 88 (219)
T ss_pred CCEEEEECC-CEEEEEECCCEEEE---EECCCCEEECCCCCHHHHHCCCCCCCCCCCCCCEEEEEEC-CCCCEEEEECCC
T ss_conf 656998179-78999925887999---9765987733730168774433345667898736899972-799558995188
Q ss_pred CEE
Q ss_conf 789
Q gi|254780353|r 622 NAF 624 (753)
Q Consensus 622 ~ik 624 (753)
.++
T Consensus 89 ~~y 91 (219)
T pfam07569 89 DGY 91 (219)
T ss_pred CEE
T ss_conf 525
No 86
>KOG0831 consensus
Probab=43.30 E-value=13 Score=16.51 Aligned_cols=76 Identities=24% Similarity=0.287 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH------HCCCCCCCCEEEEEHHHH---HHHCCCCCCHHHHHHHHHH
Q ss_conf 8888889998510476411289704689999999------868999898035405366---6542768874789999999
Q gi|254780353|r 29 RYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMS------EMGLDFGAAFKKSARIVG---EVIGKLHPHGDQSVYDSLV 99 (753)
Q Consensus 29 ~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~------~~~~~~~~~~~K~ar~vg---~v~gkyhPHGd~s~y~a~v 99 (753)
-..-|++....+|--|+-+ | ||..|.-. -.... --++.|-|..-- =++| |||||--+ ++|-.
T Consensus 49 ~~~ly~vw~~~d~~~~~~~-g-----~~~~~~r~~~l~k~~~~YF-Pi~L~kt~~l~p~~NYi~g-~hPHgi~~-~gaf~ 119 (334)
T KOG0831 49 LAILYAVWLYYDRDTPKKG-G-----RRSNWFRNWPIWKWFCDYF-PISLIKTAELDPEKNYIFG-YHPHGILS-VGAFG 119 (334)
T ss_pred HHHHHHHHEECCCCCCCCC-C-----CHHHHHHHHHHHHHHHHCC-CEEEEEEECCCCCCCEEEE-ECCCHHHC-CCCCC
T ss_conf 9999887501367787666-4-----1888998889999986416-4067764015876564887-65632200-01101
Q ss_pred HHCC---HHHCCCCCCC
Q ss_conf 6100---1321661326
Q gi|254780353|r 100 RLAQ---PFVQRYPLIS 113 (753)
Q Consensus 100 ~maq---~~~~~~pli~ 113 (753)
.|+- +|+.-.|=+.
T Consensus 120 ~f~t~~s~~~~~fPgi~ 136 (334)
T KOG0831 120 NFSTEATGFSKLFPGIR 136 (334)
T ss_pred CCCEECCCHHHHCCCCC
T ss_conf 11022124244179887
No 87
>KOG1359 consensus
Probab=43.20 E-value=13 Score=16.52 Aligned_cols=11 Identities=18% Similarity=0.368 Sum_probs=5.2
Q ss_pred HHHHHHHHHCC
Q ss_conf 99999987417
Q gi|254780353|r 477 CEIREVKEIFS 487 (753)
Q Consensus 477 ~EL~eikkkfg 487 (753)
+|+-.+.+|||
T Consensus 213 ~ei~~La~kYg 223 (417)
T KOG1359 213 EEISQLAKKYG 223 (417)
T ss_pred HHHHHHHHHCC
T ss_conf 99999998629
No 88
>KOG0650 consensus
Probab=42.94 E-value=21 Score=15.02 Aligned_cols=36 Identities=19% Similarity=0.323 Sum_probs=24.5
Q ss_pred EEECCCCCEEEEEEC--CCCEEEEEECCCCEEEEEHHH
Q ss_conf 853689805688961--898099995699389955787
Q gi|254780353|r 642 LKVSSEEKMKLVVKV--TGDHVAVVGENRKLLIFSIDQ 677 (753)
Q Consensus 642 ikLk~~D~li~v~~~--~~d~iiliT~~Gk~LrF~~~e 677 (753)
-+|..+-.-++-..+ .||++++.|..++++.|+.+-
T Consensus 601 KkL~tg~kwiS~msihp~GDnli~gs~d~k~~WfDldl 638 (733)
T KOG0650 601 KKLLTGSKWISSMSIHPNGDNLILGSYDKKMCWFDLDL 638 (733)
T ss_pred HHHHCCCEEEEEEEECCCCCEEEEECCCCEEEEEECCC
T ss_conf 98845774644444448987078843777069997566
No 89
>KOG2941 consensus
Probab=42.89 E-value=21 Score=15.01 Aligned_cols=31 Identities=26% Similarity=0.256 Sum_probs=24.4
Q ss_pred CCCCCHHHHCCCCCHHHHHHHHCCCCCHHHH
Q ss_conf 2345267642665046777751677788999
Q gi|254780353|r 169 PSKFPNLLANGTSGIAVGMATSIPSHNVQEI 199 (753)
Q Consensus 169 p~~~P~lL~Ng~~GIavG~at~ipphnl~ev 199 (753)
|+-+|.+.+--.-+|-.|-+--|-=||.+=-
T Consensus 112 PP~iPtliv~~~~~~l~~~KfiIDWHNy~Ys 142 (444)
T KOG2941 112 PPSIPTLIVCVLYSILTGAKFIIDWHNYGYS 142 (444)
T ss_pred CCCCCHHHHHHHHHHHHCCEEEEEEHHHHHH
T ss_conf 9987347999999987366589970225789
No 90
>KOG1446 consensus
Probab=42.85 E-value=21 Score=15.01 Aligned_cols=22 Identities=14% Similarity=0.415 Sum_probs=9.7
Q ss_pred EECCCEEECCCCCCCCCCCCCC
Q ss_conf 8710102025655445532234
Q gi|254780353|r 524 ISNRGWIRSLKSHSVDLSALHF 545 (753)
Q Consensus 524 LS~~GyIKr~k~~~~~~~~~~~ 545 (753)
|..+-|||-.+||...+..+..
T Consensus 87 l~dNkylRYF~GH~~~V~sL~~ 108 (311)
T KOG1446 87 LHDNKYLRYFPGHKKRVNSLSV 108 (311)
T ss_pred EECCCEEEECCCCCCEEEEEEE
T ss_conf 2058169973787742777770
No 91
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=42.68 E-value=20 Score=15.20 Aligned_cols=25 Identities=40% Similarity=0.813 Sum_probs=19.2
Q ss_pred CCCCCCCCCCHHHHHHHHHH-HHCCCCCC
Q ss_conf 47641128970468999999-98689998
Q gi|254780353|r 42 AIPDLRDGFKPVHRRIIHAM-SEMGLDFG 69 (753)
Q Consensus 42 alpd~~DGlKpvqRril~~m-~~~~~~~~ 69 (753)
|.|. +|-|.||||+... +.|||.+.
T Consensus 21 ~fp~---~lsp~qRrivh~La~~lGL~h~ 46 (60)
T cd02639 21 AFPS---SLSPAERRIVHLLASRLGLNHV 46 (60)
T ss_pred ECCC---CCCHHHHHHHHHHHHHCCCCEE
T ss_conf 7599---9999999999999988199204
No 92
>PRK07004 replicative DNA helicase; Provisional
Probab=42.62 E-value=21 Score=14.99 Aligned_cols=23 Identities=4% Similarity=0.174 Sum_probs=12.7
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 97887899999999998741774
Q gi|254780353|r 467 SGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 467 s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
++......|...|+.+.+.++-|
T Consensus 344 ~r~~ei~~isr~lK~lAkel~ip 366 (460)
T PRK07004 344 NRATEISEISRSLKSLAKELDVP 366 (460)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 89999999999999999996997
No 93
>TIGR00373 TIGR00373 conserved hypothetical protein TIGR00373; InterPro: IPR005241 This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain. .
Probab=42.29 E-value=12 Score=16.97 Aligned_cols=19 Identities=21% Similarity=0.249 Sum_probs=9.5
Q ss_pred HHHHHHHHCCCCCCHHHHH
Q ss_conf 9999987286532013443
Q gi|254780353|r 201 EAALALIDNPEISIEKLLE 219 (753)
Q Consensus 201 ~a~~~~i~~~~~~~~~l~~ 219 (753)
.-+-.|+...+.|.++|-+
T Consensus 20 ~vl~~L~~kGe~Tdeeis~ 38 (168)
T TIGR00373 20 EVLESLLIKGEVTDEEISK 38 (168)
T ss_pred HHHHHHCCCCCCCHHHHHH
T ss_conf 4442220268747788888
No 94
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=41.88 E-value=22 Score=14.91 Aligned_cols=53 Identities=26% Similarity=0.437 Sum_probs=32.5
Q ss_pred HHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCC----HHHCCCCCCCCCCC
Q ss_conf 8999999986899989803540536665427688747899999996100----13216613267887
Q gi|254780353|r 55 RRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQ----PFVQRYPLISGQGN 117 (753)
Q Consensus 55 Rril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq----~~~~~~pli~g~Gn 117 (753)
..+.--||+-||... .-+.| .|-|+-.+++-++=|-... -|..+|||.|+.+-
T Consensus 155 ~~~F~~L~~kGliyr-----~~~~V-----~wcp~~~Tals~~EV~~~~~~~~~~~ikf~l~~~~~~ 211 (877)
T PRK05729 155 REVFVRLYEKGLIYR-----GKRLV-----NWDPKLQTALSDLEVEYKEVKGKLWHIRYPLADGSDY 211 (877)
T ss_pred HHHHHHHHHCCCEEE-----CCEEC-----CCCCCCCCHHHHHHHHCCCCCCCEEEEECCCCCCCCE
T ss_conf 999999998899784-----13123-----6688778843567873245667338984132478874
No 95
>TIGR01341 aconitase_1 aconitate hydratase 1; InterPro: IPR006249 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop , . Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) . Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway . The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) , . As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated . IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis . Although IRP2 is homologous to IRP1, IPR2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes . In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica , . In S.enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents bacterial aconitase A (AcnA), eukaryotic cytosolic aconitase (cAcn/IRP1), iron regulatory protein 2 (IRP2), and a few mitochondrial aconitases (certain mAcn proteins, but not the majority of these enzymes). More information about these proteins can be found at Protein of the Month: Aconitase .; GO: 0051539 4 iron 4 sulfur cluster binding, 0008152 metabolic process.
Probab=41.60 E-value=5.2 Score=19.59 Aligned_cols=79 Identities=24% Similarity=0.341 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH-HHCCCCCC--CCEEEEEHHHHHHHCCC--CCC-HH-HHHHHHHHHH
Q ss_conf 888888999851047641128970468999999-98689998--98035405366654276--887-47-8999999961
Q gi|254780353|r 29 RYLAYALSTIKERAIPDLRDGFKPVHRRIIHAM-SEMGLDFG--AAFKKSARIVGEVIGKL--HPH-GD-QSVYDSLVRL 101 (753)
Q Consensus 29 ~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m-~~~~~~~~--~~~~K~ar~vg~v~gky--hPH-Gd-~s~y~a~v~m 101 (753)
+=|.||+-|+.+-++=.+ ||.+--.--|=-=. |+.+-..+ =+| |.|||| |=-| =|= =| +|+=|||-++
T Consensus 20 ~~LPySiriLLEs~~Rn~-DG~~i~~eD~e~i~~W~~~~~~d~Ei~F-kP~RV~---mQDFTGVPAVVDLA~mR~am~~L 94 (896)
T TIGR01341 20 SKLPYSIRILLESVLRNL-DGFSIKEEDVEAILKWKKEELKDVEIAF-KPARVV---MQDFTGVPAVVDLAAMRDAMKNL 94 (896)
T ss_pred CCCCHHHHHHHHHHHHHC-CCCCCCHHHHHHHHCCCCCCCCCCCCCC-CCCEEE---EECCCCCCHHHHHHHHHHHHHHH
T ss_conf 004147999999998763-8842067899888443113546614675-641367---52437872788889999999982
Q ss_pred CCHHHCCCCCC
Q ss_conf 00132166132
Q gi|254780353|r 102 AQPFVQRYPLI 112 (753)
Q Consensus 102 aq~~~~~~pli 112 (753)
..|-.+=-|+|
T Consensus 95 GgDp~kINP~v 105 (896)
T TIGR01341 95 GGDPEKINPLV 105 (896)
T ss_pred CCCCCCCCCCC
T ss_conf 78812048876
No 96
>PRK05595 replicative DNA helicase; Provisional
Probab=41.08 E-value=18 Score=15.55 Aligned_cols=23 Identities=17% Similarity=0.195 Sum_probs=16.9
Q ss_pred EEEEECCCCCCCHHHHHHHHHHH
Q ss_conf 79995242002168999999998
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAEL 289 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~l 289 (753)
.++|--=.+++.|+.+.-.|+.-
T Consensus 202 dLiiiaaRP~mGKTa~alnia~~ 224 (444)
T PRK05595 202 DMILIAARPSMGKTTFALNIAEY 224 (444)
T ss_pred CEEEEEECCCCCCHHHHHHHHHH
T ss_conf 77999857989807999999999
No 97
>pfam10977 DUF2797 Protein of unknown function (DUF2797). This family of proteins has no known function.
Probab=40.92 E-value=22 Score=14.93 Aligned_cols=120 Identities=17% Similarity=0.217 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 77889988789999889999766678-------99998877654420397887899999999998741774334555420
Q gi|254780353|r 426 NQVDAILNLRLRSLRKLEEYQIKSEL-------DNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTT 498 (753)
Q Consensus 426 ~QA~aIL~mrL~rLt~le~~kl~~E~-------~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~ 498 (753)
.||-.|++.+=|+++++=+..|.+.+ +-|..+.+.+ .+..-+.++...+.+++.++...|+...
T Consensus 101 ~~A~~i~~v~nR~~AG~~Ev~lk~~~sDkTnWr~MLk~~~~~v-Dl~~~~~~l~~~~~~~~~~~~~~~~~~~-------- 171 (233)
T pfam10977 101 VQAIPILRVPNRRLAGIVEVALKAHVADKTNWRKMLKGLVEDV-DLAAERARLLEEIAEELKELRLEYGEDA-------- 171 (233)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCCCCHHHHHHCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHCCCC--------
T ss_conf 3178999857860055889999876367415689864899886-8999999999973699999987622321--------
Q ss_pred EEECCCHHHHHHHHCCCCCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHH
Q ss_conf 00011000000110024566705998710102025655445532234555554012111147817898068827875511
Q gi|254780353|r 499 FCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAG 578 (753)
Q Consensus 499 iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~ 578 (753)
++... +..--+.|+ ..|-. ...++++.....+...+.+---++|+| +.| |+.++.+
T Consensus 172 -~~~~~-------~~~~i~yPv------~~yp~-------kv~slnldk~p~~~G~L~GIKGQYLif--d~g-V~NiR~~ 227 (233)
T pfam10977 172 -IEEDE-------AVFSINYPV------LEYPT-------KVKSLNLDKTPVVEGTLVGIKGQYLIL--DTG-VINIRKF 227 (233)
T ss_pred -CCCCC-------CEEEEECCH------HCCCC-------CCCEECCCCCCCCEEEEEEEEEEEEEE--CCC-EEEEECC
T ss_conf -23566-------338985521------12777-------651104246883114999885349996--288-6884056
No 98
>pfam07798 DUF1640 Protein of unknown function (DUF1640). This family consists of sequences derived from hypothetical eukaryotic proteins. A region approximately 100 residues in length is featured.
Probab=40.89 E-value=23 Score=14.80 Aligned_cols=13 Identities=23% Similarity=0.304 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 5778899887899
Q gi|254780353|r 425 ENQVDAILNLRLR 437 (753)
Q Consensus 425 e~QA~aIL~mrL~ 437 (753)
-.+|+.=|+|-|.
T Consensus 102 k~~a~~klDlNle 114 (177)
T pfam07798 102 KVTAGVRLDLNLE 114 (177)
T ss_pred HHHHHHHHHHHHH
T ss_conf 8615257654555
No 99
>TIGR03643 conserved hypothetical protein TIGR03643. This model describes an uncharacterized bacterial protein family. Members average about 90 amino acids in length with several well-conserved uncommon amino acids (Trp, Met). The majority of species are marine bacteria. Few species have more than one copy, but Vibrio cholerae El Tor N16961 has three identical copies.
Probab=40.59 E-value=20 Score=15.22 Aligned_cols=35 Identities=26% Similarity=0.507 Sum_probs=25.6
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 07899997520000110000002577577889988
Q gi|254780353|r 399 NIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILN 433 (753)
Q Consensus 399 ~ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~ 433 (753)
+|++||+.-=+...|-+++...|+|||.|...|.-
T Consensus 1 di~riIemAweDrt~Fe~I~~~~gl~E~evi~lMr 35 (72)
T TIGR03643 1 DIDRIIEMAWEDRTPFEAIEQQFGLSEKEVIKLMR 35 (72)
T ss_pred CHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHH
T ss_conf 98899999983799899999998949999999999
No 100
>KOG2444 consensus
Probab=40.47 E-value=23 Score=14.75 Aligned_cols=97 Identities=12% Similarity=0.101 Sum_probs=54.7
Q ss_pred EEEECCCEEECCCCCCCCCCCCCCCCCCCCE-EEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 9987101020256554455322345555540-121111478178980688278755112121234444222235767653
Q gi|254780353|r 522 VVISNRGWIRSLKSHSVDLSALHFKEGDSLK-IALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQ 600 (753)
Q Consensus 522 V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~-~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~l~~~E 600 (753)
.-=|.+||++..+ .++..++.+.++++. ....+...++|++-|+.|.+|....+. .|.+..-+.. ..|
T Consensus 34 ~~~sa~~~v~~~~---~~k~k~s~rse~~~~e~~~v~~~~~~~~vG~~dg~v~~~n~n~------~g~~~d~~~s--~~e 102 (238)
T KOG2444 34 RATSADGLVRERK---VRKHKESCRSERFIDEGQRVVTASAKLMVGTSDGAVYVFNWNL------EGAHSDRVCS--GEE 102 (238)
T ss_pred CCCCCCCCCCCCH---HHHHHHHHHHHHHHHCCEEECCCCCEEEEECCCCEEEEECCCC------CCHHHHHHHC--CCC
T ss_conf 0036776422002---5666654222355653412203376378632441599964775------3057776502--354
Q ss_pred EEEEEEEEC-CCCEEEEEECCCCEEEEEHH
Q ss_conf 078999857-99859999748978996388
Q gi|254780353|r 601 DIVTAFVYD-STCKLLVVSSKGNAFIVEES 629 (753)
Q Consensus 601 kIv~~~~~~-~~~~lll~Tk~G~ikr~~l~ 629 (753)
.|..+++.- ...+.+.....|.+-.+...
T Consensus 103 ~i~~~Ip~~~~~~~~c~~~~dg~ir~~n~~ 132 (238)
T KOG2444 103 SIDLGIPNGRDSSLGCVGAQDGRIRACNIK 132 (238)
T ss_pred CCEECCCCCCCCCEEEEECCCCCEEEECCC
T ss_conf 412101405654256885257705532235
No 101
>TIGR02225 recomb_XerD tyrosine recombinase XerD; InterPro: IPR011932 Proteins in this entry are part of the wider so-called "phage" integrase fmaily which describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This entry represents the chromosomally-encoded polypeptide XerD, which is closely related to, and interacts with, another chromosomally-encoded polypeptide, XerC (IPR011931 from INTERPRO). These proteins are site-specific tyrosine recombinases, which act by catalyzing the cutting and rejoining of the recombining DNA molecules . They form a cyclic heterotetrameric complex composed of two molecules of XerC and two molecules of XerD. The XerC-XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. XerD is composed of two domains, an N-terminal alpha-helical domain, and a C-terminal domain composed mostly of alpha helices, with a three-stranded antiprallel beta sheet along one edge . The active site is found at the extreme C-terminal end of the polypeptide. Most of the C-terminal domain is structurally homologous to that of other "phage" integrases, but the active site regions of these enzymes are stucturally distinct.; GO: 0003677 DNA binding, 0006310 DNA recombination, 0007049 cell cycle, 0007059 chromosome segregation, 0015074 DNA integration, 0051301 cell division.
Probab=40.18 E-value=23 Score=14.72 Aligned_cols=82 Identities=18% Similarity=0.292 Sum_probs=43.3
Q ss_pred CCCCCHHHH-HHHHHHHHHCCC-CCCHHHHHHCCCC-CCCCCCC-----CCCCHHHHHHHHHCC----------------
Q ss_conf 677788999-999999872865-3201344320367-7887760-----106988999898503----------------
Q gi|254780353|r 191 IPSHNVQEI-CEAALALIDNPE-ISIEKLLEYIIGP-DFPTGGI-----IVESRESIVESYRLG---------------- 246 (753)
Q Consensus 191 ipphnl~ev-~~a~~~~i~~~~-~~~~~l~~~i~gP-DFPTGG~-----i~~~~~~i~~~y~tG---------------- 246 (753)
+-++||.+. +++=..--.=|+ .|++|.-..+-+| |-+|--- + .++-=+.=+|.||
T Consensus 84 ~~~~dP~~~~~~~PK~~~~LP~vLt~~EV~~LL~~p~~~~~~~g~kr~~l-RDrAmLElLYATGlRVSELv~L~~~d~~l 162 (305)
T TIGR02225 84 LREDDPSALRIETPKVARKLPKVLTVEEVEALLAAPIDVDTPLGGKRPAL-RDRAMLELLYATGLRVSELVGLRLEDVNL 162 (305)
T ss_pred CCCCCCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHH-HHHHHHHHHHHCCCCEEEEECCCHHHHHC
T ss_conf 74557336642034224578883798999999850024677676764016-54799999986488355330561665200
Q ss_pred -CCE-EE-EEEEEEEEECCCCCEEEEEECCCCCCCHHHHHH
Q ss_conf -341-59-999999864378840799952420021689999
Q gi|254780353|r 247 -RGG-FR-VRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIE 284 (753)
Q Consensus 247 -~G~-i~-~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie 284 (753)
.|. |+ |+|| .+|.+| +|.+-.-..+++
T Consensus 163 ~~g~~~~~v~GK-------G~KERl----VP~G~~A~~~l~ 192 (305)
T TIGR02225 163 DEGVKVRKVRGK-------GSKERL----VPLGEEAIEALE 192 (305)
T ss_pred CCCEEEEEEEEC-------CCCEEE----CCCHHHHHHHHH
T ss_conf 277379998616-------884120----220289999999
No 102
>KOG0977 consensus
Probab=39.69 E-value=24 Score=14.67 Aligned_cols=14 Identities=29% Similarity=0.401 Sum_probs=6.2
Q ss_pred CCCCHHHHHHHHCC
Q ss_conf 66504677775167
Q gi|254780353|r 179 GTSGIAVGMATSIP 192 (753)
Q Consensus 179 g~~GIavG~at~ip 192 (753)
+++||.+=|-+.++
T Consensus 82 ~ts~ik~~ye~El~ 95 (546)
T KOG0977 82 ETSGIKAKYEAELA 95 (546)
T ss_pred CCCCHHHHHHHHHH
T ss_conf 88644577542678
No 103
>pfam01768 Birna_VP4 Birnavirus VP4 protein. VP4 is a viral protease. The large RNA segment of birnaviruses codes for a polyprotein (N-VP2-VP4-VP3-C).
