Query gi|254780399|ref|YP_003064812.1| DNA mismatch repair protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 594
No_of_seqs 177 out of 2292
Neff 8.4
Searched_HMMs 39220
Date Sun May 29 16:08:13 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780399.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00095 mutL DNA mismatch rep 100.0 0 0 1329.9 55.1 589 1-594 1-611 (612)
2 COG0323 MutL DNA mismatch repa 100.0 0 0 1204.1 53.1 592 1-594 1-637 (638)
3 KOG1978 consensus 100.0 0 0 775.7 33.5 563 3-584 1-667 (672)
4 TIGR00585 mutl DNA mismatch re 100.0 0 0 758.6 23.5 306 1-307 1-367 (367)
5 KOG1979 consensus 100.0 0 0 670.2 35.3 497 2-507 7-591 (694)
6 KOG1977 consensus 100.0 0 0 568.1 29.3 300 2-325 1-307 (1142)
7 pfam08676 MutL_C MutL C termin 100.0 6.3E-35 1.6E-39 270.7 15.7 142 405-552 1-142 (142)
8 cd03482 MutL_Trans_MutL MutL_T 100.0 1.4E-33 3.7E-38 261.0 8.0 122 206-327 2-123 (123)
9 cd03483 MutL_Trans_MLH1 MutL_T 100.0 5.8E-32 1.5E-36 249.4 7.8 123 204-327 1-127 (127)
10 cd00782 MutL_Trans MutL_Trans: 100.0 8.5E-31 2.2E-35 241.0 8.4 122 205-326 1-122 (122)
11 pfam01119 DNA_mis_repair DNA m 100.0 5.8E-31 1.5E-35 242.2 6.2 118 209-326 1-118 (118)
12 cd03484 MutL_Trans_hPMS_2_like 100.0 2E-29 5.1E-34 231.2 8.7 122 204-326 1-141 (142)
13 cd03485 MutL_Trans_hPMS_1_like 100.0 9.3E-29 2.4E-33 226.4 8.1 123 204-326 1-131 (132)
14 cd03486 MutL_Trans_MLH3 MutL_T 100.0 9.2E-29 2.4E-33 226.4 7.8 122 204-327 1-141 (141)
15 smart00853 MutL_C MutL C termi 99.9 2.7E-26 7E-31 208.6 15.2 134 407-541 2-136 (136)
16 cd00329 TopoII_MutL_Trans MutL 99.9 4E-22 1E-26 178.7 6.0 103 205-307 1-107 (107)
17 PRK04184 DNA topoisomerase VI 99.4 5.2E-11 1.3E-15 98.8 14.5 163 22-195 35-217 (533)
18 COG1389 DNA topoisomerase VI, 99.4 3.7E-11 9.4E-16 99.8 13.7 166 20-195 34-219 (538)
19 TIGR01052 top6b DNA topoisomer 99.2 3.1E-10 7.8E-15 93.2 9.7 156 20-189 26-216 (662)
20 PRK05218 heat shock protein 90 99.1 1.8E-08 4.7E-13 80.5 15.7 249 20-300 23-324 (612)
21 PRK05644 gyrB DNA gyrase subun 98.9 3.2E-09 8E-14 86.0 7.6 223 20-260 38-282 (725)
22 smart00433 TOP2c Topoisomerase 98.9 1.8E-08 4.6E-13 80.5 10.0 250 26-291 5-293 (594)
23 PRK05559 DNA topoisomerase IV 98.9 5.6E-09 1.4E-13 84.2 6.2 220 21-259 36-275 (633)
24 COG0326 HtpG Molecular chapero 98.8 2.9E-07 7.4E-12 71.9 13.1 268 20-323 25-350 (623)
25 PTZ00272 heat shock protein 83 98.7 3.6E-07 9.3E-12 71.1 11.6 137 24-177 27-197 (701)
26 cd00075 HATPase_c Histidine ki 98.7 3.5E-07 8.8E-12 71.3 10.8 84 23-112 1-93 (103)
27 TIGR01059 gyrB DNA gyrase, B s 98.7 8.4E-08 2.2E-12 75.7 7.2 269 23-327 32-376 (818)
28 pfam02518 HATPase_c Histidine 98.6 6E-07 1.5E-11 69.6 10.8 86 21-111 4-97 (111)
29 COG0187 GyrB Type IIA topoisom 98.6 7.3E-08 1.9E-12 76.2 5.7 258 18-293 32-331 (635)
30 PTZ00130 heat shock protein 90 98.6 1.9E-06 4.9E-11 66.0 11.8 142 19-177 89-270 (824)
31 COG3290 CitA Signal transducti 98.6 4.6E-07 1.2E-11 70.4 8.3 15 49-64 86-100 (537)
32 smart00387 HATPase_c Histidine 98.5 1.7E-06 4.3E-11 66.3 10.5 58 22-79 5-65 (111)
33 PRK11086 sensory histidine kin 98.5 2E-06 5.1E-11 65.8 10.3 21 548-568 496-516 (541)
34 TIGR02916 PEP_his_kin putative 98.4 8.2E-07 2.1E-11 68.6 6.5 59 21-79 593-656 (696)
35 TIGR01055 parE_Gneg DNA topois 98.3 5.3E-06 1.4E-10 62.8 8.1 160 20-191 31-211 (647)
36 PTZ00109 DNA gyrase subunit b; 98.2 3.2E-06 8.1E-11 64.4 6.4 159 20-191 83-333 (941)
37 COG4191 Signal transduction hi 98.2 4.4E-06 1.1E-10 63.3 6.9 18 138-155 149-166 (603)
38 PRK10364 sensor protein ZraS; 98.2 6.2E-06 1.6E-10 62.3 6.5 30 168-198 77-106 (455)
39 PRK11360 sensory histidine kin 98.1 1.1E-05 2.8E-10 60.5 6.9 19 548-566 561-579 (607)
40 TIGR01058 parE_Gpos DNA topois 98.1 8.5E-05 2.2E-09 54.1 11.3 284 22-332 40-375 (655)
41 PRK11073 glnL nitrogen regulat 97.9 4.4E-05 1.1E-09 56.2 7.2 33 285-323 219-251 (348)
42 PRK09470 cpxA two-component se 97.9 5.8E-05 1.5E-09 55.3 7.8 58 461-523 310-368 (461)
43 PRK10755 sensor protein BasS/P 97.9 0.00034 8.6E-09 49.8 11.6 14 549-562 317-330 (355)
44 PRK10549 signal transduction h 97.9 5.7E-05 1.5E-09 55.3 7.1 119 461-584 311-458 (467)
45 PRK10604 sensor protein RstB; 97.8 8.3E-05 2.1E-09 54.2 7.4 18 549-566 386-403 (433)
46 PRK09467 envZ osmolarity senso 97.8 8.8E-05 2.2E-09 54.0 7.5 16 549-564 398-413 (437)
47 COG0642 BaeS Signal transducti 97.8 9.9E-05 2.5E-09 53.7 7.5 60 21-80 227-288 (336)
48 PRK11100 sensory histidine kin 97.8 0.00012 3.1E-09 53.0 7.2 61 457-523 323-383 (475)
49 PRK13837 two-component VirA-li 97.8 0.00017 4.3E-09 51.9 7.8 106 462-572 701-822 (831)
50 PRK10815 sensor protein PhoQ; 97.7 0.00017 4.2E-09 52.0 7.5 17 548-564 439-455 (484)
51 PRK10337 sensor protein QseC; 97.7 0.00018 4.6E-09 51.8 7.2 61 459-524 304-365 (446)
52 KOG0019 consensus 97.7 0.00049 1.3E-08 48.6 9.0 160 3-181 43-232 (656)
53 PRK09835 sensor kinase CusS; P 97.6 0.00032 8.2E-09 50.0 7.8 60 459-524 332-391 (482)
54 PRK03660 anti-sigma F factor; 97.5 0.00083 2.1E-08 47.0 8.6 85 18-112 35-126 (146)
55 PRK11006 phoR phosphate regulo 97.5 0.00043 1.1E-08 49.0 6.8 49 144-194 72-120 (431)
56 PRK13557 histidine kinase; Pro 97.5 0.00034 8.7E-09 49.8 6.1 120 15-156 18-147 (538)
57 PRK09303 adaptive-response sen 97.4 0.0006 1.5E-08 48.0 6.8 62 458-524 224-286 (378)
58 PRK11644 sensory histidine kin 97.1 0.011 2.7E-07 39.0 10.5 11 574-584 485-495 (497)
59 KOG0020 consensus 97.1 0.022 5.6E-07 36.8 11.7 146 25-183 98-279 (785)
60 TIGR02966 phoR_proteo phosphat 97.0 0.0013 3.4E-08 45.5 5.3 53 22-76 235-292 (339)
61 TIGR02938 nifL_nitrog nitrogen 97.0 0.00037 9.5E-09 49.5 2.2 87 431-527 320-407 (496)
62 PRK10490 sensor protein KdpD; 96.8 0.0083 2.1E-07 39.8 7.6 21 547-567 843-863 (895)
63 PRK11091 aerobic respiration c 96.7 0.0091 2.3E-07 39.5 7.1 25 133-157 248-272 (779)
64 COG5000 NtrY Signal transducti 96.6 0.0077 2E-07 40.0 6.2 36 548-585 669-708 (712)
65 PTZ00108 DNA topoisomerase II; 96.5 0.051 1.3E-06 34.2 10.2 160 19-186 55-239 (1506)
66 PRK11466 hybrid sensory histid 96.5 0.0098 2.5E-07 39.3 6.6 22 54-75 595-616 (912)
67 COG3851 UhpB Signal transducti 96.5 0.031 8E-07 35.7 9.1 35 547-584 459-493 (497)
68 PRK10841 hybrid sensory kinase 96.4 0.078 2E-06 32.8 10.4 22 54-75 619-640 (947)
69 COG4192 Signal transduction hi 96.3 0.013 3.2E-07 38.5 5.8 55 531-587 613-668 (673)
70 PRK11107 hybrid sensory histid 96.2 0.022 5.6E-07 36.8 6.9 73 22-98 408-487 (920)
71 PRK09959 hybrid sensory histid 96.1 0.092 2.3E-06 32.3 9.7 10 62-71 81-90 (1197)
72 COG4585 Signal transduction hi 95.9 0.026 6.7E-07 36.2 6.1 13 472-484 332-344 (365)
73 PRK10547 chemotaxis protein Ch 95.9 0.034 8.6E-07 35.4 6.5 26 481-506 598-624 (662)
74 TIGR02956 TMAO_torS TMAO reduc 95.7 0.027 6.8E-07 36.1 5.3 102 21-128 621-740 (1052)
75 COG3275 LytS Putative regulato 95.6 0.02 5.1E-07 37.1 4.5 21 490-510 437-457 (557)
76 COG2205 KdpD Osmosensitive K+ 95.6 0.047 1.2E-06 34.4 6.2 95 490-586 753-880 (890)
77 PRK13560 hypothetical protein; 95.5 0.031 7.8E-07 35.7 5.1 19 466-484 526-544 (807)
78 TIGR01925 spIIAB anti-sigma F 95.5 0.022 5.6E-07 36.8 4.2 67 20-92 37-110 (137)
79 COG2972 Predicted signal trans 95.3 0.057 1.4E-06 33.8 5.9 26 558-583 419-448 (456)
80 COG5002 VicK Signal transducti 95.1 0.073 1.8E-06 33.0 5.9 23 543-565 405-427 (459)
81 COG3852 NtrB Signal transducti 94.2 0.12 3E-06 31.6 5.2 19 309-327 237-255 (363)
82 COG0643 CheA Chemotaxis protei 94.0 0.14 3.6E-06 31.0 5.4 25 482-506 656-681 (716)
83 PRK04069 serine-protein kinase 94.0 0.55 1.4E-05 26.7 8.3 86 18-110 38-131 (158)
84 COG3920 Signal transduction hi 94.0 0.16 4.1E-06 30.5 5.5 44 22-65 122-173 (221)
85 pfam02742 Fe_dep_repr_C Iron d 93.4 0.1 2.6E-06 32.0 3.7 38 540-580 32-69 (71)
86 TIGR01386 cztS_silS_copS heavy 93.1 0.18 4.5E-06 30.3 4.6 20 169-188 70-89 (483)
87 COG4564 Signal transduction hi 90.4 0.58 1.5E-05 26.5 4.7 20 571-590 433-452 (459)
88 KOG0355 consensus 87.9 1.1 2.9E-05 24.5 4.7 164 18-193 49-234 (842)
89 COG2172 RsbW Anti-sigma regula 87.8 2.2 5.6E-05 22.4 8.7 94 18-122 36-138 (146)
90 COG1321 TroR Mn-dependent tran 85.9 0.83 2.1E-05 25.4 3.2 97 462-579 33-132 (154)
91 COG1929 Glycerate kinase [Carb 84.8 0.97 2.5E-05 25.0 3.1 68 27-110 114-181 (378)
92 COG4251 Bacteriophytochrome (l 79.8 4.7 0.00012 20.1 5.7 151 44-215 33-200 (750)
93 KOG0787 consensus 76.2 5.8 0.00015 19.3 6.2 17 410-426 296-312 (414)
94 TIGR00973 leuA_bact 2-isopropy 74.9 1.9 4.8E-05 22.9 1.9 15 29-43 155-169 (514)
95 TIGR00080 pimt protein-L-isoas 74.8 2.1 5.3E-05 22.6 2.1 35 9-43 52-88 (228)
96 TIGR01211 ELP3 histone acetylt 73.0 1.3 3.4E-05 24.0 0.7 66 64-129 13-98 (573)
97 PRK10342 glycerate kinase I; P 66.9 4.5 0.00011 20.2 2.3 32 27-63 114-145 (381)
98 TIGR02082 metH methionine synt 66.5 2 5.1E-05 22.7 0.5 56 213-273 535-590 (1265)
99 COG1654 BirA Biotin operon rep 66.5 6.5 0.00017 19.0 3.1 39 472-510 35-73 (79)
100 cd01213 tensin Tensin Phosphot 64.4 8.4 0.00021 18.2 3.4 44 26-79 30-73 (138)
101 pfam02595 Gly_kinase Glycerate 60.1 5.3 0.00013 19.7 1.7 32 27-63 114-145 (378)
102 TIGR02728 spore_gerQ spore coa 59.5 5.8 0.00015 19.4 1.8 33 32-64 27-59 (82)
103 TIGR01009 rpsC_bact ribosomal 58.8 9.2 0.00023 17.9 2.7 22 231-257 157-178 (217)
104 COG3938 Proline racemase [Amin 56.4 14 0.00036 16.6 3.6 19 106-125 7-25 (341)
105 cd00137 PLCc Phospholipase C, 56.2 14 0.00036 16.6 3.7 30 20-51 28-57 (250)
106 KOG1845 consensus 55.3 14 0.00037 16.5 3.6 17 57-73 5-21 (775)
107 KOG3432 consensus 53.5 13 0.00033 16.8 2.8 15 426-441 65-79 (121)
108 PRK09932 glycerate kinase II; 52.8 8.2 0.00021 18.3 1.7 14 29-42 116-129 (381)
109 KOG2423 consensus 50.9 17 0.00043 16.0 4.0 107 172-298 266-394 (572)
110 TIGR01499 folC FolC bifunction 50.8 17 0.00043 16.0 3.2 76 175-273 9-87 (460)
111 TIGR00577 fpg formamidopyrimid 47.1 12 0.0003 17.2 1.7 61 275-335 173-235 (292)
112 COG2865 Predicted transcriptio 46.5 20 0.0005 15.6 5.5 14 47-60 40-53 (467)
113 pfam03667 consensus 43.5 22 0.00055 15.3 2.7 12 553-564 89-100 (206)
114 TIGR02686 relax_trwC conjugati 42.5 16 0.0004 16.3 1.8 83 476-566 220-305 (314)
115 TIGR01012 Sa_S2_E_A ribosomal 42.5 19 0.00048 15.7 2.2 35 415-449 26-61 (197)
116 KOG1024 consensus 41.4 17 0.00042 16.1 1.8 25 551-575 501-525 (563)
117 PRK11040 peptidase PmbA; Provi 41.2 23 0.0006 15.0 3.6 44 10-59 3-49 (446)
118 TIGR00611 recf DNA replication 40.3 24 0.00061 14.9 3.4 55 176-239 31-91 (399)
119 TIGR00045 TIGR00045 glycerate 38.0 26 0.00066 14.7 2.8 73 27-115 114-189 (380)
120 COG2877 KdsA 3-deoxy-D-manno-o 34.4 30 0.00075 14.3 8.3 15 236-250 51-65 (279)
121 KOG2550 consensus 33.7 30 0.00077 14.2 3.2 16 230-252 151-166 (503)
122 COG1243 ELP3 Histone acetyltra 33.3 18 0.00046 15.8 0.9 54 70-126 24-88 (515)
123 pfam09899 DUF2126 Putative ami 33.3 31 0.00078 14.2 4.7 43 264-306 348-399 (817)
124 pfam03484 B5 tRNA synthetase B 33.2 31 0.00078 14.2 6.0 41 475-517 23-64 (69)
125 COG1171 IlvA Threonine dehydra 32.4 19 0.00049 15.6 0.9 23 82-105 47-69 (347)
126 PRK10618 phosphotransfer inter 32.3 32 0.00081 14.1 9.5 85 150-238 320-412 (881)
127 KOG3862 consensus 32.2 21 0.00053 15.4 1.1 10 252-261 19-28 (327)
128 TIGR02069 cyanophycinase cyano 32.2 18 0.00047 15.8 0.8 30 426-457 195-224 (297)
129 KOG4407 consensus 30.9 7.1 0.00018 18.7 -1.5 49 23-79 639-687 (1973)
130 pfam03997 VPS28 VPS28 protein. 30.7 34 0.00086 13.9 5.5 57 508-567 120-179 (187)
131 PRK10436 hypothetical protein; 30.7 34 0.00086 13.9 5.9 136 23-186 81-219 (461)
132 TIGR02371 ala_DH_arch alanine 29.5 35 0.0009 13.7 3.0 23 422-446 296-318 (327)
133 PRK10846 bifunctional folylpol 29.4 35 0.0009 13.7 4.4 84 162-271 29-112 (416)
134 TIGR01237 D1pyr5carbox2 delta- 29.2 36 0.00091 13.7 2.3 18 126-143 47-66 (518)
135 TIGR02253 CTE7 HAD superfamily 28.2 31 0.0008 14.1 1.4 71 478-555 123-199 (244)
136 KOG1283 consensus 27.9 37 0.00095 13.6 1.8 44 139-182 66-119 (414)
137 PRK07114 keto-hydroxyglutarate 26.2 40 0.001 13.3 2.1 27 136-162 74-100 (223)
138 pfam00292 PAX 'Paired box' dom 25.1 34 0.00086 13.9 1.1 22 251-272 10-31 (125)
139 smart00148 PLCXc Phospholipase 25.0 42 0.0011 13.2 4.3 18 31-48 34-51 (135)
140 TIGR01246 dapE_proteo succinyl 24.9 42 0.0011 13.2 3.1 32 297-329 247-282 (383)
141 TIGR00170 leuC 3-isopropylmala 24.8 42 0.0011 13.2 2.9 83 412-507 344-428 (472)
142 TIGR03377 glycerol3P_GlpA glyc 24.4 43 0.0011 13.1 4.8 19 544-562 486-504 (516)
143 cd00131 PAX Paired Box domain 24.3 36 0.00091 13.7 1.1 21 251-271 10-30 (128)
144 pfam08861 DUF1828 Domain of un 24.0 44 0.0011 13.1 3.3 59 35-108 4-62 (90)
145 COG5220 TFB3 Cdk activating ki 23.3 45 0.0011 13.0 1.6 16 430-445 290-305 (314)
146 TIGR00390 hslU heat shock prot 23.3 45 0.0011 13.0 2.1 116 174-296 25-159 (463)
147 smart00874 B5 tRNA synthetase 23.2 45 0.0012 13.0 5.9 44 474-517 22-66 (71)
148 PRK09825 idnK D-gluconate kina 22.8 46 0.0012 12.9 3.0 31 265-295 82-112 (176)
149 PRK13186 lpxC UDP-3-O-[3-hydro 22.7 46 0.0012 12.9 3.3 16 545-560 257-272 (299)
150 pfam03145 Sina Seven in absent 22.5 46 0.0012 12.9 1.6 23 482-504 140-163 (198)
151 PRK07455 keto-hydroxyglutarate 22.1 47 0.0012 12.8 1.9 28 136-163 67-94 (210)
152 TIGR00643 recG ATP-dependent D 22.1 24 0.00062 14.9 -0.1 115 425-568 431-561 (721)
153 TIGR01359 UMP_CMP_kin_fam UMP- 22.0 36 0.00093 13.6 0.8 25 270-294 95-122 (189)
154 PRK09140 2-dehydro-3-deoxy-6-p 21.8 48 0.0012 12.8 2.0 28 136-163 65-92 (206)
155 PRK07531 bifunctional 3-hydrox 21.7 48 0.0012 12.8 2.8 21 138-158 77-97 (489)
156 pfam07223 DUF1421 Protein of u 21.7 34 0.00086 13.9 0.6 18 162-179 14-31 (359)
157 COG2321 Predicted metalloprote 21.5 49 0.0012 12.7 2.2 11 503-513 228-238 (295)
158 COG5165 POB3 Nucleosome-bindin 21.3 49 0.0013 12.7 3.8 49 279-328 279-334 (508)
159 PRK09454 ugpQ cytoplasmic glyc 21.1 49 0.0013 12.7 1.4 45 11-59 12-56 (249)
160 pfam00388 PI-PLC-X Phosphatidy 21.1 50 0.0013 12.7 4.7 18 31-48 32-49 (144)
161 COG3893 Inactivated superfamil 21.0 50 0.0013 12.7 5.2 46 542-587 529-576 (697)
162 KOG1133 consensus 21.0 50 0.0013 12.7 1.5 79 422-503 628-721 (821)
163 TIGR01194 cyc_pep_trnsptr cycl 20.8 50 0.0013 12.6 2.0 69 409-486 364-455 (555)
164 PRK06552 keto-hydroxyglutarate 20.8 50 0.0013 12.6 1.9 26 137-162 71-96 (209)
165 TIGR00653 GlnA glutamine synth 20.8 35 0.00088 13.8 0.5 47 279-326 211-258 (486)
166 PRK01641 leuD isopropylmalate 20.1 52 0.0013 12.5 1.7 14 282-295 137-150 (201)
No 1
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=100.00 E-value=0 Score=1329.92 Aligned_cols=589 Identities=42% Similarity=0.739 Sum_probs=510.7
Q ss_pred CCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCC
Q ss_conf 96745888999985268722697899999998777269967999998098439999988899889899987502466563
Q gi|254780399|r 1 MKIRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKI 80 (594)
Q Consensus 1 m~I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi 80 (594)
|+|++||++|+|||||||||+|||||||||||||||||||+|+|.|++||+++|+|+||||||+++|+++|++|||||||
T Consensus 1 m~I~~L~~~~~~~IaAGEVverpasvVKELvENsiDAgAt~I~V~i~~~G~~~I~V~DnG~Gi~~~d~~l~~~rhaTSKi 80 (612)
T PRK00095 1 MPIQLLPPQLANQIAAGEVVERPASVVKELVENALDAGATRIDIEIEEGGLKLIRVRDNGCGIPKEDLPLALSRHATSKI 80 (612)
T ss_pred CCCEECCHHHHHHHCCCCEECCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCC
T ss_conf 98648978999883896842588999999984133179987999997498317999979999898999999757277678
Q ss_pred H--HHHHHCCCCCCCHHHHHHHHHHEEEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHHCC
Q ss_conf 1--24411214884048999876202489998048986301551101000002110125675788521012112543103
Q gi|254780399|r 81 S--DDFSNIHTFGFRGEALPSIGAVSHLTLMSRPPQNNTGAQIAISGEKISSVRPVAMNPGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 81 ~--~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~~~~~~~~~~~~~~g~~~~~~~~~~~~GT~V~V~~LF~N~PvRrkfl 158 (594)
. +||++|.|||||||||+|||+||+|+|+||+++++.||++.++||++...+|++++.||+|+|+|||||+|||||||
T Consensus 81 ~~~~DL~~i~T~GFRGEAL~SIa~vs~~~i~s~~~~~~~g~~i~~~~g~~~~~~~~~~~~GT~V~V~~LF~N~PaRrKfL 160 (612)
T PRK00095 81 ASLDDLEAIRTLGFRGEALPSIASVSRLTLTSRTADAAEGWQIVVEGGEIVEVKPAAHPVGTTIEVRDLFFNTPARRKFL 160 (612)
T ss_pred CCHHHHHHCCCCCCCHHHHHHHHHHEEEEEEECCCCCCCEEEEEEECCEECCEEECCCCCCCEEEECHHHCCCHHHHHHH
T ss_conf 98456611767876188899877326789996789976728999949967532333689984999604525576889875
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEC
Q ss_conf 45368999999999998731899749999879830799717881048999997321666543100224420365666621
Q gi|254780399|r 159 KSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTG 238 (594)
Q Consensus 159 ks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is 238 (594)
|++++|+++|.++|+++||+||+|+|+|.++++. +..+++.+++.+||..|||.++++++++|+.+.++++|+||||
T Consensus 161 Ks~~~E~~~I~~~v~~~AL~~P~I~f~l~~~~k~---~~~~~~~~~l~~ri~~i~G~~~~~~li~v~~~~~~~~i~G~is 237 (612)
T PRK00095 161 KSEKTELGHIDDVVRRLALAHPDVAFTLTHNGKL---VLQTRANGDLLQRLAAILGRDFAENALPIDAEHGDLRLSGYVG 237 (612)
T ss_pred CCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCEE---EECCCCCCCHHHHHHHHHCHHHHHHCEEEEEECCCEEEEEEEE
T ss_conf 7981799999999999975179758999989999---7235888789999999849898962779860169769999995
Q ss_pred CCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHH
Q ss_conf 61103323206677515210007588899998755442799980799999960657124757111125535979999999
Q gi|254780399|r 239 IPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFI 318 (594)
Q Consensus 239 ~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i 318 (594)
.|+++|+++++||+|||||||+++.|.+||++||++++|.|+||+|||||++||+.|||||||+|+||||+|++.|+.+|
T Consensus 238 ~P~~~r~~r~~q~~FVNgR~V~~~~l~~aI~~aY~~~l~~~r~P~~vL~i~i~p~~VDVNVHP~K~EVrF~de~~i~~~i 317 (612)
T PRK00095 238 LPTLSRANRDYQYLFVNGRYVRDKLLNHAIRQAYHDVLPRGRYPAFVLFLELDPEQVDVNVHPAKHEVRFRDERLVHDLI 317 (612)
T ss_pred CCHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEEECHHHCCCCCCCCCEEEEECCHHHHHHHH
T ss_conf 83120367762799987840478999999999998755489853799999974545255558872069843767999999
Q ss_pred HHHHHHHHHHCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCC------CCC----CCCCCCCCCCCCCCCC-----
Q ss_conf 9978988753178876101121001124333554557744566554------310----0012322235200000-----
Q gi|254780399|r 319 IQSIQKAINKKGISTSSVLSKKMISSFHQDNAPKTHLPKYATSLTN------TQE----KLFLQENRLSTNDLLP----- 383 (594)
Q Consensus 319 ~~~i~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~----~~~~~~~~~~~~~~~~----- 383 (594)
.++|+++|+..+..+............................... ... ................