Probab=39.33 E-value=7.2 Score=18.52 Aligned_cols=68 Identities=22% Similarity=0.301 Sum_probs=39.0
Q ss_pred HHHHHHHHCCHHHCCCCCCCCCCCC-CCCCCCCCCCHHHHHHHHH--------HHH---------HHHHHHCCCCCCCCC
Q ss_conf 9999996100132166132678870-8867797100246899855--------999---------999842187861752
Q gi|254780353|r 94 VYDSLVRLAQPFVQRYPLISGQGNF-GNIDGDSAAAYRYTEARMT--------QVA---------ELILQGVDEDAVDFR 155 (753)
Q Consensus 94 ~y~a~v~maq~~~~~~pli~g~Gnf-Gs~~~d~~Aa~RYte~rl~--------~~~---------~~ll~di~~~~v~~~ 155 (753)
+-+||--|| -||+.--+.| |.+.||.||+-||+-.--| .++ ..+-..++ -+.|.
T Consensus 5 V~sTLfP~a------APLigaad~~i~~l~~~~Aa~gr~~~~AAsGr~~~~s~~~~sg~~~~~~s~~~~~~L~--~~~~l 76 (264)
T pfam01768 5 VLSTLFPMA------APLIGAADQFIGDLLGDNASGGRYVSHAASGRYRDVSRRWRSGSLTGDKSYSLKSRLG--EEHWL 76 (264)
T ss_pred HHHHHCCCC------CCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCEEEECCCC--CCCCC
T ss_conf 443433342------2012246666665316633367624423478716688877517855653113103343--11257
Q ss_pred CCCCCCEEEEEEEC
Q ss_conf 16799632422312
Q gi|254780353|r 156 DTYNEEDSEPVVFP 169 (753)
Q Consensus 156 ~n~D~~~~EP~~lp 169 (753)
||-++.--|+...+
T Consensus 77 P~e~~n~~~~~i~r 90 (264)
T pfam01768 77 PNESENYEEVEIPR 90 (264)
T ss_pred CCCCCCCCCCCCCC
T ss_conf 64566533578888
No 104
>PRK08227 aldolase; Validated
Probab=38.36 E-value=25 Score=14.53 Aligned_cols=15 Identities=7% Similarity=-0.115 Sum_probs=7.7
Q ss_pred HHHHHHHHCCCCCEE
Q ss_conf 134577640676605
Q gi|254780353|r 296 PLLEDIRDESAEDVR 310 (753)
Q Consensus 296 ~gi~dirDeSd~~~~ 310 (753)
..+..+.+|.++-++
T Consensus 154 ~~lg~v~~e~~~~Gm 168 (291)
T PRK08227 154 KNIIQLVDAGLRYGM 168 (291)
T ss_pred HHHHHHHHHHHHCCC
T ss_conf 999999999998299
No 105
>KOG4212 consensus
Probab=37.51 E-value=25 Score=14.43 Aligned_cols=60 Identities=22% Similarity=0.294 Sum_probs=37.1
Q ss_pred EEEECCCCCCCHHHHHHHHHHHHHHC--CCHHHHHHHHCCCC-CEEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 99952420021689999999986402--22134577640676-6058898504545889999987542
Q gi|254780353|r 268 IVVTEIPYQVQKSRLIEKIAELIIAK--RIPLLEDIRDESAE-DVRIVLFPKNRSLDPDLLMESIFML 332 (753)
Q Consensus 268 ivIteiPy~v~k~~~ie~I~~lv~~~--ki~gi~dirDeSd~-~~~~vi~~~~r~~~~~~vl~~Lyk~ 332 (753)
..||.|||.+.-.+ +.+||++| .++-+.=+-|+|-+ .+.-||+.|. ..+.++-++.|-||
T Consensus 47 vfItNIpyd~rWqd----LKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~-~E~~qKa~E~lnk~ 109 (608)
T KOG4212 47 VFITNIPYDYRWQD----LKDLVREKVGEVEYVELLFDESGKARGCAVVEFKD-PENVQKALEKLNKY 109 (608)
T ss_pred EEEECCCCHHHHHH----HHHHHHHHCCCEEEEEEECCCCCCCCCCEEEEEEC-HHHHHHHHHHHHHC
T ss_conf 78865753211376----99999974473586652013478857734798507-77899999986443
No 106
>cd00765 Pyrophosphate_PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include pyrophosphate-dependent phosphofructokinases. These are found in bacteria as well as plants. These may be dimeric nonallosteric enzymes as in bacteria or allosteric heterotetramers as in plants.
Probab=36.85 E-value=26 Score=14.36 Aligned_cols=86 Identities=20% Similarity=0.210 Sum_probs=43.0
Q ss_pred CCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 67660588985045458899999875420000122331133312689722049999998999989999999999999999
Q gi|254780353|r 305 SAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAID 384 (753)
Q Consensus 305 Sd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~ 384 (753)
|.+.--..|-+--|.++ +..|+- .|||. .|++.|.+.=.-+-++|.++.+.-+ ++|.+|... .|-=
T Consensus 240 Sa~KYwHFIklMGRsaS-HiaLEc-----aLQTh--PNi~lI~EEv~~k~~TL~~Iv~~I~----d~I~~Ra~~--Gkny 305 (550)
T cd00765 240 STGKYWHFVKLMGRSAS-HIALEC-----ALKTH--PNICIISEEVSAQKQTLKNITDYMV----DVICKRAEL--GYNF 305 (550)
T ss_pred CCCCEEEEEEEECCCCC-HHHHHH-----HHHCC--CCEEEEHHHHHHCCCCHHHHHHHHH----HHHHHHHHC--CCCC
T ss_conf 04760799998168610-788877-----66228--9899867998864796999999999----999999975--9986
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999998641078999
Q gi|254780353|r 385 RRVEILKGLLIAYLNIDEII 404 (753)
Q Consensus 385 ~RlhIleGl~~a~~~ID~vI 404 (753)
--.-|=|||+--+-.+-..|
T Consensus 306 GviLIPEGLiefIPe~k~Li 325 (550)
T cd00765 306 GVVLVPEGLIEFIPEVKELI 325 (550)
T ss_pred EEEEECCHHHHHCHHHHHHH
T ss_conf 49995605887688899999
No 107
>pfam00416 Ribosomal_S13 Ribosomal protein S13/S18. This family includes ribosomal protein S13 from prokaryotes and S18 from eukaryotes.
Probab=36.73 E-value=26 Score=14.35 Aligned_cols=41 Identities=17% Similarity=0.204 Sum_probs=33.2
Q ss_pred CCCCCCCCCCCCHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Q ss_conf 11000000257757788998-------878999988999976667899
Q gi|254780353|r 413 PKPVMVSRFSLTENQVDAIL-------NLRLRSLRKLEEYQIKSELDN 453 (753)
Q Consensus 413 ~k~~L~~~f~lse~QA~aIL-------~mrL~rLt~le~~kl~~E~~e 453 (753)
-..+|..-|++...+|.+|+ ++++..||.-|.++|.+..++
T Consensus 13 v~~ALt~I~GIG~~~A~~Ic~~lgi~~~~k~~~Lt~~qi~~l~~~i~~ 60 (106)
T pfam00416 13 IEIALTYIKGIGRRKANQILKKAGVDKDKRVGELTEEEIDRIRDIISN 60 (106)
T ss_pred EEEEECCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 644411210528999999999919597757154999999999999975
No 108
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=36.38 E-value=26 Score=14.31 Aligned_cols=91 Identities=18% Similarity=0.213 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf 97046899999998689998980354053666542768874789999999610013216613267887088677971002
Q gi|254780353|r 50 FKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAY 129 (753)
Q Consensus 50 lKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~ 129 (753)
|-|+||-||+|.-.|=-..++ ..|+- -+.++++ -||- +.=++-|... -.-|++|. -|-.+|=.|-.-
T Consensus 4 LT~~QkeIL~aLi~LY~~~~r-~IKge-eIA~~l~-rnpG-------TVRNqmq~Lk-aLgLVegv--pGPkGGY~PT~k 70 (294)
T COG2524 4 LTSSQKEILQALINLYRRKKR-PIKGE-EIAEVLN-RNPG-------TVRNQMQSLK-ALGLVEGV--PGPKGGYKPTSK 70 (294)
T ss_pred CCHHHHHHHHHHHHHHHHCCC-CCCHH-HHHHHHC-CCCC-------HHHHHHHHHH-HCCCCCCC--CCCCCCCCCCHH
T ss_conf 218899999999999985378-85559-9999874-5961-------6999999988-52752256--689889653389
Q ss_pred HHHHHHHHHHHHHHH--HHCCCCCCCCCCCC-CCCEEEE
Q ss_conf 468998559999998--42187861752167-9963242
Q gi|254780353|r 130 RYTEARMTQVAELIL--QGVDEDAVDFRDTY-NEEDSEP 165 (753)
Q Consensus 130 RYte~rl~~~~~~ll--~di~~~~v~~~~n~-D~~~~EP 165 (753)
-| +.| +.++.+ --+|+| ||...|-
T Consensus 71 AY----------e~L~iqt~~~~--~~Vpi~~~G~~v~~ 97 (294)
T COG2524 71 AY----------EALSIQTLETE--FVVPIYKDGNVVED 97 (294)
T ss_pred HH----------HHHCCCCCCCC--EEEEEEECCEEEEE
T ss_conf 99----------87445777751--48889876828501
No 109
>PHA02126 hypothetical protein
Probab=35.82 E-value=20 Score=15.26 Aligned_cols=51 Identities=31% Similarity=0.457 Sum_probs=32.8
Q ss_pred CCCCCCCCCCCHHHHHHHHHCCCCEEE-------EEEEEEEEECCCCCEEEEEECCCC
Q ss_conf 788776010698899989850334159-------999999864378840799952420
Q gi|254780353|r 225 DFPTGGIIVESRESIVESYRLGRGGFR-------VRARWCVEEVGRGSWCIVVTEIPY 275 (753)
Q Consensus 225 DFPTGG~i~~~~~~i~~~y~tG~G~i~-------~r~k~~~e~~~~~~~~ivIteiPy 275 (753)
..|.|+.|+.+.+-|.++-..|-.+-+ .|-|+++|-+++----|.+||+|.
T Consensus 50 qlpggalivadrd~i~~~r~~~~nk~rmldtlsfcrdkmhfell~rppviif~t~~~~ 107 (153)
T PHA02126 50 QLPGGALIVADRDIITSIRRAGGNKPRMLDTLSFCRDKMHFELLGRPPVIIFNTQTPL 107 (153)
T ss_pred CCCCCEEEEECHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCH
T ss_conf 4898438995478899886236897425677887654466876189988999536756
No 110
>KOG2052 consensus
Probab=35.57 E-value=16 Score=15.88 Aligned_cols=16 Identities=19% Similarity=0.164 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q ss_conf 9998899997666789
Q gi|254780353|r 437 RSLRKLEEYQIKSELD 452 (753)
Q Consensus 437 ~rLt~le~~kl~~E~~ 452 (753)
-|||.|-+.|-..++.
T Consensus 489 aRltALriKKtl~~l~ 504 (513)
T KOG2052 489 ARLTALRIKKTLAKLS 504 (513)
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 4556788999999986
No 111
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.94 E-value=28 Score=14.15 Aligned_cols=65 Identities=14% Similarity=0.267 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHH----HHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCC
Q ss_conf 999766678999988776544203978----8789999999999874177433455542000011000000110024566
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDSLLNSGK----QQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKE 518 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~IL~s~~----~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E 518 (753)
|...+++...+|..+++.|++-++|-. .-.+.|.++|..++..-|.- -+.-+
T Consensus 58 e~~s~Q~~~~~L~~ev~~~~~~~~s~~~~~~t~~~~ie~~l~~l~~~aG~v------------------------~V~G~ 113 (247)
T COG3879 58 ELRSLQKKVNTLAAEVEDLENKLDSVRRSVLTDDAALEDRLEKLRMLAGSV------------------------PVTGP 113 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC------------------------CCCCC
T ss_conf 989999999999999999999998877767769999999999998885557------------------------77478
Q ss_pred CCEEEEECCCEEE
Q ss_conf 7059987101020
Q gi|254780353|r 519 PITVVISNRGWIR 531 (753)
Q Consensus 519 ~v~V~LS~~GyIK 531 (753)
-++|||+..||.=
T Consensus 114 Gl~ITi~d~~~~~ 126 (247)
T COG3879 114 GLVITIDDPGYSP 126 (247)
T ss_pred CEEEEECCCCCCC
T ss_conf 5799965898786
No 112
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=34.92 E-value=28 Score=14.15 Aligned_cols=42 Identities=17% Similarity=0.275 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf 878999988999976667899998877654420397887899
Q gi|254780353|r 433 NLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQ 474 (753)
Q Consensus 433 ~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~i 474 (753)
..+||.||.-|..++.+-.++...-.++++.+|..+.+-|+.
T Consensus 25 g~~lReLt~~Eq~Ela~y~~e~~~yK~~~k~~l~er~~~~~~ 66 (159)
T cd00225 25 GFPLRELTPDEQQELAQYVEDVADYKEEVKQALKERQEGLKL 66 (159)
T ss_pred CCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 622221888899999999999999999999999999988887
No 113
>TIGR01090 apt adenine phosphoribosyltransferase; InterPro: IPR005764 Adenine phosphoribosyltransferase (APRTase, 2.4.2.7 from EC) is a widely distributed enzyme, and its deficiency in humans causes the accumulation of 2,8-dihydroxyadenine. It is the sole catalyst for adenine recycling in most eukaryotes. AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate ; GO: 0003999 adenine phosphoribosyltransferase activity, 0006168 adenine salvage.
Probab=34.69 E-value=14 Score=16.33 Aligned_cols=49 Identities=22% Similarity=0.370 Sum_probs=33.4
Q ss_pred CHHHHHHHHHHHHHCCC--CCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEE
Q ss_conf 88999999999872865--320134432036778877601069889998985033415999
Q gi|254780353|r 195 NVQEICEAALALIDNPE--ISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR 253 (753)
Q Consensus 195 nl~ev~~a~~~~i~~~~--~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r 253 (753)
-++.+|+.+...+++-+ ++.+ +|=|||= =|-|. | -.=||++|-|=+-||
T Consensus 30 ~f~~~id~l~~~~~~~~~~id~d----~iVG~Ea--RGFif-G---~~LA~~LgvGFVPVR 80 (175)
T TIGR01090 30 LFRFLIDLLVERYKDANGEIDAD----LIVGLEA--RGFIF-G---AALAYKLGVGFVPVR 80 (175)
T ss_pred HHHHHHHHHHHHHHHCCCCCCEE----EEECCCC--CHHHH-H---HHHHHHHCCCEEEEE
T ss_conf 89999999999998607951513----6876766--72577-8---899997089806754
No 114
>COG0241 HisB Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]
Probab=34.23 E-value=7.5 Score=18.39 Aligned_cols=72 Identities=19% Similarity=0.409 Sum_probs=37.1
Q ss_pred CCCCCCCCCEEEEEEECCC-------CCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCC
Q ss_conf 7521679963242231234-------526764266504677775167778899999999987286532013443203677
Q gi|254780353|r 153 DFRDTYNEEDSEPVVFPSK-------FPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPD 225 (753)
Q Consensus 153 ~~~~n~D~~~~EP~~lp~~-------~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPD 225 (753)
+|+.+.|.-.-+|-+.||. +..+++---+|||.|+-|.. ++...-+.....+..-...++ .+.-+|+
T Consensus 22 ~yv~~~~~~~~~~g~i~al~~l~~~gy~lVvvTNQsGi~rgyf~~~---~f~~~~~~m~~~l~~~gv~id---~i~~Cph 95 (181)
T COG0241 22 DYVDSLDDFQFIPGVIPALLKLQRAGYKLVVVTNQSGIGRGYFTEA---DFDKLHNKMLKILASQGVKID---GILYCPH 95 (181)
T ss_pred CCCCCHHHHCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCCCCCHH---HHHHHHHHHHHHHHHCCCCCC---EEEECCC
T ss_conf 4338699912274589999998867976999987777556676689---999899999999997497036---4998788
Q ss_pred CCCCC
Q ss_conf 88776
Q gi|254780353|r 226 FPTGG 230 (753)
Q Consensus 226 FPTGG 230 (753)
+|.++
T Consensus 96 ~p~~~ 100 (181)
T COG0241 96 HPEDN 100 (181)
T ss_pred CCCCC
T ss_conf 98777
No 115
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=34.22 E-value=28 Score=14.07 Aligned_cols=15 Identities=33% Similarity=0.490 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHH
Q ss_conf 999999999999999
Q gi|254780353|r 377 SFRMQAIDRRVEILK 391 (753)
Q Consensus 377 ~~~L~k~~~RlhIle 391 (753)
.+.+-..+.|.+|++
T Consensus 299 ~iplPd~~~R~~Ilk 313 (390)
T PRK03992 299 EVPLPDEEGRLEILK 313 (390)
T ss_pred EECCCCHHHHHHHHH
T ss_conf 708949999999999
No 116
>KOG2264 consensus
Probab=34.20 E-value=28 Score=14.06 Aligned_cols=11 Identities=18% Similarity=0.105 Sum_probs=6.4
Q ss_pred CCCCCCEEEEE
Q ss_conf 16799632422
Q gi|254780353|r 156 DTYNEEDSEPV 166 (753)
Q Consensus 156 ~n~D~~~~EP~ 166 (753)
|+-+..+.||-
T Consensus 163 P~~~pr~l~pp 173 (907)
T KOG2264 163 PLQIPRELEPP 173 (907)
T ss_pred CCCCCCCCCCC
T ss_conf 55576568984
No 117
>pfam04849 HAP1_N HAP1 N-terminal conserved region. This family represents an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntington's disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34.
Probab=34.02 E-value=29 Score=14.04 Aligned_cols=45 Identities=16% Similarity=0.348 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 997666789999887765442039788789999999999874177
Q gi|254780353|r 444 EYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 444 ~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd 488 (753)
+.+++...+.+..+-++|...|..-...-..+..||.+++++|..
T Consensus 244 i~dLq~r~k~l~~EnEEL~~~L~~~ke~Q~~L~~El~el~~rY~E 288 (307)
T pfam04849 244 IVDLQKKCKSYALENEELQQHLAAAKDAQRQLQAELQELQDKYAE 288 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999988548999999999899899999999999999999
No 118
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=33.33 E-value=25 Score=14.44 Aligned_cols=14 Identities=36% Similarity=0.527 Sum_probs=6.4
Q ss_pred HHHCCCCCCHHHHH
Q ss_conf 87286532013443
Q gi|254780353|r 206 LIDNPEISIEKLLE 219 (753)
Q Consensus 206 ~i~~~~~~~~~l~~ 219 (753)
+.+..++|.++|.+
T Consensus 31 l~~~~evTDEeiAe 44 (178)
T PRK06266 31 LIKKGEVTDEEIAE 44 (178)
T ss_pred CCCCCCCCHHHHHH
T ss_conf 26546578999999
No 119
>KOG0771 consensus
Probab=33.26 E-value=29 Score=13.96 Aligned_cols=105 Identities=15% Similarity=0.181 Sum_probs=48.2
Q ss_pred CCCCCCCCCCCCCCEEEEEEE-ECC-CCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEEC---CCCCEEEEEECC--CC
Q ss_conf 442222357676530789998-579-98599997489789963887402333562788536---898056889618--98
Q gi|254780353|r 587 GEAIQLLIDLNHNQDIVTAFV-YDS-TCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVS---SEEKMKLVVKVT--GD 659 (753)
Q Consensus 587 G~pI~~ll~l~~~EkIv~~~~-~~~-~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk---~~D~li~v~~~~--~d 659 (753)
|-++...-+.+.+|.+-.+-- .++ ...+.+++..+.++++..-+.....+ + .+..+. ..++-++...+. |.
T Consensus 217 g~~~a~~t~~~k~~~~~~cRF~~d~~~~~l~laa~~~~~~~v~~~~~~~w~~-~-~~l~~~~~~~~~~siSsl~VS~dGk 294 (398)
T KOG0771 217 GAALARKTPFSKDEMFSSCRFSVDNAQETLRLAASQFPGGGVRLCDISLWSG-S-NFLRLRKKIKRFKSISSLAVSDDGK 294 (398)
T ss_pred CCHHHHCCCCCCCHHHHHCEECCCCCCCEEEEEEECCCCCCEEEEEEEEECC-C-CCCCHHHHHHCCCCCEEEEECCCCC
T ss_conf 8602114876643043311101248775489998617888446887545326-6-4220112331257503688758884
Q ss_pred EEEEEECCCCEEEEEHHHCCCC--C-HHH-C-CEEEECC
Q ss_conf 0999956993899557877833--6-121-4-1334218
Q gi|254780353|r 660 HVAVVGENRKLLIFSIDQIPEM--S-RGK-G-VRLQSYK 693 (753)
Q Consensus 660 ~iiliT~~Gk~LrF~~~eIr~~--g-Rgk-G-Vk~i~Lk 693 (753)
-+++.|..|-++.+...++... - ++- | |.+..+-
T Consensus 295 f~AlGT~dGsVai~~~~~lq~~~~vk~aH~~~VT~ltF~ 333 (398)
T KOG0771 295 FLALGTMDGSVAIYDAKSLQRLQYVKEAHLGFVTGLTFS 333 (398)
T ss_pred EEEEECCCCCEEEEEECEEEEEEEEHHHHEEEEEEEEEC
T ss_conf 799860678589999000055675132402056668986
No 120
>PRK09458 pspB phage shock protein B; Provisional
Probab=33.18 E-value=29 Score=13.96 Aligned_cols=23 Identities=4% Similarity=0.346 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf 66678999988776544203978
Q gi|254780353|r 447 IKSELDNLLAEKEKIDSLLNSGK 469 (753)
Q Consensus 447 l~~E~~eL~~~i~~L~~IL~s~~ 469 (753)
+-+..+.+.++|+.|+.||+.+.
T Consensus 47 L~~~A~~m~eRI~tLE~ILDae~ 69 (75)
T PRK09458 47 LTEKAEKMRERIQTLEAILDAEH 69 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 99999999999999999972669
No 121
>TIGR00185 rRNA_methyl_2 RNA methyltransferase, TrmH family, group 2; InterPro: IPR004440 The RNA methyltransferase, TrmH family, group 2 are part of the trmH (spoU) family of rRNA methylases that are involved in tRNA and rRNA base modification.; GO: 0008173 RNA methyltransferase activity, 0009451 RNA modification.
Probab=33.02 E-value=19 Score=15.31 Aligned_cols=40 Identities=23% Similarity=0.340 Sum_probs=27.7
Q ss_pred ECCCCCCCCCCC-CCCCCCCCCEEEEEECCCCC--EEEEECCC
Q ss_conf 025655445532-23455555401211114781--78980688
Q gi|254780353|r 531 RSLKSHSVDLSA-LHFKEGDSLKIALHAHTTDR--ILLLSTDG 570 (753)
Q Consensus 531 Kr~k~~~~~~~~-~~~KegD~l~~~~~~~t~d~--LLffTs~G 570 (753)
|+++|.+.+... +.+...+....++.+...++ |.+||.+|
T Consensus 42 K~L~RAGLdyw~fv~~~~H~s~E~fle~~~~~~~nlf~lT~~G 84 (161)
T TIGR00185 42 KRLKRAGLDYWEFVQLFYHKSWEEFLEAEKPQKGNLFLLTKKG 84 (161)
T ss_pred CEEEECCCCCCCCEEEEECCCHHHHHHHCCCCCEEEEEEEECC
T ss_conf 1423147874452323562556888863389971688884038
No 122
>COG2949 SanA Uncharacterized membrane protein [Function unknown]
Probab=32.99 E-value=22 Score=14.83 Aligned_cols=77 Identities=27% Similarity=0.349 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHC--CCCCCHHHHHH-----HHHHHHCCHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 046899999998689998980354053666542--76887478999-----99996100132166132678870886779
Q gi|254780353|r 52 PVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIG--KLHPHGDQSVY-----DSLVRLAQPFVQRYPLISGQGNFGNIDGD 124 (753)
Q Consensus 52 pvqRril~~m~~~~~~~~~~~~K~ar~vg~v~g--kyhPHGd~s~y-----~a~v~maq~~~~~~pli~g~GnfGs~~~d 124 (753)
-++|-|-|+-. ++..+..-.=-+|-||-|+| ||-+.|.--.| +|.+.+=+.=+.+|.|+.|. .++..-+
T Consensus 34 ~~dr~i~~~t~--~~i~~~~~~lP~r~vgvVLGtsky~~~g~~N~yy~~Ri~aA~~ly~~gKV~~LLlSGD--N~~~sYn 109 (235)
T COG2949 34 IADRWISWATA--GLIYDDIQDLPARQVGVVLGTSKYLAKGPPNRYYTYRIDAAIALYKAGKVNYLLLSGD--NATVSYN 109 (235)
T ss_pred HHHHHHHHHHC--CCCCCCHHHCCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECC--CCCCCCC
T ss_conf 98788776534--7621685458862048997223002479955768999999999986477049998168--7753465
Q ss_pred CCCCHHHH
Q ss_conf 71002468
Q gi|254780353|r 125 SAAAYRYT 132 (753)
Q Consensus 125 ~~Aa~RYt 132 (753)
.|-+|+=-
T Consensus 110 Ep~tM~kd 117 (235)
T COG2949 110 EPRTMRKD 117 (235)
T ss_pred CHHHHHHH
T ss_conf 45899999
No 123
>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=32.90 E-value=30 Score=13.92 Aligned_cols=57 Identities=12% Similarity=0.147 Sum_probs=32.1
Q ss_pred CCEEEEEECCC-CCEEEEEC-CCEEEEEEHH-HCC--C-----CCCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf 54012111147-81789806-8827875511-212--1-----234444222235767653078999
Q gi|254780353|r 550 SLKIALHAHTT-DRILLLST-DGKAYTLPAG-NLL--S-----GRGHGEAIQLLIDLNHNQDIVTAF 606 (753)
Q Consensus 550 ~l~~~~~~~t~-d~LLffTs-~GkvY~l~a~-~Ip--s-----~~~kG~pI~~ll~l~~~EkIv~~~ 606 (753)
|+..+-..|.| .+|.-+=| .|..+-+--. +=| + .+.+|.|+..+=.|+.|||=++++
T Consensus 1057 F~~aF~~IN~~f~~iF~~LSP~G~g~L~Le~PdDPF~GGl~l~a~P~~K~vqrleAMSGGEKSLtAL 1123 (1202)
T TIGR02169 1057 FMEAFEAINENFKEIFAELSPGGTGELILENPDDPFAGGLELKAKPKGKPVQRLEAMSGGEKSLTAL 1123 (1202)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCEEEEEECCCCEEEHHHCCCCHHHHHHH
T ss_conf 9999999999999999853889824654358887436871788873788502022103838999999
No 124
>TIGR00018 panC pantoate--beta-alanine ligase; InterPro: IPR003721 D-Pantothenate is synthesized via four enzymes from ketoisovalerate, which is an intermediate of branched-chain amino acid synthesis . Pantoate-beta-alanine ligase, also know as pantothenate synthase, (6.3.2.1 from EC) catalyzes the formation of pantothenate from pantoate and alanine in the pantothenate biosynthesis pathway .; GO: 0004592 pantoate-beta-alanine ligase activity, 0015940 pantothenate biosynthetic process.
Probab=32.64 E-value=24 Score=14.61 Aligned_cols=99 Identities=26% Similarity=0.392 Sum_probs=53.2
Q ss_pred CCCCEEEEEHHHHHH--HCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 989803540536665--427688747899999996100132166132678870886779710024689985599999984
Q gi|254780353|r 68 FGAAFKKSARIVGEV--IGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQ 145 (753)
Q Consensus 68 ~~~~~~K~ar~vg~v--~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~ 145 (753)
..++|+|+ ||-| ||..| .|-.|+-+-.+.=+-- .-=.-.|+|- +||--. |=.+=||=.|-=+. +++
T Consensus 19 ~eGrfrk~---vGfVPTMG~LH-~GH~sL~~~a~~End~-vvvSIFVNP~-QFgp~E-Dl~~YPR~l~~D~~-----l~E 86 (310)
T TIGR00018 19 REGRFRKT---VGFVPTMGALH-EGHLSLIDRAVKENDL-VVVSIFVNPL-QFGPNE-DLEAYPRDLEEDLA-----LLE 86 (310)
T ss_pred HCCCEEEE---EECCCCCCCHH-HHHHHHHHHHHHHCCE-EEEEEEECCC-CCCCCC-CHHHCCCCHHHHHH-----HHH
T ss_conf 16850123---31226731015-6789999999866885-8999975787-888875-45445798589999-----998
Q ss_pred HCCCCCCCCCCCC-----CCC-----EEEEEEECCC-CCHHHHCCC
Q ss_conf 2187861752167-----996-----3242231234-526764266
Q gi|254780353|r 146 GVDEDAVDFRDTY-----NEE-----DSEPVVFPSK-FPNLLANGT 180 (753)
Q Consensus 146 di~~~~v~~~~n~-----D~~-----~~EP~~lp~~-~P~lL~Ng~ 180 (753)
.+.=+.| |.|+- +|. ++.-.++|.+ +-.. +-|+
T Consensus 87 ~lgVd~~-FaP~~~~mYP~~~PldieE~~~~~~~p~~ls~~-LeGa 130 (310)
T TIGR00018 87 KLGVDVV-FAPKVHEMYPDGAPLDIEEQKTTVLVPKALSEV-LEGA 130 (310)
T ss_pred HCCCCEE-ECCCCEEECCCCCCCCCCCCEEEEECCCCCCCC-CCCC
T ss_conf 3896588-557214407886232113754478617654100-1678
No 125
>KOG1302 consensus
Probab=32.55 E-value=30 Score=13.88 Aligned_cols=32 Identities=25% Similarity=0.393 Sum_probs=18.5
Q ss_pred CCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHC
Q ss_conf 2897046899999998689998980354053666542
Q gi|254780353|r 48 DGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIG 84 (753)
Q Consensus 48 DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~g 84 (753)
-|++++-||-|...-+- .|+ +|+-=+--+.||
T Consensus 15 ~~lq~~a~~eL~~lLds--~pG---~K~lvlD~dL~~ 46 (600)
T KOG1302 15 QGLQEVARRELISLLDS--LPG---KKELVLDPDLMG 46 (600)
T ss_pred HHHHHHHHHHHHHHHHC--CCC---CEEEEECCCCCC
T ss_conf 88799999999999964--898---615886300156
No 126
>cd07603 BAR_ACAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) containing an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. Vertebrates contain at least three members, ACAP1, ACAP2, and ACAP3. ACAP1 and ACAP2 are Arf6-specific GAPs, involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration, by mediating Arf6 signaling. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=32.45 E-value=30 Score=13.87 Aligned_cols=35 Identities=11% Similarity=0.193 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 78899887899998899997666789999887765
Q gi|254780353|r 427 QVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKI 461 (753)
Q Consensus 427 QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L 461 (753)
|++.++--||.++.+-++...++..+...+..++|
T Consensus 83 q~~~~v~~pL~~f~k~dl~~vKe~KK~FdK~s~~y 117 (200)
T cd07603 83 QAQRTVSTQLQNFVKEDIKKVKESKKHFEKISDDL 117 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999973689999888999878889
No 127
>cd04585 CBS_pair_ACT_assoc2 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce acetoin as an external carbon storage compound and then later reuse it as a carbon and energy source during their stationary phase and sporulation. In addition these CBS domains are associated with a downstream ACT domain, which is linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. Pairs of ACT domains bind specifically to a particular amino acid leading to regulation of the linked enzyme. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The i
Probab=31.18 E-value=32 Score=13.72 Aligned_cols=39 Identities=21% Similarity=0.368 Sum_probs=18.3
Q ss_pred HHHHHHCCCCC---CHHHHHHHHHHHHCCHHHCCCCCCCCCCC
Q ss_conf 36665427688---74789999999610013216613267887
Q gi|254780353|r 78 IVGEVIGKLHP---HGDQSVYDSLVRLAQPFVQRYPLISGQGN 117 (753)
Q Consensus 78 ~vg~v~gkyhP---HGd~s~y~a~v~maq~~~~~~pli~g~Gn 117 (753)
-|+++|- -+| +.|.++++|+-.|.+.--.+.|.+|.+|.
T Consensus 68 ~v~~im~-~~~~tv~~~~~l~~a~~~m~~~~i~~lpVvd~~g~ 109 (122)
T cd04585 68 KVSDIMT-RDPITVSPDASVEEAAELMLERKISGLPVVDDQGR 109 (122)
T ss_pred CHHHHCC-CCCEEEECCCCHHHHHHHHHHCCCCEEEEEECCCE
T ss_conf 9999577-89889938866999999998759878999958998
No 128
>pfam10985 DUF2805 Protein of unknown function (DUF2805). This is a bacterial family of proteins with unknown function.
Probab=31.14 E-value=31 Score=13.79 Aligned_cols=33 Identities=24% Similarity=0.466 Sum_probs=22.2
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 789999752000011000000257757788998
Q gi|254780353|r 400 IDEIIAIIRNEDKPKPVMVSRFSLTENQVDAIL 432 (753)
Q Consensus 400 ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL 432 (753)
||+||+.-=+-..|-+++...|+|+|.|...|.
T Consensus 1 i~riIeMAweDrt~FeaI~~~~gl~E~eVi~lM 33 (73)
T pfam10985 1 ISRIIEMAWEDRTPFEAIERQFGLSEKEVIKLM 33 (73)
T ss_pred CHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHH
T ss_conf 939999998269989999999895999999999
No 129
>COG3546 Mn-containing catalase [Inorganic ion transport and metabolism]
Probab=31.08 E-value=24 Score=14.58 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCHHHHHHHHHHH---HHHHHHHC
Q ss_conf 0886779710024689985599---99998421
Q gi|254780353|r 118 FGNIDGDSAAAYRYTEARMTQV---AELILQGV 147 (753)
Q Consensus 118 fGs~~~d~~Aa~RYte~rl~~~---~~~ll~di 147 (753)
||-.+|.-+|||||..-+++-- ..+||.||
T Consensus 29 lGG~~GElsaamqYl~Q~fn~r~~~~~dll~DI 61 (277)
T COG3546 29 LGGAFGELSAAMQYLFQGFNVRDAKYKDLLMDI 61 (277)
T ss_pred HCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf 679624799999998753466753799999986
No 130
>TIGR01882 peptidase-T peptidase T; InterPro: IPR010161 Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases . 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 entry represents metallopeptidases belonging to MEROPS peptidase family M20 (clan MH), subfamily M20B. They are tripeptide aminopeptidases commonly known as Peptidase T, which have a substrate preference for hydrophobic peptides.; GO: 0008270 zinc ion binding, 0016285 cytosol alanyl aminopeptidase activity, 0045148 tripeptide aminopeptidase activity, 0006518 peptide metabolic process, 0005737 cytoplasm.
Probab=31.02 E-value=32 Score=13.70 Aligned_cols=58 Identities=34% Similarity=0.545 Sum_probs=37.4
Q ss_pred HCCCCCCC--CCCCCCCCEE------EEEEECCCCCHHHH--------------CCC---CCHHHHHHHHCCCCCHHHHH
Q ss_conf 21878617--5216799632------42231234526764--------------266---50467777516777889999
Q gi|254780353|r 146 GVDEDAVD--FRDTYNEEDS------EPVVFPSKFPNLLA--------------NGT---SGIAVGMATSIPSHNVQEIC 200 (753)
Q Consensus 146 di~~~~v~--~~~n~D~~~~------EP~~lp~~~P~lL~--------------Ng~---~GIavG~at~ipphnl~ev~ 200 (753)
|..-+-|. -..||||..+ |=+.=|-.||||== -|| +||| |+.
T Consensus 87 DFn~enVnPQI~enYDGes~i~lgd~eftLdP~~fPnL~~YKGqTlittdGtTLLG~d~K~Gia-------------EiM 153 (413)
T TIGR01882 87 DFNAENVNPQILENYDGESVIQLGDLEFTLDPEDFPNLKKYKGQTLITTDGTTLLGADDKAGIA-------------EIM 153 (413)
T ss_pred CCCCCCCCCCEEECCCCCCEEEECCEEEEECCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCHH-------------HHH
T ss_conf 2256787775520368850455065017627221764225887678851686111665334288-------------999
Q ss_pred HHHHHHHH-CCCCCCHH
Q ss_conf 99999872-86532013
Q gi|254780353|r 201 EAALALID-NPEISIEK 216 (753)
Q Consensus 201 ~a~~~~i~-~~~~~~~~ 216 (753)
-+.-+||+ +|++.--+
T Consensus 154 T~adYL~~ihPe~kHG~ 170 (413)
T TIGR01882 154 TLADYLLNIHPEVKHGK 170 (413)
T ss_pred HHHHHHHHCCCCCCCCE
T ss_conf 99999850489610373
No 131
>pfam00465 Fe-ADH Iron-containing alcohol dehydrogenase.
Probab=30.74 E-value=32 Score=13.67 Aligned_cols=17 Identities=18% Similarity=0.137 Sum_probs=5.6
Q ss_pred CCCCCHHHHHHHHHHHH
Q ss_conf 67778899999999987
Q gi|254780353|r 191 IPSHNVQEICEAALALI 207 (753)
Q Consensus 191 ipphnl~ev~~a~~~~i 207 (753)
+.||-..|-++.+....
T Consensus 59 v~~~p~~~~v~~~~~~~ 75 (312)
T pfam00465 59 VEPNPTLEEVDEAAAAA 75 (312)
T ss_pred CCCCCCHHHHHHHHHHH
T ss_conf 27999999999999999
No 132
>cd06231 Peptidase_M14-like_4 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=30.11 E-value=12 Score=16.90 Aligned_cols=119 Identities=14% Similarity=0.109 Sum_probs=58.5
Q ss_pred HHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCC-----CCCCCCCCCC-CCC---C--
Q ss_conf 6899999998689998980354053666542768874789999999610013216-----6132678870-886---7--
Q gi|254780353|r 54 HRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQR-----YPLISGQGNF-GNI---D-- 122 (753)
Q Consensus 54 qRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~-----~pli~g~Gnf-Gs~---~-- 122 (753)
++..||++.-.+-.++ +.+.=|.|-|-| |-|-|-.++.+=+-..|.+|.-+ +|+|.+.|-= +++ +
T Consensus 26 ~~ypL~~~~s~~~~~~---~P~vLItgGvHG-~E~aGv~gaL~fL~~~a~~~~~~~nl~v~PcvnP~Gye~~~R~N~~g~ 101 (236)
T cd06231 26 QSYPLYALKSRGWDSD---LPRVLITAGIHG-DEPAGPLGALEFLRAAALELAQDVNLSVYPCINPSGFEAITRWNRNGI 101 (236)
T ss_pred CCCCEEEEECCCCCCC---CCEEEEECCCCC-CCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCC
T ss_conf 4363689954776788---985999524146-665228999999998889874477389996428110222454686456
Q ss_pred --------CCCCCCHHHHHHHHHHHH--HHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCC
Q ss_conf --------797100246899855999--999842187861752167996324223123452676426
Q gi|254780353|r 123 --------GDSAAAYRYTEARMTQVA--ELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANG 179 (753)
Q Consensus 123 --------~d~~Aa~RYte~rl~~~~--~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng 179 (753)
+.++.-.|+...-+.... -.+.=|+-+ |++ .+-+|.++-.|. +|++.=.-++++
T Consensus 102 DpNRsF~~~sp~~E~~~l~~~~~~~~~~~~~~idLHE-d~~-s~dty~yefrpa-~aaRdg~~~~~~ 165 (236)
T cd06231 102 DPNRSFRSESPSPEVRLLMEWLRRLGAAFDLHIDLHE-DTE-STDTYNYEFRPA-LAARDGLPARAW 165 (236)
T ss_pred CCCHHHCCCCCCHHHHHHHHHHHHCCCCEEEEEEECC-CCC-CCCCCCEEECCC-CCCCCCHHHHHC
T ss_conf 8314431489618999999999863887458998056-788-788111024765-456645233312
No 133
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=29.83 E-value=33 Score=13.56 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHHHH
Q ss_conf 97666789999887
Q gi|254780353|r 445 YQIKSELDNLLAEK 458 (753)
Q Consensus 445 ~kl~~E~~eL~~~i 458 (753)
+.++.|.+++.++|
T Consensus 45 e~Lr~erN~iSK~I 58 (422)
T PRK05431 45 EELQAERNALSKEI 58 (422)
T ss_pred HHHHHHHHHHHHHH
T ss_conf 99999999999999
No 134
>KOG1684 consensus
Probab=29.79 E-value=23 Score=14.79 Aligned_cols=57 Identities=19% Similarity=0.139 Sum_probs=25.8
Q ss_pred CCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCC---CCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 87478999999961001321661326788708---867797100246899855999999842
Q gi|254780353|r 88 PHGDQSVYDSLVRLAQPFVQRYPLISGQGNFG---NIDGDSAAAYRYTEARMTQVAELILQG 146 (753)
Q Consensus 88 PHGd~s~y~a~v~maq~~~~~~pli~g~GnfG---s~~~d~~Aa~RYte~rl~~~~~~ll~d 146 (753)
-|=+-++|-.++-..++- .+-+|--.|+-| +-+||-.|+.+-.-.+=++.+...|.+
T Consensus 64 leMv~~~~~~L~~we~s~--~~k~vIlkgs~~raFCAGgDI~~~ae~~~d~~~~~~~~fF~~ 123 (401)
T KOG1684 64 LEMVLSIYPKLVEWEKSP--LVKLVILKGSGGRAFCAGGDIKAVAESIKDKETPEVKKFFTE 123 (401)
T ss_pred HHHHHHHHHHHHHHCCCC--CCEEEEEECCCCCEEECCCCHHHHHHHHHCCCCHHHHHHHHH
T ss_conf 888998899887540277--721899916898601458657889887624895588999999
No 135
>KOG1954 consensus
Probab=29.77 E-value=33 Score=13.55 Aligned_cols=74 Identities=18% Similarity=0.295 Sum_probs=52.1
Q ss_pred HHCCCCCCHHHHHHHHHHHHCCHH-HC--------CCCCCCCCCCC-CCCCCCC-CCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 542768874789999999610013-21--------66132678870-8867797-1002468998559999998421878
Q gi|254780353|r 82 VIGKLHPHGDQSVYDSLVRLAQPF-VQ--------RYPLISGQGNF-GNIDGDS-AAAYRYTEARMTQVAELILQGVDED 150 (753)
Q Consensus 82 v~gkyhPHGd~s~y~a~v~maq~~-~~--------~~pli~g~Gnf-Gs~~~d~-~Aa~RYte~rl~~~~~~ll~di~~~ 150 (753)
.||.|- -|-++.---| +-|+| ++ -+-.+-+|||= ||++|.. ++-++|++..|++++..++.-
T Consensus 63 l~GqyS-tGKTtfi~yL--le~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR---- 135 (532)
T KOG1954 63 LVGQYS-TGKTTFIRYL--LEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR---- 135 (532)
T ss_pred EEECCC-CCHHHHHHHH--HHCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHH----
T ss_conf 972466-6603999998--717787554689997530689985586566678625646877516566667999998----
Q ss_pred CCCCCCCCCCCEEEEEEECCCCCHHHHC
Q ss_conf 6175216799632422312345267642
Q gi|254780353|r 151 AVDFRDTYNEEDSEPVVFPSKFPNLLAN 178 (753)
Q Consensus 151 ~v~~~~n~D~~~~EP~~lp~~~P~lL~N 178 (753)
..++++||-++-
T Consensus 136 ----------------f~csqmp~~vLe 147 (532)
T KOG1954 136 ----------------FMCSQLPNQVLE 147 (532)
T ss_pred ----------------HHHHCCCHHHHH
T ss_conf ----------------877338756550
No 136
>cd04600 CBS_pair_HPP_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is uncertain, but they are thought to be transporters. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=29.71 E-value=33 Score=13.54 Aligned_cols=31 Identities=19% Similarity=0.434 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHCCHHHCCCCCCCCCCCC-CCC
Q ss_conf 7899999996100132166132678870-886
Q gi|254780353|r 91 DQSVYDSLVRLAQPFVQRYPLISGQGNF-GNI 121 (753)
Q Consensus 91 d~s~y~a~v~maq~~~~~~pli~g~Gnf-Gs~ 121 (753)
|+++.+|+-.|.+.--..+|.+|.+|.+ |-+
T Consensus 10 ~~tl~~a~~~m~~~~~~~lpVvd~~g~lvGii 41 (124)
T cd04600 10 DTSLEEAWALLRRHRIKALPVVDGDRRLVGIV 41 (124)
T ss_pred CCCHHHHHHHHHHCCCCEEEEEECCCCEEEEE
T ss_conf 39799999999972997899995698088885
No 137
>TIGR02171 Fb_sc_TIGR02171 Fibrobacter succinogenes paralogous family TIGR02171.
Probab=29.62 E-value=33 Score=13.53 Aligned_cols=111 Identities=11% Similarity=0.138 Sum_probs=59.4
Q ss_pred CCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCC
Q ss_conf 56670599871010202565544553223455555401211114781789806882787551121212344442222357
Q gi|254780353|r 516 EKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLID 595 (753)
Q Consensus 516 ~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~ 595 (753)
.++.|-+.|+++|-=|.+=..==|.+|..|=. ..=.+|.+||+.+++|+...-=+. |++- .
T Consensus 514 gEQACNaSLakDGs~RTLFLDFGG~TG~~Fvg-------~kYgvHERlLVaDS~GkLV~~vaa--P~Gy----------t 574 (982)
T TIGR02171 514 GEQACNASLAKDGSKRTLFLDFGGSTGRAFVG-------QKYGVHERLLVADSKGKLVRAVAA--PAGY----------T 574 (982)
T ss_pred CCHHHCCCHHCCCCCCEEEEECCCCCCHHHHC-------CCCCCEEEEEEECCCCCEEEEECC--CCCC----------C
T ss_conf 21020001320776732688568861045404-------775102244563147761332267--8888----------8
Q ss_pred CCCCCEEEEEEEECCCCEEEE--EECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCE
Q ss_conf 676530789998579985999--9748978996388740233356278853689805
Q gi|254780353|r 596 LNHNQDIVTAFVYDSTCKLLV--VSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKM 650 (753)
Q Consensus 596 l~~~EkIv~~~~~~~~~~lll--~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~l 650 (753)
++--|=|.+|+..+.....+. +-.+|-=+|+-|=++.. ..++.|-|+|+|
T Consensus 575 FDHtEWV~GmlnGe~~N~aVAtLtn~nGaH~KiALiNl~~-----~~v~eLVEGdEL 626 (982)
T TIGR02171 575 FDHTEWVLGMLNGERSNLAVATLTNVNGAHKKIALINLSD-----SKVTELVEGDEL 626 (982)
T ss_pred CCCHHHEEEEECCCCCCEEEEEEECCCCCCCEEEEEECCC-----CCEEEEECCCCC
T ss_conf 4411320212147885479996626866643488998378-----847998616877
No 138
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family; InterPro: IPR014243 This entry represents a set of transcription factors found in some endospore-forming bacteria within the Firmicutes (low-GC Gram-positive bacteria). In some species these proteins are encoded multiple times. The best characterised protein in this entry is the prespore-specific transcription factor RsfA from Bacillus subtilis, previously known as YwfN. Expression of RsfA is controlled by sigma factor F, and it seems to improve the efficiency of sporulation by fine-tuning the expression of genes in the sigma F regulon, particularly the timing of their expression . It also negatively regulates spoIIR and its own synthesis. A paralog in B. subtilis is designated YlbO, though its function is not known. A highly variable linker region separates two very strongly conserved sequence regions within the protein. .