T Consensus 318 ~~ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (612)
T PRK00095 318 VQAIQEALAQSGLIPDALEAGAKLAALRPEEPEQAQSPLEPAEPSSPSPPSKASSPPASSASRSAASPPSAAPLPQKEAQ 397 (612)
T ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 99999998404778766544333344566655555445555554444454444454544444555554444444332320
Q ss_pred -----CCCCCCCCCCCCCCCHHHHHHCCCCEEEEECCCCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf -----122210000012341011110057211310455100002586354005899899999998522103884211112
Q gi|254780399|r 384 -----SDDPTYSEDNDPVEESEATHYQLGIACAQIHQNYIISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQTLL 458 (594)
Q Consensus 384 -----~~~~~~~~~~~~~~~~~~~~~~~~~~igQ~~~~yIl~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll 458 (594)
...+.................+.+++|||++++|||++.++||+|||||||||||+||+|++++. ..+.+|+||
T Consensus 398 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~vigQ~~~~yIl~e~~~gL~iIDQHAAhERI~yE~l~~~~~-~~~~sQ~LL 476 (612)
T PRK00095 398 AAYRELLQTPASASASPAPEPSEEASPLGKALGQLHGTYILAENEDGLVLVDQHAAHERLLYEQLKDKLA-GGVASQPLL 476 (612)
T ss_pred HHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCEEEEEECCCCEEEEEHHHHHHHHHHHHHHHHHH-CCCCCCCCC
T ss_conf 1232014786655556554333335766337889818899998599569988899999999999998761-577552257
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 22234678347777999899998669599960798799995261115567899999999999857886646899999999
Q gi|254780399|r 459 TPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDSSTTYTLQDRIENILA 538 (594)
Q Consensus 459 ~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~~~~~~~~~~~~~l~ 538 (594)
+|+.++|++.|.++++++++.|++|||+++.||++++.|+++|.+++..+.++++.|+|+++.+.+..... +..+++++
T Consensus 477 ~P~~ieLs~~e~~~l~~~~~~l~~lGf~ie~fg~~si~v~~vP~~l~~~~~~~~i~~ll~~l~~~~~~~~~-~~~~~~la 555 (612)
T PRK00095 477 IPLVLELSEDEADRLEEHKELLARLGLELEPFGPNSFAVREVPALLGKEDLEELIRELLDDLAELGESDIL-KLREELAA 555 (612)
T ss_pred CCEEECCCHHHHHHHHHHHHHHHHCCCEEEECCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCH-HHHHHHHH
T ss_conf 88043169999999999999999679599945998899995383347768999999999999854887737-79999999
Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECHHHHHHHCCC
Q ss_conf 76348666458888989999999999818888788788727998388899764187
Q gi|254780399|r 539 TMACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPTFIKLKLSDIEKLFGR 594 (594)
Q Consensus 539 s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt~~~l~~~el~k~F~R 594 (594)
++|||+|||+||+|+.+||+.||++|+.|++||+||||||||++|+++||+|+|+|
T Consensus 556 s~ACrsAIk~G~~Ls~~Em~~Ll~~L~~~~~P~~CPHGRPt~i~ls~~el~k~F~R 611 (612)
T PRK00095 556 TMACHGAIRAGRRLTLEEMNALLRQLEATENPGTCPHGRPTYIELSLSDLEKLFKR 611 (612)
T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHCC
T ss_conf 98789871088989999999999999728996959899928899379999974089
No 2
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=1204.15 Aligned_cols=592 Identities=39% Similarity=0.710 Sum_probs=515.2
Q ss_pred CC-CCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCC
Q ss_conf 96-74588899998526872269789999999877726996799999809843999998889988989998750246656
Q gi|254780399|r 1 MK-IRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSK 79 (594)
Q Consensus 1 m~-I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSK 79 (594)
|+ ||+||++++|||||||||+||+||||||||||||||||+|+|.+++||+.+|+|.||||||+++||++++.||||||
T Consensus 1 M~~Ir~L~~~l~nqIAAGEVIerPaSVVKELVENSlDAGAt~I~I~ve~gG~~~I~V~DNG~Gi~~~Dl~la~~rHaTSK 80 (638)
T COG0323 1 MPKIRQLPPDLVNQIAAGEVIERPASVVKELVENSLDAGATRIDIEVEGGGLKLIRVRDNGSGIDKEDLPLALLRHATSK 80 (638)
T ss_pred CCCCEECCHHHHHHHCCCCEEECHHHHHHHHHHCCCCCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHCCCCCC
T ss_conf 99666699899977336664405889999998610304998899999359801899988999999899999986514645
Q ss_pred CH--HHHHHCCCCCCCHHHHHHHHHHEEEEEEEECCCCCCCEEEEECCCCCC-CCCCCCCCCCCEEEEEHHHHHHHHHHH
Q ss_conf 31--244112148840489998762024899980489863015511010000-021101256757885210121125431
Q gi|254780399|r 80 IS--DDFSNIHTFGFRGEALPSIGAVSHLTLMSRPPQNNTGAQIAISGEKIS-SVRPVAMNPGTIVEVRDLFFTIPARLN 156 (594)
Q Consensus 80 i~--~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~~~~~~~~~~~~~~g~~~-~~~~~~~~~GT~V~V~~LF~N~PvRrk 156 (594)
|+ +||++|.|||||||||+|||+||+|+|+||+.++..||+++++||.+. .++|++++.||||+|+|||||+|||||
T Consensus 81 I~~~~DL~~I~TlGFRGEAL~SIasVsrlti~Srt~~~~~~~~~~~~g~~~~~~~~p~a~~~GTtVeV~dLF~NtPaRrK 160 (638)
T COG0323 81 IASLEDLFRIRTLGFRGEALASIASVSRLTITSRTAEASEGTQIYAEGGGMEVTVKPAAHPVGTTVEVRDLFYNTPARRK 160 (638)
T ss_pred CCCHHHHHHHHCCCCCHHHHHHHHHHHEEEEEECCCCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEHHHHCCCHHHHH
T ss_conf 78655687743567338779998875444899416776763899962884112334777999989984571255847665
Q ss_pred CCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEE
Q ss_conf 03453689999999999987318997499998798307997178810489999973216665431002244203656666
Q gi|254780399|r 157 FLKSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGY 236 (594)
Q Consensus 157 flks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~ 236 (594)
|||+.++|+.+|.++|++|||+||+|+|+|+++++....+...++.++..+|++.|||..+.+++++++....++++.||
T Consensus 161 flks~~~E~~~i~~vv~r~ALahp~I~F~l~~~gk~~~~~~~~~~~~~~~~ri~~i~G~~~~~~~l~i~~~~~~~~l~G~ 240 (638)
T COG0323 161 FLKSEKTEFGHITELINRYALAHPDISFSLSHNGKLRIELLKLPGTGDLEERIAAVYGTEFLKNALPIENEHEDLRLSGY 240 (638)
T ss_pred HHCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCEEEEEEEECCCCCCHHHHHHHHHCHHHHHHHCCCCCCCCCEEEEEE
T ss_conf 41453899999999999987307972799998890414788657787578999998686988752034567786699999
Q ss_pred ECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHH
Q ss_conf 21611033232066775152100075888999987554427999807999999606571247571111255359799999
Q gi|254780399|r 237 TGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRN 316 (594)
Q Consensus 237 is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~ 316 (594)
+|.|.++|+++++||+|||||+|+++.|.+||+++|++++|.|+||+|||||+|||..|||||||+|+||||+|++.|++
T Consensus 241 v~~P~~~r~~~~~q~~fVNgR~V~~~~l~~Ai~~aY~~~L~~~r~P~~vL~l~l~p~~vDVNVHP~K~EVrf~~~~~i~~ 320 (638)
T COG0323 241 VSLPEFTRASRDYQYLFVNGRPVRDKLLNHALREAYADYLPRGRYPVFVLFLELDPELVDVNVHPAKKEVRFSDERLVHD 320 (638)
T ss_pred EECCEECCCCCCCEEEEECCCEECCHHHHHHHHHHHHHCCCCCCCCEEEEEEEECHHHEECCCCCCCCEEEECCHHHHHH
T ss_conf 82560135787744999889881158999999999861066888767999998771230005589855588159899999
Q ss_pred HHHHHHHHHHHHCCCCCCCHH-----HHHHCCCCCCC-----CC-----CCCCCCCCCCCCCCCCCCCCCCC--------
Q ss_conf 999978988753178876101-----12100112433-----35-----54557744566554310001232--------
Q gi|254780399|r 317 FIIQSIQKAINKKGISTSSVL-----SKKMISSFHQD-----NA-----PKTHLPKYATSLTNTQEKLFLQE-------- 373 (594)
Q Consensus 317 ~i~~~i~~~L~~~~~~~~~~~-----~~~~~~~~~~~-----~~-----~~~~~~~~~~~~~~~~~~~~~~~-------- 373 (594)
+|.++|+++|...+....... .......+... +. +....+.................
T Consensus 321 ~I~~~I~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 400 (638)
T COG0323 321 LIYEAIKEALAQQGLIPPASVEAPKSASQPLPAFQEPSPLPESRIQKSKVAKSGSSKSDAPSIAEPASGASPSPASPSIR 400 (638)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 99999999997445667420014645433320003676542223333553345677654433356565667665666655
Q ss_pred ------CCCCC-----------CCCCCCCCCCCC-CCCCCCCCHHHHHHCCCCEEEEECCCCCEEECCCCEEECCHHHHH
Q ss_conf ------22352-----------000001222100-000123410111100572113104551000025863540058998
Q gi|254780399|r 374 ------NRLST-----------NDLLPSDDPTYS-EDNDPVEESEATHYQLGIACAQIHQNYIISQTTDGLVIVDQHAAH 435 (594)
Q Consensus 374 ------~~~~~-----------~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~igQ~~~~yIl~~~~~gL~iIDQHAAh 435 (594)
..... .+......++.. .............++.++++||++++|||+|+++|||+|||||||
T Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~i~q~~~~yil~e~~~~L~lvDqhaa~ 480 (638)
T COG0323 401 PLSKNILPESSPGSLKNEDRSYDDLLEEPAESEDKQEEAEQKAISEDVFPLGEAIGQVHGTYILAEHEDGLVLVDQHAAH 480 (638)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCEEEEEECCEEEEEEECCCEEEEEHHHHH
T ss_conf 44322355545442110012333223345012012234310024323453626999953739999858988998768756
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHHHHHHH
Q ss_conf 99999998522103884211112222346783477779998999986695999607987999952611155678999999
Q gi|254780399|r 436 ERLIFEKMRQDFNSTKITSQTLLTPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIPQLLRD 515 (594)
Q Consensus 436 ERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~~~l~d 515 (594)
||++||+|+.++.... .+|.|++|+.++|++.|...++++.+.|.+|||+++.||++++.|+++|.++++.+...++++
T Consensus 481 Eri~ye~l~~~~~~~~-~~Q~LliP~~~~l~~~e~~~~~~~~~~l~~~G~~i~~~g~~~~~v~~vP~~l~~~~~~~~i~~ 559 (638)
T COG0323 481 ERILYEKLKNELGNVG-ELQPLLIPIRLELSPEEADVLEEHKEELEKLGFEIESFGENSVAVRSVPAMLGKAEVQELIRE 559 (638)
T ss_pred HHHHHHHHHHHHCCCC-CCCCCCCCEEEECCHHHHHHHHHHHHHHHHCCEEEEECCCCEEEEEECCHHHCCCHHHHHHHH
T ss_conf 8999999998752445-452344482541498999999998999986788999738946999816824354216889999
Q ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECHHHHHHHCCC
Q ss_conf 9999985788664689999999976348666458888989999999999818888788788727998388899764187
Q gi|254780399|r 516 IIDEIIDSSTTYTLQDRIENILATMACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPTFIKLKLSDIEKLFGR 594 (594)
Q Consensus 516 ll~~l~~~~~~~~~~~~~~~~l~s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt~~~l~~~el~k~F~R 594 (594)
+++.+.+ ++........++++++||||+|||+|+.|+.++|..|+++|..|++||+|||||||++.++..+|+|+|+|
T Consensus 560 l~~~~~~-~~~~~~~~~~~~~~a~~aC~~sik~~~~l~~~~m~~Ll~~~~~~~~~~~cpHGRp~~~~~~~~~l~~~F~r 637 (638)
T COG0323 560 LLDDLLE-GKLKDLKELLEELAATMACRSAVKAGRELSAEEMNALLRDLEACPNPWTCPHGRPTYIVLSLAELERLFKR 637 (638)
T ss_pred HHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEEECHHHHHHHHCC
T ss_conf 9997640-45410567999999999987766057626899999999999868886679999983576048889986378
No 3
>KOG1978 consensus
Probab=100.00 E-value=0 Score=775.69 Aligned_cols=563 Identities=23% Similarity=0.347 Sum_probs=456.8
Q ss_pred CCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCH-
Q ss_conf 7458889999852687226978999999987772699679999980984399999888998898999875024665631-
Q gi|254780399|r 3 IRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKIS- 81 (594)
Q Consensus 3 I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~- 81 (594)
|++++++++++|+||+||.++++|||||||||||||||.|+|.+++.|.++|+|+||||||++.|++-.+..|+||||.
T Consensus 1 Ik~i~~~tvhrI~S~qvI~sl~sAVKELvENSiDAGAT~I~I~~kdyG~d~IEV~DNG~GI~~~n~~~l~lkh~TSKi~~ 80 (672)
T KOG1978 1 IKQIPKDTVHRICSSQVITSLVSAVKELVENSIDAGATAIDIKVKDYGSDSIEVSDNGSGISATDFEGLALKHTTSKIVS 80 (672)
T ss_pred CCCCCHHHHHCCCCCCEECCHHHHHHHHHHCCCCCCCCEEEEECCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf 98888666540146875215899999998637034775255753787743289804888877331034443454413301
Q ss_pred -HHHHHCCCCCCCHHHHHHHHHHEEEEEEEECCCCCCCEEEEECC-CCCCCCCCCCCCCCCEEEEEHHHHHHHHHHH-CC
Q ss_conf -24411214884048999876202489998048986301551101-0000021101256757885210121125431-03
Q gi|254780399|r 82 -DDFSNIHTFGFRGEALPSIGAVSHLTLMSRPPQNNTGAQIAISG-EKISSVRPVAMNPGTIVEVRDLFFTIPARLN-FL 158 (594)
Q Consensus 82 -~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~~~~~~~~~~~~~~-g~~~~~~~~~~~~GT~V~V~~LF~N~PvRrk-fl 158 (594)
.||..+.|||||||||+|+|++++++|.||+++++.|.++.+++ |++....|+++++||||.|++||.|+||||| |-
T Consensus 81 f~Dl~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~~vgt~l~~Dh~G~I~~k~~~ar~~GTTV~v~~LF~tLPVR~kef~ 160 (672)
T KOG1978 81 FADLAVLFTLGFRGEALSSLCALGDVMISTRSHSAKVGTRLVYDHDGHIIQKKPVARGRGTTVMVRQLFSTLPVRRKEFQ 160 (672)
T ss_pred HHHHHHHHCHHHHHHHHHHHHHCCCEEEEEEECCCCCCEEEEECCCCCEEEEECCCCCCCCEEEHHHHCCCCCCCHHHHC
T ss_conf 23244442312467777636641652799862267542268871578634430125778877878653146998668750
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEEEC--CCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEE
Q ss_conf 4536899999999999873189974999987--98307997178810489999973216665431002244203656666
Q gi|254780399|r 159 KSEQVETNLITDVIRRMAIAYPKVSFTFSTI--KSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGY 236 (594)
Q Consensus 159 ks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~--~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~ 236 (594)
|+.+.|+.++..+++.||+++++|.|.+... .+++..+..+.+.+++++.+..+||...+..+.++..
T Consensus 161 r~~Kref~k~i~li~~y~li~~~ir~~~~n~t~~~~k~iil~t~~~~~~k~~i~svfg~~~~~~l~p~~~---------- 230 (672)
T KOG1978 161 RNIKRKFVKLISLIQAYALISTAIKFLVSNSTLAGKKNIILKTGGYGSDKINISSNFGSVEEENLEPLIF---------- 230 (672)
T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEECCCCCHHHHHHHHHCCHHHHHCCCCCCC----------
T ss_conf 1145556666666777876312110134401345774057733886217788875110354431466555----------
Q ss_pred ECCC--CCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHH
Q ss_conf 2161--10332320667751521000758889999875544279998079999996065712475711112553597999
Q gi|254780399|r 237 TGIP--TFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTII 314 (594)
Q Consensus 237 is~P--~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i 314 (594)
++.+ ...|.+.+.||+|||+|||..+.+.+.|++.|+.+... +| |||.+|+..+||||.|+|+.|.|.+|..+
T Consensus 231 is~~~~g~~r~s~drqf~fIn~Rpv~~~~i~~~inevy~~~~~~-q~----l~i~V~~~~iDvNvtPDK~~vll~~e~~v 305 (672)
T KOG1978 231 ISSCHHGCGRSSEDRQFIFINRRPVFPSDICRVINEVYKLYNER-QY----LFLDVPEGCIDVNVTPDKRQVLLSNERSV 305 (672)
T ss_pred CCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCC-CE----EEEECCCCCCCEECCCCCEEEEECCHHHH
T ss_conf 23112246556765214664376588799999999987520212-30----35643643312001788304540224889
Q ss_pred HHHHHHHHHHHHHHCCCC---CCCHHHHHHCCCCCC------------------------CCCC------------CCCC
Q ss_conf 999999789887531788---761011210011243------------------------3355------------4557
Q gi|254780399|r 315 RNFIIQSIQKAINKKGIS---TSSVLSKKMISSFHQ------------------------DNAP------------KTHL 355 (594)
Q Consensus 315 ~~~i~~~i~~~L~~~~~~---~~~~~~~~~~~~~~~------------------------~~~~------------~~~~ 355 (594)
...|+..+..++...... ..+....+..+++.. ...| +...
T Consensus 306 l~~l~~~l~~~~~s~~~~~~~~~s~~p~k~~~s~~~~s~~~~~~~~~~~~~~~~~~~~i~~~~P~~~~~~~~~~~~~~~~ 385 (672)
T KOG1978 306 LFSLRNSLVDFYNSNCDLNFSDVSMLPVQNPSSLTERSDPIENKLVSRTDSMIGIKTNISEDHPNEESNFLTPEFLKITT 385 (672)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 99999999999763001245610126755777540003522210012540331354333446875322346764114567
Q ss_pred CCCCCCCC------CC--CCCCC----------CCCC--CCCCCCC--------CCCCCC--------------------
Q ss_conf 74456655------43--10001----------2322--2352000--------001222--------------------
Q gi|254780399|r 356 PKYATSLT------NT--QEKLF----------LQEN--RLSTNDL--------LPSDDP-------------------- 387 (594)
Q Consensus 356 ~~~~~~~~------~~--~~~~~----------~~~~--~~~~~~~--------~~~~~~-------------------- 387 (594)
|....... .. ..... ..++ ...+... ++...+
T Consensus 386 pd~~~~~~s~~d~~~~~~~~~~~~~~~~~~~~~~~ed~~~~~t~s~~~~se~~~~se~~~~~~~~~~~~~~~~~~~~~~~ 465 (672)
T KOG1978 386 PDKEKECSSKKDLTAIPLEKNPSLKKPDLEDTENLEDETNVETPSSSPLSEDKSLSEQEKLKIEVYSKIKFARKASETKI 465 (672)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCHHHHCCCCCHHHHCCCCHHHC
T ss_conf 76434455788866566445841125664665521465433688767301102443212000012340011013511103
Q ss_pred CCCCC----CCCCCCHHHHHHCCCCEEEEECCCCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 10000----01234101111005721131045510000258635400589989999999852210388421111222234
Q gi|254780399|r 388 TYSED----NDPVEESEATHYQLGIACAQIHQNYIISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQTLLTPEII 463 (594)
Q Consensus 388 ~~~~~----~~~~~~~~~~~~~~~~~igQ~~~~yIl~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i 463 (594)
....+ .....+....+|..+.+|||++..||++..+..|+|+||||+||..+||++++.. .+++|+|+.|..+
T Consensus 466 ~~~~N~~~e~~~s~~v~k~df~~meiigqfNlgFIi~~l~~dlfIvdqha~dEk~Nfe~l~~~~---~L~~Q~l~~P~~l 542 (672)
T KOG1978 466 NPGHNDSVELEESREVAKADFSRMEIIGQFNLGFIIVKLEKDLFIVDQHASDEKRNFERLQSTT---VLKAQPLICPQAL 542 (672)
T ss_pred CCCCCHHHHCHHHHCCCCCCHHHCCEEEECCCCCEEEECCCCEEEECCCHHHHHHHHHHHHHHC---CCCCCCCCCCCCC
T ss_conf 8552645543120101223411042221124564256604755886420245566099988750---2234643576335
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCEEEEECCC-----EEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 678347777999899998669599960798-----799995261115567899999999999857886646899999999
Q gi|254780399|r 464 DLLEGECALIMEHDEDLHRLGIKAERFGPN-----AIAIREIPAILSKKNIPQLLRDIIDEIIDSSTTYTLQDRIENILA 538 (594)
Q Consensus 464 ~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~-----~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~~~~~~~~~~~~~l~ 538 (594)
+|++.+...+.++.+.|.+.||.++. +++ .+.+.++|......-....+++++..+.+.+...-.+.+++.++|
T Consensus 543 ~ls~~nE~vl~d~l~~f~knGF~~~~-~~n~~~~~~~~l~~~p~skn~~fg~~dl~Eli~~l~~~~~~~~rp~~vr~m~a 621 (672)
T KOG1978 543 DLSAINEMVLLDNLPLFEKNGFKVKI-DENAPDGKRVRLLSVPVSKNQTFGVSDLKELISVLKNFPEETYRPSKVRSMIA 621 (672)
T ss_pred CCCCCCCEEEHHHHHHHHHCCCEEEE-CCCCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEHHHHHHHHH
T ss_conf 56764311000036799866956851-58886330012213444225214778899999998607884740289999998
Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEC
Q ss_conf 7634866645888898999999999981888878878872799838
Q gi|254780399|r 539 TMACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPTFIKLK 584 (594)
Q Consensus 539 s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt~~~l~ 584 (594)
++|||+|||.|++|+.+||+.+|..|...+.||+||||||||.+|-
T Consensus 622 s~AcR~Svmig~~L~~~dm~~iv~~L~~l~~pwnCpHGRPTmrhL~ 667 (672)
T KOG1978 622 SKACRSSVMIGDPLSKDDMTRIVRSLAELEHPWNCPHGRPTMRHLC 667 (672)
T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHH
T ss_conf 8776554330543488889999999997468877999960588986
No 4
>TIGR00585 mutl DNA mismatch repair protein MutL; InterPro: IPR014763 This entry represents DNA mismatch repair proteins, such as MutL. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex ..
Probab=100.00 E-value=0 Score=758.57 Aligned_cols=306 Identities=41% Similarity=0.709 Sum_probs=289.4
Q ss_pred CCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCC
Q ss_conf 96745888999985268722697899999998777269967999998098439999988899889899987502466563
Q gi|254780399|r 1 MKIRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKI 80 (594)
Q Consensus 1 m~I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi 80 (594)
|+||+||++++++|||||||+||++|||||||||||||||+|+|++++||+.+|+|.|||+||+++|++++++|||||||
T Consensus 1 ~~I~~L~~~~v~~IaaGEVI~~p~~vVKELvENSLDAGAt~I~v~~~~gG~~~I~V~DNG~Gi~~~d~~~~~~~haTSKI 80 (367)
T TIGR00585 1 STIKQLPPELVNKIAAGEVIERPASVVKELVENSLDAGATKIEVEIEEGGLKLIEVSDNGSGIDKEDLELACERHATSKI 80 (367)
T ss_pred CCCEECCHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCEEEEEEEECCCCCCHHHHHHHHCCCCCCCC
T ss_conf 95023898998777401144327999999887312148858999996265358999977856777779986123577632
Q ss_pred H--HHHHHCCCCCCCHHHHHHHHHHEEEEEEEEC----------CCCCCCEEEEECCCC--CCCCCCCCCCCCCEEEEEH
Q ss_conf 1--2441121488404899987620248999804----------898630155110100--0002110125675788521
Q gi|254780399|r 81 S--DDFSNIHTFGFRGEALPSIGAVSHLTLMSRP----------PQNNTGAQIAISGEK--ISSVRPVAMNPGTIVEVRD 146 (594)
Q Consensus 81 ~--~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~----------~~~~~~~~~~~~~g~--~~~~~~~~~~~GT~V~V~~ 146 (594)
+ +||.+|.|||||||||+|||+||+|+|+|++ +++..+|++.+.+|+ ....+|+++++||+|+|++
T Consensus 81 ~~~~DL~~i~TlGFRGEAL~Si~~vs~~~i~t~~~~~~~W~yQ~~~~~~~~~~~~~~G~~~~~~~~p~~~~~GT~V~V~~ 160 (367)
T TIGR00585 81 QSFEDLERIRTLGFRGEALASISSVSRLTITTKTSGPTAWFYQGAADGLALQVLYAEGKNIIEEIKPAPRPVGTTVEVRD 160 (367)
T ss_pred CCHHHHHHHHCCCCHHHHHHHHHHHHCCEEEEEECCCCCCEECCCCCCEEEEEEECCCCEEEECCCCCCCCCCCEEEEEC
T ss_conf 24789998640483468999998643334787425898612212356404676620687342002566889897899730
Q ss_pred HHHHHHHHHH-C-CCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEC------CCCEEEEECCCCCHHHHH-HHHHHHHHHH
Q ss_conf 0121125431-0-34536899999999999873189974999987------983079971788104899-9997321666
Q gi|254780399|r 147 LFFTIPARLN-F-LKSEQVETNLITDVIRRMAIAYPKVSFTFSTI------KSNRYKMNFQSTNGNFPE-RISQVIGEDF 217 (594)
Q Consensus 147 LF~N~PvRrk-f-lks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~------~~~~~~l~~~~~~~~l~~-ri~~i~G~~~ 217 (594)
||||+||||| | ||+++.|+++|.++|.+|||+||+|+|+|+++ ++....+.. ..++++++ |+.+|||...
T Consensus 161 LF~N~P~R~k~~s~k~~~~e~~~~~~~l~~~~l~~~~v~f~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~~~~~v~g~~~ 239 (367)
T TIGR00585 161 LFYNLPVRRKEFSLKSPKKELRKILDLLERYALIHPDVSFSLTSDESFQTNGKKVLSLST-KPNQSLKERRIRSVFGTAV 239 (367)
T ss_pred CCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHEEECCCCEEEEEECCEECCCCCEEEEECC-CCCCHHHHHHHHHHHHHHH
T ss_conf 315852026877557806889999999864401337935899971166477410033524-8873078999998874443
Q ss_pred HHHHHHCC-CCCEEEEEE-------------------EEECCCCCCCCCCHH----------HHHHHCCCHHHCHH----
Q ss_conf 54310022-442036566-------------------662161103323206----------67751521000758----
Q gi|254780399|r 218 INNAVELN-EKSNEITLQ-------------------GYTGIPTFNRGNANQ----------FYVFINGRTVQDKF---- 263 (594)
Q Consensus 218 ~~~l~~i~-~~~~~~~i~-------------------G~is~P~~~r~~~~~----------q~ifVNgR~V~~~~---- 263 (594)
+++++++. .+..++.++ ||++.|+++++.+.. +|+|||||||.++.
T Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~L~~~~r~~G~~~~p~~~~~~~~~~~~~~~~~r~~~~fiN~R~v~~~~~~~~ 319 (367)
T TIGR00585 240 ASKLFPLDEKEDSDLQLERMNRQSNPGDILDIAYRLLGFISEPNVSRSRRSGDKRRNEKDRFQFLFINGRPVELKLDRQK 319 (367)
T ss_pred HHCCCCHHCCCCCCEEEEEECCCCCCHHHHHHHHHHEEEECCCCCCCCCCCCCCCCCCCCEEEEEEECCEEECCCCCCCH
T ss_conf 31021000057774158762376886156654331111103776665445666678401208899756432037888755
Q ss_pred -HHHHHHHHHHHHCCCCC---CEEEEEEEEEEHHHHCCCCCCHHHHHH
Q ss_conf -88999987554427999---807999999606571247571111255
Q gi|254780399|r 264 -ILSTIRTAYAETIPLGR---YPVVVLLLEIDPRQVDVNVHPAKSYIR 307 (594)
Q Consensus 264 -l~~AI~~aY~~~l~~g~---~P~~vL~i~i~p~~vDVNVHP~K~eVr 307 (594)
|.++|.++|+.++|.++ ||++||+|++||..|||||||+|+||+
T Consensus 320 ~l~~~~~~~y~~~~~~~~~~L~P~~~L~l~~~p~~~DvNvhP~K~eV~ 367 (367)
T TIGR00585 320 SLLKAIREVYHEYLPKGQKKLYPVFVLNLEIDPELVDVNVHPDKKEVR 367 (367)
T ss_pred HHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCCCEEEEEECCCCCCCC
T ss_conf 689999998764153457602238999740785115231268743129
No 5
>KOG1979 consensus
Probab=100.00 E-value=0 Score=670.23 Aligned_cols=497 Identities=30% Similarity=0.488 Sum_probs=378.4
Q ss_pred CCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCH
Q ss_conf 67458889999852687226978999999987772699679999980984399999888998898999875024665631
Q gi|254780399|r 2 KIRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKIS 81 (594)
Q Consensus 2 ~I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~ 81 (594)
.||+||++|+|+|||||||+||++++|||||||||||||.|.|.+++||+++++|+|||+||.++||+++|+||+|||+.
T Consensus 7 ~IrrLde~VVNRIAAGEVI~RP~NAlKEliENSLDA~ST~I~V~vk~GGLKLlQisDnG~GI~reDl~ilCeRftTSKL~ 86 (694)
T KOG1979 7 KIRRLDEDVVNRIAAGEVIQRPVNALKELIENSLDANSTSIDVLVKDGGLKLLQISDNGSGIRREDLPILCERFTTSKLT 86 (694)
T ss_pred HHHCCCHHHHHHHHCCCHHHCHHHHHHHHHHCCCCCCCCEEEEEEECCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCC
T ss_conf 45138298876762231423557899999861415798569999815976899983289861522468998776212000
Q ss_pred --HHHHHCCCCCCCHHHHHHHHHHEEEEEEEECCCCCCCEEEEECCCCCC-CCCCCCCCCCCEEEEEHHHHHHHHHHHCC
Q ss_conf --244112148840489998762024899980489863015511010000-02110125675788521012112543103
Q gi|254780399|r 82 --DDFSNIHTFGFRGEALPSIGAVSHLTLMSRPPQNNTGAQIAISGEKIS-SVRPVAMNPGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 82 --~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~~~~~~~~~~~~~~g~~~-~~~~~~~~~GT~V~V~~LF~N~PvRrkfl 158 (594)
|||+++.||||||||||||+.|++++|+||++++.+||+..|..|+.. ..+||++..||+|+|+|||||+|+|||.|
T Consensus 87 kFEDL~~lsTyGFRGEALASiShVA~VtV~TK~~~~~cayrasY~DGkm~~~pKpcAgk~GT~I~vedLFYN~~~Rrkal 166 (694)
T KOG1979 87 KFEDLFSLSTYGFRGEALASISHVAHVTVTTKTAEGKCAYRASYRDGKMIATPKPCAGKQGTIITVEDLFYNMPTRRKAL 166 (694)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHEEEEEEEEEECCCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEHHHHCCCHHHHHHH
T ss_conf 06777766641744788764332368999986237644567875145014699775577763998668440378889875
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHH-HCC-CC--CEEEEEE
Q ss_conf 4536899999999999873189974999987983079971788104899999732166654310-022-44--2036566
Q gi|254780399|r 159 KSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAV-ELN-EK--SNEITLQ 234 (594)
Q Consensus 159 ks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~-~i~-~~--~~~~~i~ 234 (594)
++..-|+++|.++|.+||+.+|+|+|.+...|.....+.. +...+..|+|..+||..++++++ ++. .+ .-.+...
T Consensus 167 ~~~~EE~~ki~dlv~ryAIHn~~VsFs~rk~Gd~~~dl~t-~~~~s~~D~ir~i~g~~Va~~ll~els~~~~~~l~f~~~ 245 (694)
T KOG1979 167 RNHAEEYRKIMDLVGRYAIHNPRVSFSLRKQGDTVADLRT-SVSCSREDNIRNIYGVSVAKNLLNELSKCDSKLLKFSAE 245 (694)
T ss_pred CCCHHHHHHHHHHHHHHHEECCCCCEEEEECCCCCCCCCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf 1738899999999988710178863698514662231015-776642333123334688899887765136733678504
Q ss_pred EEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHH
Q ss_conf 66216110332320667751521000758889999875544279998079999996065712475711112553597999
Q gi|254780399|r 235 GYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTII 314 (594)
Q Consensus 235 G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i 314 (594)
|||+++++.-+... ..+|||||.|.+..|.+||...|+.+||+|.+|+++|.|.+||..|||||||+|+||+|.+++.|
T Consensus 246 g~Isn~n~~akk~i-~vlFIN~RLVes~~Lr~ale~VYa~yLpk~~~pFvYLsL~i~p~~vDVNVHPTK~eV~FL~qEeI 324 (694)
T KOG1979 246 GYISNANYSAKKSI-LVLFINGRLVESDELRHALEEVYAAYLPKGHHPFVYLSLNIDPENVDVNVHPTKREVHFLNQEEI 324 (694)
T ss_pred CEEECHHHHHHHHE-EEEEECCCEEEHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCHHHCCCCCCCCCCEEEEECHHHH
T ss_conf 25732035642121-78998481754588888999999974587778559999863789860133777433674048999
Q ss_pred HHHHHHHHHHHHHHCCCCCCCHH-----------HHHHCCCCCCCC-CCCCCCCCCCCCC---CCCCCC--CCCCCCC--
Q ss_conf 99999978988753178876101-----------121001124333-5545577445665---543100--0123222--
Q gi|254780399|r 315 RNFIIQSIQKAINKKGISTSSVL-----------SKKMISSFHQDN-APKTHLPKYATSL---TNTQEK--LFLQENR-- 375 (594)
Q Consensus 315 ~~~i~~~i~~~L~~~~~~~~~~~-----------~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~--~~~~~~~-- 375 (594)
.+.|.+.+...|...+....... +.+..+++.+.. +.+.. ..+.... +....+ .+.+...
T Consensus 325 ie~I~~~ie~~L~~~d~er~~~~q~~iP~~~~~~~er~~~~~~~~~s~~ks~-k~~~~~mVRtDsse~ki~~fl~~~~~~ 403 (694)
T KOG1979 325 IERICQQIEERLSALDTERTFLKQVMIPGPSTLKSERNKPSLKQSPSAQKSD-KRYENKMVRTDSSERKIDSFLSPLTQV 403 (694)
T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC-HHCCCCEEECCCCCCCHHHHHCCCCCC
T ss_conf 9999999999986157444405542165776532234675533364333330-002241332263302235550785446
Q ss_pred ----CCCCCCCCCCCCCCCCCCC---------------CCC-------------------CHHHHHHCCCCEEEEECCCC
Q ss_conf ----3520000012221000001---------------234-------------------10111100572113104551
Q gi|254780399|r 376 ----LSTNDLLPSDDPTYSEDND---------------PVE-------------------ESEATHYQLGIACAQIHQNY 417 (594)
Q Consensus 376 ----~~~~~~~~~~~~~~~~~~~---------------~~~-------------------~~~~~~~~~~~~igQ~~~~y 417 (594)
...++..+........++. +-+ ......+....++|-++..+
T Consensus 404 ~~s~~~~nes~~~~~s~~~~e~s~~p~dd~r~~~~~~~~rE~~~L~Si~~Lr~eV~~~~h~~l~e~~~n~~yVG~vd~~~ 483 (694)
T KOG1979 404 GSSNSTGNESEQGDDSSLSNENSRLPEDDVRFEYTAKTPRERFRLESIKKLRKEVIDSCHVVLTEMFRNLSYVGVVDERT 483 (694)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCHHCCCHHHHHHHHHHHHHHCCHHHHHHHHHCCEEEEECHHH
T ss_conf 76444455455664223420013576301344420246001006365999999998630299999997562345524134
Q ss_pred CEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC------CCCHH-----------------HHHHHH
Q ss_conf 0000258635400589989999999852210388421111222234------67834-----------------777799
Q gi|254780399|r 418 IISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQTLLTPEII------DLLEG-----------------ECALIM 474 (594)
Q Consensus 418 Il~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i------~Ls~~-----------------e~~~l~ 474 (594)
+++|++.+||++|---.-+-..|..+..+|.+- ..-.|..|..+ .+... -.+.|.
T Consensus 484 alvQh~t~Ly~~d~~~ls~ElfYQi~i~dF~Nf--g~~~l~~p~~l~el~~l~l~~e~~~~~~~d~~ke~~~~~~~e~l~ 561 (694)
T KOG1979 484 ALVQHGTSLYLCDTVSLSKELFYQILITDFGNF--GKIRLSEPLPLSELLMLALESEEPGWTADDGFKEKIARFAAEKLL 561 (694)
T ss_pred HHHHCCCEEEEECHHHHHHHHHHHHHHHHHCCC--CEEECCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 532137647995307778999999999876055--526627983178999985557667877330067888899999876
Q ss_pred HHHHHH-HHCCCEEEEECCCEEEEEECCCCCCCC
Q ss_conf 989999-866959996079879999526111556
Q gi|254780399|r 475 EHDEDL-HRLGIKAERFGPNAIAIREIPAILSKK 507 (594)
Q Consensus 475 ~~~~~l-~~~Gf~~e~~g~~~~~i~~iP~~l~~~ 507 (594)
++.+.| +.+++++++-| .++++|.++...
T Consensus 562 ~ka~ml~dYFsi~i~e~g----~l~~lP~L~~~y 591 (694)
T KOG1979 562 EKADMLHDYFSIEIDEEG----LLTGLPSLLHQY 591 (694)
T ss_pred HHHHHHHHHEEEEECCCC----CEECCCHHHCCC
T ss_conf 667887655079972688----631470443025
No 6
>KOG1977 consensus
Probab=100.00 E-value=0 Score=568.10 Aligned_cols=300 Identities=25% Similarity=0.339 Sum_probs=243.5
Q ss_pred CCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCH
Q ss_conf 67458889999852687226978999999987772699679999980984399999888998898999875024665631
Q gi|254780399|r 2 KIRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKIS 81 (594)
Q Consensus 2 ~I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~ 81 (594)
.|+.||.+|..++++|..|.+.++||.||+.||||||||.|.|.|.--.+ .++|.|||.||+++||.++|.||+|||++
T Consensus 1 ~Ik~L~~~V~~~lrSg~~~~sla~~VeElv~NSiDA~At~V~v~V~~~t~-sv~ViDdG~G~~rdDl~~lg~ry~TSK~h 79 (1142)
T KOG1977 1 MIKCLSVEVQAKLRSGLAISSLAQCVEELVLNSIDAEATCVAVRVNMETF-SVQVIDDGFGMGRDDLEKLGNRYFTSKCH 79 (1142)
T ss_pred CCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCEE-EEEEEECCCCCCHHHHHHHHHHHHHHHCE
T ss_conf 96556466889876360478799999999861225575279999657506-79998568776678899987655443200
Q ss_pred --HHHHHCCCCCCCHHHHHHHHHHEEEEEEEECCCCCCCEE--EEECCCCCC--CCCCCCCCCCCEEEEEHHHHHHHHHH
Q ss_conf --244112148840489998762024899980489863015--511010000--02110125675788521012112543
Q gi|254780399|r 82 --DDFSNIHTFGFRGEALPSIGAVSHLTLMSRPPQNNTGAQ--IAISGEKIS--SVRPVAMNPGTIVEVRDLFFTIPARL 155 (594)
Q Consensus 82 --~dl~~i~t~GFRGEAL~sIa~vs~l~i~s~~~~~~~~~~--~~~~~g~~~--~~~~~~~~~GT~V~V~~LF~N~PvRr 155 (594)
.|+.+..|||||||||||||.+|.+.++|+.++...||+ ....|.+.. .+.-.....||||+|+||||+.||||
T Consensus 80 ~~ndl~~~~tyGfRGeALasIsd~s~l~v~skkk~r~~~~~~kk~~~gs~~~~l~iD~~R~~sGTtVtV~dlfY~lPVRR 159 (1142)
T KOG1977 80 SVNDLENPRTYGFRGEALASISDMSSLVVISKKKNRTMKTFVKKFQSGSALKALEIDVTRASSGTTVTVYDLFYQLPVRR 159 (1142)
T ss_pred ECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCEECCCCCCCCCCCCEEEEHHHHHCCHHHH
T ss_conf 00001362002543466642431044645554138850689998741221103665533246885898478440334566
Q ss_pred HCC-CCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf 103-4536899999999999873189974999987983079971788104899999732166654310022442036566
Q gi|254780399|r 156 NFL-KSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQ 234 (594)
Q Consensus 156 kfl-ks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~ 234 (594)
+++ .+|+.++..|.+-|.+++|.||+|+|.+..+.++...+...+. ..+.+-+ ....++.+.
T Consensus 160 r~k~~~P~k~fe~Ik~~i~~i~lmHp~iSfsv~~~~s~~~~lq~n~s-~~~~eil----------------fr~k~~e~~ 222 (1142)
T KOG1977 160 RLKCMDPRKEFEKIKQRIEAISLMHPSISFSVRNDVSGSMVLQLNKS-QKLREIL----------------FRYKEFELS 222 (1142)
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCEEEECCCC-CHHHHHH----------------HHHCCCCCC
T ss_conf 55028878899999999999975266404788752675545642742-0025552----------------220332222
Q ss_pred EEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHH
Q ss_conf 66216110332320667751521000758889999875544279998079999996065712475711112553597999
Q gi|254780399|r 235 GYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTII 314 (594)
Q Consensus 235 G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i 314 (594)
....+-|..++|+|||||.|-+....+-+.+..+.-- .---|-|+|++.||-.++||-..|+|+-|.|.+|..+
T Consensus 223 -----~s~~~~N~t~g~l~v~~~~~~~~~kh~~~~q~lR~~~-~~~~P~yvi~v~cp~~ly~vs~epakt~ieF~~w~~~ 296 (1142)
T KOG1977 223 -----SSEAHYNKTMGFLFVNKRLVLRTKKHKLIDQLLRKES-IICKPKYVINVQCPFCLYDVSMEPAKTLIEFQNWDTL 296 (1142)
T ss_pred -----CCHHCCCCCCCEEEECCHHHHCCCHHHHHHHHHHHHH-EECCCCCEEECCCCHHHHHHHCCCCCCHHHHHCCHHH
T ss_conf -----2111003210203302233303100468999877530-3005750342256246666105722011323042466
Q ss_pred HHHHHHHHHHH
Q ss_conf 99999978988
Q gi|254780399|r 315 RNFIIQSIQKA 325 (594)
Q Consensus 315 ~~~i~~~i~~~ 325 (594)
..+|...+.-.
T Consensus 297 l~~I~~~~~~~ 307 (1142)
T KOG1977 297 LFCIQEGVKMF 307 (1142)
T ss_pred HHHHHHHHHHH
T ss_conf 75997755555
No 7
>pfam08676 MutL_C MutL C terminal dimerization domain. MutL and MutS are key components of the DNA repair machinery that corrects replication errors. MutS recognizes mispaired or unpaired bases in a DNA duplex and in the presence of ATP, recruits MutL to form a DNA signaling complex for repair. The N terminal region of MutL contains the ATPase domain and the C terminal is involved in dimerization.
Probab=100.00 E-value=6.3e-35 Score=270.71 Aligned_cols=142 Identities=44% Similarity=0.822 Sum_probs=133.2
Q ss_pred CCCCEEEEECCCCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC
Q ss_conf 05721131045510000258635400589989999999852210388421111222234678347777999899998669
Q gi|254780399|r 405 QLGIACAQIHQNYIISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQTLLTPEIIDLLEGECALIMEHDEDLHRLG 484 (594)
Q Consensus 405 ~~~~~igQ~~~~yIl~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~~G 484 (594)
+.+++|||++++|||++.++||++||||||||||+||+|++++. +.+.+|+|++|+.++|++.|...++++++.|++||
T Consensus 1 ~~grvigQ~~~~yIl~~~~~~l~liDQHaAhERi~yE~l~~~~~-~~~~~Q~Ll~P~~i~l~~~e~~~l~~~~~~l~~lG 79 (142)
T pfam08676 1 PLGKALGQVHGTYILAENEDGLYLVDQHAAHERILYEKLKSKLK-EGLQSQPLLIPLTLELSPEEAALLEEHKELLARLG 79 (142)
T ss_pred CCCCEEEEECCEEEEEECCCCEEEEEHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCEECCCHHHHHHHHHHHHHHHHCC
T ss_conf 98415566758899998289889998599999999999999861-67765215789633169999999999999999779
Q ss_pred CEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 59996079879999526111556789999999999985788664689999999976348666458888
Q gi|254780399|r 485 IKAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDSSTTYTLQDRIENILATMACYGSIRSGRKM 552 (594)
Q Consensus 485 f~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~~~~~~~~~~~~~l~s~ACr~AIk~gd~L 552 (594)
|+++.||++++.|+++|.++.+.+.+++++|+++++.+.+. ..++++++++|||+|||+||+|
T Consensus 80 f~~e~~g~~~~~i~~vP~~l~~~~~~~~i~~il~~l~~~~~-----~~~~~~~~~~AC~~aIk~g~~L 142 (142)
T pfam08676 80 FELEEFGPNSLIVRSVPALLRQQNLEELIRELLDELAEKGE-----ELLEELLATMACHSAIRAGRRL 142 (142)
T ss_pred EEEEECCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHCCCCCC
T ss_conf 39995589999999848555775899999999999885691-----6999999998779884389939
No 8
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=100.00 E-value=1.4e-33 Score=260.95 Aligned_cols=122 Identities=42% Similarity=0.821 Sum_probs=119.7
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEE
Q ss_conf 99999732166654310022442036566662161103323206677515210007588899998755442799980799
Q gi|254780399|r 206 PERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVV 285 (594)
Q Consensus 206 ~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~v 285 (594)
.+||..+||.+++++|++++.+.++++++||+|.|+.+|+++++||+|||||||+++.+.+||.+||++++|.|+||+|+
T Consensus 2 l~Ri~~i~G~~~~~~li~v~~~~~~~~i~G~is~p~~~r~~~~~q~~fVN~R~V~~~~l~~ai~~aY~~~l~~~r~P~~v 81 (123)
T cd03482 2 LQRLADILGEDFAEQALAIDEEAGGLRLSGWIALPTFARSQADIQYFYVNGRMVRDKLISHAVRQAYSDVLHGGRHPAYV 81 (123)
T ss_pred HHHHHHHHCHHHHHHCEEEEEECCCEEEEEEEECCHHCCCCCCCEEEEECCCEECCHHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf 12999881999897072887677988999999484431477863799991837785899999999998656599840899
Q ss_pred EEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf 999960657124757111125535979999999997898875
Q gi|254780399|r 286 LLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAIN 327 (594)
Q Consensus 286 L~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L~ 327 (594)
|+|++||+.|||||||+|+||||.||+.|+++|.++|+++|+
T Consensus 82 L~l~i~p~~vDVNVHP~K~EVrF~~e~~I~~~i~~av~~aLa 123 (123)
T cd03482 82 LYLELDPAQVDVNVHPAKHEVRFRDSRLVHDFIYHAVKKALA 123 (123)
T ss_pred EEEECCHHHEECCCCCCCCEEEECCHHHHHHHHHHHHHHHHC
T ss_conf 999747687872369863079985888999999999999729
No 9
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=99.97 E-value=5.8e-32 Score=249.43 Aligned_cols=123 Identities=29% Similarity=0.477 Sum_probs=116.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCE----EEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCC
Q ss_conf 48999997321666543100224420----36566662161103323206677515210007588899998755442799
Q gi|254780399|r 204 NFPERISQVIGEDFINNAVELNEKSN----EITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLG 279 (594)
Q Consensus 204 ~l~~ri~~i~G~~~~~~l~~i~~~~~----~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g 279 (594)
+++|||.+|||.+++++|++++.+.+ .++++||||.|+.++ +++.|++|||||||+++.|.+||.+||++++|.|
T Consensus 1 Slkd~I~~i~G~~~~~~Li~v~~~~~~~~~~~~v~G~is~P~~~~-~~~~~~~fVNgR~V~~~~l~~aI~~aY~~~l~~~ 79 (127)
T cd03483 1 STKDNIRSVYGAAVANELIEVEISDDDDDLGFKVKGLISNANYSK-KKIIFILFINNRLVECSALRRAIENVYANYLPKG 79 (127)
T ss_pred CHHHHHHHHCCHHHHHHCCEEECCCCCCCCEEEEEEEEECCCCCC-CCCCEEEEECCCEECCHHHHHHHHHHHHHHHHCC
T ss_conf 988999997099999605276532677434089999997854477-8787899990988778799999999999883088
Q ss_pred CCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf 980799999960657124757111125535979999999997898875
Q gi|254780399|r 280 RYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAIN 327 (594)
Q Consensus 280 ~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L~ 327 (594)
+||+++|+|++||+.|||||||+|+||||.+|+.|+++|.++|+++|+
T Consensus 80 ~~P~~~L~i~i~p~~vDVNVHP~K~eVrf~~e~~I~~~i~~ai~~aLs 127 (127)
T cd03483 80 AHPFVYLSLEIPPENVDVNVHPTKREVHFLNEEEIIERIQKLVEDKLS 127 (127)
T ss_pred CCCEEEEEEECCCCEEEECCCCCCCEEEECCHHHHHHHHHHHHHHHHC
T ss_conf 986999999479521774569981579865989999999999999739
No 10
>cd00782 MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. Included in this group are proteins similar to human MLH1, hPMS2, hPMS1, hMLH3 and E. coli MutL, MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot synd
Probab=99.97 E-value=8.5e-31 Score=241.03 Aligned_cols=122 Identities=38% Similarity=0.730 Sum_probs=119.2
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf 89999973216665431002244203656666216110332320667751521000758889999875544279998079
Q gi|254780399|r 205 FPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVV 284 (594)
Q Consensus 205 l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~ 284 (594)
+++|+..+||.++++++++++.+.++++++||+|.|+.+|+++++||+|||||||+++.+.+||+++|++.++.++||+|
T Consensus 1 l~~ri~~v~G~~~~~~l~~v~~~~~~~~i~G~is~p~~~r~~~~~q~~fVN~R~V~~~~l~~ai~~~y~~~~~~~~~P~~ 80 (122)
T cd00782 1 LKDRIAQVYGKEVAKNLIEVELESGDFRISGYISKPDFGRSSKDRQFLFVNGRPVRDKLLSKAINEAYRSYLPKGRYPVF 80 (122)
T ss_pred CHHHHHHHHCHHHHHCCEEEEEECCCEEEEEEEECCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf 97799998199989608898755799999999978611568785479998897747789999999999975538998539
Q ss_pred EEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 999996065712475711112553597999999999789887
Q gi|254780399|r 285 VLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAI 326 (594)
Q Consensus 285 vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L 326 (594)
+|+|+|||+.+||||||+|+||+|+||+.|+.+|.++|+++|
T Consensus 81 vL~l~~p~~~vDVNvhP~K~eV~f~~e~~i~~~i~~~i~~~L 122 (122)
T cd00782 81 VLNLELPPELVDVNVHPTKREVRFSDEEEVLELIREALRSAL 122 (122)
T ss_pred EEEEEECHHHCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHC
T ss_conf 999999989956754987458998088999999999999759
No 11
>pfam01119 DNA_mis_repair DNA mismatch repair protein, C-terminal domain. This family represents the C-terminal domain of the mutL/hexB/PMS1 family. This domain has a ribosomal S5 domain 2-like fold.