Probab=29.54 E-value=33 Score=13.52 Aligned_cols=105 Identities=18% Similarity=0.282 Sum_probs=63.7
Q ss_pred HHHHH-HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 99989-9999999999999999-999999999864107899997520000110000002577577889988789999889
Q gi|254780353|r 365 LAHRR-EVLFRRSSFRMQAIDR-RVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKL 442 (753)
Q Consensus 365 ~~~R~-~vi~rr~~~~L~k~~~-RlhIleGl~~a~~~ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~l 442 (753)
|.||= -+|+++++-.++.|++ |.|---.--..-.-|..||....+-.+. ...+.+|- .
T Consensus 47 CGFRWNa~VRk~Y~~aI~lAKK~RK~~KRak~~~~lTl~~VI~FLq~~~~~-------------------~~~~~~l~-~ 106 (163)
T TIGR02894 47 CGFRWNAVVRKRYEEAIELAKKQRKERKRAKKAESLTLQDVISFLQNLKTT-------------------NPSDQALQ-K 106 (163)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH-------------------HHHHHHHH-H
T ss_conf 025335787585899999998861478864378626878899999998887-------------------79999999-8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 99976667899998877654420397887899999999998741774
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
|.++|.+|...|++++++|++=|..-......|.++-..+.+...-.
T Consensus 107 E~~~L~~~~~~Lq~~ne~L~~el~~L~~~~~~~eEDY~~L~~IMdRA 153 (163)
T TIGR02894 107 ENERLKKELESLQKRNEELEKELEKLEKRQSTIEEDYETLIDIMDRA 153 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999999999999999998467899999999999887
No 139
>TIGR01511 ATPase-IB1_Cu copper-translocating P-type ATPase; InterPro: IPR006403 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , . F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents P-type ATPases that specialise in cation and copper transport; those transporting copper (3.6.3.4 from EC) have been classified as belonging to the IB subfamily , , . These proteins are involved in a variety of processes in both prokaryotes and eukaryotes. Some of these P-ATPases import copper into cells, such as in Arabidopsis sp., which require copper to create functional hormone receptors for ethylene signalling. Other P-ATPases are involved in copper export out of cells, such as occurs with the efflux of hepatic copper into the bile in eukaryotes. In bacteria, some of these P-ATPases play a role in osmotic adaptation. Certain copper ATPases have been implicated in both Wilson and Menkes diseases . More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0004008 copper-exporting ATPase activity, 0005524 ATP binding, 0046872 metal ion binding, 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0016020 membrane.
Probab=29.19 E-value=34 Score=13.48 Aligned_cols=131 Identities=17% Similarity=0.304 Sum_probs=80.5
Q ss_pred CCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCC--------CEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHH
Q ss_conf 5320134432036778877601069889998985033--------41599999998643788407999524200216899
Q gi|254780353|r 211 EISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGR--------GGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRL 282 (753)
Q Consensus 211 ~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~--------G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ 282 (753)
++...|.++.-||--+|+=|+|+.|.+.+.|.--||- |.-.+=|.... .|.=.+-+|..+ +..+
T Consensus 93 ~l~~GD~~~V~pG~k~PvDG~v~~G~S~vDES~~TGEs~PV~K~~Gd~ViaGt~N~----~G~L~~~~t~~g----~~t~ 164 (545)
T TIGR01511 93 ELQPGDIVKVLPGEKIPVDGTVIEGESEVDESLVTGESLPVPKKVGDTVIAGTVNG----TGSLVVKATKVG----EDTT 164 (545)
T ss_pred HCCCCCEEEECCCCCCCCCCEEECCCCEEHHHHHCCCCCCEECCCCCEEEEEEEEC----CCEEEEEEEECC----CCCH
T ss_conf 41888889975789564040785132022245555888665027888799988846----848999998417----7660
Q ss_pred HHHHHHHHHHCCCH--HHHHHHHCCCCCEEEEEEEECCCCCHHH----HHHHHHHHCCCCCCCCCCEEEEECCCCCCCCC
Q ss_conf 99999986402221--3457764067660588985045458899----99987542000012233113331268972204
Q gi|254780353|r 283 IEKIAELIIAKRIP--LLEDIRDESAEDVRIVLFPKNRSLDPDL----LMESIFMLSDMETRFPLNMNVLSMGRVPQVMP 356 (753)
Q Consensus 283 ie~I~~lv~~~ki~--gi~dirDeSd~~~~~vi~~~~r~~~~~~----vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~ 356 (753)
+-+|.++|++-+-. -|..+-|-= .+=..|-+ ++-.+.=.+.|+...++ | ++- +|=-||
T Consensus 165 La~I~~lv~~AQ~~Ka~~~~lADk~-----------a~~fvP~v~~~A~~Tf~~W~~Al~~avtV-l-iIA---CPCALG 228 (545)
T TIGR01511 165 LAQIVELVRQAQQSKAPIQRLADKV-----------AGYFVPVVIAIAILTFVIWLFALETAVTV-L-IIA---CPCALG 228 (545)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHE-E-EEE---CCCHHH
T ss_conf 8999999999840281156889999-----------99999999999999999999999875113-5-774---667004
Q ss_pred HHHHHHHHH
Q ss_conf 999999899
Q gi|254780353|r 357 LDGILKEWL 365 (753)
Q Consensus 357 l~eil~~f~ 365 (753)
|=-=+-..+
T Consensus 229 LA~Ptv~~V 237 (545)
T TIGR01511 229 LATPTVIMV 237 (545)
T ss_pred HHHHHHHHH
T ss_conf 799999999
No 140
>cd04617 CBS_pair_4 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=29.12 E-value=20 Score=15.24 Aligned_cols=27 Identities=19% Similarity=0.341 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHCCHHHCCCCCCCCCC
Q ss_conf 478999999961001321661326788
Q gi|254780353|r 90 GDQSVYDSLVRLAQPFVQRYPLISGQG 116 (753)
Q Consensus 90 Gd~s~y~a~v~maq~~~~~~pli~g~G 116 (753)
-|.++++|+-.|.+.---+.|.+|..|
T Consensus 75 pd~~v~~A~~~M~~~~i~~LPVVd~~~ 101 (118)
T cd04617 75 PEESVLEAAKKLIEHQVDSLPVVEKVD 101 (118)
T ss_pred CCCCHHHHHHHHHHCCCCEECEEECCC
T ss_conf 999399999999982999856794399
No 141
>KOG0207 consensus
Probab=28.72 E-value=34 Score=13.42 Aligned_cols=85 Identities=18% Similarity=0.386 Sum_probs=56.8
Q ss_pred CHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCC--------CCEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHH
Q ss_conf 013443203677887760106988999898503--------341599999998643788407999524200216899999
Q gi|254780353|r 214 IEKLLEYIIGPDFPTGGIIVESRESIVESYRLG--------RGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEK 285 (753)
Q Consensus 214 ~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG--------~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~ 285 (753)
..++.+..||--+|.-|.++.|...+.+-.-|| +|+..+-|.... +|.-.+-.|-.|=... +.+
T Consensus 399 ~gdivkV~pG~kiPvDG~Vv~Gss~VDEs~iTGEs~PV~Kk~gs~ViaGsiN~----nG~l~VkaT~~g~dtt----la~ 470 (951)
T KOG0207 399 VGDIVKVKPGEKIPVDGVVVDGSSEVDESLITGESMPVPKKKGSTVIAGSINL----NGTLLVKATKVGGDTT----LAQ 470 (951)
T ss_pred CCCEEEECCCCCCCCCCEEEECCEEECHHHCCCCCEECCCCCCCEEEEEEECC----CCEEEEEEEECCCCCH----HHH
T ss_conf 18889988898236662899574563053404873004567898566456658----8459999873466354----999
Q ss_pred HHHHHHHCC---CHHHHHHHHCCCC
Q ss_conf 999864022---2134577640676
Q gi|254780353|r 286 IAELIIAKR---IPLLEDIRDESAE 307 (753)
Q Consensus 286 I~~lv~~~k---i~gi~dirDeSd~ 307 (753)
|..||++-. -+ |..+.|.-..
T Consensus 471 IvkLVEEAQ~sKap-iQq~aDkia~ 494 (951)
T KOG0207 471 IVKLVEEAQLSKAP-IQQLADKIAG 494 (951)
T ss_pred HHHHHHHHHCCCCH-HHHHHHHHHH
T ss_conf 99999998706630-8889998651
No 142
>COG5290 IkappaB kinase complex, IKAP component [Transcription]
Probab=28.64 E-value=35 Score=13.42 Aligned_cols=20 Identities=15% Similarity=0.037 Sum_probs=12.1
Q ss_pred CCCEEECCHHHHHHHHHHHH
Q ss_conf 24566531999999888888
Q gi|254780353|r 14 EENVKAVSLRFALEERYLAY 33 (753)
Q Consensus 14 ~~~i~~~~i~~~~~~~y~~y 33 (753)
.+.|..+.+...|...+-.|
T Consensus 357 ~~~I~~V~f~~k~~~~~s~~ 376 (1243)
T COG5290 357 GERILRVFFSEKKTHHGSEY 376 (1243)
T ss_pred CCEEEEEEEEHHHHCCCCCC
T ss_conf 87389998314440388656
No 143
>COG2312 Erythromycin esterase homolog [General function prediction only]
Probab=28.51 E-value=15 Score=16.08 Aligned_cols=47 Identities=30% Similarity=0.456 Sum_probs=31.3
Q ss_pred EEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCC--CCCCCCCHH
Q ss_conf 540536665427688747899999996100132166132678870886--779710024
Q gi|254780353|r 74 KSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNI--DGDSAAAYR 130 (753)
Q Consensus 74 K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~GnfGs~--~~d~~Aa~R 130 (753)
+-+|||+ +|-=- ||+..+|.+=+||-+. ||+-+| |+++ .-|.|.+++
T Consensus 43 ~~~RiV~--LGE~s-HGt~e~~~~k~rm~r~------Lvee~G-f~~iA~EA~~~d~~a 91 (405)
T COG2312 43 TDARIVL--LGEPS-HGTGEFFAFKARMFRA------LVEELG-FRAIAFEADFPDAQA 91 (405)
T ss_pred CCCEEEE--ECCCC-CCCCHHHHHHHHHHHH------HHHHHC-CCEEEECCCCHHHHH
T ss_conf 6773898--43777-7740789999999999------999838-626874168377888
No 144
>cd03823 GT1_ExpE7_like This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II).
Probab=28.32 E-value=35 Score=13.38 Aligned_cols=15 Identities=7% Similarity=0.138 Sum_probs=6.9
Q ss_pred HHHHHHHCCHHHHHH
Q ss_conf 765442039788789
Q gi|254780353|r 459 EKIDSLLNSGKQQWN 473 (753)
Q Consensus 459 ~~L~~IL~s~~~l~~ 473 (753)
+.+..+|+++++..+
T Consensus 321 ~ai~~ll~d~~~~~~ 335 (359)
T cd03823 321 AALERLIDDPDLLER 335 (359)
T ss_pred HHHHHHHCCHHHHHH
T ss_conf 999999849999999
No 145
>TIGR02483 PFK_mixed phosphofructokinase; InterPro: IPR012829 Members of this family that are characterised, save one, are phosphofructokinases dependent on pyrophosphate (2.7.1.90 from EC) rather than ATP (2.7.1.11 from EC). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal.; GO: 0005524 ATP binding, 0008443 phosphofructokinase activity, 0006002 fructose 6-phosphate metabolic process, 0006096 glycolysis.
Probab=28.22 E-value=35 Score=13.36 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=23.1
Q ss_pred CCEEEEEECCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 8407999524200216899999999864022
Q gi|254780353|r 264 GSWCIVVTEIPYQVQKSRLIEKIAELIIAKR 294 (753)
Q Consensus 264 ~~~~ivIteiPy~v~k~~~ie~I~~lv~~~k 294 (753)
|-..|.|=|+||.++ +++++|.+.-..+|
T Consensus 199 GAd~ILIPE~P~d~~--~v~~~v~~r~~~G~ 227 (339)
T TIGR02483 199 GADVILIPEIPFDID--SVCEKVRERFARGK 227 (339)
T ss_pred CCCEEEECCCCCCHH--HHHHHHHHHHHCCC
T ss_conf 876789786048889--99999999987266
No 146
>cd04793 LanC LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links called lanthionines (Lans) or methyllanthionines (MeLans) in addition to 2,3-didehydroalanine (Dha) and (Z)-2,3-didehydrobutyrine (Dhb). These unusual amino acids are introduced by the dehydration of serine and threonine residues, followed by thioether formation via addition of cysteine thiols, catalysed by LanB and LanC or LanM. LanC, the cyclase component, is a zinc metalloprotein, whose bound metal has been proposed to activate the thiol substrate for nucleophilic addition.
Probab=27.94 E-value=35 Score=13.34 Aligned_cols=33 Identities=21% Similarity=0.245 Sum_probs=20.1
Q ss_pred HHCCCCCHHHHHHHHCCCC--CHHHHHHHHHHHHH
Q ss_conf 6426650467777516777--88999999999872
Q gi|254780353|r 176 LANGTSGIAVGMATSIPSH--NVQEICEAALALID 208 (753)
Q Consensus 176 L~Ng~~GIavG~at~ipph--nl~ev~~a~~~~i~ 208 (753)
+++|.+||+.-+-....++ -+..|.+.+..+.+
T Consensus 103 ~i~G~sGi~~yLL~~~~~~~~~~~~i~~~L~~l~~ 137 (382)
T cd04793 103 VISGLSGIGRYLLLRHEPDSELLREILDYLVYLTE 137 (382)
T ss_pred CCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf 12778999999985046781689999999999998
No 147
>pfam05565 Sipho_Gp157 Siphovirus Gp157. This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophages. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage.
Probab=27.80 E-value=36 Score=13.31 Aligned_cols=71 Identities=18% Similarity=0.110 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCC
Q ss_conf 999766678999988776544203978878999999999987417743345554200001100000011002456670
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPI 520 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v 520 (753)
+.+-+.+|.+.|.+..+.++. ...-+++.|....+.-|...--..--|.-+-.......+.+|+.||++-+
T Consensus 55 ~~~~~k~e~krl~erkk~~en-------k~~~LK~yl~~~m~~~g~~kikt~~~tis~rk~~~sv~I~de~~iP~ey~ 125 (162)
T pfam05565 55 DIEAIKAEIKRLAERKKSIEN-------KVKRLKDYLEEAMEATGIKKIKTPLFTVSIRKSKPSVEIEDEAKIPAEYF 125 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHCCCCEEECCCEEEEEECCCCCEECCCHHHCCHHHH
T ss_conf 899999999999999999998-------99999999999999809867763767999737899132489566889985
No 148
>PRK06321 replicative DNA helicase; Provisional
Probab=27.79 E-value=36 Score=13.31 Aligned_cols=21 Identities=5% Similarity=0.186 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHCCCC
Q ss_conf 887899999999998741774
Q gi|254780353|r 469 KQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 469 ~~l~~iI~~EL~eikkkfgd~ 489 (753)
......|...|+.+.+.++-|
T Consensus 361 ~~~i~~isr~lK~lAkel~vp 381 (472)
T PRK06321 361 QTEISEISRMLKNLARELNIP 381 (472)
T ss_pred HHHHHHHHHHHHHHHHHHCCC
T ss_conf 999999999999999997997
No 149
>cd03805 GT1_ALG2_like This family is most closely related to the GT1 family of glycosyltransferases. ALG2, a 1,3-mannosyltransferase, in yeast catalyzes the mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate and Man(1)GlcNAc(2)-dolichol diphosphate to form Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of this enzyme causes an abnormal accumulation of Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol, which is associated with a type of congenital disorders of glycosylation (CDG), designated CDG-Ii, in humans.
Probab=27.76 E-value=30 Score=13.89 Aligned_cols=28 Identities=29% Similarity=0.146 Sum_probs=13.0
Q ss_pred HHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 6544203978878999999999987417
Q gi|254780353|r 460 KIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 460 ~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
.+..+|.|++...+.=.+=..-++++|+
T Consensus 357 ~i~~ll~d~~lr~~mg~~ar~~v~~~Fs 384 (392)
T cd03805 357 AMLKLANDPDLADRMGAAGRKRVKEKFS 384 (392)
T ss_pred HHHHHHCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 9999978999999999999999998669
No 150
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase family protein; InterPro: IPR005720 Dihydroorotate dehydrogenase (1.3.3.1 from EC) (DHOdehase) catalyzes the fourth step in the de novo biosynthesis of pyrimidine, the conversion of dihydroorotate into orotate. DHOdehase is a ubiquitous FAD flavoprotein. In bacteria (gene pyrD), DHOdease is located on the inner side of the cytosolic membrane. In some yeasts, such as in Saccharomyces cerevisiae (gene URA1, subfamily 2), it is a cytosolic protein while in other eukaryotes it is found in the mitochondria . This describes dihydroorotate dehydrogenases subfamily 1 that includes a number of uncharacterised proteins and a domain of dihydropyrimidine dehydrogenase.; GO: 0004158 dihydroorotate oxidase activity, 0006207 'de novo' pyrimidine base biosynthetic process, 0005737 cytoplasm.
Probab=27.04 E-value=33 Score=13.55 Aligned_cols=102 Identities=19% Similarity=0.279 Sum_probs=62.6
Q ss_pred CCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCC-------CHH--HHHHHHHHHHHHCC
Q ss_conf 778877601069889998985033415999999986437884079995242002-------168--99999999864022
Q gi|254780353|r 224 PDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQV-------QKS--RLIEKIAELIIAKR 294 (753)
Q Consensus 224 PDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v-------~k~--~~ie~I~~lv~~~k 294 (753)
|=|+--|..=.+.+.++-+++.|=|.++..+--.-|..++.. =-|-|+|++. |.. ++.++
T Consensus 13 P~~lASG~~G~~~~~l~~~~~~gaGAVvTKs~g~~pr~Gy~n--PtiVE~~~G~lNAiGL~NPG~e~fl~E--------- 81 (308)
T TIGR01037 13 PVILASGVMGSGVEALRRIDRSGAGAVVTKSIGLEPRPGYRN--PTIVEVPCGLLNAIGLQNPGVEAFLEE--------- 81 (308)
T ss_pred CCEEECCCCCCCHHHHHHHHCCCCCEEEECCEECCCCCCCCC--CEEEECCCCEEEECCCCCHHHHHHHHH---------
T ss_conf 610221103662889998750588637862133158885443--807981785575235898217999986---------
Q ss_pred CHHHHHHHHCCCC-CEEEEEEEECCCCCHHHH---HHHHH---H-HCCCCCCCCC
Q ss_conf 2134577640676-605889850454588999---99875---4-2000012233
Q gi|254780353|r 295 IPLLEDIRDESAE-DVRIVLFPKNRSLDPDLL---MESIF---M-LSDMETRFPL 341 (753)
Q Consensus 295 i~gi~dirDeSd~-~~~~vi~~~~r~~~~~~v---l~~Ly---k-~T~Lq~sf~~ 341 (753)
+.++++|-++ ++|+++=.- +.++|.. -.+|= + ---+|-+.||
T Consensus 82 ---~~~~~~e~~t~dvr~I~svy--G~~~EEfa~va~~~e~A~~y~~~~ELN~SC 131 (308)
T TIGR01037 82 ---LKDVREEVPTHDVRLIASVY--GESEEEFAEVAEKLEDADPYVDAYELNVSC 131 (308)
T ss_pred ---HHHHHHCCCCCCEEEEEEEC--CCCCHHHHHHHHHHHHHHHHHEEEECCCCC
T ss_conf ---32566438987528999831--888225899999872113440000104777
No 151
>cd04603 CBS_pair_KefB_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the KefB (Kef-type K+ transport systems) domain which is involved in inorganic ion transport and metabolism. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=26.94 E-value=26 Score=14.40 Aligned_cols=81 Identities=21% Similarity=0.185 Sum_probs=52.6
Q ss_pred HHHHHHHHHH---CCCCCCCCCCCHHH----HHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCC---CCHHHHHHHHHHH
Q ss_conf 8888999851---04764112897046----899999998689998980354053666542768---8747899999996
Q gi|254780353|r 31 LAYALSTIKE---RAIPDLRDGFKPVH----RRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLH---PHGDQSVYDSLVR 100 (753)
Q Consensus 31 ~~ya~~vi~~---Ralpd~~DGlKpvq----Rril~~m~~~~~~~~~~~~K~ar~vg~v~gkyh---PHGd~s~y~a~v~ 100 (753)
|.-|+..+.+ ||+|=|-++.||+- +-+|-. .++. -+---|+++|- .- -|-|+++.||+-.
T Consensus 12 L~~a~~~~~e~~~~~i~VVD~~~k~vG~it~~Dll~~------~~~~---~~~~~V~d~m~-~~v~~i~~~~~v~dalr~ 81 (111)
T cd04603 12 LREAIKMINELGARAVVVVDEENKVLGQVTLSDLLEI------GPND---YETLKVCEVYI-VPVPIVYCDSKVTDLLRI 81 (111)
T ss_pred HHHHHHHHHHCCCCEEEEECCCCCEEEEEEHHHHHHH------CHHH---HHCCCHHHHHC-CCCCCCCCCCCHHHHHHH
T ss_conf 9999999987699768998899968899889998643------8445---53243877515-677463899768999999
Q ss_pred HCCHHHCCCCCCCCCCCC-CCC
Q ss_conf 100132166132678870-886
Q gi|254780353|r 101 LAQPFVQRYPLISGQGNF-GNI 121 (753)
Q Consensus 101 maq~~~~~~pli~g~Gnf-Gs~ 121 (753)
|.|.-.-+.|.+|+.|.| |.+
T Consensus 82 ~~~~~~~~l~VVD~~grlvGiI 103 (111)
T cd04603 82 FRETEPPVVAVVDKEGKLVGTI 103 (111)
T ss_pred HHHCCCCEEEEECCCCCEEEEE
T ss_conf 8744998899993899799999
No 152
>KOG2280 consensus
Probab=26.71 E-value=37 Score=13.18 Aligned_cols=36 Identities=14% Similarity=-0.006 Sum_probs=15.9
Q ss_pred EECCCCCHHHHCCCCCHHHHHHHHCCC---CCHHHHHHHHHHHHH
Q ss_conf 312345267642665046777751677---788999999999872
Q gi|254780353|r 167 VFPSKFPNLLANGTSGIAVGMATSIPS---HNVQEICEAALALID 208 (753)
Q Consensus 167 ~lp~~~P~lL~Ng~~GIavG~at~ipp---hnl~ev~~a~~~~i~ 208 (753)
-+|. +|+..++- .-|+..=|+ |-+-+|..+....+.
T Consensus 162 ~~~d-iP~~~~~~-----~~Wt~~~~~~~~~~ll~v~~~v~~~~~ 200 (829)
T KOG2280 162 KMPD-IPYNELPK-----SCWTVFQPHRQSTILLDVDVAVGLHIC 200 (829)
T ss_pred HCCC-CCCCCCCC-----CCEEEECCCCCCEEEEEECHHHHCCCC
T ss_conf 1799-99766897-----522773698764256652123221300
No 153
>pfam10168 Nup88 Nuclear pore component. Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein has no obvious structural motifs but is the region for binding to Nup98, one of the components of the nuclear pore. the C-terminal end is a predicted coiled-coil domain. Nup88 is overexpressed in tumour cells.