Probab=99.97 E-value=5.8e-31 Score=242.23 Aligned_cols=118 Identities=42% Similarity=0.819 Sum_probs=115.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf 99732166654310022442036566662161103323206677515210007588899998755442799980799999
Q gi|254780399|r 209 ISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVLLL 288 (594)
Q Consensus 209 i~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i 288 (594)
|.++||.++++++++++.+.++++++||+|.|+.+|+++++||+|||||||+++.+.+||++||++.+|.|+||+|+|+|
T Consensus 1 i~~i~G~~~~~~li~v~~~~~~~~i~G~is~p~~~r~~~~~q~~fVN~R~V~~~~l~~ai~~aY~~~l~~~~~P~~~l~i 80 (118)
T pfam01119 1 IAAIYGREFAENLLPIDAEDEGLRLSGFISKPELSRSNRDYQYLFVNGRPVRDKLLSHAIREAYRDLLPKGRYPVAVLFL 80 (118)
T ss_pred CCEEECHHHHHHCEEEEEECCCEEEEEEEECCHHCCCCCCCEEEEECCCEECCHHHHHHHHHHHHHHCCCCCCCEEEEEE
T ss_conf 90400888996050887466999999999892323688865899994989871899999999999765079974799998
Q ss_pred EEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 96065712475711112553597999999999789887
Q gi|254780399|r 289 EIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAI 326 (594)
Q Consensus 289 ~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L 326 (594)
++||+.|||||||+|+||||+||+.|+++|.++|+++|
T Consensus 81 ~ipp~~vDVNVHP~K~eV~f~~e~~i~~~i~~~i~~~L 118 (118)
T pfam01119 81 EIDPELVDVNVHPAKREVRFRDEREVHDFIEEAVREAL 118 (118)
T ss_pred ECCHHHEECCCCCCCCEEEECCHHHHHHHHHHHHHHHC
T ss_conf 55889934323886038998188999999999999759
No 12
>cd03484 MutL_Trans_hPMS_2_like MutL_Trans_hPMS2_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM2 (hPSM2). hPSM2 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. Included in this group are proteins similar to yeast PMS1. The yeast MLH1-PMS1 and the human MLH1-PMS2 heterodimers play a role in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Cells lacking hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hPMS2 causes predisposition to HPNCC and Turcot syndrome.
Probab=99.96 E-value=2e-29 Score=231.19 Aligned_cols=122 Identities=23% Similarity=0.451 Sum_probs=114.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCC-----------------EEEEEEEEECCCC--CCCCCCHHHHHHHCCCHHHCHHH
Q ss_conf 4899999732166654310022442-----------------0365666621611--03323206677515210007588
Q gi|254780399|r 204 NFPERISQVIGEDFINNAVELNEKS-----------------NEITLQGYTGIPT--FNRGNANQFYVFINGRTVQDKFI 264 (594)
Q Consensus 204 ~l~~ri~~i~G~~~~~~l~~i~~~~-----------------~~~~i~G~is~P~--~~r~~~~~q~ifVNgR~V~~~~l 264 (594)
+++++|.+|||.+.+++|++++... .+++++||||.|+ .+|+++++||+|||||||+++.+
T Consensus 1 ~l~~~I~~VfG~~~~~~Lipi~~~~~~~~~~~~~~~~~~~~~~~~~i~G~iskp~~~~~R~~~~~q~~fVN~RpV~~~~l 80 (142)
T cd03484 1 DIKDNIINVFGGKVIKGLIPINLELDVNPTKEELDSDEDLADSEVKITGYISKPSHGCGRSSSDRQFFYINGRPVDLKKV 80 (142)
T ss_pred CHHHHHHHHCCHHHHHCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEECCCCCCCHHH
T ss_conf 97776888629867803652453377654100013456678997899999857866756688887899991978488899
Q ss_pred HHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 89999875544279998079999996065712475711112553597999999999789887
Q gi|254780399|r 265 LSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAI 326 (594)
Q Consensus 265 ~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L 326 (594)
.+||+++|++ ++.++||++||+|++||+.|||||||+|+||+|++|+.|+++|.++|.+.+
T Consensus 81 ~~ai~~~y~~-~~~~~~P~~vL~i~ipp~~vDVNVhP~K~eV~f~~e~~i~~~i~~al~~~~ 141 (142)
T cd03484 81 AKLINEVYKS-FNSRQYPFFILNISLPTSLYDVNVTPDKRTVLLHDEDRLIDTLKTSLSELF 141 (142)
T ss_pred HHHHHHHHHH-CCCCCCCEEEEEEEECHHHEEECCCCCCCEEEECCHHHHHHHHHHHHHHHH
T ss_conf 9999999986-267898579999984879977037987458997467999999999999972
No 13
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=99.95 E-value=9.3e-29 Score=226.36 Aligned_cols=123 Identities=24% Similarity=0.410 Sum_probs=113.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCC--EEEEEEEEECCCC--CCCCCCHHHHHHHCCCHHH-CHHHHHHHHHHHHHHCCC
Q ss_conf 4899999732166654310022442--0365666621611--0332320667751521000-758889999875544279
Q gi|254780399|r 204 NFPERISQVIGEDFINNAVELNEKS--NEITLQGYTGIPT--FNRGNANQFYVFINGRTVQ-DKFILSTIRTAYAETIPL 278 (594)
Q Consensus 204 ~l~~ri~~i~G~~~~~~l~~i~~~~--~~~~i~G~is~P~--~~r~~~~~q~ifVNgR~V~-~~~l~~AI~~aY~~~l~~ 278 (594)
+++++|.+|||.+++++|++++... .+++++||++.|+ .+|+++++||+|||||||+ ++.+.++|..+|++.+++
T Consensus 1 dlk~~I~~v~G~~~a~~li~i~~~~~~~~i~i~G~i~~p~~~~~r~~~~~q~~fVN~RpV~~~~~i~k~i~~~y~~~~~~ 80 (132)
T cd03485 1 DHKEALARVLGTAVAANMVPVQSTDEDPQISLEGFLPKPGSDVSKTKSDGKFISVNSRPVSLGKDIGKLLRQYYSSAYRK 80 (132)
T ss_pred CHHHHHHHHHCHHHHHHCCEEECCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEECCEECCCHHHHHHHHHHHHHHHHC
T ss_conf 98899999818998940628751578787899999816877545677872899991964668688999999999998625
Q ss_pred C---CCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 9---98079999996065712475711112553597999999999789887
Q gi|254780399|r 279 G---RYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAI 326 (594)
Q Consensus 279 g---~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L 326 (594)
+ +||+++|+|+|||+.|||||||+|+||||+||+.|+++|.+++++.+
T Consensus 81 ~~~~r~P~~~L~i~i~p~~vDVNVhP~K~eV~f~~e~~v~~~i~~al~~~~ 131 (132)
T cd03485 81 SSLRRYPVFFLNILCPPGLVDVNIEPDKDDVLLQNKEAVLQAVENLLESLY 131 (132)
T ss_pred CCCCCCCEEEEEEEECCCCEEECCCCCCCEEEECCHHHHHHHHHHHHHHHC
T ss_conf 677679789999996731077533888648997488999999999999960
No 14
>cd03486 MutL_Trans_MLH3 MutL_Trans_MLH3: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH3 (MutL homologue 3). MLH3 belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with MLH3. The MLH1-MLH3 complex plays a role in meiosis. A role for hMLH1-hMLH3 in DNA mismatch repair (MMR) has not been established. It has been suggested that hMLH3 may be a low risk gene for colorectal cancer; however there is little evidence to support it having a role in classical HNPCC.
Probab=99.95 E-value=9.2e-29 Score=226.39 Aligned_cols=122 Identities=19% Similarity=0.338 Sum_probs=113.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCC-----
Q ss_conf 489999973216665431002244203656666216110332320667751521000758889999875544279-----
Q gi|254780399|r 204 NFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPL----- 278 (594)
Q Consensus 204 ~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~----- 278 (594)
++.+++.++||..++++|.+|+.+.++++|+||||.|.. .++++||+|||||+|.++.+++||.++|+...+.
T Consensus 1 Sll~~~~~iyG~~~~~~L~~V~~~~~~~~i~GyIs~~~~--~sk~~Q~ifVN~R~v~~~~l~~~i~~~~~~~~~~~~~~~ 78 (141)
T cd03486 1 SILSVFKQIYGLVLAQKLKEVSAKFQEYEVSGYISSEGH--YSKSFQFIYVNGRLYLKTRFHKLINKLFRKTSAVAKNKS 78 (141)
T ss_pred CHHHHHHHHHCHHHHHHEEEEECCCCCEEEEEEEECCCC--CCCCCEEEEECCEEECCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 978999998688867006798613686899999808876--775206999867785027789999999875001244444
Q ss_pred --------------CCCEEEEEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf --------------9980799999960657124757111125535979999999997898875
Q gi|254780399|r 279 --------------GRYPVVVLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAIN 327 (594)
Q Consensus 279 --------------g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L~ 327 (594)
++||+|+|+|+|||+.+||||||+|+||||+||+.++.+|.++|+++|+
T Consensus 79 ~~~~~~~~~~~~~~~~yP~~vL~i~~p~~~~DVnvhP~K~eV~F~d~~~v~~~i~~~i~~fLk 141 (141)
T cd03486 79 SPQSKSSRRGKRSQESYPVFVLNITCPASEYDLSQEPSKTIIEFKDWKTLLPLILEVVKSFLK 141 (141)
T ss_pred CCCCCCCCCCCCCCCCCCEEEEEEECCHHHEEEEECCCEEEEEECCHHHHHHHHHHHHHHHHC
T ss_conf 323323434556656688899999848489200347860289963768999999999999729
No 15
>smart00853 MutL_C MutL C terminal dimerisation domain. MutL and MutS are key components of the DNA repair machinery that corrects replication errors. MutS recognises mispaired or unpaired bases in a DNA duplex and in the presence of ATP, recruits MutL to form a DNA signaling complex for repair. The N terminal region of MutL contains the ATPase domain and the C terminal is involved in dimerisation.
Probab=99.95 E-value=2.7e-26 Score=208.62 Aligned_cols=134 Identities=37% Similarity=0.716 Sum_probs=124.1
Q ss_pred CCEEEEECCCCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC
Q ss_conf 72113104551000025863540058998999999985221038842-11112222346783477779998999986695
Q gi|254780399|r 407 GIACAQIHQNYIISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKIT-SQTLLTPEIIDLLEGECALIMEHDEDLHRLGI 485 (594)
Q Consensus 407 ~~~igQ~~~~yIl~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~-~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~~Gf 485 (594)
++++||++++||+++.++||++||||||||||+||+|++++...... +|+|++|+.+++++.|..++.++++.|++|||
T Consensus 2 ~~~igq~~~~yil~~~~~~l~iiDqhaa~eRi~~E~l~~~~~~~~~~~~Q~LL~P~~i~l~~~e~~~l~~~~~~l~~~Gf 81 (136)
T smart00853 2 GRVLGQVHGTYILAESEDGLVLIDQHAAHERILYEQLKAKLQAGLLEKSQPLLIPVILELSPEEAALLEEHQELLARLGF 81 (136)
T ss_pred CCEEEEECCEEEEEECCCCEEEEEHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCE
T ss_conf 72799883889999818978998869999999999999998537876442347763468999999999999999997795
Q ss_pred EEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf 99960798799995261115567899999999999857886646899999999763
Q gi|254780399|r 486 KAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDSSTTYTLQDRIENILATMA 541 (594)
Q Consensus 486 ~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~~~~~~~~~~~~~l~s~A 541 (594)
+++.+|++++.|+++|.++.+.+...++.++++.+.+.+ +...+..++++++++|
T Consensus 82 ~~~~~g~~~i~i~~iP~~l~~~~~~~~i~~ll~~l~~~~-~~~~~~~~~~~~~s~A 136 (136)
T smart00853 82 ELEIFGGQSVILRSVPALLRQQNLQELIPELLDLLAEGG-STSLPQLVEALLASLA 136 (136)
T ss_pred EEEECCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHCC
T ss_conf 999659987999743801156689999999999998379-8568999999997229
No 16
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch
Probab=99.86 E-value=4e-22 Score=178.70 Aligned_cols=103 Identities=31% Similarity=0.636 Sum_probs=99.3
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHH-CHHHHHHHHHHHHHHC---CCCC
Q ss_conf 89999973216665431002244203656666216110332320667751521000-7588899998755442---7999
Q gi|254780399|r 205 FPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQ-DKFILSTIRTAYAETI---PLGR 280 (594)
Q Consensus 205 l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~-~~~l~~AI~~aY~~~l---~~g~ 280 (594)
+++++..+||..+.+++++++.+.++++++||++.|+.+|++++.||+|||||||. ++.+.+||+++|++.+ +.++
T Consensus 1 l~~~i~~i~g~~~~~~l~~v~~~~~~~~i~g~i~~~~~~~~~~~~q~~fVN~R~v~~~~~~~~ai~~~y~~~~~~~~~~~ 80 (107)
T cd00329 1 LKDRLAEILGDKVADKLIYVEGESDGFRVEGAISYPDSGRSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALNGDDVRR 80 (107)
T ss_pred CHHHHHHHHCHHHHHHCEEEEEECCCEEEEEEEECCCCCCCCCCCEEEEECCEEECCCHHHHHHHHHHHHHHHHCCCCCC
T ss_conf 97799988198989717799875499899999957853567785479999784860776999999999999861467898
Q ss_pred CEEEEEEEEEEHHHHCCCCCCHHHHHH
Q ss_conf 807999999606571247571111255
Q gi|254780399|r 281 YPVVVLLLEIDPRQVDVNVHPAKSYIR 307 (594)
Q Consensus 281 ~P~~vL~i~i~p~~vDVNVHP~K~eVr 307 (594)
||+|+|+|++||+.+||||||+|+||+
T Consensus 81 ~p~~vl~i~~~~~~vDvNvhP~K~ev~ 107 (107)
T cd00329 81 YPVAVLSLKIPPSLVDVNVHPTKEEVR 107 (107)
T ss_pred CCEEEEEEEECCHHEEECCCCCCCCCC
T ss_conf 878999998481538727499834139
No 17
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.36 E-value=5.2e-11 Score=98.80 Aligned_cols=163 Identities=21% Similarity=0.214 Sum_probs=104.8
Q ss_pred CHHHHHHHHHHHHHHCCCC-----EEEEEEECCC--EEEEEEEECCCCCCHHHHHHHHCC-CCCCCCHHHHHH--CCCCC
Q ss_conf 9789999999877726996-----7999998098--439999988899889899987502-466563124411--21488
Q gi|254780399|r 22 RPSIAIKELIENSLDAESS-----RVETVIAGGG--KSFFQITDNGFGMTSEEIPMAVQR-HCTSKISDDFSN--IHTFG 91 (594)
Q Consensus 22 ~~~svVkELveNSlDAgAt-----~I~v~i~~~g--~~~i~V~DnG~Gi~~~dl~~~~~r-h~TSKi~~dl~~--i~t~G 91 (594)
++..+|||||+|||||.-. .|.|.|+.-| ...|.|+|||.||.+++.++++-+ .+-||...--.+ -.-+|
T Consensus 35 al~ttvkE~VdNsLDAcEe~gILPdI~v~I~~~~~~~y~v~VeDNGpGI~~~~ip~vFGk~L~GSKf~~~rQsRGqqGiG 114 (533)
T PRK04184 35 ALYTTVKELVDNSLDACEEAGILPDIKVEIRRVGEDYYRVIVEDNGPGIPPEQIPKVFGKLLYGSKFHRLRQSRGQQGIG 114 (533)
T ss_pred HHHHHHHHHHHCCHHHHHHHCCCCCEEEEEEECCCCEEEEEEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCC
T ss_conf 79999999973317668860889865999998378569999944889988678889998885025324021147753524
Q ss_pred CCHHHHHHHHHH-EEEEEEEECCCCCCCEEEE--ECC----CCCCCCCC---CCCCCCCEEEEEHHHHHHHHHHHCCCCH
Q ss_conf 404899987620-2489998048986301551--101----00000211---0125675788521012112543103453
Q gi|254780399|r 92 FRGEALPSIGAV-SHLTLMSRPPQNNTGAQIA--ISG----EKISSVRP---VAMNPGTIVEVRDLFFTIPARLNFLKSE 161 (594)
Q Consensus 92 FRGEAL~sIa~v-s~l~i~s~~~~~~~~~~~~--~~~----g~~~~~~~---~~~~~GT~V~V~~LF~N~PvRrkflks~ 161 (594)
--|-.|.|=-.- --+.|+|++.++..++... ++- +.+...+. ....+||.|++. +=.|+.-.
T Consensus 115 is~avlysQlTTGkP~~V~S~~~~~~~a~~~~l~iD~~kNep~i~~~~~~~~~~~~hGt~Ve~~-ieg~~~~~------- 186 (533)
T PRK04184 115 ISAAVLYAQMTTGKPVRVISSTGGSKKAYEFELKIDTEKNEPEILEREERDNWKRWHGTRVELE-LEGNWYRA------- 186 (533)
T ss_pred HHHHHHHHHHCCCCCEEEEECCCCCCEEEEEEEEEECCCCCCEEECCCEECCCCCCCCEEEEEE-EEEEHHHH-------
T ss_conf 7888777631268865999647998526999999675778734533412047778884399999-97641544-------
Q ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEE
Q ss_conf 6899999999999873189974999987983079
Q gi|254780399|r 162 QVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYK 195 (594)
Q Consensus 162 ~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~ 195 (594)
.+.+.+.+++.|++||+-.|+|..-..+...
T Consensus 187 ---r~~v~eYlr~TaIvnPhA~I~f~~Pdg~~~~ 217 (533)
T PRK04184 187 ---KQGIYEYLKRTAIVNPHARITLKDPDGEELV 217 (533)
T ss_pred ---HCCHHHHHHHHHCCCCCEEEEEECCCCCEEE
T ss_conf ---2369999976510378449999889998799
No 18
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.36 E-value=3.7e-11 Score=99.85 Aligned_cols=166 Identities=22% Similarity=0.247 Sum_probs=114.9
Q ss_pred CCCHHHHHHHHHHHHHHCCCC-----EEEEEEECCCEEE--EEEEECCCCCCHHHHHHHHCC-CCCCCCHHHHH--HCCC
Q ss_conf 269789999999877726996-----7999998098439--999988899889899987502-46656312441--1214
Q gi|254780399|r 20 IERPSIAIKELIENSLDAESS-----RVETVIAGGGKSF--FQITDNGFGMTSEEIPMAVQR-HCTSKISDDFS--NIHT 89 (594)
Q Consensus 20 i~~~~svVkELveNSlDAgAt-----~I~v~i~~~g~~~--i~V~DnG~Gi~~~dl~~~~~r-h~TSKi~~dl~--~i~t 89 (594)
+-++..+|+|||+|||||.-. .|.|.|+..|.+. +.|+|||-||+++..++++-+ .+.||.+.-.. --.-
T Consensus 34 ~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~~~QsRGqqG 113 (538)
T COG1389 34 IRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHRNIQSRGQQG 113 (538)
T ss_pred HHHHHHHHHHHHHCCHHHHHHCCCCCCEEEEEEECCCCEEEEEEECCCCCCCHHHHHHHHHHHHCCCHHHHHHHCCCCCC
T ss_conf 06899999999853165687608887659999854775589999348999985675789988860232323443255324
Q ss_pred CCCCHHHHHHHHHHEE-EEEEEECCCCCCCEEEEE--C----CCCCCCC---CCCCCCCCCEEEEEHHHHHHHHHHHCCC
Q ss_conf 8840489998762024-899980489863015511--0----1000002---1101256757885210121125431034
Q gi|254780399|r 90 FGFRGEALPSIGAVSH-LTLMSRPPQNNTGAQIAI--S----GEKISSV---RPVAMNPGTIVEVRDLFFTIPARLNFLK 159 (594)
Q Consensus 90 ~GFRGEAL~sIa~vs~-l~i~s~~~~~~~~~~~~~--~----~g~~~~~---~~~~~~~GT~V~V~~LF~N~PvRrkflk 159 (594)
+|--|-.|+|-..-.+ +.|.|+|.++..++...+ + .+.+.+. +.....+||+|++. +=.|++.+++.
T Consensus 114 iGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~~~~~~~~hGT~Vel~-~~~~~~~~~~q-- 190 (538)
T COG1389 114 IGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGEVENPGGWHGTRVELE-LKGVWYRAKRQ-- 190 (538)
T ss_pred CCHHHHHHHHHHCCCCCEEEEECCCCCCCEEEEEEEECCCCCCCHHEECCCCCCCCCCCCEEEEEE-ECCCCHHHCCC--
T ss_conf 247899999875179866999537888624899999517888762000022247888775079999-55530542224--
Q ss_pred CHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEE
Q ss_conf 536899999999999873189974999987983079
Q gi|254780399|r 160 SEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYK 195 (594)
Q Consensus 160 s~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~ 195 (594)
-+-+.+.+.|+++|+-.+.|..-.-+...
T Consensus 191 -------gi~eYlkrTaiinPhA~I~l~dPdG~~~v 219 (538)
T COG1389 191 -------GIYEYLKRTAIINPHARIVLKDPDGNLVV 219 (538)
T ss_pred -------CHHHHHHHHHHCCCCEEEEEECCCCCEEE
T ss_conf -------79999988753387417999889986787
No 19
>TIGR01052 top6b DNA topoisomerase VI, B subunit; InterPro: IPR005734 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit B of topoisomerase VI, a type IIB topoisomerase found predominantly in archaea, but also in a few eukayotes, such as the plant Arabidopsis thaliana . This enzyme assembles as a heterotetramer, consisting of two A subunits required for DNA cleavage and two B subunits required for ATP hydrolysis. The B subunit is structurally similar to the ATPase domain of type IIA topoisomerases, but the A subunit is distinct, and instead shares homology with the Spo11 protein that mediates double-strand DNA breaks during meiotic recombination in eukaryotes . Therefore, though related to type IIA topoisomerases, topoisomerase VI may have a distinctive mechanism of action. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome.
Probab=99.16 E-value=3.1e-10 Score=93.25 Aligned_cols=156 Identities=22% Similarity=0.302 Sum_probs=108.0
Q ss_pred CCCHHHHHHHHHHHHHHCCCC-----EEEEEEECCCE-------E--EEEEEECCCCCCHHHHHHHH-CCCCCCCCHHHH
Q ss_conf 269789999999877726996-----79999980984-------3--99999888998898999875-024665631244
Q gi|254780399|r 20 IERPSIAIKELIENSLDAESS-----RVETVIAGGGK-------S--FFQITDNGFGMTSEEIPMAV-QRHCTSKISDDF 84 (594)
Q Consensus 20 i~~~~svVkELveNSlDAgAt-----~I~v~i~~~g~-------~--~i~V~DnG~Gi~~~dl~~~~-~rh~TSKi~~dl 84 (594)
|=++..||+|||+|||||.=- .|.|+|+.-|. + .|.|+|||-||+.+-.+++| +=.|-||.+.
T Consensus 26 iRsL~~~ihElVtNSLDAcEEAGILP~I~v~I~~~g~seGrGGr~HY~v~VEDNGPGIP~~~IPkVFGKmLaGSK~h~-- 103 (662)
T TIGR01052 26 IRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKSEGRGGRDHYKVVVEDNGPGIPEEYIPKVFGKMLAGSKFHR-- 103 (662)
T ss_pred HHHHHHHHHHHHHCHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHCCCCEEEE--
T ss_conf 688999999997142467664379984058989852777899996207998407889970001313202111440003--
Q ss_pred HHCCCCCCCHHHHHHH---HHHEE---EEEEEECC--CCCCCEEEEE------CCCCCCCCCC--CCCC---CCCEEEEE
Q ss_conf 1121488404899987---62024---89998048--9863015511------0100000211--0125---67578852
Q gi|254780399|r 85 SNIHTFGFRGEALPSI---GAVSH---LTLMSRPP--QNNTGAQIAI------SGEKISSVRP--VAMN---PGTIVEVR 145 (594)
Q Consensus 85 ~~i~t~GFRGEAL~sI---a~vs~---l~i~s~~~--~~~~~~~~~~------~~g~~~~~~~--~~~~---~GT~V~V~ 145 (594)
.++|=|=-|=-.+.- |++.. ++|+|.|. ++.-++++.+ +.|++.+... ...+ +||.|+.+
T Consensus 104 -~iQSRGqQGiG~sgavL~~Q~TTGKP~~VIs~T~~nGe~~~~~~~l~idV~KNEg~Ivek~eee~~~~~~W~GTriEle 182 (662)
T TIGR01052 104 -IIQSRGQQGIGISGAVLYAQITTGKPVKVISSTGENGEIYAKKVKLKIDVKKNEGEIVEKGEEEWEKPGSWRGTRIELE 182 (662)
T ss_pred -EEECCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCEEEEEEEEEEEEEECCCEEEECCCEEECCCCCCEEEEEEEE
T ss_conf -3206785156799999987614798458880568675615899999985332587343012101417998136899999
Q ss_pred HHHHHHHHH-HHCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf 101211254-31034536899999999999873189974999987
Q gi|254780399|r 146 DLFFTIPAR-LNFLKSEQVETNLITDVIRRMAIAYPKVSFTFSTI 189 (594)
Q Consensus 146 ~LF~N~PvR-rkflks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~ 189 (594)
|...-+| +| +.+-+.+++.|+++|+=.+.|..=
T Consensus 183 --~~~v~y~~~~---------~g~yEYlrrt~~anPHA~I~l~~P 216 (662)
T TIGR01052 183 --VKDVSYRRSK---------QGVYEYLRRTAVANPHAKIVLVEP 216 (662)
T ss_pred --EECCEEECCC---------CCHHHHHHHHHHHCCCCEEEEECC
T ss_conf --8222553111---------344589899875186408998869
No 20
>PRK05218 heat shock protein 90; Provisional
Probab=99.08 E-value=1.8e-08 Score=80.49 Aligned_cols=249 Identities=22% Similarity=0.316 Sum_probs=135.9
Q ss_pred CCCHHHHHHHHHHHHHHCCC------------------CEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCC---CC
Q ss_conf 26978999999987772699------------------6799999809843999998889988989998750246---65
Q gi|254780399|r 20 IERPSIAIKELIENSLDAES------------------SRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHC---TS 78 (594)
Q Consensus 20 i~~~~svVkELveNSlDAgA------------------t~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~---TS 78 (594)
=.++---+||||.||-||=- -.|.|.++... ..++|+|||.||+++||..-+--=| |.
T Consensus 23 YS~keiFlRELisNAsDAl~K~r~~~l~~~~~~~~~~~~~I~I~~d~~~-~tl~I~D~GIGMt~~El~~~LgTIa~Sgt~ 101 (612)
T PRK05218 23 YSNKEIFLRELISNASDAIDKLRFEALSDEALYEGDGELRIRISFDKEA-RTLTISDNGIGMTREEVIENLGTIAKSGTK 101 (612)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCEEEEEECCCC-CEEEEEECCCCCCHHHHHHHHHHHCCHHHH
T ss_conf 6886265888874199999999998725903217888856999975989-989999538888999999861110201189
Q ss_pred ----CCHH----HHHHCCCCCCCHHHHHHHHHHE-EEEEEEECCC-CCCCEEEEECCCCCCCCCCCC-CCCCCEEEEEHH
Q ss_conf ----6312----4411214884048999876202-4899980489-863015511010000021101-256757885210
Q gi|254780399|r 79 ----KISD----DFSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQ-NNTGAQIAISGEKISSVRPVA-MNPGTIVEVRDL 147 (594)
Q Consensus 79 ----Ki~~----dl~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~-~~~~~~~~~~~g~~~~~~~~~-~~~GT~V~V~~L 147 (594)
|+.+ |-.=|.-||- .+.|-=-|| ++++.||+.. ++.||+..-+|+..-.++++. ..+||+|++.
T Consensus 102 ~F~~~~~~~~~~~~~lIGqFGv---GFyS~FmVad~V~V~srs~~~~~~~~~W~s~g~g~y~i~~~~~~~~GT~I~L~-- 176 (612)
T PRK05218 102 EFLEKLKGDQKKDSQLIGQFGV---GFYSAFMVADKVTVITRSAGPASEAVRWESDGEGEYTIEEIEKEERGTEITLH-- 176 (612)
T ss_pred HHHHHHHHCCCCCCCHHHHCCC---CCEEEEEECCEEEEEECCCCCCCCCEEEEECCCCCEEEEECCCCCCCCEEEEE--
T ss_conf 9999865213554002321352---42046565047999976778997545999779997676105678998379999--
Q ss_pred HHHHHHHHHCCCCHHHHH---HHHHHHHHHHHHCCCCCEEEEEECCCCE-EEEEC------CCC----CHHHHHHHHHHH
Q ss_conf 121125431034536899---9999999998731899749999879830-79971------788----104899999732
Q gi|254780399|r 148 FFTIPARLNFLKSEQVET---NLITDVIRRMAIAYPKVSFTFSTIKSNR-YKMNF------QST----NGNFPERISQVI 213 (594)
Q Consensus 148 F~N~PvRrkflks~~~e~---~~I~~~v~~~aL~~P~V~f~l~~~~~~~-~~l~~------~~~----~~~l~~ri~~i~ 213 (594)
||.+..|+ ..|.+++.+|+=. |.|-...++... ..+.. .+. ...+.+-...++
T Consensus 177 ----------lk~d~~efl~~~~i~~li~kYs~f---i~~PI~l~~~~~~e~iN~~~~iW~r~~~eit~eey~~FYk~~~ 243 (612)
T PRK05218 177 ----------LKEDEDEFLDEWRIRSIIKKYSDH---IPVPIELEKEEEKETINKASALWTRSKSEITDEEYKEFYKHLA 243 (612)
T ss_pred ----------ECCHHHHHCCHHHHHHHHHHHCCC---CCCCEEECCCCCCEECCCCCCCCCCCCHHCCHHHHHHHHHHHC
T ss_conf ----------886067644788999999974046---5533497145550321578787447800127899999999862
Q ss_pred HHHHHHHHHHCCCCC-EEEEEEEEECCCCC------CCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf 166654310022442-03656666216110------33232066775152100075888999987554427999807999
Q gi|254780399|r 214 GEDFINNAVELNEKS-NEITLQGYTGIPTF------NRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPVVVL 286 (594)
Q Consensus 214 G~~~~~~l~~i~~~~-~~~~i~G~is~P~~------~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~~vL 286 (594)
+. +.+-+..+.... +.+.++|.+=.|.. .+..+...-+|+|+=.|.+. ..++||. | ..|+
T Consensus 244 ~~-~~~Pl~~ih~~~eg~~~~~~llyiP~~~p~~~~~~~~~~~ikLY~~rVfI~d~---------~~~lLP~--w-l~Fv 310 (612)
T PRK05218 244 HD-FDDPLLWIHNKVEGPFEYTGLLYIPKKAPFDLFNRDRKHGLKLYVKRVFIMDD---------AEELLPE--Y-LRFV 310 (612)
T ss_pred CC-CCCCCEEEECCCCCCCCEEEEEECCCCCCHHHHHHCCCCCEEEEEECCEEECC---------HHHHCCH--H-HHHE
T ss_conf 67-66871145325688742258986478784444301024663899842053066---------4554806--5-5232
Q ss_pred EEEEEHHHHCCCCC
Q ss_conf 99960657124757
Q gi|254780399|r 287 LLEIDPRQVDVNVH 300 (594)
Q Consensus 287 ~i~i~p~~vDVNVH 300 (594)
.--++...+-.||.
T Consensus 311 rGVVDS~DLpLNvS 324 (612)
T PRK05218 311 KGVIDSEDLPLNVS 324 (612)
T ss_pred EEEEECCCCCCCCC
T ss_conf 68862576775425
No 21
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=98.95 E-value=3.2e-09 Score=85.97 Aligned_cols=223 Identities=15% Similarity=0.232 Sum_probs=137.2
Q ss_pred CCCHHHHHHHHHHHHHHC----CCCEEEEEEECCCEEEEEEEECCCCCCHH--------HHHHH-HCCCCCCCCHHHHHH
Q ss_conf 269789999999877726----99679999980984399999888998898--------99987-502466563124411
Q gi|254780399|r 20 IERPSIAIKELIENSLDA----ESSRVETVIAGGGKSFFQITDNGFGMTSE--------EIPMA-VQRHCTSKISDDFSN 86 (594)
Q Consensus 20 i~~~~svVkELveNSlDA----gAt~I~v~i~~~g~~~i~V~DnG~Gi~~~--------dl~~~-~~rh~TSKi~~dl~~ 86 (594)
...+...|.|.|.||+|- -|++|.|.+..+| .|.|.|||.||+-+ -++++ +.-||-+|..++-+.
T Consensus 38 ~~glhhlv~EvvDNsiDEa~aG~~~~I~V~i~~Dg--sitV~DnGRGIPvd~h~~~~~~~~E~I~t~LhAGgKFd~~~Yk 115 (725)
T PRK05644 38 GRGLHHLVYEVVDNSIDEALAGYCDEIEVTIHADG--SVSVTDNGRGIPVDIHPKEGVSAAEVVMTVLHAGGKFDGNSYK 115 (725)
T ss_pred CCCCEEEEEEEEHHHHHHHHCCCCCEEEEEECCCC--EEEEEECCCCCCCCCCCCCCCCHHHHEECCCCCCCCCCCCCCE
T ss_conf 98766889864214787986389967999996898--2999989976776345777972261300003556689999635
Q ss_pred CCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCC-C--CCCCCCCCEEEEEHHHHHHHHHHHCCCCHH
Q ss_conf 214884048999876202-489998048986301551101000002-1--101256757885210121125431034536
Q gi|254780399|r 87 IHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSV-R--PVAMNPGTIVEVRDLFFTIPARLNFLKSEQ 162 (594)
Q Consensus 87 i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~-~--~~~~~~GT~V~V~~LF~N~PvRrkflks~~ 162 (594)
+ |=|--|--.+.--++| .++++++..+. -|+..++.|..... + ......||+|+-. |=-..| ....
T Consensus 116 v-SGGLHGVGasvVNALS~~~~VeV~RdGk--~y~q~f~~G~~~~~l~~ig~~~k~GT~ItF~------PD~~iF-~~~~ 185 (725)
T PRK05644 116 V-SGGLHGVGVSVVNALSEWLELTVRRDGK--IHRQEFERGVPVAPLKVIGETDKTGTTVRFW------PDPEIF-TTTE 185 (725)
T ss_pred E-ECCCCCCCCEEEEECCCEEEEEEEECCE--EEEEEEECCCCCCCCEECCCCCCCCEEEEEE------ECHHHC-CCCC
T ss_conf 3-1688880203216054708999998999--9999972897588852467888896599999------775661-7744
Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEECCC--C-EEEEECCCCCHHHHHHHHHHHHH--HHHHHHHHCCCCCEEEEEEEEE
Q ss_conf 89999999999987318997499998798--3-07997178810489999973216--6654310022442036566662
Q gi|254780399|r 163 VETNLITDVIRRMAIAYPKVSFTFSTIKS--N-RYKMNFQSTNGNFPERISQVIGE--DFINNAVELNEKSNEITLQGYT 237 (594)
Q Consensus 163 ~e~~~I~~~v~~~aL~~P~V~f~l~~~~~--~-~~~l~~~~~~~~l~~ri~~i~G~--~~~~~l~~i~~~~~~~~i~G~i 237 (594)
-....|.+.++.+|..+|+|.+.|+.... . ...+.+.. .+.+-+..+-.. .+.+..+.++.+..++.+..-+
T Consensus 186 fd~d~L~~RlrelA~Ln~GL~I~l~Der~~~~~~~~f~y~g---Gi~dyv~~l~~~k~~l~~~~i~~~~e~~~i~vEvAl 262 (725)
T PRK05644 186 FDYETLAKRLRELAFLNSGVKITLTDEREGEGKEETFHYEG---GIKSFVEYLNRNKTPLHPEIIYFEGEKDGIGVEVAM 262 (725)
T ss_pred CCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCEEEEEECC---CHHHHHHHHHCCCCCCCCCCEEEEEEECCEEEEEEE
T ss_conf 08999999999997217984799864577877614897147---678889886257876788855899864780699999
Q ss_pred CCCCCCCCCCHHHHHHHCCCHHH
Q ss_conf 16110332320667751521000
Q gi|254780399|r 238 GIPTFNRGNANQFYVFINGRTVQ 260 (594)
Q Consensus 238 s~P~~~r~~~~~q~ifVNgR~V~ 260 (594)
. ++-+-...++-|||+=+=.
T Consensus 263 q---w~d~~~e~i~SFvN~I~T~ 282 (725)
T PRK05644 263 Q---WNDSYSENVLCFTNNIPTR 282 (725)
T ss_pred E---ECCCCCCEEEEEECCEECC
T ss_conf 8---5477663145542143558
No 22
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=98.90 E-value=1.8e-08 Score=80.51 Aligned_cols=250 Identities=15% Similarity=0.193 Sum_probs=144.1
Q ss_pred HHHHHHHHHHHC----CCCEEEEEEECCCEEEEEEEECCCCCCHHH--------HHHH-HCCCCCCCCHHHHHHCCCCCC
Q ss_conf 999999877726----996799999809843999998889988989--------9987-502466563124411214884
Q gi|254780399|r 26 AIKELIENSLDA----ESSRVETVIAGGGKSFFQITDNGFGMTSEE--------IPMA-VQRHCTSKISDDFSNIHTFGF 92 (594)
Q Consensus 26 vVkELveNSlDA----gAt~I~v~i~~~g~~~i~V~DnG~Gi~~~d--------l~~~-~~rh~TSKi~~dl~~i~t~GF 92 (594)
.|.|.|.||+|- -|+.|.|.+..+| .|.|.|||.||+-+- ++++ +.-||-+|..++-+.+ |=|-
T Consensus 5 l~~EIldNsvDe~~~g~~~~I~V~i~~dg--sisV~DnGrGIPv~~h~~~~~~~~E~i~t~LhaGgkFd~~~yk~-sGGl 81 (594)
T smart00433 5 LVDEIVDNAADEALAGYMDTIKVTIDKDN--SISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKV-SGGL 81 (594)
T ss_pred EEEEEEECHHHHHHHCCCCEEEEEECCCC--EEEEEECCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCEE-ECCC
T ss_conf 98456673776884289977999992798--49999899765423667679712014761322436889985167-0678
Q ss_pred CHHHHHHHHHHE-EEEEEEECCCCCCCEEEEEC-CCCCCC---CCCCCCCCCCEEEEEHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 048999876202-48999804898630155110-100000---2110125675788521012112543103453689999
Q gi|254780399|r 93 RGEALPSIGAVS-HLTLMSRPPQNNTGAQIAIS-GEKISS---VRPVAMNPGTIVEVRDLFFTIPARLNFLKSEQVETNL 167 (594)
Q Consensus 93 RGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~-~g~~~~---~~~~~~~~GT~V~V~~LF~N~PvRrkflks~~~e~~~ 167 (594)
-|--.+.--++| .++++++..+ .-|...++ ||.... ........||+|+-. |=-..|-....-....
T Consensus 82 hGvGasvvNalS~~f~Vev~r~g--k~y~q~f~~~g~~~~~~~~~~~~~k~GT~I~F~------PD~~iF~~~~~~~~~~ 153 (594)
T smart00433 82 HGVGASVVNALSTEFEVEVARDG--KEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFK------PDLEIFGMTTDDDFEL 153 (594)
T ss_pred CCCCEEEEEECCCEEEEEEEECC--EEEEEEECCCCEECCCCEECCCCCCCCEEEEEE------ECHHHHCCCCCCCHHH
T ss_conf 87114765841273999999899--999999908884898855547889995199999------7878839975466999
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHH--HHHHHHHCCCCCEEEEEEEEECCCCCCCC
Q ss_conf 9999999873189974999987983079971788104899999732166--65431002244203656666216110332
Q gi|254780399|r 168 ITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGED--FINNAVELNEKSNEITLQGYTGIPTFNRG 245 (594)
Q Consensus 168 I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~--~~~~l~~i~~~~~~~~i~G~is~P~~~r~ 245 (594)
|.+.++.+|..+|++.+.|+............ .+.+.+-+..+.+.. +....+....+..+.++.--+.- +-.
T Consensus 154 l~~Rl~~~A~Ln~gl~I~lnder~~~~~~f~~--~~Gl~dyv~~~~~~~~~~~~~~~~~~~~~~~~~~eva~~~---s~~ 228 (594)
T smart00433 154 LKRRLRELAFLNKGVKITLNDERSDEEETFLF--EGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQY---TDG 228 (594)
T ss_pred HHHHHHHHHCCCCCCEEEEEEECCCCEEEEEC--CCCHHHHHHHHCCCCCCCCCCCEEEEEEECCCEEEEEEEE---CCC
T ss_conf 99999998423888389999843784578971--7879999998538987678874587787168269999996---598
Q ss_pred CCHHHHHHHCCCHHHC---------HHHHHHHHHHHHHHC-CC---------CCCEEEEEEEEEE
Q ss_conf 3206677515210007---------588899998755442-79---------9980799999960
Q gi|254780399|r 246 NANQFYVFINGRTVQD---------KFILSTIRTAYAETI-PL---------GRYPVVVLLLEID 291 (594)
Q Consensus 246 ~~~~q~ifVNgR~V~~---------~~l~~AI~~aY~~~l-~~---------g~~P~~vL~i~i~ 291 (594)
....|+-|||+=+-.+ ..|.++|++--+..- .+ ..+-.+|+.+.++
T Consensus 229 ~~~~~~SFvN~I~T~~GGTHv~gf~~al~~~i~~~~~k~~~~K~~~i~~~DIregL~~vIsvki~ 293 (594)
T smart00433 229 YSENIVSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKNIKGEDVREGLTAFISVKIP 293 (594)
T ss_pred CCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHCCCEEEEEEEEC
T ss_conf 87210002314788999848899999999999999998474244679999985233699999824
No 23
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=98.86 E-value=5.6e-09 Score=84.16 Aligned_cols=220 Identities=15% Similarity=0.245 Sum_probs=130.0
Q ss_pred CCHHHHHHHHHHHHHHC----CCCEEEEEEECCCEEEEEEEECCCCCCHHH--------HHHH-HCCCCCCCCHHHHHHC
Q ss_conf 69789999999877726----996799999809843999998889988989--------9987-5024665631244112
Q gi|254780399|r 21 ERPSIAIKELIENSLDA----ESSRVETVIAGGGKSFFQITDNGFGMTSEE--------IPMA-VQRHCTSKISDDFSNI 87 (594)
Q Consensus 21 ~~~~svVkELveNSlDA----gAt~I~v~i~~~g~~~i~V~DnG~Gi~~~d--------l~~~-~~rh~TSKi~~dl~~i 87 (594)
..+...+.|.|.||+|- -|++|.|.+...| .|.|.|||.||+-+- ++++ +.-||-||..++-+.+
T Consensus 36 ~Gl~hi~~EIldNavDe~~~g~~~~I~V~i~~dg--sIsV~dnGrGIPv~~h~~~~~~~~ElIft~LhaGgkfd~~~ykv 113 (633)
T PRK05559 36 RGLHHLVQEVIDNSVDEALAGHGKKIEVTLHADG--SVSVRDNGRGIPVGIHPEEGKSGVEVILTKLHAGGKFSNKAYKF 113 (633)
T ss_pred CCCEEEEEEEEECHHHHHHCCCCCEEEEEECCCC--EEEEEECCCCCCCCCCCCCCCCCHHHHEEECCCCCCCCCCCCEE
T ss_conf 8562888776551142765078976999997898--49999899654551756579761566100204578889985155
Q ss_pred CCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCCCC----CC--CCCCCEEEEEHHHHHHHHHHHCCCC
Q ss_conf 14884048999876202-48999804898630155110100000211----01--2567578852101211254310345
Q gi|254780399|r 88 HTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSVRP----VA--MNPGTIVEVRDLFFTIPARLNFLKS 160 (594)
Q Consensus 88 ~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~~~----~~--~~~GT~V~V~~LF~N~PvRrkflks 160 (594)
|-|--|--...--+.| .+++.++.. .. -|+.+++.|......+ .. ...||+|+ |.-=|.| | ..
T Consensus 114 -SGGlhGvGasvvNalS~~f~Vev~r~-gk-~y~q~f~~g~~~~~~~~i~~~~~~~~~GT~It----F~PD~~i--F-~~ 183 (633)
T PRK05559 114 -SGGLHGVGVSVVNALSERLEVEVKRD-GK-VYRQRFERGEPVTPLEVVGGTKGKRKTGTRVR----FWPDPKI--F-DS 183 (633)
T ss_pred -ECCCCCCCEEEEEEEECCEEEEEEEC-CE-EEEEEECCCEECCCCCEECCCCCCCCCCEEEE----EEECHHH--H-CC
T ss_conf -07877621267087305589999989-99-99999549909888513045678788834999----9988578--3-77
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCC
Q ss_conf 36899999999999873189974999987983079971788104899999732166654310022442036566662161
Q gi|254780399|r 161 EQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIP 240 (594)
Q Consensus 161 ~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P 240 (594)
..-....|.+.+++.|..+|+|.+.|+........+.+. +.+.+-+..+.+..-.-....+.. ..+..+.--++-
T Consensus 184 ~~~~~d~l~~rl~~~A~l~~gl~I~lnder~~~~~F~~e---~Gi~dyv~~~~~~~~~i~~~~~~~-~~~~~veval~~- 258 (633)
T PRK05559 184 AKFSPERLKERLRSKAFLCPGLEITLNDERTGEETFHYE---NGLKDYLAELNEGKELLPVEPFEG-DEGEAVEWALAW- 258 (633)
T ss_pred CEECHHHHHHHHHHHHHCCCCCEEEEEECCCCCEEEECC---CCHHHHHHHHHCCCCCCCCCEEEC-CCCCEEEEEEEE-
T ss_conf 254289999999998632799779998246773446647---619999998617997578642875-579759999994-
Q ss_pred CCCCCCCHHHHHHHCCCHH
Q ss_conf 1033232066775152100
Q gi|254780399|r 241 TFNRGNANQFYVFINGRTV 259 (594)
Q Consensus 241 ~~~r~~~~~q~ifVNgR~V 259 (594)
+-.....|+-|||+=+=
T Consensus 259 --~~~~~~~~~SFVN~I~T 275 (633)
T PRK05559 259 --LEGGSENIESYVNLIPT 275 (633)
T ss_pred --CCCCCCEEEEEECCCCC
T ss_conf --47888447656887057
No 24
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2.9e-07 Score=71.85 Aligned_cols=268 Identities=22% Similarity=0.322 Sum_probs=143.6
Q ss_pred CCCHHHHHHHHHHHHHHCC------------------CCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCC---
Q ss_conf 2697899999998777269------------------9679999980984399999888998898999875024665---
Q gi|254780399|r 20 IERPSIAIKELIENSLDAE------------------SSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTS--- 78 (594)
Q Consensus 20 i~~~~svVkELveNSlDAg------------------At~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TS--- 78 (594)
-.++---+||||.||-||- .-+|+|.++...+. +.|+|||.||+++|+.--+--=|-|
T Consensus 25 YSnKeIFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~kT-LtI~DNGIGMT~~Ev~~~LgTIAkSgT~ 103 (623)
T COG0326 25 YSNKEIFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDNKT-LTISDNGIGMTKDEVIENLGTIAKSGTK 103 (623)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEECCCCCE-EEEEECCCCCCHHHHHHHHHHHHHCCHH
T ss_conf 577079999998506899999887752682114788884489976366787-9997278788899999987775100279
Q ss_pred ----CCHHH---HHHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCCCCCCCC--CCCEEEEEHHH
Q ss_conf ----63124---411214884048999876202-489998048986301551101000002110125--67578852101
Q gi|254780399|r 79 ----KISDD---FSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSVRPVAMN--PGTIVEVRDLF 148 (594)
Q Consensus 79 ----Ki~~d---l~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~~~~~~~--~GT~V~V~~LF 148 (594)
++++| -.=|.-|| =...|-=-|+ +|++.||..+.+.+|+..-+|...-.++++... +||+|+..