Probab=26.66 E-value=37 Score=13.17 Aligned_cols=68 Identities=19% Similarity=0.237 Sum_probs=31.0
Q ss_pred CHHHHHH---HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHCCCCCCCCCCCCC-CCCHH
Q ss_conf 4999999---8999-98999999999999999999999999998----64107899997520000110000002-57757
Q gi|254780353|r 356 PLDGILK---EWLA-HRREVLFRRSSFRMQAIDRRVEILKGLLI----AYLNIDEIIAIIRNEDKPKPVMVSRF-SLTEN 426 (753)
Q Consensus 356 ~l~eil~---~f~~-~R~~vi~rr~~~~L~k~~~RlhIleGl~~----a~~~ID~vI~iIR~s~~~k~~L~~~f-~lse~ 426 (753)
+-.|.++ .=.+ ||.+.+.|...-+ +.+++|.+.|..... -+..+.+-.+.|++ -...|.++| .++++
T Consensus 533 s~~E~leLL~qAtqvlReeyl~khd~ar-eEi~kRV~~L~~qK~~QL~eL~~l~eer~~l~e---~Ae~LAekyEei~dk 608 (717)
T pfam10168 533 PPEECLQLLSRATQVFREQYLLKHDLAR-EEFQRRVKLLQLQKEKQLEDIQDCREERKSLSE---RAEKLAEKFEEAKYN 608 (717)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_conf 9899999999999999999988889999-999999999999999999999999999999999---999999998887887
Q ss_pred H
Q ss_conf 7
Q gi|254780353|r 427 Q 427 (753)
Q Consensus 427 Q 427 (753)
|
T Consensus 609 Q 609 (717)
T pfam10168 609 Q 609 (717)
T ss_pred H
T ss_conf 9
No 154
>TIGR02895 spore_sigI RNA polymerase sigma-I factor; InterPro: IPR014244 The bacterial core RNA polymerase complex, which consists of five subunits, 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 . RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognized by the major sigma factors , . This entry represents the transcription factor Sigma-I. This protein is found in endospore-forming species in the Firmicutes lineage of bacteria, such as Bacillus subtilis, but is not universally present among such species. Sigma-I was shown to be induced by heat shock in B. subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation .; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, 0006355 regulation of transcription DNA-dependent.
Probab=26.64 E-value=37 Score=13.17 Aligned_cols=80 Identities=23% Similarity=0.288 Sum_probs=60.1
Q ss_pred HHHHHHHCCCC--CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
Q ss_conf 99997520000--1100000025775778899887899998899997666789999887765442039788789999999
Q gi|254780353|r 402 EIIAIIRNEDK--PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEI 479 (753)
Q Consensus 402 ~vI~iIR~s~~--~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL 479 (753)
.||.-||.... .-.-|.+.|.=+|.|++--|+|.+. +|.-+-+-|...-..||.++++.|. +|++--.||
T Consensus 76 r~IDy~R~n~k~~~~~~l~e~y~n~E~~~~~~~~~~~~----~e~y~~~i~~~~RrlEILey~~~L~----~f~I~f~eL 147 (225)
T TIGR02895 76 RVIDYIRKNQKYKNLVYLDEDYDNSEENDENSLEIKVS----LEEYKNEIENENRRLEILEYKKLLK----QFGIEFVEL 147 (225)
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH----HHCCCHHHH
T ss_conf 98888874111221167677656403577548999999----9999987588866899999999998----738707687
Q ss_pred HHHHHHCCCC
Q ss_conf 9998741774
Q gi|254780353|r 480 REVKEIFSKS 489 (753)
Q Consensus 480 ~eikkkfgd~ 489 (753)
-+..=|+.|.
T Consensus 148 v~~SPKH~d~ 157 (225)
T TIGR02895 148 VKVSPKHRDA 157 (225)
T ss_pred HCCCCCHHHH
T ss_conf 4107776889
No 155
>cd04629 CBS_pair_16 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=26.57 E-value=23 Score=14.68 Aligned_cols=31 Identities=26% Similarity=0.495 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHCCHHHCCCCCCCCCCCC-CCC
Q ss_conf 7899999996100132166132678870-886
Q gi|254780353|r 91 DQSVYDSLVRLAQPFVQRYPLISGQGNF-GNI 121 (753)
Q Consensus 91 d~s~y~a~v~maq~~~~~~pli~g~Gnf-Gs~ 121 (753)
|+++++|+-.|++.--...|.+|.+|.+ |-+
T Consensus 9 ~~tl~~a~~~m~~~~~~~~pVvd~~~~lvGii 40 (114)
T cd04629 9 DMSVTEAVEKLLKSKISGGPVVDDNGNLVGFL 40 (114)
T ss_pred CCCHHHHHHHHHHHCCCEEEEECCCCEEEEEE
T ss_conf 29999999999971997899994899299999
No 156
>PRK02304 adenine phosphoribosyltransferase; Provisional
Probab=26.40 E-value=25 Score=14.45 Aligned_cols=49 Identities=27% Similarity=0.492 Sum_probs=27.7
Q ss_pred CCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEE
Q ss_conf 7889999999998728653201344320367788776010698899989850334159999
Q gi|254780353|r 194 HNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRA 254 (753)
Q Consensus 194 hnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~ 254 (753)
.-+.++++.+.....+.++ .+|-|+| ..|.+. + -.=+|+.|.|-+.+|=
T Consensus 33 ~~~~~~~~~l~~~~~~~~v------D~IvgiE--arGfi~-a---~alA~~l~~p~v~iRK 81 (174)
T PRK02304 33 EALREVIDALVERYKDADI------DKIVGIE--ARGFIF-G---AALAYKLGIGFVPVRK 81 (174)
T ss_pred HHHHHHHHHHHHHHCCCCC------CEEEEEC--CCCEEC-C---HHHHHHHCCCEEEEEC
T ss_conf 9999999999998434899------8999986--555210-1---5889982998799972
No 157
>pfam06374 NDUF_C2 NADH-ubiquinone oxidoreductase subunit b14.5b (NDUFC2). This family consists of several NADH-ubiquinone oxidoreductase subunit b14.5b proteins (EC:1.6.5.3).
Probab=26.33 E-value=36 Score=13.31 Aligned_cols=41 Identities=24% Similarity=0.457 Sum_probs=29.4
Q ss_pred CCCCCCCCCCCCCEEEEEEECC--CC-CHHHHCCCCCHHHHHHHHCCCCC
Q ss_conf 7861752167996324223123--45-26764266504677775167778
Q gi|254780353|r 149 EDAVDFRDTYNEEDSEPVVFPS--KF-PNLLANGTSGIAVGMATSIPSHN 195 (753)
Q Consensus 149 ~~~v~~~~n~D~~~~EP~~lp~--~~-P~lL~Ng~~GIavG~at~ipphn 195 (753)
.+...|.|| |...||+ .. |+++--|..|..+||-+|---|-
T Consensus 5 ~~pl~~lpd------ea~~LppP~i~np~~~~~G~~G~~~al~~N~~~rR 48 (117)
T pfam06374 5 NDPLEFLPD------EARSLPPPKLWDPRLIACGLLGYCSGLFDNWGRRR 48 (117)
T ss_pred CCCCCCCCC------CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 877354884------22448897654764224358999999998876248
No 158
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein; InterPro: IPR005675 This model represents largely uncharacterised proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distinct. ; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process.
Probab=26.33 E-value=38 Score=13.13 Aligned_cols=207 Identities=25% Similarity=0.365 Sum_probs=109.1
Q ss_pred HHH-HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHC
Q ss_conf 888-8889998510476411289704689999999868999898035405366654276887478999999961001321
Q gi|254780353|r 29 RYL-AYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQ 107 (753)
Q Consensus 29 ~y~-~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~ 107 (753)
+|| .|+-.||.|- -+--||-|-=.-.-|-++.- ....++.+-=-+-.=|-++ || .|++-.-..-+.+.
T Consensus 129 ~YLk~~~~~VIyDA--EHfFDGYkaN~eYAL~~L~~-A~~aGAdwlVlcDTNGGTL----P~---~I~EI~~~Vk~~~g- 197 (543)
T TIGR00977 129 AYLKRYADEVIYDA--EHFFDGYKANPEYALKTLKV-AEKAGADWLVLCDTNGGTL----PH---EIEEITKKVKKSLG- 197 (543)
T ss_pred HHHHHHCCEEEEEC--CCCCCCCCCCHHHHHHHHHH-HHHCCCCEEEEEECCCCCC----CH---HHHHHHHHHHHHHC-
T ss_conf 99987212256302--00246345786899999999-9846982899950787998----50---47899999998617-
Q ss_pred CCCCCCCCC----CCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC--CCCCCCEEEEEEECCCCCHHHHCCC
Q ss_conf 661326788----70886-7797100246899855999999842187861752--1679963242231234526764266
Q gi|254780353|r 108 RYPLISGQG----NFGNI-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFR--DTYNEEDSEPVVFPSKFPNLLANGT 180 (753)
Q Consensus 108 ~~pli~g~G----nfGs~-~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~--~n~D~~~~EP~~lp~~~P~lL~Ng~ 180 (753)
+|||. |.|=- -.|+-.| +|+.|+. ..+..+.-. =|==|...=-.-||+.+|||-+-
T Consensus 198 ----ldg~sdk~p~lGIHAHNDS~~A----------VANsL~A-V~~GA~~V~GTING~GER~GNANLCs~IPNL~LK-- 260 (543)
T TIGR00977 198 ----LDGQSDKDPQLGIHAHNDSETA----------VANSLLA-VEAGATQVQGTINGLGERCGNANLCSVIPNLQLK-- 260 (543)
T ss_pred ----CCCCCCCCCCCCEEEECCCHHH----------HHHHHHH-HHHCCCEECCEECCCCCCCCCCCHHHHCCCHHHH--
T ss_conf ----7865556766652555563078----------9999999-9734315422042555565764111110010210--
Q ss_pred CCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEE---
Q ss_conf 50467777516777889999999998728653201344320367788776010698899989850334159999999---
Q gi|254780353|r 181 SGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWC--- 257 (753)
Q Consensus 181 ~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~--- 257 (753)
.||- -||+-||..+.+.....-+=-+....+=|.|+=---| . -||.|.+.|.-.
T Consensus 261 ----l~~d-vI~~E~L~~L~~~a~lvaEi~n~~~~~~~PyVG~~AF-----------------A-HKGGvHvSAv~r~p~ 317 (543)
T TIGR00977 261 ----LGYD-VIPKENLKKLTEVARLVAEIVNLPLDENMPYVGESAF-----------------A-HKGGVHVSAVKRNPK 317 (543)
T ss_pred ----CCCC-CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-----------------C-CCCCEEEEEEECCCC
T ss_conf ----2664-5686667889989999999854885346782366322-----------------0-258657765505887
Q ss_pred -EE----ECCCCCEEEEEECCCCCCCHHHHHHHHHHH
Q ss_conf -86----437884079995242002168999999998
Q gi|254780353|r 258 -VE----EVGRGSWCIVVTEIPYQVQKSRLIEKIAEL 289 (753)
Q Consensus 258 -~e----~~~~~~~~ivIteiPy~v~k~~~ie~I~~l 289 (753)
.| ++-.++..|+|.|+ ..++.+++|+.+.
T Consensus 318 TYEHI~P~LVGN~R~I~vSe~---aG~SNvl~K~~~~ 351 (543)
T TIGR00977 318 TYEHIDPELVGNKRKIVVSEL---AGKSNVLEKLKEF 351 (543)
T ss_pred CCCCCCCCCCCCEEEEEEECC---CCCHHHHHHHHHH
T ss_conf 423458643177137998235---5731489999870
No 159
>pfam12325 TMF_TATA_bd TATA element modulatory factor 1 TATA binding. This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family.
Probab=26.29 E-value=38 Score=13.12 Aligned_cols=45 Identities=20% Similarity=0.373 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 999976667899998877654420397887899999999998741
Q gi|254780353|r 442 LEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIF 486 (753)
Q Consensus 442 le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkf 486 (753)
-+...++.++.+|..+-..+-.+++-+.....-++..+.++|+-|
T Consensus 69 ~~~~~l~~~l~~l~~r~~t~LellGEK~E~vEEL~~Dv~DlK~my 113 (121)
T pfam12325 69 KEIEELEAELEDLEQRYETTLELLGEKSERVEELRADVVDLKEMY 113 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_conf 689999999999999999999996627899999996799999999
No 160
>pfam07914 DUF1679 Protein of unknown function (DUF1679). The region featured in this family is found in a number of C. elegans proteins, in one case as a repeat. In many of the family members, this region is associated with the CHK region described by SMART as being found in ZnF_C4 and HLH domain-containing kinases. In fact, one member of this family is annotated as being a member of the nuclear hormone receptor family, and contains regions typical of such proteins (Interpro:IPR000536, Interpro:IPR008946, and Interpro:IPR001628).
Probab=25.93 E-value=25 Score=14.50 Aligned_cols=61 Identities=18% Similarity=0.195 Sum_probs=41.0
Q ss_pred HHHHHHHHCCCCCHHHHHHHHHHHHH-CCCCCCHHHHHHCCCCCCCC--CCCCCCCHHHHHHHHHC
Q ss_conf 46777751677788999999999872-86532013443203677887--76010698899989850
Q gi|254780353|r 183 IAVGMATSIPSHNVQEICEAALALID-NPEISIEKLLEYIIGPDFPT--GGIIVESRESIVESYRL 245 (753)
Q Consensus 183 IavG~at~ipphnl~ev~~a~~~~i~-~~~~~~~~l~~~i~gPDFPT--GG~i~~~~~~i~~~y~t 245 (753)
..++|-.|+||..|-.|++++..+-- .-..|.+|. +.+.||||.- =+... +.++++.+|..
T Consensus 161 ~~~~~y~ni~~deL~~vv~~iA~fqA~~~~LseEE~-k~i~g~df~~~~~~~~~-~~~~~~~~f~~ 224 (413)
T pfam07914 161 HTRHMYENIPADELIPVLRAIATFQALGESLSEEEK-KSANGADFLEQMFETFM-SEEGLKGIFDQ 224 (413)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHH-HHCCCHHHHHHHHHHHH-HHHHHHHHHHH
T ss_conf 687254898989999999999999986434998997-53567579999999872-36779999999
No 161
>KOG0719 consensus
Probab=25.84 E-value=38 Score=13.07 Aligned_cols=13 Identities=8% Similarity=0.253 Sum_probs=7.1
Q ss_pred HHHHHHHHHCCCC
Q ss_conf 9999998741774
Q gi|254780353|r 477 CEIREVKEIFSKS 489 (753)
Q Consensus 477 ~EL~eikkkfgd~ 489 (753)
.=|..+.++||-.
T Consensus 226 sl~~SL~~kY~~~ 238 (264)
T KOG0719 226 SLLDSLEEKYGGN 238 (264)
T ss_pred HHHHHHHHHHCCC
T ss_conf 9999999986666
No 162
>pfam05067 Mn_catalase Manganese containing catalase. Catalases are important antioxidant metalloenzymes that catalyse disproportionation of hydrogen peroxide, forming dioxygen and water. Two families of catalases are known, one having a heme cofactor, and this family that is a structurally distinct family containing non-heme manganese.
Probab=25.83 E-value=32 Score=13.68 Aligned_cols=20 Identities=30% Similarity=0.396 Sum_probs=13.0
Q ss_pred CCCCCCCCCCCHHHHHHHHH
Q ss_conf 08867797100246899855
Q gi|254780353|r 118 FGNIDGDSAAAYRYTEARMT 137 (753)
Q Consensus 118 fGs~~~d~~Aa~RYte~rl~ 137 (753)
||-.+|.-.|||||..-+.+
T Consensus 29 ~GG~~GElsaamqYl~Q~~~ 48 (272)
T pfam05067 29 LGGQFGELSAAMRYLFQGFN 48 (272)
T ss_pred HCCCCHHHHHHHHHHHHHHC
T ss_conf 57972499999999998727
No 163
>pfam01162 consensus
Probab=25.76 E-value=39 Score=13.06 Aligned_cols=20 Identities=15% Similarity=0.508 Sum_probs=12.4
Q ss_pred CCCCCCCCCCCHHHHHHHHH
Q ss_conf 10000002577577889988
Q gi|254780353|r 414 KPVMVSRFSLTENQVDAILN 433 (753)
Q Consensus 414 k~~L~~~f~lse~QA~aIL~ 433 (753)
+..+++.|+|++..|+.+++
T Consensus 46 ~~r~~~~ygL~~~dA~~L~~ 65 (69)
T pfam01162 46 RERLVKEYGLSEEDAQTLVS 65 (69)
T ss_pred HHHHHHHHCCCHHHHHHHHC
T ss_conf 99999993969999999972
No 164
>PRK05636 replicative DNA helicase; Provisional
Probab=25.72 E-value=39 Score=13.05 Aligned_cols=44 Identities=20% Similarity=0.378 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 04999999899998999999999999999999999999998641078999975200
Q gi|254780353|r 355 MPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNE 410 (753)
Q Consensus 355 ~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s 410 (753)
..+.+++..|++. +++..+.-....|+-.-+..+|.++.=++.+
T Consensus 224 ~~~~d~l~~~~~~------------ie~~~~~~g~~~Gi~TGf~~LD~~t~Gl~~G 267 (507)
T PRK05636 224 AVLADILDETMAE------------IEMLESDGGIATGIPTGFKDLDDLTNGLRGG 267 (507)
T ss_pred EEHHHHHHHHHHH------------HHHHHHCCCCCEEEECCCHHHHHHHCCCCCC
T ss_conf 5699999999999------------9999857999525658808899755088835
No 165
>cd07639 BAR_ACAP1 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP1 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1), also called centaurin beta-1, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP1 also participates in the cargo sorting and recycling of the transferrin receptor and integrin beta1. It may also play a role in innate immune responses. ACAP1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=25.58 E-value=39 Score=13.03 Aligned_cols=40 Identities=13% Similarity=0.144 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 7788998878999988999976667899998877654420
Q gi|254780353|r 426 NQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLL 465 (753)
Q Consensus 426 ~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL 465 (753)
.||+..+--||.++.+-++...++..+...+.-+.|..-|
T Consensus 82 ~q~~~~l~~pL~~F~k~dl~~vKe~kK~FdK~s~~~d~al 121 (200)
T cd07639 82 EATQFSFKQQLQLLVKEDLRGFRDARKEFERGAESLEAAL 121 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999999886899998868988779999999
No 166
>pfam12529 Xylo_C Xylosyltransferase C terminal. This domain family is found in eukaryotes, and is typically between 169 and 183 amino acids in length. The family is found in association with pfam02485. There is a single completely conserved residue G that may be functionally important. Xylosyltransferases are enzymes involved in the biosynthesis of the glycosaminoglycan linker region in proteoglycans.
Probab=25.29 E-value=35 Score=13.34 Aligned_cols=10 Identities=70% Similarity=1.016 Sum_probs=5.5
Q ss_pred HHHHHHHHHC
Q ss_conf 9999999610
Q gi|254780353|r 93 SVYDSLVRLA 102 (753)
Q Consensus 93 s~y~a~v~ma 102 (753)
++|+++.|||
T Consensus 39 t~~~Sl~Rla 48 (180)
T pfam12529 39 TVYHSLARLA 48 (180)
T ss_pred HHHHHHHHHH
T ss_conf 6888889999
No 167
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=25.26 E-value=39 Score=12.99 Aligned_cols=46 Identities=17% Similarity=0.241 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 9997666789999887765442039788789999999999874177
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd 488 (753)
++.....+..++.++.+.++.-++........+..++.+..+....
T Consensus 219 ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~ 264 (312)
T smart00787 219 EIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQ 264 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999999999999998999999999999999999987
No 168
>TIGR02470 sucr_synth sucrose synthase; InterPro: IPR012820 This entry represents sucrose synthase an enzyme that despite its name, generally uses rather produces sucrose. Sucrose plus UDP (or ADP) becomes D-fructose plus UDP-glucose (or ADP-glucose), which is then available for cell wall (or starch) biosynthesis. The enzyme is homologous to sucrose phosphate synthase, which catalyses the penultimate step in sucrose synthesis. Sucrose synthase is found, so far, exclusively in plants and cyanobacteria.; GO: 0016157 sucrose synthase activity.
Probab=25.18 E-value=40 Score=12.98 Aligned_cols=74 Identities=19% Similarity=0.269 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHH----HHHHHHHHH-------------HH
Q ss_conf 8899999875420000122331133312689722049999998999989999----999999999-------------99
Q gi|254780353|r 321 DPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVL----FRRSSFRMQ-------------AI 383 (753)
Q Consensus 321 ~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi----~rr~~~~L~-------------k~ 383 (753)
+++.=+..||.+-.+-.-=+.+| .| .++.+.+-.|...|..=.+|-..+= =...+++|+ +.
T Consensus 152 ~~~~w~~~Ll~FLr~H~y~G~~L-ml-nd~i~~~~~L~~~L~~A~~~ls~lp~~tPY~eF~~~lQ~lGfE~GWGdTA~Rv 229 (790)
T TIGR02470 152 DKESWMEPLLNFLRVHNYNGEQL-ML-NDRIQSVSALQSQLRKAEEFLSALPPDTPYSEFEFELQELGFEPGWGDTAERV 229 (790)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCC-CC-CCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCCCCCCHHHHH
T ss_conf 83146799999985442168401-13-44566578999999999999845887674478988987448888853068999
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 9999999999986
Q gi|254780353|r 384 DRRVEILKGLLIA 396 (753)
Q Consensus 384 ~~RlhIleGl~~a 396 (753)
.+-+|+|.-++-|
T Consensus 230 ~Et~~lL~~lL~a 242 (790)
T TIGR02470 230 RETLHLLLDLLEA 242 (790)
T ss_pred HHHHHHHHHHHCC
T ss_conf 9999999998528
No 169
>PRK09848 glucuronide transporter; Provisional
Probab=24.90 E-value=40 Score=12.94 Aligned_cols=34 Identities=21% Similarity=0.186 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9988789999889999766678999988776544
Q gi|254780353|r 430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDS 463 (753)
Q Consensus 430 aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~ 463 (753)
+++-|..++||+-...++++|+++-++.-+++.+
T Consensus 420 ~~~~~~~Y~Lt~~~~~eI~~eL~~rr~~~~~~~~ 453 (457)
T PRK09848 420 AFVIIWFYPLTDKKFKEIVVEIDNRKKVQQQLIS 453 (457)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999986158899999999999999998765330
No 170
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase; InterPro: IPR006362 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase . In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase . There are at least two distinct cobalamin biosynthetic pathways in bacteria : Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway ; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis ; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) . There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobM and CibF precorrin-4 C11-methyltransferase (2.1.1.133 from EC), both as stand-alone enzymes and when CobJ forms part of a bifunctional enzyme. In the aerobic pathway, CobM catalyses the methylation of precorrin-4 at C-11 to yield precorrin-5. The extruded acyl group is then removed in the subsequent step catalysed by CobF. In the anaerobic pathway, CibF catalyses the methylation of cobalt-precorrin-4 to cobalt-precoriin-5 . Nomenclature note: occasionally precorrin-4 C11-methyltransferase is one of two methyltransferases often referred to as precorrin-3 methylase (the other is precorrin-3 methylase (the other is precorrin-4 C11-methyltransferase, 2.1.1.131 from EC). ; GO: 0046026 precorrin-4 C11-methyltransferase activity, 0009236 cobalamin biosynthetic process.
Probab=24.66 E-value=32 Score=13.69 Aligned_cols=20 Identities=35% Similarity=0.689 Sum_probs=10.3
Q ss_pred CCCCCHHHHHHHHHHHHCCHH
Q ss_conf 768874789999999610013
Q gi|254780353|r 85 KLHPHGDQSVYDSLVRLAQPF 105 (753)
Q Consensus 85 kyhPHGd~s~y~a~v~maq~~ 105 (753)
..| =||-|||+||.=+-|.+
T Consensus 76 RLH-sGDPsIYGA~~EQ~~~L 95 (252)
T TIGR01465 76 RLH-SGDPSIYGAIAEQMQLL 95 (252)
T ss_pred EEE-CCCHHHHHHHHHHHHHH
T ss_conf 985-08755776699999999
No 171
>pfam10458 Val_tRNA-synt_C Valyl tRNA synthetase tRNA binding arm. This domain is found at the C-terminus of Valyl tRNA synthetases.