T Consensus 104 ~F~~~l~~~~~~~~lIGQFG---VGFYSaFmVAdkV~V~T~~~~~~~~~~W~S~g~g~ytv~~~~~~~~~GT~I~L~--- 177 (623)
T COG0326 104 EFLESLSEDQKDSDLIGQFG---VGFYSAFMVADKVTVITRSAGEDEAYHWESDGEGEYTVEDIDKEPRRGTEITLH--- 177 (623)
T ss_pred HHHHHHHCCCCCCCCCCCCC---CHHHHEEEEEEEEEEEECCCCCCCCCEEEECCCCCEEEEECCCCCCCCCEEEEE---
T ss_conf 99987303544544002455---003420255116899964689986606877698746776566778788579999---
Q ss_pred HHHHHHHHCCCCHHH---HHHHHHHHHHHHHH--CCCCCEEEEEECC---------CCEE-EEECCCCCHHHHHHHHHHH
Q ss_conf 211254310345368---99999999999873--1899749999879---------8307-9971788104899999732
Q gi|254780399|r 149 FTIPARLNFLKSEQV---ETNLITDVIRRMAI--AYPKVSFTFSTIK---------SNRY-KMNFQSTNGNFPERISQVI 213 (594)
Q Consensus 149 ~N~PvRrkflks~~~---e~~~I~~~v~~~aL--~~P~V~f~l~~~~---------~~~~-~l~~~~~~~~l~~ri~~i~ 213 (594)
||-... +--+|.++|.+|+- ..| |.+...... -+.. -++..+.+.--.+.....|
T Consensus 178 ---------Lk~~e~efl~~~rl~~ivkkYSd~i~~P-I~~~~~~~~~~~~~~~e~iN~~~alW~r~ksei~~eeY~~FY 247 (623)
T COG0326 178 ---------LKEEEDEFLEEWRLREIVKKYSDHIAYP-IYIEGEKEKDEEVIEWETINKAKALWTRNKSEITDEEYKEFY 247 (623)
T ss_pred ---------ECCCHHHHHHHHHHHHHHHHHHCCCCCC-EEEEEECCCCCCCHHHHHHCCCCCCCCCCHHHCCHHHHHHHH
T ss_conf ---------8876677740667999999873254316-699642255544104777544667545791447958899999
Q ss_pred HH---HHHHHHHHCCCCCEE-EEEEEEECCCC------CCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHHHHCCCCCCEE
Q ss_conf 16---665431002244203-65666621611------033232066775152100075888999987554427999807
Q gi|254780399|r 214 GE---DFINNAVELNEKSNE-ITLQGYTGIPT------FNRGNANQFYVFINGRTVQDKFILSTIRTAYAETIPLGRYPV 283 (594)
Q Consensus 214 G~---~~~~~l~~i~~~~~~-~~i~G~is~P~------~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~~~l~~g~~P~ 283 (594)
-. .+.+-+.-+....++ +...+.+=.|. +.+..+..+-+|||+=+|.|.. .++|| -
T Consensus 248 k~~~~d~~~Pl~~~h~~~EG~~ey~~ll~iP~~aPfdl~~~~~k~glkLYv~rVfI~Dd~---------~~llP-----~ 313 (623)
T COG0326 248 KHLAHDFDDPLLWIHNKVEGRLEYTALLFIPSKAPFDLFRRDRKRGLKLYVNRVFIMDDA---------EDLLP-----N 313 (623)
T ss_pred HHHHCCCCCCEEEEECCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEEECCH---------HHHHH-----H
T ss_conf 874126789768885135663588899972578972201512368808999646871774---------66656-----7
Q ss_pred EEEEEE--EEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf 999999--6065712475711112553597999999999789
Q gi|254780399|r 284 VVLLLE--IDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQ 323 (594)
Q Consensus 284 ~vL~i~--i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~ 323 (594)
|.-|+. ++....-.||. +|+--.| .+...|.+++.
T Consensus 314 yl~Fv~GvIDS~DLpLNvS---RE~LQ~n--~~l~~Irk~l~ 350 (623)
T COG0326 314 YLRFVRGVIDSEDLPLNVS---REILQQN--RILAAIRKALT 350 (623)
T ss_pred HHHHHEEEEECCCCCCCCC---HHHHCCC--HHHHHHHHHHH
T ss_conf 7756211444587896437---9987469--89999999999
No 25
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=98.71 E-value=3.6e-07 Score=71.14 Aligned_cols=137 Identities=26% Similarity=0.358 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHHC----------------CCC--EEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCC---CCCCC--
Q ss_conf 89999999877726----------------996--79999980984399999888998898999875024---66563--
Q gi|254780399|r 24 SIAIKELIENSLDA----------------ESS--RVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRH---CTSKI-- 80 (594)
Q Consensus 24 ~svVkELveNSlDA----------------gAt--~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh---~TSKi-- 80 (594)
---+||||-||=|| +.. .|.|.++...+ .++|+|||.||+++||..-+--= .|...
T Consensus 27 EIFLRELISNASDAldKlr~~~lt~~~~~~~~~~l~I~I~~D~~~~-tltI~D~GIGMt~~el~~nLGTIA~SGt~~Fl~ 105 (701)
T PTZ00272 27 EIFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKENK-TLTVEDNGIGMTKADLVNNLGTIARSGTKAFME 105 (701)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCEEEEEECCCCC-EEEEEECCCCCCHHHHHHHCCCCCCHHHHHHHH
T ss_conf 0767877762799999999997369344078877359999758789-799994388889999997521011141899999
Q ss_pred --H--HHHHHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCCCCCC---CCCCCEEEEEHHHHHHH
Q ss_conf --1--24411214884048999876202-4899980489863015511010000021101---25675788521012112
Q gi|254780399|r 81 --S--DDFSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSVRPVA---MNPGTIVEVRDLFFTIP 152 (594)
Q Consensus 81 --~--~dl~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~~~~~---~~~GT~V~V~~LF~N~P 152 (594)
. .|..=|.-||- .-+|-=-|+ +|+++||..++ .+|...-+|+..-.+..++ ..+||+|+..
T Consensus 106 ~l~~~~d~~lIGQFGV---GFYSaFmVAdkV~V~sk~~~~-~~~~W~S~g~g~y~i~~~~~~~~~rGT~I~L~------- 174 (701)
T PTZ00272 106 ALEAGGDMSMIGQFGV---GFYSAYLVADRVTVTSKNNSD-ESYVWESSAGGTFTITSTPESDMKRGTRITLH------- 174 (701)
T ss_pred HHHCCCCCCCCCCCCC---CHHHEEEECCEEEEEECCCCC-CCEEEEEECCCCEEEEECCCCCCCCCCEEEEE-------
T ss_conf 9864797352346766---543201205679999646998-75589980589658885777777898579999-------
Q ss_pred HHHHCCCCHHHHH---HHHHHHHHHHHH
Q ss_conf 5431034536899---999999999873
Q gi|254780399|r 153 ARLNFLKSEQVET---NLITDVIRRMAI 177 (594)
Q Consensus 153 vRrkflks~~~e~---~~I~~~v~~~aL 177 (594)
||-+..|+ .+|.++|.+|+=
T Consensus 175 -----Lked~~efl~~~~lk~likKYS~ 197 (701)
T PTZ00272 175 -----LKEDQMEYLEPRRLKELIKKHSE 197 (701)
T ss_pred -----ECHHHHHHHHHHHHHHHHHHHCC
T ss_conf -----88048877547889999997246
No 26
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
Probab=98.68 E-value=3.5e-07 Score=71.31 Aligned_cols=84 Identities=17% Similarity=0.280 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHHCCC---CEEEEEEECC-CEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCHHHHH
Q ss_conf 78999999987772699---6799999809-8439999988899889899987502466563124411214884048999
Q gi|254780399|r 23 PSIAIKELIENSLDAES---SRVETVIAGG-GKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRGEALP 98 (594)
Q Consensus 23 ~~svVkELveNSlDAgA---t~I~v~i~~~-g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRGEAL~ 98 (594)
+..|+.+|++||+|+.. ..|.|.+... +.-.|.|+|||+||++++++.++.++.++.- -...+-.|=.|+
T Consensus 1 l~~vl~nLl~NAik~~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~------~~~~~g~GlGL~ 74 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDGDHLEIRVEDNGPGIPEEDLERIFERFSDGSR------SRKGGGTGLGLS 74 (103)
T ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCEEEEEEEECCCCCCHHHHHHCCCCCCCCCC------CCCCCCCCCHHH
T ss_conf 96999999999998678999489999998399999999977994088999760697501788------877898650599
Q ss_pred HHHHHE-----EEEEEEEC
Q ss_conf 876202-----48999804
Q gi|254780399|r 99 SIGAVS-----HLTLMSRP 112 (594)
Q Consensus 99 sIa~vs-----~l~i~s~~ 112 (594)
....+. .+++.|+.
T Consensus 75 i~~~i~~~~~G~i~i~s~~ 93 (103)
T cd00075 75 IVKKLVELHGGRIEVESEP 93 (103)
T ss_pred HHHHHHHHCCCEEEEEECC
T ss_conf 9999999889989999659
No 27
>TIGR01059 gyrB DNA gyrase, B subunit; InterPro: IPR011557 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 B subunit (gyrB) as found predominantly in bacteria, but does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. GyrB has two functional domains: an N-terminal ATPase and a C-terminal responsible for subunit interactions, the latter differing between subunit B and single polypeptide topoisomerase II . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome.
Probab=98.67 E-value=8.4e-08 Score=75.71 Aligned_cols=269 Identities=15% Similarity=0.300 Sum_probs=160.6
Q ss_pred HHHHHHHHHHHHHH---CC-CCEEEEEEECCCEEEEEEEECCCCCCHH-----H------HH---HH-HCCCCCCCCHHH
Q ss_conf 78999999987772---69-9679999980984399999888998898-----9------99---87-502466563124
Q gi|254780399|r 23 PSIAIKELIENSLD---AE-SSRVETVIAGGGKSFFQITDNGFGMTSE-----E------IP---MA-VQRHCTSKISDD 83 (594)
Q Consensus 23 ~~svVkELveNSlD---Ag-At~I~v~i~~~g~~~i~V~DnG~Gi~~~-----d------l~---~~-~~rh~TSKi~~d 83 (594)
+...|=|-|.|||| || |++|.|.|..+| .|+|+|||.||+-+ . .+ .+ ..-||==|...|
T Consensus 32 LHHlvyEVVDNaIDEAlAGyC~~I~v~i~~dg--sv~V~DnGRGIPVdIHp~eGakqGRe~SA~EvVlT~LHAGGKFD~~ 109 (818)
T TIGR01059 32 LHHLVYEVVDNAIDEALAGYCDTINVTINDDG--SVTVEDNGRGIPVDIHPEEGAKQGREISAVEVVLTVLHAGGKFDKD 109 (818)
T ss_pred CEEEEEEEECCHHHHHHCCCCCEEEEEEECCC--EEEEEECCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCEEECCC
T ss_conf 23899998434044200661241489996287--6999858858874306768787888566000122000575001588
Q ss_pred HHHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCC-C---CCCCCCCCCEEEEEHHHHHHHHHHHCC
Q ss_conf 411214884048999876202-48999804898630155110100000-2---110125675788521012112543103
Q gi|254780399|r 84 FSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISS-V---RPVAMNPGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 84 l~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~-~---~~~~~~~GT~V~V~~LF~N~PvRrkfl 158 (594)
=+.+ |=|-=|=--+---|+| .|+++=...+. -|+..|+.|.+.. + .+..-..||+|+ |.
T Consensus 110 sYKV-SGGLHGVGvSVVNALS~~L~v~v~RdGk--~y~q~F~~G~P~~~L~~~G~~~~~~GT~V~-------------F~ 173 (818)
T TIGR01059 110 SYKV-SGGLHGVGVSVVNALSEWLEVTVKRDGK--IYRQEFERGIPVGPLEVVGEETKKTGTTVR-------------FV 173 (818)
T ss_pred CEEE-ECCEEECCEEEEEECCCEEEEEEEECCE--EEEEEECCCCEECCEEEECCCCCCCCCEEE-------------EE
T ss_conf 0478-6756503279996117289999998692--999998487220530681346566676789-------------96
Q ss_pred CCHH-----H--HHHHHHHHHHHHHHCCCCCEEEEEECCCC--EE-EEECCCCCHHHHHHHHHHHH--HHHHHHHHH---
Q ss_conf 4536-----8--99999999999873189974999987983--07-99717881048999997321--666543100---
Q gi|254780399|r 159 KSEQ-----V--ETNLITDVIRRMAIAYPKVSFTFSTIKSN--RY-KMNFQSTNGNFPERISQVIG--EDFINNAVE--- 223 (594)
Q Consensus 159 ks~~-----~--e~~~I~~~v~~~aL~~P~V~f~l~~~~~~--~~-~l~~~~~~~~l~~ri~~i~G--~~~~~~l~~--- 223 (594)
.++. + ++.-+.+-++.+|--|.+|.++|...... +. .+.+.. .+++-+..+=- ..+.++.+.
T Consensus 174 PD~~iF~~~~efd~~~l~~RLrELAFLN~Gv~I~l~D~R~~~~k~~~F~YeG---GI~~fV~YLn~~K~~l~~~ii~ekt 250 (818)
T TIGR01059 174 PDPEIFEETTEFDFDILAKRLRELAFLNSGVKISLEDERLGKVKKVEFHYEG---GIKSFVKYLNRNKEPLHEEIIYEKT 250 (818)
T ss_pred ECHHHHCCCCEECHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEEECC---CHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf 0713214430332788999998888718972699987325675203787356---1899999953788224788642343
Q ss_pred -CCCCCE----EEEEEEEECCCCCCCCCCHHHHHHHCCCH-HH--------CHHHHHHHHHHHHH-HCCC-CCCE-----
Q ss_conf -224420----36566662161103323206677515210-00--------75888999987554-4279-9980-----
Q gi|254780399|r 224 -LNEKSN----EITLQGYTGIPTFNRGNANQFYVFINGRT-VQ--------DKFILSTIRTAYAE-TIPL-GRYP----- 282 (594)
Q Consensus 224 -i~~~~~----~~~i~G~is~P~~~r~~~~~q~ifVNgR~-V~--------~~~l~~AI~~aY~~-~l~~-g~~P----- 282 (594)
++.+.. ++.|. ++. .++.+=...+|.|+|+=+ .+ -..|.++|++-.+. .+.+ ..-|
T Consensus 251 t~~g~~~~~~~~i~VE--vAL-Qwnd~Y~e~i~sF~NNI~T~eGGTHl~GFr~aLTr~~n~y~~~~~l~Ki~~~~~l~Ge 327 (818)
T TIGR01059 251 TISGEKEDDDGGIEVE--VAL-QWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKKNKLLKIESKPNLTGE 327 (818)
T ss_pred EEEEEECCCCCEEEEE--EEE-EEECCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf 1577751677607999--998-7626855103788567556788611778865789999999973687532445567657
Q ss_pred ------EEEEEEEEEHHHHCCCCCC-----HH-----HHHHHCCHHHHHHHHHHHHHHHHH
Q ss_conf ------7999999606571247571-----11-----125535979999999997898875
Q gi|254780399|r 283 ------VVVLLLEIDPRQVDVNVHP-----AK-----SYIRFRNPTIIRNFIIQSIQKAIN 327 (594)
Q Consensus 283 ------~~vL~i~i~p~~vDVNVHP-----~K-----~eVrf~de~~i~~~i~~~i~~~L~ 327 (594)
.+|+.+++| .| || +||| ..|-+++.+.+.++|.
T Consensus 328 D~REGLtAViSvKvP--------~PqFEGQTK~KLGNsEVr----~~V~~~v~e~l~~f~e 376 (818)
T TIGR01059 328 DIREGLTAVISVKVP--------DPQFEGQTKTKLGNSEVR----SIVESLVYEKLTEFFE 376 (818)
T ss_pred CCCCCCEEEEEEECC--------CCCCCCCCCCCCCCCCHH----HHHHHHHHHHHHHHHH
T ss_conf 710223899998148--------789788322346464167----7788887999999975
No 28
>pfam02518 HATPase_c Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
Probab=98.64 E-value=6e-07 Score=69.61 Aligned_cols=86 Identities=20% Similarity=0.422 Sum_probs=61.4
Q ss_pred CCHHHHHHHHHHHHHHCCCC--EEEEEEEC-CCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCHHHH
Q ss_conf 69789999999877726996--79999980-9843999998889988989998750246656312441121488404899
Q gi|254780399|r 21 ERPSIAIKELIENSLDAESS--RVETVIAG-GGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRGEAL 97 (594)
Q Consensus 21 ~~~~svVkELveNSlDAgAt--~I~v~i~~-~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRGEAL 97 (594)
..+..|+.||++||+++... .|.|.+.. ++.-.|.|.|||.||++++++.+++++.++|-.. ...+-.|=.|
T Consensus 4 ~~l~~i~~nll~NAik~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~-----~~~~g~GlGL 78 (111)
T pfam02518 4 DRLRQVLSNLLDNAIKHAPAGGEIEVTLERDGGRLRITVEDNGIGIPPEDLPKIFEPFFRTDKDS-----RKVGGTGLGL 78 (111)
T ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCEECCCCC-----CCCCCCCHHH
T ss_conf 99999999999999997799975999999959999999998999959899988749917779999-----7779776479
Q ss_pred HHHHHHE-----EEEEEEE
Q ss_conf 9876202-----4899980
Q gi|254780399|r 98 PSIGAVS-----HLTLMSR 111 (594)
Q Consensus 98 ~sIa~vs-----~l~i~s~ 111 (594)
+-...+. ++.+.|+
T Consensus 79 ~i~~~~~~~~~g~i~~~s~ 97 (111)
T pfam02518 79 SIVRKLVELHGGTITVESE 97 (111)
T ss_pred HHHHHHHHHCCCEEEEEEC
T ss_conf 9999999987998999965
No 29
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=98.62 E-value=7.3e-08 Score=76.18 Aligned_cols=258 Identities=15% Similarity=0.251 Sum_probs=148.7
Q ss_pred CCCCCHHHHHHHHHHHHHHC----CCCEEEEEEECCCEEEEEEEECCCCCCHHH--------HHHH-HCCCCCCCCHHHH
Q ss_conf 72269789999999877726----996799999809843999998889988989--------9987-5024665631244
Q gi|254780399|r 18 EIIERPSIAIKELIENSLDA----ESSRVETVIAGGGKSFFQITDNGFGMTSEE--------IPMA-VQRHCTSKISDDF 84 (594)
Q Consensus 18 evi~~~~svVkELveNSlDA----gAt~I~v~i~~~g~~~i~V~DnG~Gi~~~d--------l~~~-~~rh~TSKi~~dl 84 (594)
..-..+...|.|.|.||+|- -|++|.|.+..+| .|.|.|||.||+-+= ++++ ..-||-+|..+|-
T Consensus 32 ~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~--sisV~DnGRGIPvdiH~~~~~s~vEvI~T~LHAGGKFd~~~ 109 (635)
T COG0187 32 GDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDG--SISVEDNGRGIPVDIHPKEKVSAVEVIFTVLHAGGKFDNDS 109 (635)
T ss_pred CCCCCCEEEEEEEEECCHHHHHHCCCCEEEEEECCCC--EEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCC
T ss_conf 9999650468676313074786386857899994798--08998789877654277789871178887612576669995
Q ss_pred HHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCC-CCCCCCC----CCCCEEEEEHHHHHHHHHHHCC
Q ss_conf 11214884048999876202-4899980489863015511010000-0211012----5675788521012112543103
Q gi|254780399|r 85 SNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKIS-SVRPVAM----NPGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 85 ~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~-~~~~~~~----~~GT~V~V~~LF~N~PvRrkfl 158 (594)
+.+ |=|--|-..+---++| .|+++.+..+. -|+..++.|... ..+.++. ..||+|+-. -=|-. |
T Consensus 110 Ykv-SGGLHGVG~SVVNALS~~l~v~v~r~gk--~y~q~f~~G~~~~~l~~ig~~~~~~~GT~V~F~----PD~~i--F- 179 (635)
T COG0187 110 YKV-SGGLHGVGVSVVNALSTWLEVEVKRDGK--IYRQRFERGVPVTPLEVIGSTDTKKTGTKVRFK----PDPEI--F- 179 (635)
T ss_pred CEE-ECCCCCCCEEEEECCCCEEEEEEEECCE--EEEEEEECCCCCCCCEECCCCCCCCCCCEEEEE----CCHHH--C-
T ss_conf 276-0677750416776165469999998987--999987189857774012567778995289997----48686--2-
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEE--EECCCCCHHHHHHHHHHHHHH--HHHHHHHCCCCCEEEEEE
Q ss_conf 4536899999999999873189974999987983079--971788104899999732166--654310022442036566
Q gi|254780399|r 159 KSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYK--MNFQSTNGNFPERISQVIGED--FINNAVELNEKSNEITLQ 234 (594)
Q Consensus 159 ks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~--l~~~~~~~~l~~ri~~i~G~~--~~~~l~~i~~~~~~~~i~ 234 (594)
....-.+..+.+.++.+|.-+++|.+.|+........ +.+. +.+.+-+..+-... +.+..+..+.+..++.++
T Consensus 180 ~~~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~~~~~~ye---~Gl~~yv~~l~~~k~~l~~~~~~~~~~~~~~~vE 256 (635)
T COG0187 180 GETEFDYEILKRRLRELAFLNKGVKITLTDERTGEEKKEFHYE---GGLKDYVEYLNKGKTPLHEEIFYFNGEKDGIAVE 256 (635)
T ss_pred CCCCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCEEECC---CHHHHHHHHHHCCCCCCCCCCEECCCCCCCEEEE
T ss_conf 7766679999999999860679977999724677554324346---0799999997258864565756513676663799
Q ss_pred EEECCCCCCCCCCHHHHHHHCCCHHHC---------HHHHHHHHHHHH--HHCCCC--------CCEEEEEEEEEEHH
Q ss_conf 662161103323206677515210007---------588899998755--442799--------98079999996065
Q gi|254780399|r 235 GYTGIPTFNRGNANQFYVFINGRTVQD---------KFILSTIRTAYA--ETIPLG--------RYPVVVLLLEIDPR 293 (594)
Q Consensus 235 G~is~P~~~r~~~~~q~ifVNgR~V~~---------~~l~~AI~~aY~--~~l~~g--------~~P~~vL~i~i~p~ 293 (594)
--+. ++-+....++-|||+=+-.+ ..|.++|++-.+ ..++.+ .--.+||.+.+|--
T Consensus 257 vA~q---~~d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~l~g~Diregl~aviSvki~~P 331 (635)
T COG0187 257 VALQ---WNDGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGDLTGDDIREGLTAVISVKIPDP 331 (635)
T ss_pred EEEE---EECCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCEEEEEEECCCC
T ss_conf 9999---80688447998645855899860899999999999999999838665357777787503389999977998
No 30
>PTZ00130 heat shock protein 90; Provisional
Probab=98.56 E-value=1.9e-06 Score=65.98 Aligned_cols=142 Identities=23% Similarity=0.309 Sum_probs=91.9
Q ss_pred CCCCHHH----HHHHHHHHHHHC---------------CC---CEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHC---
Q ss_conf 2269789----999999877726---------------99---6799999809843999998889988989998750---
Q gi|254780399|r 19 IIERPSI----AIKELIENSLDA---------------ES---SRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQ--- 73 (594)
Q Consensus 19 vi~~~~s----vVkELveNSlDA---------------gA---t~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~--- 73 (594)
+|.+++| -+||||=||=|| +. =.|.|.++.... .++|+|||.||+++||..-+-
T Consensus 89 iInSLYSnKEIFLRELISNASDALDKlRf~sLtd~~~~~~~~~l~I~I~~Dke~k-tLtI~DtGIGMTk~eLi~NLGTIA 167 (824)
T PTZ00130 89 IVNSLYTQKEVFLRELISNAADALEKIRFLSLSDEKVLGEEKKLEIRISANKEKN-ILSITDTGIGMTKEDLINNLGTIA 167 (824)
T ss_pred HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCEEEEEECCCCC-EEEEEECCCCCCHHHHHHHCCCCE
T ss_conf 9860567721778888764899999999997179243088888569989758899-899984488888999998569133
Q ss_pred CCCCCCC----H---HHHHHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCCCCC----CCCCCCE
Q ss_conf 2466563----1---24411214884048999876202-489998048986301551101000002110----1256757
Q gi|254780399|r 74 RHCTSKI----S---DDFSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSVRPV----AMNPGTI 141 (594)
Q Consensus 74 rh~TSKi----~---~dl~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~~~~----~~~~GT~ 141 (594)
+-.|... . .|..=|.-|| =.-+|-=-|+ +|++.||+.++ .+|...-+|+..-.+.+. ...+||.
T Consensus 168 kSGTk~Fle~l~~~~~d~~LIGQFG---VGFYSaFmVAdkV~V~SK~~~d-e~~~WeS~g~gsftI~~~~~~~~l~RGT~ 243 (824)
T PTZ00130 168 KSGTSNFLEAISKSGGDMSLIGQFG---VGFYSAFLVADKVIVYTKNNDD-EQYIWESTADAKFSIYKDPRGATLKRGTR 243 (824)
T ss_pred EHHHHHHHHHHHHCCCCCCCCCCCC---CCHHHHHHCCCEEEEEECCCCC-CCEEEEEECCCCEEEEECCCCCCCCCCEE
T ss_conf 3528999999873589701026777---5254443106768999578999-64089980678558886777777789706
Q ss_pred EEEEHHHHHHHHHHHCCCCHHHHH---HHHHHHHHHHHH
Q ss_conf 885210121125431034536899---999999999873
Q gi|254780399|r 142 VEVRDLFFTIPARLNFLKSEQVET---NLITDVIRRMAI 177 (594)
Q Consensus 142 V~V~~LF~N~PvRrkflks~~~e~---~~I~~~v~~~aL 177 (594)
|+. +||-+..|+ .+|.++|.+|+=
T Consensus 244 I~L------------hLKed~~Eflee~rik~lVkKYS~ 270 (824)
T PTZ00130 244 ISL------------HLKDDATNLLNDKKLMDLISKYSQ 270 (824)
T ss_pred EEE------------EECCCHHHHHHHHHHHHHHHHHCC
T ss_conf 999------------856756766547889999998513
No 31
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=98.55 E-value=4.6e-07 Score=70.42 Aligned_cols=15 Identities=13% Similarity=0.326 Sum_probs=9.4
Q ss_pred CCEEEEEEEECCCCCC
Q ss_conf 9843999998889988
Q gi|254780399|r 49 GGKSFFQITDNGFGMT 64 (594)
Q Consensus 49 ~g~~~i~V~DnG~Gi~ 64 (594)
.|..+| |.=|..||.