Probab=24.64 E-value=40 Score=12.91 Aligned_cols=46 Identities=22% Similarity=0.185 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 9999766678999988776544203978878999999999987417
Q gi|254780353|r 442 LEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 442 le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
-|...|..|++.|..+++.++.-|+++.-+.+.=.+-...-++++.
T Consensus 4 ~E~~RL~Kel~kl~~~i~~~~~kL~N~~Fv~kAP~~VV~~er~kl~ 49 (66)
T pfam10458 4 KERARLEKELAKLQKEIERLQKKLSNPGFVAKAPAEVVEEEKAKLA 49 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCHHHHHHHHHHHH
T ss_conf 8999899999999999999998778767777098999999999999
No 172
>PRK06755 hypothetical protein; Validated
Probab=24.57 E-value=40 Score=12.90 Aligned_cols=42 Identities=21% Similarity=0.302 Sum_probs=22.7
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCCEEEEECCCEE
Q ss_conf 999999874177433455542000011000000110024566705998710102
Q gi|254780353|r 477 CEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWI 530 (753)
Q Consensus 477 ~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v~V~LS~~GyI 530 (753)
+||.+++..|.. |.=.- ... .... --..++|..+.+|-.|-=
T Consensus 9 ~eL~~v~~el~~------RgW~~--gTs--GNlS--~~~~~dpl~fliTaSGkd 50 (209)
T PRK06755 9 NELKDVKSELAL------RDWFY--GTK--ISLS--LCTSKEPLTFLVNVEGRD 50 (209)
T ss_pred HHHHHHHHHHHH------CCCCC--CCC--CCEE--EEECCCCCEEEEECCCCC
T ss_conf 999999999985------89877--778--7668--894589867999678776
No 173
>KOG3915 consensus
Probab=24.54 E-value=41 Score=12.90 Aligned_cols=43 Identities=14% Similarity=0.212 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 8999976667899998877654420397887899999999998
Q gi|254780353|r 441 KLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVK 483 (753)
Q Consensus 441 ~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eik 483 (753)
.+|..+|+-|+-.-++-.+.|++.|..+.+++.++.+.|+.-|
T Consensus 527 q~Ek~ELkmd~lrerelreslekql~~ErklR~~~qkr~kkEk 569 (641)
T KOG3915 527 QLEKTELKMDFLRERELRESLEKQLAMERKLRAIVQKRLKKEK 569 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8889999999999999999999999999999999999988888
No 174
>COG2192 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]
Probab=24.51 E-value=41 Score=12.89 Aligned_cols=25 Identities=8% Similarity=-0.044 Sum_probs=14.2
Q ss_pred EEEEEECCCCCCCHHHHHHHHHHHH
Q ss_conf 0799952420021689999999986
Q gi|254780353|r 266 WCIVVTEIPYQVQKSRLIEKIAELI 290 (753)
Q Consensus 266 ~~ivIteiPy~v~k~~~ie~I~~lv 290 (753)
.--+|.+.|+--+-.-+...|.++.
T Consensus 161 ~~~~i~~~~~~~SLG~fY~~~T~~l 185 (555)
T COG2192 161 QLTPIAQSRGIDSLGLFYAAFTELL 185 (555)
T ss_pred EEEEEEEECCCCHHHHHHHHHHHHH
T ss_conf 0689875058642889999999982
No 175
>KOG3314 consensus
Probab=23.69 E-value=42 Score=12.78 Aligned_cols=38 Identities=26% Similarity=0.472 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCC
Q ss_conf 04689999999868999898035405366654276887
Q gi|254780353|r 52 PVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH 89 (753)
Q Consensus 52 pvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPH 89 (753)
|+-+-.+-||-.+|-.-+..+.+|.---|.|-|-|||-
T Consensus 38 P~Vkfl~~am~k~~c~~~d~~isc~~C~~~~~GGy~~~ 75 (194)
T KOG3314 38 PIVKFLMEAMEKSGCRVGDNFISCVVCTGPVAGGYTPG 75 (194)
T ss_pred CHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCCCC
T ss_conf 38999999999738876677457766899756774688
No 176
>TIGR01034 metK S-adenosylmethionine synthetase; InterPro: IPR002133 S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP . AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance .; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon compound metabolic process.
Probab=23.66 E-value=42 Score=12.78 Aligned_cols=105 Identities=25% Similarity=0.268 Sum_probs=49.3
Q ss_pred CCCCHHHHHHHHCCCC---CHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEE
Q ss_conf 6650467777516777---8899999999987286532013443203677887760106988999898503341599999
Q gi|254780353|r 179 GTSGIAVGMATSIPSH---NVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRAR 255 (753)
Q Consensus 179 g~~GIavG~at~ipph---nl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k 255 (753)
|=+||-+|||||=-|- -+..++..+...+. +..-+--++|++ ||==|==.| -|+.+||.+.....
T Consensus 122 GDQGimFGYAt~ET~~~MPlpi~lAH~l~~~~~--~~Rk~g~lpwLR-PD~KsQVt~---------~Ye~~~~aviPV~v 189 (393)
T TIGR01034 122 GDQGIMFGYATNETPELMPLPITLAHKLLKRAA--ELRKSGTLPWLR-PDGKSQVTI---------EYEDNKGAVIPVRV 189 (393)
T ss_pred CCEEEEEEEECCCHHCCCCHHHHHHHHHHHHHH--HHHHCCCCCCCC-CCCCEEEEE---------EEECCCCEEEEEEE
T ss_conf 840578544224000008777999999999999--851227888546-897058898---------98468951777653
Q ss_pred EEEEECCCCCEEEEE-ECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCC
Q ss_conf 998643788407999-524200216899999999864022213457764067
Q gi|254780353|r 256 WCVEEVGRGSWCIVV-TEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESA 306 (753)
Q Consensus 256 ~~~e~~~~~~~~ivI-teiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd 306 (753)
..||+ +.=-..++-..|-+.|.|-|-..-++ =..+.||--
T Consensus 190 ----------~~iv~S~QH~p~iS~~~Lr~~i~E~iI~p~lp-~~~~ld~~t 230 (393)
T TIGR01034 190 ----------DTIVISTQHDPDISQKELREAIIEEIIKPVLP-DAEYLDEKT 230 (393)
T ss_pred ----------EEEEEEECCCCCCCHHHHHHHHHHHCCCCCCC-CHHHCCCCC
T ss_conf ----------08999853798547799999987511222438-520056688
No 177
>KOG3957 consensus
Probab=23.65 E-value=39 Score=13.04 Aligned_cols=146 Identities=17% Similarity=0.237 Sum_probs=66.2
Q ss_pred CCCCCCCCCCCC--HHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHH--HHHHHCC---CH
Q ss_conf 778877601069--8899989850334159999999864378840799952420021689999999--9864022---21
Q gi|254780353|r 224 PDFPTGGIIVES--RESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIA--ELIIAKR---IP 296 (753)
Q Consensus 224 PDFPTGG~i~~~--~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~--~lv~~~k---i~ 296 (753)
-||.|||....+ ...+.+-++||||-+. -+.. +| =++.-++++-+-- -+.+.++ ..
T Consensus 152 aDfAgGgL~aa~gI~~AL~~RtrtgkGqvi-D~~m--------------~e--g~ayl~S~v~~~y~~s~~ea~R~~~~~ 214 (387)
T KOG3957 152 ADFAGGGLYAAGGILAALYQRTRTGKGQVI-DCNM--------------LE--GVAYLLSFVQKNYLQSLWEADRYGTAH 214 (387)
T ss_pred HHHCCCHHHHHHHHHHHHHHHHCCCCCEEE-EECH--------------HH--HHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 442365068999999999998416885488-7215--------------67--689999999997652000354312336
Q ss_pred -HHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf -3457764067660588985045458899999875420000122331133312689722049999998999989999999
Q gi|254780353|r 297 -LLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRR 375 (753)
Q Consensus 297 -gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr 375 (753)
++-=++-.-.++|.++.. -..+|+ .-..|++.-- +.....|++++-.+=+..|++-|+-.
T Consensus 215 G~~~~Y~tykTkDG~fmav---ga~epQ-F~~~l~~ll~-----------~~~d~~p~~~tn~~rvtnr~E~~kil---- 275 (387)
T KOG3957 215 GSIPPYQTYKTKDGYFMAV---GALEPQ-FYELLKKLLG-----------LKLDENPKQFTNPDRVTNRVELRKIL---- 275 (387)
T ss_pred CCCCCCEEEECCCCEEEEE---CCCCHH-HHHHHHHHHC-----------CCCCCCHHHCCCCCCCCCHHHHHHHH----
T ss_conf 7876512455268539972---366678-9999998607-----------66322402216854221009999999----
Q ss_pred HHHHHHHHHHHH-HHHHHHH---HHHHHHHHHHH
Q ss_conf 999999999999-9999999---86410789999
Q gi|254780353|r 376 SSFRMQAIDRRV-EILKGLL---IAYLNIDEIIA 405 (753)
Q Consensus 376 ~~~~L~k~~~Rl-hIleGl~---~a~~~ID~vI~ 405 (753)
.+--++|.++.| .|-||-- .-+.+|.||.+
T Consensus 276 ~e~f~~kT~~eW~~iFeG~d~cV~PVl~~~EV~~ 309 (387)
T KOG3957 276 EEVFLEKTRAEWSQIFEGQDACVTPVLDIHEVFH 309 (387)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHCC
T ss_conf 9999898799999985579876533357877433
No 178
>TIGR00952 S15_bact ribosomal protein S15; InterPro: IPR005290 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This family includes specifically bacterial, chloroplast, and mitochondrial ribosomal protein S15. The homologous proteins of Archaea and Eukarya are designated S13. Escherichia coli ribosomal protein S15 has been shown to regulate the expression of its own mRNA by a feedback mechanism at the translational level. The translational operator overlaps the ribosome binding site and folds into two mutually exclusive structures, one consisting of two stem-loops (I and II) and the other one forming a pseudoknot. The two structures, which seem to be energetically equivalent are in dynamic equilibrium, and the pseudoknot is stabilized by binding of S15. However, binding of S15 does not prevent 30 S subunit binding but traps the subunit into an incompetent translation initiation complex. Repression can be alleviated by 16 S rRNA, which is able to displace the bound S15, thus allowing translation to proceed .; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome.
Probab=23.53 E-value=42 Score=12.76 Aligned_cols=30 Identities=30% Similarity=0.525 Sum_probs=20.9
Q ss_pred CCCCCCCCCCCCCCHHH-----HH-HHHHHHHHHHH
Q ss_conf 00110000002577577-----88-99887899998
Q gi|254780353|r 411 DKPKPVMVSRFSLTENQ-----VD-AILNLRLRSLR 440 (753)
Q Consensus 411 ~~~k~~L~~~f~lse~Q-----A~-aIL~mrL~rLt 440 (753)
.+.|+.+|+.|+..|.- ++ |||.=|+.+||
T Consensus 2 ~e~K~~ii~~f~~hE~DTGS~~VQiAlLT~rI~~Lt 37 (86)
T TIGR00952 2 KERKQEIIKEFQLHEKDTGSPEVQIALLTERINQLT 37 (86)
T ss_pred HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 124899999854589985588999999999998887
No 179
>pfam05400 FliT Flagellar protein FliT. This family contains several bacterial flagellar FliT proteins. The flagellar proteins FlgN and FliT have been proposed to act as substrate specific export chaperones, facilitating incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum. In Salmonella typhimurium flgN and fliT mutants, the export of target HAPs is reduced, concomitant with loss of unincorporated flagellin into the surrounding medium.
Probab=23.53 E-value=42 Score=12.76 Aligned_cols=36 Identities=11% Similarity=0.258 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 998877654420397887899999999998741774
Q gi|254780353|r 454 LLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489 (753)
Q Consensus 454 L~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~ 489 (753)
......-++.||.++..++.++...+.++.+.++..
T Consensus 61 ~~~~~~lL~~IL~nda~IR~Ll~prl~~Ls~li~q~ 96 (109)
T pfam05400 61 QEQKRELLQKILDNEAEIKDLLQPRLDELSQLIGQS 96 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999879999998899999999999887
No 180
>cd03814 GT1_like_2 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=23.49 E-value=42 Score=12.76 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=11.5
Q ss_pred HHHHHHHHCCCC-CCCCCCCCCCCCHHH
Q ss_conf 899997520000-110000002577577
Q gi|254780353|r 401 DEIIAIIRNEDK-PKPVMVSRFSLTENQ 427 (753)
Q Consensus 401 D~vI~iIR~s~~-~k~~L~~~f~lse~Q 427 (753)
+++.++++++|= .-+..-+.|+++-..
T Consensus 258 ~el~~~~~~adi~v~pS~~E~fg~~~lE 285 (364)
T cd03814 258 EELAAAYASADVFVFPSRTETFGLVVLE 285 (364)
T ss_pred HHHHHHHHHCCCCCCCCCCCCCCHHHHH
T ss_conf 9999999824756788653457657999
No 181
>PRK10325 heat shock protein GrpE; Provisional
Probab=23.36 E-value=43 Score=12.74 Aligned_cols=34 Identities=18% Similarity=0.327 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999--999999986410789999
Q gi|254780353|r 372 LFRRSSFRMQAIDRRV--EILKGLLIAYLNIDEIIA 405 (753)
Q Consensus 372 i~rr~~~~L~k~~~Rl--hIleGl~~a~~~ID~vI~ 405 (753)
++||+.-+...+.+.. .++.-||-+++|++..+.
T Consensus 72 ~rkR~~ke~~~~~~~a~~~~~~~lLpv~DnlerAl~ 107 (197)
T PRK10325 72 LRRRTELDIEKAHKFALEKFINELLPVIDSLDRALE 107 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999999997007768999998
No 182
>KOG3675 consensus
Probab=23.19 E-value=43 Score=12.72 Aligned_cols=103 Identities=23% Similarity=0.332 Sum_probs=59.3
Q ss_pred CCCCC-HHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCC---CCCCCCCHHHHHHHHHHH---HHHHHHHCCCCCCCCCCC
Q ss_conf 76887-47899999996100132166132678870886---779710024689985599---999984218786175216
Q gi|254780353|r 85 KLHPH-GDQSVYDSLVRLAQPFVQRYPLISGQGNFGNI---DGDSAAAYRYTEARMTQV---AELILQGVDEDAVDFRDT 157 (753)
Q Consensus 85 kyhPH-Gd~s~y~a~v~maq~~~~~~pli~g~GnfGs~---~~d~~Aa~RYte~rl~~~---~~~ll~di~~~~v~~~~n 157 (753)
+|--| --.++|+++...-|. .|-| +|++ .|=-|+--.=+-+|.+.+ |+.++..+ +|.+-
T Consensus 35 ~Y~~hf~kgP~~e~~igFIqt--yrdp-------~G~r~efEgfVA~vNKe~saKF~~LV~~AE~~l~~l-----Pw~~~ 100 (417)
T KOG3675 35 KYVHHFSKGPWYEGLIGFIQT--YRDP-------AGSRGEFEGFVAVVNKEMSAKFSWLVNNAEQLLPEL-----PWIYA 100 (417)
T ss_pred HHHHHHHCCCHHHHHHHHHHH--CCCC-------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-----CCCHH
T ss_conf 555554127515435455420--4665-------566200000565530454456788765476541117-----85155
Q ss_pred CCCCEEEEEEECCCCCH--HHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf 79963242231234526--764266504677775167778899999999987
Q gi|254780353|r 158 YNEEDSEPVVFPSKFPN--LLANGTSGIAVGMATSIPSHNVQEICEAALALI 207 (753)
Q Consensus 158 ~D~~~~EP~~lp~~~P~--lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i 207 (753)
|.- |.+|+.-|-. +|.=+.+||+.|. |||.++=.+--.......
T Consensus 101 ~ek----d~Fl~pDftsLdvlafagsGipAGI--NIpNy~dirq~egfKnv~ 146 (417)
T KOG3675 101 LEK----DLFLAPDFTQLDVLAFAGSGIPAGI--NIPNYTDIRQQEGFKNVA 146 (417)
T ss_pred HHH----CCCCCCCHHHHHHHHHHCCCCCCCC--CCCCCCHHHHHHHHHHHH
T ss_conf 533----0036898067777765057755556--778752898988899999
No 183
>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=23.15 E-value=43 Score=12.71 Aligned_cols=59 Identities=27% Similarity=0.397 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHHHH------H--CCCCCCCCCCCCCC--CEEEEE----EECCCCCHHHHCCCCCHHHHHHHHCCC
Q ss_conf 024689985599999984------2--18786175216799--632422----312345267642665046777751677
Q gi|254780353|r 128 AYRYTEARMTQVAELILQ------G--VDEDAVDFRDTYNE--EDSEPV----VFPSKFPNLLANGTSGIAVGMATSIPS 193 (753)
Q Consensus 128 a~RYte~rl~~~~~~ll~------d--i~~~~v~~~~n~D~--~~~EP~----~lp~~~P~lL~Ng~~GIavG~at~ipp 193 (753)
+-=|+-| .++|++||- + +|.+-|-=.|.=|+ .+.||. |||=+|=.= --|||
T Consensus 150 ~e~YewA--kkiSehLLPrTRAY~EIWLD~~KV~gtp~~e~~l~~~EPiyG~~YLPRKFKt~-------------v~~PP 214 (550)
T TIGR02041 150 REVYEWA--KKISEHLLPRTRAYHEIWLDEEKVAGTPEGEEFLQEEEPIYGKTYLPRKFKTG-------------VVIPP 214 (550)
T ss_pred HHHHHHH--HHHHHHHCCCCCCCEEEEECCCEECCCCCHHHHHHCCCCCCCCCCCCCCCEEE-------------EEECC
T ss_conf 9999999--98766517765444146533442147763122321368876887788520133-------------66189
Q ss_pred CCHHHHHH
Q ss_conf 78899999
Q gi|254780353|r 194 HNVQEICE 201 (753)
Q Consensus 194 hnl~ev~~ 201 (753)
||=.+|-.
T Consensus 215 ~NDvDvya 222 (550)
T TIGR02041 215 INDVDVYA 222 (550)
T ss_pred CCCCEEEE
T ss_conf 88711132
No 184
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=23.09 E-value=43 Score=12.70 Aligned_cols=59 Identities=12% Similarity=0.113 Sum_probs=28.1
Q ss_pred CCCCCEEEEECCCEEECCCCCC-CCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEH
Q ss_conf 5667059987101020256554-4553223455555401211114781789806882787551
Q gi|254780353|r 516 EKEPITVVISNRGWIRSLKSHS-VDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPA 577 (753)
Q Consensus 516 ~~E~v~V~LS~~GyIKr~k~~~-~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a 577 (753)
.....+.+.+.+|.+.++...+ ...-...+ ++.+ ..-.+-..+.+.+-|..|.+|.+.+
T Consensus 63 v~~~~vy~~~~~G~v~Ald~~tG~~~W~~~~--~~~i-~~g~~v~~~~v~vgt~~G~l~Ald~ 122 (377)
T TIGR03300 63 VAGGKVYAADADGTVVALDAETGKRLWRVDL--DERL-SGGVGADGGLVFVGTEKGEVIALDA 122 (377)
T ss_pred EECCEEEEECCCCEEEEEECCCCCEEEEEEC--CCCE-EEEEEEECCEEEEEECCCEEEEEEC
T ss_conf 9899999984997599999658948878886--9981-5603882999999909975999997
No 185
>KOG2911 consensus
Probab=23.02 E-value=43 Score=12.69 Aligned_cols=89 Identities=17% Similarity=0.262 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf 99998641078999975200001100000025775778899887899998899-99766678999988776544203978
Q gi|254780353|r 391 KGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLE-EYQIKSELDNLLAEKEKIDSLLNSGK 469 (753)
Q Consensus 391 eGl~~a~~~ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le-~~kl~~E~~eL~~~i~~L~~IL~s~~ 469 (753)
|-+...+.+++.|+.-|-+|.+-+.-|.+ |+-.-.--++|+. +--+.| .+.+.+|..+...+-++.+.+|++-.
T Consensus 290 er~~~~l~~l~~vl~~Id~s~~nkvvl~A-yksGs~alK~il~----~~~s~ekVed~Ldev~et~d~~~EV~~~la~~~ 364 (439)
T KOG2911 290 ERKVSSLNNLETVLSQIDNSQTNKVVLQA-YKSGSEALKAILA----QGGSTEKVEDVLDEVNETLDRQEEVEDALASYN 364 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 99999999999999988762110899999-9976999999985----268704599999999998865999999984589
Q ss_pred HH-----HHHHHHHHHHHHH
Q ss_conf 87-----8999999999987
Q gi|254780353|r 470 QQ-----WNQIACEIREVKE 484 (753)
Q Consensus 470 ~l-----~~iI~~EL~eikk 484 (753)
.- ..-|-+||.++.-
T Consensus 365 ~~~~d~~de~lEkEL~~L~~ 384 (439)
T KOG2911 365 VNNIDFEDEDLEKELEDLEA 384 (439)
T ss_pred CCCCCCCHHHHHHHHHHHHH
T ss_conf 88876246999999999974
No 186
>COG2039 Pcp Pyrrolidone-carboxylate peptidase (N-terminal pyroglutamyl peptidase) [Posttranslational modification, protein turnover, chaperones]
Probab=23.01 E-value=40 Score=12.97 Aligned_cols=21 Identities=14% Similarity=0.088 Sum_probs=13.3
Q ss_pred HHCCCCCHHHHHHHHHHHHHC
Q ss_conf 516777889999999998728
Q gi|254780353|r 189 TSIPSHNVQEICEAALALIDN 209 (753)
Q Consensus 189 t~ipphnl~ev~~a~~~~i~~ 209 (753)
.-+.|--+++..+++...|+.
T Consensus 38 ~~~lP~~f~~s~~~l~~~i~~ 58 (207)
T COG2039 38 GRILPVVFKKSIDALVQAIAE 58 (207)
T ss_pred EEECCCCHHHHHHHHHHHHHH
T ss_conf 998574188899999999985
No 187
>TIGR02976 phageshock_pspB phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages . Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one ..
Probab=22.87 E-value=43 Score=12.67 Aligned_cols=36 Identities=14% Similarity=0.299 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
Q ss_conf 89988789999889999766678999988776544203978
Q gi|254780353|r 429 DAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGK 469 (753)
Q Consensus 429 ~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~ 469 (753)
+.+-+.=.++|+. +.+..+.|.++|+.||.||.++.
T Consensus 34 ~~l~~~d~~~L~~-----L~~~A~Rl~~Ri~tLE~iLd~e~ 69 (75)
T TIGR02976 34 ASLSTDDLQLLQE-----LYAKADRLEERIDTLERILDAEH 69 (75)
T ss_pred CCCCHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 1115799999999-----99999899999999999872048
No 188
>TIGR00501 met_pdase_II methionine aminopeptidase, type II; InterPro: IPR002468 Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases . 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 group of metallopeptidases belong to MEROPS peptidase family M24 (clan MG), subfamily M24A. Methionine aminopeptidase (3.4.11.18 from EC) (MAP) is responsible for the removal of the amino-terminal (initiator) methionine from nascent eukaryotic cytosolic and cytoplasmic prokaryotic proteins if the penultimate amino acid is small and uncharged. All MAP studied to date are monomeric proteins that require cobalt ions for activity. Two subfamilies of MAP enzymes are known to exist , . While being evolutionary related, they only share a limited amount of sequence similarity mostly clustered around the residues shown, in the Escherichia coli MAP , to be involved in cobalt-binding. The first family consists of enzymes from prokaryotes as well as eukaryotic MAP-1, while the second group (IPR002467 from INTERPRO) is made up of archaeal MAP and eukaryotic MAP-2 and includes proteins which do not seem to be MAP, but that are clearly evolutionary related such as mouse proliferation-associated protein 1 and fission yeast curved DNA-binding protein. ; GO: 0004239 methionyl aminopeptidase activity, 0006508 proteolysis.