T Consensus 86 t~a~fI-VV~d~~gIR 100 (537)
T COG3290 86 TDADFI-VVGDMKGIR 100 (537)
T ss_pred CCCEEE-EEECCCCCE
T ss_conf 196189-995688624
No 32
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=98.52 E-value=1.7e-06 Score=66.32 Aligned_cols=58 Identities=17% Similarity=0.370 Sum_probs=49.2
Q ss_pred CHHHHHHHHHHHHHHCCCC--EEEEEEEC-CCEEEEEEEECCCCCCHHHHHHHHCCCCCCC
Q ss_conf 9789999999877726996--79999980-9843999998889988989998750246656
Q gi|254780399|r 22 RPSIAIKELIENSLDAESS--RVETVIAG-GGKSFFQITDNGFGMTSEEIPMAVQRHCTSK 79 (594)
Q Consensus 22 ~~~svVkELveNSlDAgAt--~I~v~i~~-~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSK 79 (594)
.+..++.+|++||+++... .|.|.+.. .+.-.|.|.|||.||+++++..+++++.+.+
T Consensus 5 ~l~~il~Nli~NAik~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~ 65 (111)
T smart00387 5 RLRQVLSNLLDNAIKYTPEGGRITVTLERDGDHLEITVEDNGPGIPPEDLEKIFEPFFRTD 65 (111)
T ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCEEEEEEEECCCCCCHHHHHHCCCCCEECC
T ss_conf 9999999999999996779978999999839999999998899739899964269947779
No 33
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.49 E-value=2e-06 Score=65.85 Aligned_cols=21 Identities=10% Similarity=0.086 Sum_probs=14.8
Q ss_pred CCCCCCHHHHHHHHHHHHHCC
Q ss_conf 588889899999999998188
Q gi|254780399|r 548 SGRKMQSIEMNRLLREMEKNP 568 (594)
Q Consensus 548 ~gd~L~~~e~~~Li~~L~~c~ 568 (594)
.|.-|-..=++.+++.+.-.=
T Consensus 496 ~g~GLGLaIvk~iVe~~gG~I 516 (541)
T PRK11086 496 SNRGVGLYLVKQSVENLGGSI 516 (541)
T ss_pred CCCCCCHHHHHHHHHHCCCEE
T ss_conf 991103999999999859989
No 34
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase; InterPro: IPR014265 Proteins in this entry are putative periplasmic sensor signal transduction histidine kinases. They all contain a GAF domain that is present in phytochromes and cGMP-specific phosphodiesterases, and which has been experimentally proven to be involved in protein:protein interactions. They also contain a C-terminal histidine kinase domain, which is composed of a dimerisation sub-domain and an ATP/ADP-binding phosphotransfer, or catalytic, sub-domain. The proteins in this entry are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria, where members of IPR014264 from INTERPRO and IPR014266 from INTERPRO also occur..
Probab=98.40 E-value=8.2e-07 Score=68.62 Aligned_cols=59 Identities=29% Similarity=0.446 Sum_probs=42.8
Q ss_pred CCHHHHHHHHHHHHHHCCCCE--EEEEEE--CCCEEEEEEEECCCCCCHHHH-HHHHCCCCCCC
Q ss_conf 697899999998777269967--999998--098439999988899889899-98750246656
Q gi|254780399|r 21 ERPSIAIKELIENSLDAESSR--VETVIA--GGGKSFFQITDNGFGMTSEEI-PMAVQRHCTSK 79 (594)
Q Consensus 21 ~~~~svVkELveNSlDAgAt~--I~v~i~--~~g~~~i~V~DnG~Gi~~~dl-~~~~~rh~TSK 79 (594)
||..+||-.||+||+||=-.. |.|+++ .|+.-.|.|+|+||||+++=. +..++++.|+|
T Consensus 593 erl~rV~gHL~QNAlEAT~~~G~V~~~~~~~~~~~a~i~i~D~G~GM~~~FiR~rLF~PF~tTK 656 (696)
T TIGR02916 593 ERLERVLGHLVQNALEATPEEGRVKIRVERECGGAAVIEIEDSGCGMSEAFIRERLFKPFDTTK 656 (696)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHCCCCCCCCC
T ss_conf 8899999999998886049996289998741888227999865789985899840789975445
No 35
>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=98.27 E-value=5.3e-06 Score=62.77 Aligned_cols=160 Identities=23% Similarity=0.355 Sum_probs=116.1
Q ss_pred CCCHHHHHHHHHHHHHH---CC-CCEEEEEEECCCEEEEEEEECCCCCCHHHHH----------HHHCCCCCCCCHHHHH
Q ss_conf 26978999999987772---69-9679999980984399999888998898999----------8750246656312441
Q gi|254780399|r 20 IERPSIAIKELIENSLD---AE-SSRVETVIAGGGKSFFQITDNGFGMTSEEIP----------MAVQRHCTSKISDDFS 85 (594)
Q Consensus 20 i~~~~svVkELveNSlD---Ag-At~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~----------~~~~rh~TSKi~~dl~ 85 (594)
-.+|...+.|.+.||+| || |+.|.|.+..+ ..|+|.|||.||+-|.=| ..+.-|+-||.+..-+
T Consensus 31 ~~~~~HL~~EV~DN~~DEA~AGfA~~i~v~lH~D--~Si~v~D~GRG~PvD~HP~~P~~sa~EvILt~LHaG~KFSN~~Y 108 (647)
T TIGR01055 31 TTRPNHLVQEVIDNSVDEALAGFASKIEVILHQD--QSIEVIDNGRGMPVDIHPKEPGVSAVEVILTKLHAGGKFSNKNY 108 (647)
T ss_pred CCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCC--CEEEEEECCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCC
T ss_conf 6530134555443335555406530788998289--61799888830344278888888623556430057852114440
Q ss_pred HCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCC-CCCC---CCCC-CCCCCCEEEEEHHHHHHHHHHHCCC
Q ss_conf 1214884048999876202-4899980489863015511010-0000---2110-1256757885210121125431034
Q gi|254780399|r 86 NIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGE-KISS---VRPV-AMNPGTIVEVRDLFFTIPARLNFLK 159 (594)
Q Consensus 86 ~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g-~~~~---~~~~-~~~~GT~V~V~~LF~N~PvRrkflk 159 (594)
+. +=|.-|=.++-.-++| ++.|.-+..+. -|.+.|+.| ++.. .+.| .+..||.|.- .--| +|+.
T Consensus 109 ~~-sGGLHGVGISVVNALS~~~~i~V~~~G~--~Y~~af~~G~K~~dL~~~~~~GkR~~GT~v~F----~Pd~---~~F~ 178 (647)
T TIGR01055 109 EF-SGGLHGVGISVVNALSKRVKIKVKRQGK--LYSIAFENGAKVTDLEVVGTCGKRLTGTSVHF----TPDP---EIFD 178 (647)
T ss_pred CC-CCCEECCHHHHEEECCCEEEEEEEECCE--EEEHHHHCCCCHHHHHHHHCCCCCCCCCEEEE----CCCC---CHHC
T ss_conf 13-6860021432022013236789974670--43202215751102332112677655635773----1682---0103
Q ss_pred C-HHHHHHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 5-3689999999999987318997499998798
Q gi|254780399|r 160 S-EQVETNLITDVIRRMAIAYPKVSFTFSTIKS 191 (594)
Q Consensus 160 s-~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~ 191 (594)
+ .+=.-++|.++.+.-|.-+++|.+++...-+
T Consensus 179 ~k~~F~~~~l~~~~raKA~L~~Gv~I~f~~~v~ 211 (647)
T TIGR01055 179 SKLKFSVSRLYHILRAKAVLCRGVEIEFEDEVN 211 (647)
T ss_pred CCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEEC
T ss_conf 122557899999986324202672078975106
No 36
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=98.24 E-value=3.2e-06 Score=64.38 Aligned_cols=159 Identities=23% Similarity=0.333 Sum_probs=106.6
Q ss_pred CCCHHHHHHHHHHHHHH---C-CCCEEEEEEECCCEEEEEEEECCCCCCHH--------HHHHHH-CCCCCCCCHHHH--
Q ss_conf 26978999999987772---6-99679999980984399999888998898--------999875-024665631244--
Q gi|254780399|r 20 IERPSIAIKELIENSLD---A-ESSRVETVIAGGGKSFFQITDNGFGMTSE--------EIPMAV-QRHCTSKISDDF-- 84 (594)
Q Consensus 20 i~~~~svVkELveNSlD---A-gAt~I~v~i~~~g~~~i~V~DnG~Gi~~~--------dl~~~~-~rh~TSKi~~dl-- 84 (594)
...+...|-|.|.||+| | -|++|.|.+..+|. |+|+|||.||+-+ -++.++ .-||--|..+|=
T Consensus 83 ~~GlHHlv~EIvDNSvDEalaG~c~~I~V~l~~DgS--vtV~DnGRGIPvD~hpk~~~salEvVlT~LHAGGKF~dd~~~ 160 (941)
T PTZ00109 83 VKGLHQILFEIIDNSVDEYNNFECNEIKIVIHKDDS--VTIEDNGRGIPCDVHEKTKKSALETVLTVLHSGAKFFDDEAD 160 (941)
T ss_pred CCCCCCEEEEEHHCHHHHHHCCCCCEEEEEEECCCC--EEEEECCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCC
T ss_conf 986321221001256879861899668999947997--899889976788878888985028888541557565776443
Q ss_pred ---H------------------------------------------------------------------HCCCCCCCHH
Q ss_conf ---1------------------------------------------------------------------1214884048
Q gi|254780399|r 85 ---S------------------------------------------------------------------NIHTFGFRGE 95 (594)
Q Consensus 85 ---~------------------------------------------------------------------~i~t~GFRGE 95 (594)
. =-.|=|-.|-
T Consensus 161 ~~~d~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~g~~~~~~~~~~~~~~~~a~~k~~~~~Yk~SGGLHGV 240 (941)
T PTZ00109 161 AEIDGGMNNGGLSDGGEEDNRDAIGEHKGEHKGEKKAKANVAERGAEKLDEKKSPQKTPKEAPQKEPAQKYKFSSGLHGV 240 (941)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 21223334444444433222222222332212232221112233443322233333343333345568762246667866
Q ss_pred HHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCC---CCC-CCCCCCEEEEE---HHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 999876202-489998048986301551101000002---110-12567578852---1012112543103453689999
Q gi|254780399|r 96 ALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSV---RPV-AMNPGTIVEVR---DLFFTIPARLNFLKSEQVETNL 167 (594)
Q Consensus 96 AL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~---~~~-~~~~GT~V~V~---~LF~N~PvRrkflks~~~e~~~ 167 (594)
-++..-++| .|++..+..+. -|...++.|.+... ..+ ....||+|+-. .+|.+ +..-....
T Consensus 241 GvSVVNALS~~l~v~V~Rdgk--~y~~~f~~G~~~~~L~v~~~~~~k~GT~I~F~PD~~IF~~---------~~~f~~~~ 309 (941)
T PTZ00109 241 GLSVANALSSFMKVKVFRNGK--IHSIELEKGKVTKELSIRDCPINKRGTQIHYKPDPSIFKN---------SIKHNADL 309 (941)
T ss_pred CEEEEECCCCEEEEEEEECCE--EEEEEECCCEECCCCEECCCCCCCCCCEEEEECCHHHHCC---------CCCCCHHH
T ss_conf 668670365758999999999--9999968990888535407888999757999778688588---------76568999
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf 999999987318997499998798
Q gi|254780399|r 168 ITDVIRRMAIAYPKVSFTFSTIKS 191 (594)
Q Consensus 168 I~~~v~~~aL~~P~V~f~l~~~~~ 191 (594)
|.+.+++.|.-+|++.|.|.....
T Consensus 310 l~~RlrelAfLn~gL~I~~~Der~ 333 (941)
T PTZ00109 310 IKNRIHQLAYLNDKLSFYFYDERA 333 (941)
T ss_pred HHHHHHHHHCCCCCCEEEEEEECC
T ss_conf 999999970267887799997067
No 37
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=98.22 E-value=4.4e-06 Score=63.33 Aligned_cols=18 Identities=17% Similarity=0.222 Sum_probs=10.6
Q ss_pred CCCEEEEEHHHHHHHHHH
Q ss_conf 675788521012112543
Q gi|254780399|r 138 PGTIVEVRDLFFTIPARL 155 (594)
Q Consensus 138 ~GT~V~V~~LF~N~PvRr 155 (594)
.|||=-..++|+.-||+-
T Consensus 149 lGtts~~pGyy~a~pV~~ 166 (603)
T COG4191 149 LGTTSGRPGYYLAAPVDD 166 (603)
T ss_pred ECCCCCCCCEEEEEEECC
T ss_conf 335468875268634326
No 38
>PRK10364 sensor protein ZraS; Provisional
Probab=98.16 E-value=6.2e-06 Score=62.27 Aligned_cols=30 Identities=20% Similarity=0.111 Sum_probs=19.5
Q ss_pred HHHHHHHHHHCCCCCEEEEEECCCCEEEEEC
Q ss_conf 9999999873189974999987983079971
Q gi|254780399|r 168 ITDVIRRMAIAYPKVSFTFSTIKSNRYKMNF 198 (594)
Q Consensus 168 I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~ 198 (594)
...++..+|- .|+|.|--..+.+++....+
T Consensus 77 ~q~ll~e~a~-q~~v~~~~v~d~~g~i~~hs 106 (455)
T PRK10364 77 QQALLEEMAG-QPGVLWFAVTDEQGTIIMHS 106 (455)
T ss_pred HHHHHHHHHC-CCCEEEEEEECCCCCEEEEC
T ss_conf 9999999715-99869999988996389847
No 39
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.11 E-value=1.1e-05 Score=60.52 Aligned_cols=19 Identities=16% Similarity=0.226 Sum_probs=13.0
Q ss_pred CCCCCCHHHHHHHHHHHHH
Q ss_conf 5888898999999999981
Q gi|254780399|r 548 SGRKMQSIEMNRLLREMEK 566 (594)
Q Consensus 548 ~gd~L~~~e~~~Li~~L~~ 566 (594)
.|.-|-.+=++.+++...-
T Consensus 561 ~GtGLGLaI~k~Ive~hgG 579 (607)
T PRK11360 561 SGTGLGLALSQRIINAHQG 579 (607)
T ss_pred CCCCHHHHHHHHHHHHCCC
T ss_conf 9813379999999998899
No 40
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit; InterPro: IPR005740 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 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, 0005694 chromosome.
Probab=98.10 E-value=8.5e-05 Score=54.11 Aligned_cols=284 Identities=19% Similarity=0.336 Sum_probs=165.3
Q ss_pred CHHHHHHHHHHHHHH----CCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCH--HHHHHC--------
Q ss_conf 978999999987772----699679999980984399999888998898999875024665631--244112--------
Q gi|254780399|r 22 RPSIAIKELIENSLD----AESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKIS--DDFSNI-------- 87 (594)
Q Consensus 22 ~~~svVkELveNSlD----AgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~--~dl~~i-------- 87 (594)
-+...|=|.|.||+| |-|++|.|.+..++ .|.|.|+|.||+- .=|..|||+ |-++-+
T Consensus 40 GLHHl~wEIvdNsvDEvl~g~a~~I~V~l~~dn--si~V~D~GRG~P~-------~~h~~~~isT~e~vlT~LHAGGKFd 110 (655)
T TIGR01058 40 GLHHLVWEIVDNSVDEVLAGYADNITVTLHKDN--SISVQDDGRGIPT-------GIHKQGKISTVETVLTVLHAGGKFD 110 (655)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEEEEECCC--EEEEEECCCCCCC-------CHHCCCCCCCCCEEEEEEECCCCCC
T ss_conf 505567878844688898226974799982787--0788757853760-------1221689885100454430773037
Q ss_pred ----C-CCCCCHHHHHHHHHHEE-EEEEEECCCCCCCEEEEE-CCCCC-CCCCCCC----CCCCCEEEEEHHHHHHHHHH
Q ss_conf ----1-48840489998762024-899980489863015511-01000-0021101----25675788521012112543
Q gi|254780399|r 88 ----H-TFGFRGEALPSIGAVSH-LTLMSRPPQNNTGAQIAI-SGEKI-SSVRPVA----MNPGTIVEVRDLFFTIPARL 155 (594)
Q Consensus 88 ----~-t~GFRGEAL~sIa~vs~-l~i~s~~~~~~~~~~~~~-~~g~~-~~~~~~~----~~~GT~V~V~~LF~N~PvRr 155 (594)
+ +=|--|=-=+-.-++|. |+++-.. +... |+-.| .||++ ...+.++ ...||+|. |..=|.=
T Consensus 111 ~~~YKtaGGLHGVGaSVVNALS~wL~v~v~R-dg~i-Yq~~f~nGGk~~~~lkkIG~tpk~ktGT~v~----F~pDp~~- 183 (655)
T TIGR01058 111 QGGYKTAGGLHGVGASVVNALSSWLEVEVKR-DGKI-YQQRFENGGKIVQSLKKIGTTPKKKTGTLVH----FLPDPTI- 183 (655)
T ss_pred CCCEEECCCCCCCHHHHHHHCCCCEEEEEEE-CCHH-HHHHHHCCCCEEEEEEECCCCCCCCCCCEEE----ECCCCHH-
T ss_conf 8650105732230367764022633899987-8734-4578744791300010204788877773477----5567133-
Q ss_pred HCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHH-HHHHHHHHHCCCCCEEEEEE
Q ss_conf 10345368999999999998731899749999879830799717881048999997321-66654310022442036566
Q gi|254780399|r 156 NFLKSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIG-EDFINNAVELNEKSNEITLQ 234 (594)
Q Consensus 156 kflks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G-~~~~~~l~~i~~~~~~~~i~ 234 (594)
.++..-...-|.+-+...|.---++.+.|.....+. ...|-..+ .+.+-+..|=- .++....+.++.+...+.|+
T Consensus 184 --F~~~~F~~n~i~eRL~Es~FLlk~lkl~l~D~~~~~-~~~F~~~~-Gl~~F~~~~Ne~k~~l~~v~~f~ge~~~i~Ve 259 (655)
T TIGR01058 184 --FKTTQFNSNIIKERLKESAFLLKKLKLTLTDKRTDK-KTVFFYEN-GLVDFVKYINEEKETLSDVIYFEGEKNGIEVE 259 (655)
T ss_pred --HCCCCCCHHHHHHHHHHHHHHHHCCEEEEEEECCCC-EEEEEECC-CHHHHHHHHCCCCEECCCEEEEEECCCCEEEE
T ss_conf --302456726787676688887714738999702672-17773004-47899998535500012345887647625899
Q ss_pred EEECCCCCCCCCCHHHHHHHCC-CHH----HCHHHHHHHHHH---HHHHCC---------------CCCCEEEEEEEEEE
Q ss_conf 6621611033232066775152-100----075888999987---554427---------------99980799999960
Q gi|254780399|r 235 GYTGIPTFNRGNANQFYVFING-RTV----QDKFILSTIRTA---YAETIP---------------LGRYPVVVLLLEID 291 (594)
Q Consensus 235 G~is~P~~~r~~~~~q~ifVNg-R~V----~~~~l~~AI~~a---Y~~~l~---------------~g~~P~~vL~i~i~ 291 (594)
-.+ .++-+....+.=|||. |.- .-..+..||.++ |.+... .| =..||.+.+|
T Consensus 260 ~af---Qfnd~~~e~ilSF~N~vkT~eGG~HE~g~k~A~t~v~N~YaRK~~LLKEKDKNleg~diReG--L~avi~v~~P 334 (655)
T TIGR01058 260 VAF---QFNDGDSENILSFANSVKTKEGGTHENGFKLAITKVINEYARKVNLLKEKDKNLEGSDIREG--LSAVISVRIP 334 (655)
T ss_pred EEE---EECCCCCCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHH--HHHEEEEECC
T ss_conf 999---74278875379864003406887207889999999986554320011100147871034532--0211553257
Q ss_pred HHHHCCCCCCHHHHHHHCCH--HHHHHHHHHHHHHHHHHCCCC
Q ss_conf 65712475711112553597--999999999789887531788
Q gi|254780399|r 292 PRQVDVNVHPAKSYIRFRNP--TIIRNFIIQSIQKAINKKGIS 332 (594)
Q Consensus 292 p~~vDVNVHP~K~eVrf~de--~~i~~~i~~~i~~~L~~~~~~ 332 (594)
=..+-.--- +|... |..+ ..|..+|.+...-+|.++...
T Consensus 335 E~~~~fEGQ-TK~Kl-f~~ea~~~V~~~v~~~~~~fLeeN~~~ 375 (655)
T TIGR01058 335 EELIQFEGQ-TKSKL-FSPEAREVVDEIVEDKLSFFLEENKED 375 (655)
T ss_pred HHHCCCCCC-CCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 545245760-57667-876689999999988889999743578
No 41
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=97.93 E-value=4.4e-05 Score=56.21 Aligned_cols=33 Identities=18% Similarity=0.394 Sum_probs=13.0
Q ss_pred EEEEEEEHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf 999996065712475711112553597999999999789
Q gi|254780399|r 285 VLLLEIDPRQVDVNVHPAKSYIRFRNPTIIRNFIIQSIQ 323 (594)
Q Consensus 285 vL~i~i~p~~vDVNVHP~K~eVrf~de~~i~~~i~~~i~ 323 (594)
-+..+++|...++...+.+- .+.+.++|..|++
T Consensus 219 ~i~~~~~~~~~~i~~d~~~l------~qVl~NLl~NAik 251 (348)
T PRK11073 219 RLIRDYDPSLPELAHDPDQI------EQVLLNIVRNALQ 251 (348)
T ss_pred EEEEEECCCCCEEEECHHHH------HHHHHHHHHHHHH
T ss_conf 99996078887264468788------9999999999999
No 42
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=97.92 E-value=5.8e-05 Score=55.30 Aligned_cols=58 Identities=14% Similarity=0.162 Sum_probs=23.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCEEEEE-CCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 234678347777999899998669599960-798799995261115567899999999999857
Q gi|254780399|r 461 EIIDLLEGECALIMEHDEDLHRLGIKAERF-GPNAIAIREIPAILSKKNIPQLLRDIIDEIIDS 523 (594)
Q Consensus 461 ~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~-g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~ 523 (594)
..+++...-.++++.........|..++.- ....+.|.+=|. ....++.++++.-..+
T Consensus 310 e~~~l~~l~~~v~~~~~~~a~~~~~~l~~~~~~~~~~v~~d~~-----~l~~vl~NLl~NAiky 368 (461)
T PRK09470 310 ETIKANSLWSEVLEDAAFEAEQMGKSLTVNQPPGPWPINGNPN-----ALESALENIVRNALRY 368 (461)
T ss_pred CEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEEECHH-----HHHHHHHHHHHHHHHH
T ss_conf 5153999999999999999997597699972787548997899-----9999999999999974
No 43
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=97.92 E-value=0.00034 Score=49.82 Aligned_cols=14 Identities=14% Similarity=0.204 Sum_probs=4.9
Q ss_pred CCCCCHHHHHHHHH
Q ss_conf 88889899999999
Q gi|254780399|r 549 GRKMQSIEMNRLLR 562 (594)
Q Consensus 549 gd~L~~~e~~~Li~ 562 (594)
|.-|-.+=++.+++
T Consensus 317 GsGLGLaIvk~Iv~ 330 (355)
T PRK10755 317 GIGLGLSIVSRITQ 330 (355)
T ss_pred CCCHHHHHHHHHHH
T ss_conf 87589999999999
No 44
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=97.88 E-value=5.7e-05 Score=55.34 Aligned_cols=119 Identities=9% Similarity=0.120 Sum_probs=57.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCC-------------
Q ss_conf 2346783477779998999986695999607987999952611155678999999999998578866-------------
Q gi|254780399|r 461 EIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDSSTTY------------- 527 (594)
Q Consensus 461 ~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~~~~------------- 527 (594)
..+++.+.-......+...+..-|+.++.-.+....+.+-| ....+++.++++.-..+....
T Consensus 311 ~~vdl~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~v~~D~-----~~L~qvl~NLl~NAikyt~~~g~I~I~~~~~~~~ 385 (467)
T PRK10549 311 TPVDLVPLLEVAGGAFRERFASRGLTLQFSLPDSATVFGDP-----DRLMQLFNNLLENSLRYTDSGGSLHISAEQHDKT 385 (467)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEECH-----HHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCE
T ss_conf 33338999999999999999845958999759884699779-----9999999999999998489998799999997999
Q ss_pred -----------CHHHHHHHHHHH----HHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCC-CCCEEEEEEC
Q ss_conf -----------468999999997----63486664588889899999999998188887887-8872799838
Q gi|254780399|r 528 -----------TLQDRIENILAT----MACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCN-HGRPTFIKLK 584 (594)
Q Consensus 528 -----------~~~~~~~~~l~s----~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~Cp-HGRPt~~~l~ 584 (594)
--++.+..++-- ..-|+--..|.-|-.+=|+.+++...-.=.-...| .|--..+.|+
T Consensus 386 v~i~V~D~G~GI~~e~l~~IFe~Fyr~d~sr~r~~gGsGLGLaIvk~Iv~~HgG~I~v~s~~~~G~~f~i~LP 458 (467)
T PRK10549 386 LRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVEAHNGRIIAAHSPFGGVSITVELP 458 (467)
T ss_pred EEEEEEEECCCCCHHHHHHHCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEEEEEEEE
T ss_conf 9999998188879899998668987388888899996128999999999983998999967998579999952
No 45
>PRK10604 sensor protein RstB; Provisional
Probab=97.85 E-value=8.3e-05 Score=54.20 Aligned_cols=18 Identities=11% Similarity=0.075 Sum_probs=9.8
Q ss_pred CCCCCHHHHHHHHHHHHH
Q ss_conf 888898999999999981
Q gi|254780399|r 549 GRKMQSIEMNRLLREMEK 566 (594)
Q Consensus 549 gd~L~~~e~~~Li~~L~~ 566 (594)
|.-|-.+=++.+++...-
T Consensus 386 G~GLGLaIvk~Iv~~hgG 403 (433)
T PRK10604 386 GCGLGLAIVHSIALAMGG 403 (433)
T ss_pred CCCHHHHHHHHHHHHCCC
T ss_conf 613889999999998199
No 46
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=97.84 E-value=8.8e-05 Score=54.03 Aligned_cols=16 Identities=13% Similarity=0.279 Sum_probs=7.6
Q ss_pred CCCCCHHHHHHHHHHH
Q ss_conf 8888989999999999
Q gi|254780399|r 549 GRKMQSIEMNRLLREM 564 (594)
Q Consensus 549 gd~L~~~e~~~Li~~L 564 (594)
|.-|-.+=++.+++..