Probab=22.83 E-value=15 Score=16.15 Aligned_cols=27 Identities=15% Similarity=0.267 Sum_probs=11.9
Q ss_pred CEEEEEHHHHHHHCCCCCCHHHHHHHH
Q ss_conf 803540536665427688747899999
Q gi|254780353|r 71 AFKKSARIVGEVIGKLHPHGDQSVYDS 97 (753)
Q Consensus 71 ~~~K~ar~vg~v~gkyhPHGd~s~y~a 97 (753)
+||=|.+.+|++|-.|--|+-.|||--
T Consensus 173 g~kP~~NL~GHs~~rY~~H~G~SiPn~ 199 (327)
T TIGR00501 173 GVKPISNLTGHSMARYLLHAGLSIPNV 199 (327)
T ss_pred CCCCCCCCCCCCCCHHHHCCCCCCEEE
T ss_conf 433422273564001543589500034
No 189
>cd04639 CBS_pair_26 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic gener
Probab=22.78 E-value=31 Score=13.76 Aligned_cols=28 Identities=18% Similarity=0.253 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHCCHHHCCCCCCCCCCC
Q ss_conf 4789999999610013216613267887
Q gi|254780353|r 90 GDQSVYDSLVRLAQPFVQRYPLISGQGN 117 (753)
Q Consensus 90 Gd~s~y~a~v~maq~~~~~~pli~g~Gn 117 (753)
-|.++++|+-+|.+.-.-+.|.+|.+|.
T Consensus 71 ~~~~l~~~~~~m~~~~~~~lpVVd~~g~ 98 (111)
T cd04639 71 PSATLDAVLRLMQQGGAPAVPVVDGSGR 98 (111)
T ss_pred CCCCHHHHHHHHHHCCCCEEEEECCCCE
T ss_conf 9994999999999589988989957992
No 190
>cd03822 GT1_ecORF704_like This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides.
Probab=22.75 E-value=39 Score=13.05 Aligned_cols=28 Identities=25% Similarity=0.266 Sum_probs=13.5
Q ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 76544203978878999999999987417
Q gi|254780353|r 459 EKIDSLLNSGKQQWNQIACEIREVKEIFS 487 (753)
Q Consensus 459 ~~L~~IL~s~~~l~~iI~~EL~eikkkfg 487 (753)
+.+..+|+|++...+ +.+.-.+..++|.
T Consensus 326 ~ai~~ll~d~~~r~~-l~~~a~~~a~~~s 353 (366)
T cd03822 326 EAIRRLLADPELAQA-LRARAREYARAMS 353 (366)
T ss_pred HHHHHHHCCHHHHHH-HHHHHHHHHHHCC
T ss_conf 999999879999999-9999999999799
No 191
>cd04949 GT1_gtfA_like This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltra
Probab=22.73 E-value=44 Score=12.65 Aligned_cols=11 Identities=9% Similarity=0.184 Sum_probs=4.1
Q ss_pred CHHHHHHHHHH
Q ss_conf 49999998999
Q gi|254780353|r 356 PLDGILKEWLA 366 (753)
Q Consensus 356 ~l~eil~~f~~ 366 (753)
+..|+...|++
T Consensus 82 ~~~eL~~~fl~ 92 (372)
T cd04949 82 NEEELFAFFLD 92 (372)
T ss_pred CHHHHHHHHHH
T ss_conf 89999999999
No 192
>pfam01255 Prenyltransf Putative undecaprenyl diphosphate synthase. Previously known as uncharacterized protein family UPF0015, a single member of this family has been identified as an undecaprenyl diphosphate synthase.
Probab=22.72 E-value=44 Score=12.65 Aligned_cols=89 Identities=13% Similarity=0.109 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999986410789999752000011000-------0002577577889988789999889999766678999988776
Q gi|254780353|r 388 EILKGLLIAYLNIDEIIAIIRNEDKPKPVM-------VSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEK 460 (753)
Q Consensus 388 hIleGl~~a~~~ID~vI~iIR~s~~~k~~L-------~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~ 460 (753)
...+|.......+-+|++.... ....- .+.|+=+....+++.++=.+.|.+ +..++.+ ..-
T Consensus 15 ~~~~Gh~~G~~~~~~i~~~c~~---~gI~~lTvyaFStEN~~R~~~Ev~~L~~l~~~~l~~--------~~~~~~~-~~i 82 (222)
T pfam01255 15 PRTEGHRAGAEALREILEWCLE---LGIKYLTLYAFSTENWKRPKEEVDFLMELLEEKLRR--------LLEDLHK-NGV 82 (222)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH---CCCCEEEEHHHCHHHCCCCHHHHHHHHHHHHHHHHH--------HHHHHHH-CCE
T ss_conf 8779999999999999999998---699989726417875499989999999999999999--------9999998-693
Q ss_pred HHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 5442039788789999999999874177
Q gi|254780353|r 461 IDSLLNSGKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 461 L~~IL~s~~~l~~iI~~EL~eikkkfgd 488 (753)
--.++++.+.+-.-+.+.+.++.+.-.+
T Consensus 83 ki~~iG~~~~Lp~~l~~~i~~~e~~T~~ 110 (222)
T pfam01255 83 RVRVIGDLSLLPEDLRKAIEDAEEATKN 110 (222)
T ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHCC
T ss_conf 8999526556898999999999997157
No 193
>KOG0103 consensus
Probab=22.71 E-value=20 Score=15.13 Aligned_cols=110 Identities=17% Similarity=0.245 Sum_probs=66.3
Q ss_pred CHHHHHHHHHHHHC------CHHHCCC-CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC-
Q ss_conf 74789999999610------0132166-132678870886779710024689985599999984218786175216799-
Q gi|254780353|r 89 HGDQSVYDSLVRLA------QPFVQRY-PLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNE- 160 (753)
Q Consensus 89 HGd~s~y~a~v~ma------q~~~~~~-pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~- 160 (753)
.|..++|=|++|.+ .++|+|- |.+.+-|--+-..|..+++.--+-.+-+.-. ++.+- -.-|++
T Consensus 8 ~Gn~nc~iavAr~~gIe~i~nd~Snr~TPa~vsfg~K~R~~G~aak~~~~~n~kntv~~---~KRl~------Gr~f~dP 78 (727)
T KOG0103 8 LGNENCYIAVARQGGIEVVANDYSNRETPAIVSFGPKNRFIGVAAKNQQTTNVKNTVSN---FKRLI------GRKFSDP 78 (727)
T ss_pred CCCCCEEEEEECCCCCEEEEECCCCCCCCCEEEECCCCCEEEECCCCCEEECCCCCCHH---HHHHH------CCCCCCH
T ss_conf 26654344320217733553043334575223225665245431564222020026336---66550------4234783
Q ss_pred -CEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf -632422312345267642665046777751677788999999999872
Q gi|254780353|r 161 -EDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALID 208 (753)
Q Consensus 161 -~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~ 208 (753)
-..|+.-+|..+- .+.||..||.|-+.-..+|+-+..|.......++
T Consensus 79 ~~q~~~~~~~~~vv-~~~dg~vgi~v~ylge~~~ft~~Qv~Am~l~klk 126 (727)
T KOG0103 79 EVQREIKSLPRSVV-QLKDGDVGIKVEYLGEKHPFTPEQVLAMLLTKLK 126 (727)
T ss_pred HHHHCCCCCCHHEE-ECCCCCCCEEEHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 76531000653205-6688870002110267889973899999999989
No 194
>PRK10240 undecaprenyl pyrophosphate synthase; Provisional
Probab=22.49 E-value=44 Score=12.62 Aligned_cols=24 Identities=8% Similarity=0.192 Sum_probs=12.3
Q ss_pred HHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 420397887899999999998741
Q gi|254780353|r 463 SLLNSGKQQWNQIACEIREVKEIF 486 (753)
Q Consensus 463 ~IL~s~~~l~~iI~~EL~eikkkf 486 (753)
.++++.+.+-+-+.+.+.++.+.=
T Consensus 84 ~~iGd~~~Lp~~l~~~i~~~e~~T 107 (229)
T PRK10240 84 RIIGDTSRFNSRLQERIRKSEALT 107 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 996441006758999999999974
No 195
>KOG0270 consensus
Probab=22.41 E-value=44 Score=12.61 Aligned_cols=161 Identities=13% Similarity=0.098 Sum_probs=70.5
Q ss_pred HHHHCCCCCCCCEE-EEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCE--EEEECCCEEEEEEHHHCCCCCC
Q ss_conf 01100245667059-98710102025655445532234555554012111147817--8980688278755112121234
Q gi|254780353|r 509 TLQQAMIEKEPITV-VISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRI--LLLSTDGKAYTLPAGNLLSGRG 585 (753)
Q Consensus 509 ~~~EdlI~~E~v~V-~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~L--LffTs~GkvY~l~a~~Ips~~~ 585 (753)
+..-+.-+.+|.++ +=|.+|+++-...+...-++...|-.-.+. .+.-+-|... ++=|+.|.+|++. .|+
T Consensus 289 Vq~l~wh~~~p~~LLsGs~D~~V~l~D~R~~~~s~~~wk~~g~VE-kv~w~~~se~~f~~~tddG~v~~~D------~R~ 361 (463)
T KOG0270 289 VQTLEWHPYEPSVLLSGSYDGTVALKDCRDPSNSGKEWKFDGEVE-KVAWDPHSENSFFVSTDDGTVYYFD------IRN 361 (463)
T ss_pred EEEEEECCCCCEEEEECCCCCEEEEEECCCCCCCCCEEEECCCEE-EEEECCCCCEEEEEECCCCEEEEEE------CCC
T ss_conf 258873278861898415564478653357655673577405257-8983478841588764786288653------378
Q ss_pred CCCCCCCCCCCCCCCEEEEEEEECCCCEEE--EEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEEC-CCC--E
Q ss_conf 444222235767653078999857998599--99748978996388740233356278853689805688961-898--0
Q gi|254780353|r 586 HGEAIQLLIDLNHNQDIVTAFVYDSTCKLL--VVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKV-TGD--H 660 (753)
Q Consensus 586 kG~pI~~ll~l~~~EkIv~~~~~~~~~~ll--l~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~-~~d--~ 660 (753)
.|.|+..+--- ++. ++.+.++....-+ ..+..+++|.-.+..-....-.+ .-+++.- ..|+.+ ... .
T Consensus 362 ~~~~vwt~~AH--d~~-ISgl~~n~~~p~~l~t~s~d~~Vklw~~~~~~~~~v~~-~~~~~~r----l~c~~~~~~~a~~ 433 (463)
T KOG0270 362 PGKPVWTLKAH--DDE-ISGLSVNIQTPGLLSTASTDKVVKLWKFDVDSPKSVKE-HSFKLGR----LHCFALDPDVAFT 433 (463)
T ss_pred CCCCEEEEEEC--CCC-CCEEEECCCCCCCEEECCCCCEEEEEEECCCCCCCCCC-CCCCCCC----EEECCCCCCCCEE
T ss_conf 88852688751--687-32478347788610323665259999604888761123-2100021----1102458776358
Q ss_pred EEEEECCCCEEEEEHHHCCCCCHH
Q ss_conf 999956993899557877833612
Q gi|254780353|r 661 VAVVGENRKLLIFSIDQIPEMSRG 684 (753)
Q Consensus 661 iiliT~~Gk~LrF~~~eIr~~gRg 684 (753)
+++-..++.+..++...-+...|+
T Consensus 434 la~GG~k~~~~vwd~~~~~~V~ka 457 (463)
T KOG0270 434 LAFGGEKAVLRVWDIFTNSPVRKA 457 (463)
T ss_pred EEECCCCCEEEEEECCCCHHHHHH
T ss_conf 994474652777541357267775
No 196
>TIGR02515 IV_pilus_PilQ type IV pilus secretin PilQ; InterPro: IPR013355 A number of proteins homologous to PilQ are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also referred to as the main terminal branch of the general secretion pathway). Members of this family include PilQ itself, which is a component of the type IV pilus structure, from a number of species. In Haemophilus influenzae, the member of this family is associated with the uptake of exogenous DNA, rather than with formation of a type IV pilus - the surface structure required for this may be considered an unusual, incomplete type IV pilus structure.; GO: 0009297 pilus biogenesis, 0009306 protein secretion.
Probab=22.40 E-value=44 Score=12.61 Aligned_cols=84 Identities=12% Similarity=0.222 Sum_probs=37.4
Q ss_pred CEEEEEEEECCCCCHHHHHHHHHHHCCCCCCC---CCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 60588985045458899999875420000122---331133312689722049999998999989999999999999999
Q gi|254780353|r 308 DVRIVLFPKNRSLDPDLLMESIFMLSDMETRF---PLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAID 384 (753)
Q Consensus 308 ~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf---~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~ 384 (753)
.|-+= ++-+++.=+..|.-..|-=.|-..= .=|.+-+ .| ..||... . +.+-+.++..
T Consensus 35 ~G~it--LrL~nVPWDQALDivLk~KgL~~r~~~s~GNi~~i----AP----~~el~~~-----e-----~~~l~~~~~~ 94 (464)
T TIGR02515 35 QGNIT--LRLKNVPWDQALDIVLKSKGLDKRRESSDGNIIYI----AP----ADELAAR-----E-----KDELEAKKQI 94 (464)
T ss_pred CEEEE--EEECCCCHHHHHHHHHHHCCCCCEEEECCCCEEEE----CC----HHHHHHH-----H-----HHHHHHHHHH
T ss_conf 21388--85178986899889875358652451127886997----58----7998899-----9-----9999999999
Q ss_pred HHHHHH--HHHHHHHHHHHHHHHHHHCCC
Q ss_conf 999999--999986410789999752000
Q gi|254780353|r 385 RRVEIL--KGLLIAYLNIDEIIAIIRNED 411 (753)
Q Consensus 385 ~RlhIl--eGl~~a~~~ID~vI~iIR~s~ 411 (753)
+.++=| |-+-+=|.+-+++=++|+.++
T Consensus 95 ~~l~~L~te~i~lnYa~A~di~k~l~~~~ 123 (464)
T TIGR02515 95 ENLEPLQTELIQLNYAKASDIAKVLTGDR 123 (464)
T ss_pred HHHCCCCCCEEEEEECCHHHHHHHHHCCC
T ss_conf 85116421207885237899999972124
No 197
>cd01437 parp_like Poly(ADP-ribose) polymerase (parp) catalytic domain catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The carboxyl-terminal region is the most highly conserved region of the protein. Experiments have shown that a carboxyl 40 kDa fragment is still catalytically active. Poly(ADP-ribose)-like polymerases (PARPS 1-3, VPARP, tankyrase) catalyze the addition of up to 100 ADP_ribose units from NAD+. PARPs 1 and 2 are localized in the nucleaus, bind DNA, and are activated by DNA damage. VPARP is part of the vault ribonucleoprotein complex. Tankyrases regulates telomere length through interactions with telomere repeat binding factor 1.
Probab=22.27 E-value=45 Score=12.59 Aligned_cols=14 Identities=14% Similarity=0.332 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHC
Q ss_conf 64107899997520
Q gi|254780353|r 396 AYLNIDEIIAIIRN 409 (753)
Q Consensus 396 a~~~ID~vI~iIR~ 409 (753)
++.+|.-+.++++.
T Consensus 107 ~L~die~A~~ll~~ 120 (347)
T cd01437 107 ALRDIEIASKLLKD 120 (347)
T ss_pred HHHHHHHHHHHHHH
T ss_conf 99999999999974
No 198
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=22.23 E-value=45 Score=12.58 Aligned_cols=22 Identities=14% Similarity=0.382 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 9766678999988776544203
Q gi|254780353|r 445 YQIKSELDNLLAEKEKIDSLLN 466 (753)
Q Consensus 445 ~kl~~E~~eL~~~i~~L~~IL~ 466 (753)
..++++.++|.+..+.|+.+|+
T Consensus 81 ~~i~~~I~~L~~~r~~L~~llG 102 (102)
T cd04775 81 QSLNREIQRLRQQQQVLAAILG 102 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHC
T ss_conf 9999999999999999998739
No 199
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=21.95 E-value=45 Score=12.54 Aligned_cols=46 Identities=13% Similarity=0.135 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCC--HHHHHHHHHHHHHHHHHHCCC
Q ss_conf 9997666789999887765442039--788789999999999874177
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDSLLNS--GKQQWNQIACEIREVKEIFSK 488 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~IL~s--~~~l~~iI~~EL~eikkkfgd 488 (753)
++.....|++.+.+++++.+.+|++ +..+.....+|+.+++++...
T Consensus 47 ~iv~~~~~~~~~~~~l~~a~~~l~~~~D~em~ema~~Ei~~~~~~~~~ 94 (363)
T COG0216 47 PIVEKYREYKKAQEDLEDAKEMLAEEKDPEMREMAEEEIKELEAKIEE 94 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999999983568878999999999999998999
No 200
>TIGR03290 CoB_CoM_SS_C CoB--CoM heterodisulfide reductase, subunit C. The last step in methanogenesis leaves two coenzymes of methanogenesis, CoM and CoB, linked by a disulfide bond. Members of this protein family are the C subunit of the enzyme that reduces the heterodisulfide to CoB-SH and CoM-SH. Similar enzyme complex subunits are found in various other species, but likely act on a different substrate.
Probab=21.74 E-value=46 Score=12.51 Aligned_cols=85 Identities=16% Similarity=0.144 Sum_probs=50.7
Q ss_pred HHHCCCC--CHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCC
Q ss_conf 7516777--88999999999872865320134432036778877601069889998985033415999999986437884
Q gi|254780353|r 188 ATSIPSH--NVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGS 265 (753)
Q Consensus 188 at~ipph--nl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~ 265 (753)
=+...|- ++.+|+.++..+.-....... . -.+....+|+||++--.-+ +...-+
T Consensus 54 C~~~CP~gV~~~~vI~~lR~~A~~~G~~~~---------~---------~~~~~~~i~~~GhaVp~n~------~~~e~r 109 (144)
T TIGR03290 54 CQERCPRDVKITDIIKALRNLAAKKGFMAK---------A---------HRKTASFVLKTGHAVPIND------EIKELR 109 (144)
T ss_pred HHHHCCCCCCHHHHHHHHHHHHHHCCCCCH---------H---------HHHHHHHHHHHCCCCCCCH------HHHHHH
T ss_conf 401348999889999999999998599879---------9---------9999999999687788658------999999
Q ss_pred EEEEEECCCCCCCH-HHHHHHHHHHHHHCCCH
Q ss_conf 07999524200216-89999999986402221
Q gi|254780353|r 266 WCIVVTEIPYQVQK-SRLIEKIAELIIAKRIP 296 (753)
Q Consensus 266 ~~ivIteiPy~v~k-~~~ie~I~~lv~~~ki~ 296 (753)
..+=-+|+|+.+.+ .+.+|.|..++++-++.
T Consensus 110 ~~~gl~~~ppt~~~~~~~~~~~~~i~~~~~~~ 141 (144)
T TIGR03290 110 KELGLDEIPPTTHKYPEALEEVQKLIKALEFD 141 (144)
T ss_pred HHCCCCCCCCHHHHCHHHHHHHHHHHHHCCHH
T ss_conf 98599889950430898899999999973533
No 201
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase; InterPro: IPR006219 Members of this group catalyze the first enzymatic reaction of the shikimate pathway. The common (shikimate) pathway links metabolism of carbohydrates to biosynthesis of aromatic amino acids phenylalanine, tyrosine, tryptophan, and derivatives in microorganisms and in plants. In a sequence of seven enzymatic reactions, D-erythrose 4-phosphate (E4P), an intermediate of the pentose phosphate pathway, and phosphoenol pyruvate (PEP), a glycolytic intermediate, are converted to chorismate. The pathway begins with the stereospecific condensation of E4P and PEP to yield 7-phospho 2-dehydro 3-deoxy-D-arabino-heptulosonate (DAHP), catalyzed by 3-deoxy-7-phosphoheptulonate synthase (DAHPS) (EC 2.5.1.54, formerly EC 4.1.2.15). The divalent metal cation requirement of this enzyme can be satisfied by a broad range of metals . A Cys residue in a Cys-X-X-His motif has been identified as part of a metal binding site . In Escherichia coli, the enzyme exists in three isoforms, each specifically inhibited by one of the three aromatic amino acids. DAHP synthetases fall into two classes, class I (represented by this entry) and class II (represented by PIRSF015573 from PIRSF). Class I was believed to be limited to microorganisms and class II to plants. However, a more recent study showed that class II also contains enzymes from a microbial eukaryote and several bacteria . Brick and Woodard proposed that the difference between the two classes lies in their metal ion requirement for activity. Whereas class I requires no metal cation, class II is dependent on a metal cation for activity. However, recently a class I DAHP synthase from Thermotoga maritima has been purified, characterised, and shown to be a metalloenzyme . The three-dimentional structures of DAHP synthases have been determined , , , , . The DAHPS(Phe) monomer is a (beta/alpha)8 barrel with an additional N-terminal beta strand and helices and an extra beta sheet near the C terminus . The active site is located in a cleft at the carboxyl end of the barrel . The allosteric feedback inhibition binding site of DAHPS(Phe) is composed of residues from two adjacent subunits of a tight dimer and is at least 20 angstroms away from the closest active site . The absence of the shikimate pathway in animals makes it an attractive target for nontoxic herbicidal, antimicrobial, and antifungal agents. The nontoxic herbicide glyphosphate competitively inhibits 3-phosphoshikimate 1-carboxyvinyltransferase, the sixth enzymatic reaction of the pathway.; GO: 0003849 3-deoxy-7-phosphoheptulonate synthase activity, 0009073 aromatic amino acid family biosynthetic process.
Probab=21.74 E-value=46 Score=12.51 Aligned_cols=21 Identities=24% Similarity=0.472 Sum_probs=13.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHH
Q ss_conf 000000257757788998878
Q gi|254780353|r 415 PVMVSRFSLTENQVDAILNLR 435 (753)
Q Consensus 415 ~~L~~~f~lse~QA~aIL~mr 435 (753)
..|.++|-+|+.|++.|-.-|
T Consensus 18 ~~L~~~~P~t~~~~~~v~~~R 38 (348)
T TIGR00034 18 AELAAKFPLTPKQAENVAQSR 38 (348)
T ss_pred HHHHHHCCCCHHHHHHHHHHH
T ss_conf 999974787887999999889
No 202
>pfam11853 DUF3373 Protein of unknown function (DUF3373). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=21.65 E-value=46 Score=12.50 Aligned_cols=21 Identities=24% Similarity=0.329 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999766678999988776544
Q gi|254780353|r 443 EEYQIKSELDNLLAEKEKIDS 463 (753)
Q Consensus 443 e~~kl~~E~~eL~~~i~~L~~ 463 (753)
++++|++|.++|+++.++++.
T Consensus 32 kI~~L~~ql~eLk~~~~~~~~ 52 (485)
T pfam11853 32 KIEALKKELAELKAQLKDLNK 52 (485)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999998776
No 203
>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=21.43 E-value=27 Score=14.22 Aligned_cols=132 Identities=16% Similarity=0.203 Sum_probs=59.5
Q ss_pred CHHHHHHHHHHHHHH-HHHHCCCCCCCCCC--CCCEEECCCHHHHHHHHCCCCCCCC-EEEEECCCEEE-CCCC---CCC
Q ss_conf 978878999999999-98741774334555--4200001100000011002456670-59987101020-2565---544
Q gi|254780353|r 467 SGKQQWNQIACEIRE-VKEIFSKSTDLGRR--RTTFCEVSRADKATLQQAMIEKEPI-TVVISNRGWIR-SLKS---HSV 538 (753)
Q Consensus 467 s~~~l~~iI~~EL~e-ikkkfgd~~~~~~R--RT~iie~~~~~~~~~~EdlI~~E~v-~V~LS~~GyIK-r~k~---~~~ 538 (753)
|-.++-+--++|.+. |.+.||++..-.++ |.--- .. ....|..-+=.|. .|+++=+- +| .+++ ...
T Consensus 347 DS~~lS~~A~~eaR~~I~~~yG~~YL~~~~kLk~y~~---k~--KnaQeAHEAIRPtG~~~~tP~~-lk~~L~~PniD~~ 420 (688)
T TIGR01051 347 DSTRLSNEAVNEARNLIDKNYGKEYLGPKPKLKRYKS---KE--KNAQEAHEAIRPTGSVFRTPEE-LKAELKRPNIDEL 420 (688)
T ss_pred CCHHHHHHHHHHHHHHHHHHCCHHCCCCCCCCCCHHH---CC--CCCCCHHHCCCCCCCEEECHHH-HHHHCCCCCHHHH
T ss_conf 3057899999999988886211203788742231022---16--8750011044764311017488-8522377566788
Q ss_pred CCC--------CCCCCC--CCCCEEEEEECCCCCEEEEECCCEEEEEEHHHC--CCCCCC--C--CCCCCCCC-CCCCCE
Q ss_conf 553--------223455--555401211114781789806882787551121--212344--4--42222357-676530
Q gi|254780353|r 539 DLS--------ALHFKE--GDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL--LSGRGH--G--EAIQLLID-LNHNQD 601 (753)
Q Consensus 539 ~~~--------~~~~Ke--gD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~I--ps~~~k--G--~pI~~ll~-l~~~Ek 601 (753)
..- .-.+.+ .|.+...+.|.+...=+-|.-.|+-...+.|.= ..++.. + +--...|+ |..||.
T Consensus 421 rLY~LIW~RfVASQM~dA~~~~~~v~l~~~~g~~~~~F~A~g~~~~FdGf~kvy~e~~dd~~~alee~~~~LP~Lk~Gd~ 500 (688)
T TIGR01051 421 RLYELIWKRFVASQMADARYDSLSVRLTAEKGSVEVVFKASGRKLLFDGFYKVYVEGSDDDDEALEEKDRILPPLKEGDA 500 (688)
T ss_pred HHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCCEEEEEEEECCEEECCHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCE
T ss_conf 88899999988744877532689999986137401589740235645523666412788716752224577878888862
Q ss_pred EEE
Q ss_conf 789
Q gi|254780353|r 602 IVT 604 (753)
Q Consensus 602 Iv~ 604 (753)
|-.
T Consensus 501 ~~~ 503 (688)
T TIGR01051 501 VKL 503 (688)
T ss_pred EEE
T ss_conf 002
No 204
>TIGR03449 mycothiol_MshA UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase. Members of this protein family, found exclusively in the Actinobacteria, are MshA, the glycosyltransferase of mycothiol biosynthesis. Mycothiol replaces glutathione in these species.
Probab=21.38 E-value=43 Score=12.71 Aligned_cols=10 Identities=20% Similarity=0.607 Sum_probs=4.0
Q ss_pred HHHHHHHHCC
Q ss_conf 8999975200
Q gi|254780353|r 401 DEIIAIIRNE 410 (753)
Q Consensus 401 D~vI~iIR~s 410 (753)
+++....+.+
T Consensus 294 ~~~~~~~~~a 303 (405)
T TIGR03449 294 EELVHVYRAA 303 (405)
T ss_pred HHHHHHHHHC
T ss_conf 9999999957
No 205
>PRK11462 putative transporter; Provisional
Probab=21.14 E-value=47 Score=12.43 Aligned_cols=28 Identities=21% Similarity=0.135 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9988789999889999766678999988
Q gi|254780353|r 430 AILNLRLRSLRKLEEYQIKSELDNLLAE 457 (753)
Q Consensus 430 aIL~mrL~rLt~le~~kl~~E~~eL~~~ 457 (753)
+++-++-|+||+-...++++|+++-+++
T Consensus 421 ~ii~~~~Y~L~~~~~~eI~~eL~~~~~~ 448 (460)
T PRK11462 421 AIIAKRYYSLTTHNLKTVMEQLAQGKRR 448 (460)
T ss_pred HHHHHHEECCCHHHHHHHHHHHHHHHHH
T ss_conf 9999952359899999999999999884
No 206
>KOG0005 consensus
Probab=20.93 E-value=35 Score=13.38 Aligned_cols=19 Identities=32% Similarity=0.630 Sum_probs=15.2
Q ss_pred CCCCCHHHHHHHHHHHHCC
Q ss_conf 1289704689999999868
Q gi|254780353|r 47 RDGFKPVHRRIIHAMSEMG 65 (753)
Q Consensus 47 ~DGlKpvqRril~~m~~~~ 65 (753)
..|.-|+|.|++|+-.+++
T Consensus 33 keGIPp~qqrli~~gkqm~ 51 (70)
T KOG0005 33 KEGIPPQQQRLIYAGKQMN 51 (70)
T ss_pred HCCCCCHHHHHHHCCCCCC
T ss_conf 2189916663210230025
No 207
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit; InterPro: IPR005737 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit B (parE) of topoisomerase IV from Gram negative bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome.
Probab=20.88 E-value=30 Score=13.85 Aligned_cols=128 Identities=22% Similarity=0.287 Sum_probs=64.3
Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHC--------CHHHCC-------C
Q ss_conf 4112897046899999998689998980354053666542768874789999999610--------013216-------6
Q gi|254780353|r 45 DLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLA--------QPFVQR-------Y 109 (753)
Q Consensus 45 d~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~ma--------q~~~~~-------~ 109 (753)
.|-+||-||||| =+||--|-..+++. ..+-||+ |-|+=+|+..-| ||.|.. +
T Consensus 10 ~VL~gLEPVr~R--PGMY~GGtD~~~~~----HL~~EV~-------DN~~DEA~AGfA~~i~v~lH~D~Si~v~D~GRG~ 76 (647)
T TIGR01055 10 EVLDGLEPVRKR--PGMYTGGTDTTRPN----HLVQEVI-------DNSVDEALAGFASKIEVILHQDQSIEVIDNGRGM 76 (647)
T ss_pred HHHCCCCCCCCC--CCCEECCCCCCCCH----HHHHHHH-------HHHHHHHHCCCCEEEEEEECCCCEEEEEECCCCC
T ss_conf 220168773428--87201786565301----3455544-------3335555406530788998289617998888303
Q ss_pred CCCCCCCCC-CCCCCCCCCCHHHHHHHHH---HHHHH--------------HHHHCCCCCCCCCCCCCCCEEEEEE-ECC
Q ss_conf 132678870-8867797100246899855---99999--------------9842187861752167996324223-123
Q gi|254780353|r 110 PLISGQGNF-GNIDGDSAAAYRYTEARMT---QVAEL--------------ILQGVDEDAVDFRDTYNEEDSEPVV-FPS 170 (753)
Q Consensus 110 pli~g~Gnf-Gs~~~d~~Aa~RYte~rl~---~~~~~--------------ll~di~~~~v~~~~n~D~~~~EP~~-lp~ 170 (753)
| ||-|-.| |- .|.--+=|+|+ +||+. ...-+. +.|+-.-.=+|....-.+ ==+
T Consensus 77 P-vD~HP~~P~~------sa~EvILt~LHaG~KFSN~~Y~~sGGLHGVGISVVNALS-~~~~i~V~~~G~~Y~~af~~G~ 148 (647)
T TIGR01055 77 P-VDIHPKEPGV------SAVEVILTKLHAGGKFSNKNYEFSGGLHGVGISVVNALS-KRVKIKVKRQGKLYSIAFENGA 148 (647)
T ss_pred C-CCCCCCCCCC------CEEEEEEEECCCCCCCCCCCCCCCCCEECCHHHHEEECC-CEEEEEEEECCEEEEHHHHCCC
T ss_conf 4-4278888888------623556430057852114440136860021432022013-2367899746704320221575
Q ss_pred CCCHHHHCCCCC-HHHHHHHHCCC
Q ss_conf 452676426650-46777751677
Q gi|254780353|r 171 KFPNLLANGTSG-IAVGMATSIPS 193 (753)
Q Consensus 171 ~~P~lL~Ng~~G-IavG~at~ipp 193 (753)
++-.|-+-|++| =..|-+-+--|
T Consensus 149 K~~dL~~~~~~GkR~~GT~v~F~P 172 (647)
T TIGR01055 149 KVTDLEVVGTCGKRLTGTSVHFTP 172 (647)
T ss_pred CHHHHHHHHCCCCCCCCCEEEECC
T ss_conf 110233211267765563577316
No 208
>cd04469 S1_Hex1 S1_Hex1: Hex1, S1-like RNA-binding domain. Hex1 protein is the major component of the Woronin body in filamentous fungi. The Woronin body is a dense vesicle and plays a vital role in filamentous fungi cell integrity. When cell damage occurs, Woronin bodies seal the septal pore to prevent further cytoplasmic bleeding. Hex1 protein self-assembles to form the solid core of the Woronin body vesicle. The Hex1 sequence and structure are similar to eukaryotic initiation factor 5A (eIF5A), suggesting they share a common ancestor during evolution. All members of the EF superfamily to which Hex1 belongs, contain an S1 domain, which has been shown to bind RNA or single-stranded DNA and often interacts with the ribosome.
Probab=20.79 E-value=48 Score=12.38 Aligned_cols=26 Identities=23% Similarity=0.466 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCHHHHHHHHHCCCCEEEEE
Q ss_conf 778877601069889998985033415999
Q gi|254780353|r 224 PDFPTGGIIVESRESIVESYRLGRGGFRVR 253 (753)
Q Consensus 224 PDFPTGG~i~~~~~~i~~~y~tG~G~i~~r 253 (753)
|=++.++.. .-|.+||+.||||+++-
T Consensus 29 pVidqs~L~----~Rl~~Afe~grgsVR~L 54 (75)
T cd04469 29 PVIDQSNLW----TRLKTAFESGRGSVRVL 54 (75)
T ss_pred EEECCCHHH----HHHHHHHHCCCCCEEEE
T ss_conf 233153589----99999976489839999
No 209
>pfam09133 SANTA SANTA (SANT Associated). The SANTA domain (SANT Associated domain) is approximately 90 amino acids in length and is conserved in Eukaryota. It is sometimes found in association with the SANT domain (pfam00249, also known as Myb-like DNA-binding domain) implying a putative function in regulating chromatin remodelling. Sequence analysis has showed that the SANTA domain is likely to form four central beta-sheets with three flanking alpha- helixes. Many conserved hydrophobic residues are present which implying a possible role in protein-protein interactions.
Probab=20.67 E-value=48 Score=12.36 Aligned_cols=62 Identities=13% Similarity=0.156 Sum_probs=36.7
Q ss_pred CEEECCCCCCCCCCCCCCCCCC---CCEEEEEECCCCCEEEEECCCEEEEEEHH-HCCCCCCCCCCC
Q ss_conf 1020256554455322345555---54012111147817898068827875511-212123444422
Q gi|254780353|r 528 GWIRSLKSHSVDLSALHFKEGD---SLKIALHAHTTDRILLLSTDGKAYTLPAG-NLLSGRGHGEAI 590 (753)
Q Consensus 528 GyIKr~k~~~~~~~~~~~KegD---~l~~~~~~~t~d~LLffTs~GkvY~l~a~-~Ips~~~kG~pI 590 (753)
=|+|+..+. ..+.|....++. ...+...+.-++.-.+.|..|..|.|... +.+..+..|-|.
T Consensus 6 Wwlk~~~~~-i~V~G~~~~~~~~~~~~~S~~IvkR~~~~~l~T~dG~~~~L~G~in~~~~~~nGfs~ 71 (93)
T pfam09133 6 WWLKKNNKD-LCVEGFRTEENTGMILFHSNFIVKRHSSTTLETVDGITYVLVGFIDRSRMLKNGFPS 71 (93)
T ss_pred HHHHHCCCC-EEEEEEEECCCCCEEEEECHHHHEEECCCEEEECCCEEEEEECCCCHHHHHHCCCCH
T ss_conf 566433784-799858613564148880155410012437992587099994656888898859998
No 210
>KOG1712 consensus
Probab=20.59 E-value=48 Score=12.38 Aligned_cols=14 Identities=43% Similarity=0.847 Sum_probs=9.0
Q ss_pred CCCCCCCCCCCCCH
Q ss_conf 67788776010698
Q gi|254780353|r 223 GPDFPTGGIIVESR 236 (753)
Q Consensus 223 gPDFPTGG~i~~~~ 236 (753)
=||||.-|+...+.
T Consensus 18 ~pdFPk~GI~F~Di 31 (183)
T KOG1712 18 VPDFPKKGIMFQDI 31 (183)
T ss_pred CCCCCCCCEEHHHH
T ss_conf 78999886002000
No 211
>pfam01025 GrpE GrpE.
Probab=20.59 E-value=48 Score=12.35 Aligned_cols=14 Identities=14% Similarity=0.230 Sum_probs=9.8
Q ss_pred CCCEEEEECCCEEE
Q ss_conf 67059987101020
Q gi|254780353|r 518 EPITVVISNRGWIR 531 (753)
Q Consensus 518 E~v~V~LS~~GyIK 531 (753)
+..++-+-+.||.-
T Consensus 135 ~~~I~~v~q~GY~l 148 (162)
T pfam01025 135 PGTVVEVLQKGYKL 148 (162)
T ss_pred CCEEEEEEECCCEE
T ss_conf 29899985459387
No 212
>PRK09165 replicative DNA helicase; Provisional
Probab=20.53 E-value=48 Score=12.34 Aligned_cols=61 Identities=18% Similarity=0.068 Sum_probs=28.1
Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHH-CCCHHHHHHHHCC--CCCEEEEEEEECCCCCHHHHHHHHHH
Q ss_conf 79995242002168999999998640-2221345776406--76605889850454588999998754
Q gi|254780353|r 267 CIVVTEIPYQVQKSRLIEKIAELIIA-KRIPLLEDIRDES--AEDVRIVLFPKNRSLDPDLLMESIFM 331 (753)
Q Consensus 267 ~ivIteiPy~v~k~~~ie~I~~lv~~-~ki~gi~dirDeS--d~~~~~vi~~~~r~~~~~~vl~~Lyk 331 (753)
.++|--=-+.+.|+.+.-.|+.-+-. -.... ..+.+ ...+..|.+. +-+-..+.++..+..
T Consensus 206 dLiIIAARPsmGKTafaLniA~n~A~~~~~~~---~~~~~~~~~~g~~V~~F-SLEMs~~ql~~Rlls 269 (484)
T PRK09165 206 DLIILAGRPSMGKTALATNIAFNAAKAYLREA---QPDGSKKAVNGGVVGFF-SLEMSAEQLATRILS 269 (484)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHHCCC---CCCCCCCCCCCCEEEEE-ECCCCHHHHHHHHHH
T ss_conf 37999607999778999999999998741022---22332113689848999-477999999999999
No 213
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=20.52 E-value=48 Score=12.34 Aligned_cols=61 Identities=10% Similarity=0.183 Sum_probs=24.4
Q ss_pred CCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECC-CCCEEEEEECC-CCEEEEEECCCCEEEEEHHH
Q ss_conf 9985999974897899638874023335627885368-98056889618-98099995699389955787
Q gi|254780353|r 610 STCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSS-EEKMKLVVKVT-GDHVAVVGENRKLLIFSIDQ 677 (753)
Q Consensus 610 ~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~-~D~li~v~~~~-~d~iiliT~~Gk~LrF~~~e 677 (753)
.+.+++..+.+|.++....+. +.....+.. .+.+..+.... +..++..+..|.+..|+...
T Consensus 146 ~~~~i~~~~~dg~v~i~d~~~-------~~~~~~~~~h~~~i~~i~~~~~~~~~~~~~~d~~i~i~d~~~ 208 (289)
T cd00200 146 DGTFVASSSQDGTIKLWDLRT-------GKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLST 208 (289)
T ss_pred CCCEEEEECCCCEEEEEECCC-------CCEEEEEEECCCCCEEEEECCCCCCCEEECCCCEEEEEECCC
T ss_conf 998999973899799999999-------949899986155632688889998147415999899999999
No 214
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=20.35 E-value=32 Score=13.66 Aligned_cols=21 Identities=10% Similarity=0.325 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCCHHHHHHHH
Q ss_conf 870886779710024689985
Q gi|254780353|r 116 GNFGNIDGDSAAAYRYTEARM 136 (753)
Q Consensus 116 GnfGs~~~d~~Aa~RYte~rl 136 (753)
-+||..+|.-.|+|||..-++
T Consensus 20 ~~~gG~~gElsA~~qYl~q~~ 40 (154)
T cd07908 20 DDYAGTNSELTAISQYIYQHL 40 (154)
T ss_pred HHHCCCCHHHHHHHHHHHHHH
T ss_conf 984896168999999999897
No 215
>TIGR00746 arcC carbamate kinase; InterPro: IPR003964 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes. The three- enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 100f total cell protein . Carbamate kinase is involved in the last step of the AD pathway, converting carbamoyl phosphate and ADP into ammonia, carbon dioxide and ATP . The second step of the pathway involves the degradation of L-citrulline to carbamoyl phosphate and L-ornithine, using ornithine carbamoyltransferase . The crystal structure of Enterococcus faecium carbamate kinase has been determined to 2.8A resolution . The enzyme exists as a homodimer of two 33kDa subunits. The hallmark of the dimer is a 16-stranded beta-sheet, surrounded by alpha-helices. Each subunit contains an active site within a large crevice.; GO: 0008804 carbamate kinase activity, 0006525 arginine metabolic process.
Probab=20.27 E-value=36 Score=13.32 Aligned_cols=11 Identities=27% Similarity=0.208 Sum_probs=5.2
Q ss_pred HHHHHHHHCCC
Q ss_conf 99998640222
Q gi|254780353|r 285 KIAELIIAKRI 295 (753)
Q Consensus 285 ~I~~lv~~~ki 295 (753)
.|..||+++.|
T Consensus 181 ~Ik~L~e~g~i 191 (321)
T TIGR00746 181 VIKTLVENGVI 191 (321)
T ss_pred HHHHHHHCCEE
T ss_conf 78998648827
No 216
>PRK09956 hypothetical protein; Provisional
Probab=20.18 E-value=32 Score=13.72 Aligned_cols=43 Identities=21% Similarity=0.318 Sum_probs=25.3
Q ss_pred EECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCC
Q ss_conf 3123452676426650467777516777889999999998728653201344320367788
Q gi|254780353|r 167 VFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFP 227 (753)
Q Consensus 167 ~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFP 227 (753)
-||..+|.|+-||-.+ ..| +.++ ..-+ ....++.+.+..++||
T Consensus 113 ~LP~IiPiv~YhG~~~-------p~p-~s~~-----~~d~-----f~~~~la~~l~~~~y~ 155 (308)
T PRK09956 113 RVPLVVPLLFYHGETS-------PYP-YSLN-----WLDE-----FDDPQLARQLYTEAFP 155 (308)
T ss_pred CCCCEEEEEEECCCCC-------CCC-CCCC-----HHHH-----CCCHHHHHHHCCCCCE
T ss_conf 6884236887758778-------877-8634-----9986-----2788999974557860
No 217
>pfam03861 ANTAR ANTAR domain. ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins. The majority of the domain consists of a coiled-coil.
Probab=20.11 E-value=39 Score=13.02 Aligned_cols=22 Identities=23% Similarity=0.453 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 0011000000257757788998
Q gi|254780353|r 411 DKPKPVMVSRFSLTENQVDAIL 432 (753)
Q Consensus 411 ~~~k~~L~~~f~lse~QA~aIL 432 (753)
+.||-.||..+++||.||-..|
T Consensus 16 ~~AkgiLm~~~~~~e~~A~~~L 37 (56)
T pfam03861 16 EQAKGILMERRGLSEEEAFELL 37 (56)
T ss_pred HHHHHHHHHHHCCCHHHHHHHH
T ss_conf 9999999988691999999999
No 218
>TIGR01127 ilvA_1Cterm threonine dehydratase; InterPro: IPR005789 Serine and threonine dehydratases , are functionally and structurally related pyridoxal-phosphate dependent enzymes. L-serine dehydratase () and D-serine dehydratase () catalyze the dehydratation of L-serine (respectively D-serine) into ammonia and pyruvate. Threonine dehydratase () (TDH) catalyzes the dehydratation of threonine into alpha-ketobutarate and ammonia. In Escherichia coli and other microorganisms, two classes of TDH are known to exist. One is involved in the biosynthesis of isoleucine, the other in hydroxamino acid catabolism. Threonine synthase () is also a pyridoxal-phosphate enzyme, it catalyzes the transformation of homoserine-phosphate into threonine. It has been shown that threonine synthase is distantly related to the serine/threonine dehydratases. In all these enzymes, the pyridoxal-phosphate group is attached to a lysine residue. A form of threonine dehydratase with two copies of the C-terminal domain is described by . This model describes a phylogenetically distinct which branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any domain. Many members of this model are found in species with other isoleucine biosynthetic enzymes.; GO: 0004794 L-threonine ammonia-lyase activity.
Probab=20.08 E-value=27 Score=14.22 Aligned_cols=90 Identities=16% Similarity=0.178 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHHCCCH-------HHHHHHH-CCC-CCEEEEEEEEC-CCCCHHHHHHHHHHHCCCCCCCCC-CEEE
Q ss_conf 21689999999986402221-------3457764-067-66058898504-545889999987542000012233-1133
Q gi|254780353|r 277 VQKSRLIEKIAELIIAKRIP-------LLEDIRD-ESA-EDVRIVLFPKN-RSLDPDLLMESIFMLSDMETRFPL-NMNV 345 (753)
Q Consensus 277 v~k~~~ie~I~~lv~~~ki~-------gi~dirD-eSd-~~~~~vi~~~~-r~~~~~~vl~~Lyk~T~Lq~sf~~-N~~~ 345 (753)
|+-+.+-.-|--|.+..|+- |++-+=. --| .+|+.|.+-.+ -+.|+..+-.-.+| .|..+... -..+
T Consensus 234 V~eeEIA~A~~~LLEr~Ki~aEGAGA~gvAA~L~~K~~~~kG~K~~~v~SGGNID~~~l~~iI~k--GL~~~GR~v~I~~ 311 (381)
T TIGR01127 234 VDEEEIAKAILLLLERAKIVAEGAGAVGVAAVLEDKVDYVKGKKVAVVVSGGNIDLNLLEKIILK--GLVKSGRKVRIET 311 (381)
T ss_pred ECHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCHHHHHHHHHH--HHHCCCCEEEEEE
T ss_conf 47377999999986077478827458999999975403689828999985477686677788655--2220583699999
Q ss_pred EECCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 31268972204999999899998999
Q gi|254780353|r 346 LSMGRVPQVMPLDGILKEWLAHRREV 371 (753)
Q Consensus 346 l~~~~~P~~~~l~eil~~f~~~R~~v 371 (753)
+..++ |=. |++++..--+.|.++
T Consensus 312 ~~~D~-PG~--L~~ll~~~A~~~aNi 334 (381)
T TIGR01127 312 VIPDR-PGA--LYKLLEVIAEERANI 334 (381)
T ss_pred EEECC-CCC--HHHHHHHHHHHCCCE
T ss_conf 98238-986--699999999816978
Done!