T Consensus 398 GsGLGLaIv~~Iv~~H 413 (437)
T PRK09467 398 GTGLGLAIVKRIVDQH 413 (437)
T ss_pred CEEHHHHHHHHHHHHC
T ss_conf 7728899999999986
No 47
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.82 E-value=9.9e-05 Score=53.65 Aligned_cols=60 Identities=15% Similarity=0.278 Sum_probs=51.3
Q ss_pred CCHHHHHHHHHHHHHHCC-CCEEEEEEECCC-EEEEEEEECCCCCCHHHHHHHHCCCCCCCC
Q ss_conf 697899999998777269-967999998098-439999988899889899987502466563
Q gi|254780399|r 21 ERPSIAIKELIENSLDAE-SSRVETVIAGGG-KSFFQITDNGFGMTSEEIPMAVQRHCTSKI 80 (594)
Q Consensus 21 ~~~~svVkELveNSlDAg-At~I~v~i~~~g-~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi 80 (594)
.....|+..|+.||++|. ...|.|.+...+ .-.++|.|||.||++++++.+++++.|+|-
T Consensus 227 ~~l~~vl~nLi~NAi~~~~~~~i~i~~~~~~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~ 288 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTPGGEITISVRQDDEQVTISVEDTGPGIPEEELERIFEPFFRTDK 288 (336)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCEEEEEEECCCCCCCHHHHHHHHCCCCCCCC
T ss_conf 89999999999989986689859999996387799999807899798899988188634799
No 48
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=97.76 E-value=0.00012 Score=53.01 Aligned_cols=61 Identities=21% Similarity=0.163 Sum_probs=35.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 1222234678347777999899998669599960798799995261115567899999999999857
Q gi|254780399|r 457 LLTPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDS 523 (594)
Q Consensus 457 Ll~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~ 523 (594)
.+.+..+++.+.-.+++..+...+..-|+.++.-.+. ..|.+=|. ...+++.+|++.-.++
T Consensus 323 ~~~~~~vdl~~ll~~~~~~~~~~~~~~~i~l~~~~~~-~~v~~D~~-----~L~qvl~NLl~NAiky 383 (475)
T PRK11100 323 LEVLEPVALAALLEELVEAREAQAAAKGITLRLRPDD-AAVLGDPF-----LLRQALGNLLDNAIDF 383 (475)
T ss_pred CCCCEEECHHHHHHHHHHHHHHHHHHCCEEEEEECCC-CEEEECHH-----HHHHHHHHHHHHHHHH
T ss_conf 6755487599999999999999998689299995787-66970899-----9999999999999973
No 49
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=97.75 E-value=0.00017 Score=51.95 Aligned_cols=106 Identities=17% Similarity=0.156 Sum_probs=50.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCEEEEECCC--------------EEEEEECCCCCCCCCHHHHHHHHHHHH--HHCCC
Q ss_conf 34678347777999899998669599960798--------------799995261115567899999999999--85788
Q gi|254780399|r 462 IIDLLEGECALIMEHDEDLHRLGIKAERFGPN--------------AIAIREIPAILSKKNIPQLLRDIIDEI--IDSST 525 (594)
Q Consensus 462 ~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~--------------~~~i~~iP~~l~~~~~~~~l~dll~~l--~~~~~ 525 (594)
.+=+-..|..+..-....|+.+||+...+.+. -+.|+-.|..+...+....++.....+ .-.+
T Consensus 701 ~ILvVdDe~~vr~~~~~~L~~lGY~v~~a~~~~~Al~~~~~~~~~~DLvltD~~p~~~g~~~~~~l~~~~p~lpVilsg- 779 (831)
T PRK13837 701 TVLLVEPDDALLERYEEKLAALGYEPVGFSTLSAAIAWISKDGKRFDLVLVDQPSLGDSQLAIAALHAAAPTLPIILAG- 779 (831)
T ss_pred EEEEECCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCEEEEEC-
T ss_conf 7999859889999999999967996888689999999998389985399988999998799999998618997499976-
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf 66468999999997634866645888898999999999981888878
Q gi|254780399|r 526 TYTLQDRIENILATMACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQ 572 (594)
Q Consensus 526 ~~~~~~~~~~~l~s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~ 572 (594)
+.......+... -...--.-.|.+..++-.-|++.-..+.|--
T Consensus 780 -~~~~~~~~~~~~---~~~~~fL~KPfs~~~LA~avR~aL~~~r~~~ 822 (831)
T PRK13837 780 -SSLKMAAREALA---TAIAEILPKPISSRTLAYALRTALATARAAG 822 (831)
T ss_pred -CCCHHHHHCHHH---CCCCEEEECCCCHHHHHHHHHHHHHCCCCCC
T ss_conf -881443311022---2667065099999999999999984888876
No 50
>PRK10815 sensor protein PhoQ; Provisional
Probab=97.73 E-value=0.00017 Score=52.04 Aligned_cols=17 Identities=6% Similarity=0.132 Sum_probs=9.8
Q ss_pred CCCCCCHHHHHHHHHHH
Q ss_conf 58888989999999999
Q gi|254780399|r 548 SGRKMQSIEMNRLLREM 564 (594)
Q Consensus 548 ~gd~L~~~e~~~Li~~L 564 (594)
.|.-|-.+=++.+++.-
T Consensus 439 ~GsGLGLaIvk~Iv~~h 455 (484)
T PRK10815 439 PGQGVGLAVAREITEQY 455 (484)
T ss_pred CCCCHHHHHHHHHHHHC
T ss_conf 98576799999999988
No 51
>PRK10337 sensor protein QseC; Provisional
Probab=97.69 E-value=0.00018 Score=51.76 Aligned_cols=61 Identities=16% Similarity=0.166 Sum_probs=27.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECC-CEEEEEECCCCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 2223467834777799989999866959996079-87999952611155678999999999998578
Q gi|254780399|r 459 TPEIIDLLEGECALIMEHDEDLHRLGIKAERFGP-NAIAIREIPAILSKKNIPQLLRDIIDEIIDSS 524 (594)
Q Consensus 459 ~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~-~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~ 524 (594)
.+..++|...-...+.+........|+++..-.+ ..+.+.+=|.. ...++.+|++.-..++
T Consensus 304 ~~~~v~l~~l~~~~v~~~~~~a~~~~i~l~~~~~~~~~~~~~d~~l-----l~~~l~NLl~NAikyt 365 (446)
T PRK10337 304 DVAEIPLEDLLQSAVMDIYHTAQQAKIDVRLTLNAHGIKRTGQPLL-----LSLLVRNLLDNAVRYS 365 (446)
T ss_pred CCCEECHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEECCHHH-----HHHHHHHHHHHHHHHC
T ss_conf 7817529999999999999999975977999628877067168999-----9999999999999748
No 52
>KOG0019 consensus
Probab=97.66 E-value=0.00049 Score=48.64 Aligned_cols=160 Identities=21% Similarity=0.344 Sum_probs=105.0
Q ss_pred CCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCC----------------CEEEEEEECCCEEEEEEEECCCCCCHH
Q ss_conf 7458889999852687226978999999987772699----------------679999980984399999888998898
Q gi|254780399|r 3 IRKLSEKIINQIAAGEIIERPSIAIKELIENSLDAES----------------SRVETVIAGGGKSFFQITDNGFGMTSE 66 (594)
Q Consensus 3 I~~L~~~~~~~Iaagevi~~~~svVkELveNSlDAgA----------------t~I~v~i~~~g~~~i~V~DnG~Gi~~~ 66 (594)
|++|-+-++|..-|+.- --++||+-||=||-- -.|.+.- +.-..-+.+.|.|.||+.+
T Consensus 43 ~~qLm~lii~s~YS~kE-----vFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~-nk~~~tlti~DtGIGMTk~ 116 (656)
T KOG0019 43 TNQLMDIVAKSLYSHKE-----VFLRELISNASDALEKLRYLELKGDEKALPELEIRIIT-NKDKRTITIQDTGIGMTKE 116 (656)
T ss_pred HHHHHHHHHHHHHCCHH-----HHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCEEEEECC-CCCCCEEEEEECCCCCCHH
T ss_conf 77679999987615437-----88876531464047778877624743356632689615-8876558998447776889
Q ss_pred HHHHHHCCCC---CCCCHHHHH----HCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCCCCC-CCCCCC
Q ss_conf 9998750246---656312441----1214884048999876202-489998048986301551101000002-110125
Q gi|254780399|r 67 EIPMAVQRHC---TSKISDDFS----NIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKISSV-RPVAMN 137 (594)
Q Consensus 67 dl~~~~~rh~---TSKi~~dl~----~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~~~~-~~~~~~ 137 (594)
||...+-.-| |.+.-+.+. .+.--|.=|-...|-=-|+ +|+++||+.+++ ++..+..+|....+ +..+..
T Consensus 117 dLvnnLGTIAkSGtK~Fmealkea~ad~~~IGQFGvGFYSaylVAdkV~V~tk~~~~e-~y~Wes~~~gs~~v~~~~~~~ 195 (656)
T KOG0019 117 DLVNNLGTIAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAFMVADRVVVTTRHPADE-GLQWTSNGRGSYEIAEASGLR 195 (656)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHEEEEEECCCCCC-CEEEECCCCCCEEEEECCCCC
T ss_conf 9986551564346589999887634411122110100456665123268861268874-104313788726876236755
Q ss_pred CCCEEEEEHHHHHHHHHHHCCCCHHHHH---HHHHHHHHHHHH--CCCC
Q ss_conf 6757885210121125431034536899---999999999873--1899
Q gi|254780399|r 138 PGTIVEVRDLFFTIPARLNFLKSEQVET---NLITDVIRRMAI--AYPK 181 (594)
Q Consensus 138 ~GT~V~V~~LF~N~PvRrkflks~~~e~---~~I~~~v~~~aL--~~P~ 181 (594)
.||.|+. |||..+.|+ .+|.++|.+++. .+|-
T Consensus 196 rGTki~l------------~lKe~~~ey~ee~rikeiVKK~S~Fv~yPI 232 (656)
T KOG0019 196 TGTKIVI------------HLKEGDCEFLEEKRIKEVVKKYSNFVSYPI 232 (656)
T ss_pred CCCEEEE------------EEHHHHHHHCCHHHHHHHHHHCCCCCCCCC
T ss_conf 5304776------------502103432427678888752033224410
No 53
>PRK09835 sensor kinase CusS; Provisional
Probab=97.64 E-value=0.00032 Score=49.96 Aligned_cols=60 Identities=8% Similarity=0.185 Sum_probs=33.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 222346783477779998999986695999607987999952611155678999999999998578
Q gi|254780399|r 459 TPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIPQLLRDIIDEIIDSS 524 (594)
Q Consensus 459 ~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~~~l~dll~~l~~~~ 524 (594)
....+++...-..+++.+....+.-|+.++.-+ ....|.+=|. .....+.+|++.-..+.
T Consensus 332 ~~~~~dl~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~v~~d~~-----~l~~~l~NLl~NAikys 391 (482)
T PRK09835 332 EKKMLNLADEVGKVFDFFEALAEDRGVELRFVG-DPCQVAGDPL-----MLRRALSNLLSNALRYT 391 (482)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEC-CCEEEEECHH-----HHHHHHHHHHHHHHHHC
T ss_conf 673456999999999999999986892899827-8708998799-----99999999999999848
No 54
>PRK03660 anti-sigma F factor; Provisional
Probab=97.52 E-value=0.00083 Score=47.01 Aligned_cols=85 Identities=18% Similarity=0.198 Sum_probs=58.9
Q ss_pred CCCCCHHHHHHHHHHHHHHCC-----CCEEEEEEE-CCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCC
Q ss_conf 722697899999998777269-----967999998-09843999998889988989998750246656312441121488
Q gi|254780399|r 18 EIIERPSIAIKELIENSLDAE-----SSRVETVIA-GGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFG 91 (594)
Q Consensus 18 evi~~~~svVkELveNSlDAg-----At~I~v~i~-~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~G 91 (594)
+.|++..-+|.|.+-|+|.-| ...|.|.+. .++.-.|+|.|+|+||+ |+..+..+..|++-. +.
T Consensus 35 ~~~~di~lAV~EA~tNaI~H~y~~~~~g~I~I~~~~~~~~l~I~V~D~G~Gid--~~~~~~~P~~t~~~~--~~------ 104 (146)
T PRK03660 35 EELTEIKTAVSEAVTNAIIHGYENNPDGIVYIEAEIEDEELEITVRDEGKGIE--DVEEARQPLFTTKPE--LE------ 104 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCEEEEEEEECCCCCC--CHHHCCCCCCCCCCC--CC------
T ss_conf 99999999999999999986036799927999999809999999997378947--376643887766876--67------
Q ss_pred CCHHHHHHHHHHE-EEEEEEEC
Q ss_conf 4048999876202-48999804
Q gi|254780399|r 92 FRGEALPSIGAVS-HLTLMSRP 112 (594)
Q Consensus 92 FRGEAL~sIa~vs-~l~i~s~~ 112 (594)
-.|=.|+-|.++. .+++.|..
T Consensus 105 ~~GlGl~li~~LmDeVei~s~~ 126 (146)
T PRK03660 105 RSGMGFTFMESFMDEVEVESEP 126 (146)
T ss_pred CCCHHHHHHHHHCCEEEEEECC
T ss_conf 5640589999838869999559
No 55
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=97.49 E-value=0.00043 Score=49.03 Aligned_cols=49 Identities=14% Similarity=0.085 Sum_probs=27.5
Q ss_pred EEHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEE
Q ss_conf 521012112543103453689999999999987318997499998798307
Q gi|254780399|r 144 VRDLFFTIPARLNFLKSEQVETNLITDVIRRMAIAYPKVSFTFSTIKSNRY 194 (594)
Q Consensus 144 V~~LF~N~PvRrkflks~~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~ 194 (594)
=..+|+.+=--++--+..+.++....+-++..+=+-|+--+.+ +..+..
T Consensus 72 w~~~~~~l~~~~~~~~~~~~~l~~~~~rfr~~~ealpDavvv~--d~~g~I 120 (431)
T PRK11006 72 WEPLFYGLHQMQLRNKKRRRELGNLIKRFRSGAESLPDAVVLT--TEEGNI 120 (431)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEE--CCCCCE
T ss_conf 8999999999999879999999999999999996489769999--899958
No 56
>PRK13557 histidine kinase; Provisional
Probab=97.47 E-value=0.00034 Score=49.78 Aligned_cols=120 Identities=13% Similarity=0.102 Sum_probs=52.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEC----CCEEEEEEEECC---CCCCHHHHHHHHCCCCCCCCHHHHHHC
Q ss_conf 2687226978999999987772699679999980----984399999888---998898999875024665631244112
Q gi|254780399|r 15 AAGEIIERPSIAIKELIENSLDAESSRVETVIAG----GGKSFFQITDNG---FGMTSEEIPMAVQRHCTSKISDDFSNI 87 (594)
Q Consensus 15 aagevi~~~~svVkELveNSlDAgAt~I~v~i~~----~g~~~i~V~DnG---~Gi~~~dl~~~~~rh~TSKi~~dl~~i 87 (594)
+|+.|-++-..+-..+||.+=|| |.|.+ +|. .+-|..-= .|.+++|+. |+.+ .=+. .-
T Consensus 18 ~~~~~~~~~~~~~~~~v~~~~~~------~~~~d~~~~Dg~-I~~vN~af~~~tGYs~eEvi--Gk~~--~~L~----~p 82 (538)
T PRK13557 18 AAGDVSDHRSDIFFAAVETTRMP------MIVTDPRQPDNP-IVFANRAFLEMTGYAAEEII--GNNC--RFLQ----GP 82 (538)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCC------EEEECCCCCCCE-EEEECHHHHHHHCCCHHHHC--CCCH--HHCC----CC
T ss_conf 64105678899999999607973------899358999987-99983999998795999986--9998--7708----98
Q ss_pred C-CCCCCHHHHHHHHHHE--EEEEEEECCCCCCCEEEEECCCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHH
Q ss_conf 1-4884048999876202--4899980489863015511010000021101256757885210121125431
Q gi|254780399|r 88 H-TFGFRGEALPSIGAVS--HLTLMSRPPQNNTGAQIAISGEKISSVRPVAMNPGTIVEVRDLFFTIPARLN 156 (594)
Q Consensus 88 ~-t~GFRGEAL~sIa~vs--~l~i~s~~~~~~~~~~~~~~~g~~~~~~~~~~~~GT~V~V~~LF~N~PvRrk 156 (594)
. .-.++.+-..+|.+-. ..++.-++++....|.-. ...|+--..|+.+-.-.....+-.||+
T Consensus 83 ~~~~~~~~~~~~~i~~~~~~~~E~~n~rKDG~~~w~~~-------~i~pv~d~~G~~~~~~~i~~DITerk~ 147 (538)
T PRK13557 83 ETDRATVADVRDAIAERREIATEILNYRKDGSSFWNAL-------FVSPVYNDAGDLVYFFGSQLDVSRRRD 147 (538)
T ss_pred CCCHHHHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEE-------EEEEEECCCCCEEEEEEEEECHHHHHH
T ss_conf 89999999999999759936879999879999999998-------999999899999999998834449999
No 57
>PRK09303 adaptive-response sensory kinase; Validated
Probab=97.42 E-value=0.0006 Score=48.04 Aligned_cols=62 Identities=19% Similarity=0.374 Sum_probs=37.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCC-CCCHHHHHHHHHHHHHHCC
Q ss_conf 222234678347777999899998669599960798799995261115-5678999999999998578
Q gi|254780399|r 458 LTPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILS-KKNIPQLLRDIIDEIIDSS 524 (594)
Q Consensus 458 l~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~-~~~~~~~l~dll~~l~~~~ 524 (594)
+.|..++|.+.-.+.+..+...+..-|+.+...-+. .+|.+.. .....+++.+|++.-..+.
T Consensus 224 l~~~~~dL~~lv~evi~~~~~~a~~k~i~l~~dip~-----dlp~V~aD~~rL~QVl~NLL~NAiKyT 286 (378)
T PRK09303 224 FNPQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPS-----DLPSVYADQRRIRQVLLNLLDNAIKYT 286 (378)
T ss_pred EEEEEECHHHHHHHHHHHHHHHHHHCCCEEEEECCC-----CCCEEEECHHHHHHHHHHHHHHHHHHC
T ss_conf 146887699999999999898998389789997689-----997287689999999999999999858
No 58
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=97.12 E-value=0.011 Score=39.05 Aligned_cols=11 Identities=27% Similarity=0.440 Sum_probs=5.2
Q ss_pred CCCCEEEEEEC
Q ss_conf 78872799838
Q gi|254780399|r 574 NHGRPTFIKLK 584 (594)
Q Consensus 574 pHGRPt~~~l~ 584 (594)
.+|--+.+.++
T Consensus 485 ~~GT~I~V~LP 495 (497)
T PRK11644 485 THGTRLSVTLP 495 (497)
T ss_pred CCCCEEEEECC
T ss_conf 89977999589
No 59
>KOG0020 consensus
Probab=97.07 E-value=0.022 Score=36.78 Aligned_cols=146 Identities=25% Similarity=0.370 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHCCCC----------------EEEEEEE-CCCEEEEEEEECCCCCCHHHHHHHH---CCCCCCCC----
Q ss_conf 9999999877726996----------------7999998-0984399999888998898999875---02466563----
Q gi|254780399|r 25 IAIKELIENSLDAESS----------------RVETVIA-GGGKSFFQITDNGFGMTSEEIPMAV---QRHCTSKI---- 80 (594)
Q Consensus 25 svVkELveNSlDAgAt----------------~I~v~i~-~~g~~~i~V~DnG~Gi~~~dl~~~~---~rh~TSKi---- 80 (594)
-.++||+-|+-||=-+ ..+|.|+ +--..+..|.|-|.||+++||..-+ .+-.||-.
T Consensus 98 IFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dke~klLhi~DtGiGMT~edLi~NLGTIAkSGTs~Fl~Km 177 (785)
T KOG0020 98 IFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADKEKKLLHITDTGIGMTREDLIKNLGTIAKSGTSEFLEKM 177 (785)
T ss_pred HHHHHHHHHHHHHHHHEEEEECCCHHHHCCCCCEEEEEEECHHHCEEEEECCCCCCCHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf 99999973136665551011116865727571269998622010734675166785299999766555114579999985
Q ss_pred HH--HHHHC--CCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCCCC-CCCCCC--CCCCCCEEEEEHHHHHHH
Q ss_conf 12--44112--14884048999876202-489998048986301551101000-002110--125675788521012112
Q gi|254780399|r 81 SD--DFSNI--HTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGEKI-SSVRPV--AMNPGTIVEVRDLFFTIP 152 (594)
Q Consensus 81 ~~--dl~~i--~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g~~-~~~~~~--~~~~GT~V~V~~LF~N~P 152 (594)
.+ |.... .-.|==|-..+|---|+ ++.++||+.++.. |-..-+.... ....|. ...+||+|+.
T Consensus 178 ~~~~~~~~~~~dlIGQFGVGFYsAfLVAD~vvVtsKhNdD~Q-yiWESdan~FsvseDprg~tL~RGt~ItL-------- 248 (785)
T KOG0020 178 QDSGDSEGLMNDLIGQFGVGFYSAFLVADRVVVTSKHNDDSQ-YIWESDANSFSVSEDPRGNTLGRGTEITL-------- 248 (785)
T ss_pred HCCCCCHHHHHHHHHHCCHHHHHHHHHCCEEEEEECCCCCCC-EEEECCCCCEEEECCCCCCCCCCCCEEEE--------
T ss_conf 364321236888877505125652220016999732578640-13404676135531788885568647999--------
Q ss_pred HHHHCCCCHH---HHHHHHHHHHHHHHH-CCCCCE
Q ss_conf 5431034536---899999999999873-189974
Q gi|254780399|r 153 ARLNFLKSEQ---VETNLITDVIRRMAI-AYPKVS 183 (594)
Q Consensus 153 vRrkflks~~---~e~~~I~~~v~~~aL-~~P~V~ 183 (594)
+||-.. .|...+.++|.+|+- +|..|.
T Consensus 249 ----~LkeEA~dyLE~dtlkeLvkkYSqFINFpI~ 279 (785)
T KOG0020 249 ----YLKEEAGDYLEEDTLKELVKKYSQFINFPIS 279 (785)
T ss_pred ----EEHHHHHHHCCHHHHHHHHHHHHHHCCCCEE
T ss_conf ----8655455430666899999998875077401
No 60
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR; InterPro: IPR014310 Members of this protein are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter found in most Proteobacteria, and related proteins from Gram-positive organisms are excluded. The phoR gene usually is adjacent to the response regulator phoB gene (IPR011879 from INTERPRO)..
Probab=97.04 E-value=0.0013 Score=45.50 Aligned_cols=53 Identities=26% Similarity=0.501 Sum_probs=41.6
Q ss_pred CHHHHHHHHHHHHHH---CCCCEEEEEEE--CCCEEEEEEEECCCCCCHHHHHHHHCCCC
Q ss_conf 978999999987772---69967999998--09843999998889988989998750246
Q gi|254780399|r 22 RPSIAIKELIENSLD---AESSRVETVIA--GGGKSFFQITDNGFGMTSEEIPMAVQRHC 76 (594)
Q Consensus 22 ~~~svVkELveNSlD---AgAt~I~v~i~--~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~ 76 (594)
.+-||..=||+|||= +|.+ |+|.-. ++| -.+.|.|||.||.++.++-..+|++
T Consensus 235 ~L~SAf~NLv~NAikYTp~gg~-I~v~W~~~~~g-a~fsV~DtG~GI~~eHipRLTERFY 292 (339)
T TIGR02966 235 ELRSAFSNLVSNAIKYTPEGGT-ITVRWRRDEGG-AEFSVTDTGIGIAPEHIPRLTERFY 292 (339)
T ss_pred HHHHHHHHHHHHHHHCCCCCCE-EEEEEEEECCE-EEEEEEECCCCCCHHHCCCCCCEEE
T ss_conf 7999999998875300899887-99999985780-3999987798987313775420012
No 61
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL; InterPro: IPR014285 NifL modulates the activity of the nitrogen fixation positive regulator protein NifA, acting as a negative regulator by binding NifA. NifA and NifL are encoded by adjacent genes..
Probab=97.01 E-value=0.00037 Score=49.51 Aligned_cols=87 Identities=20% Similarity=0.301 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCC-CH
Q ss_conf 58998999999985221038842111122223467834777799989999866959996079879999526111556-78
Q gi|254780399|r 431 QHAAHERLIFEKMRQDFNSTKITSQTLLTPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKK-NI 509 (594)
Q Consensus 431 QHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~-~~ 509 (594)
|=-+--+=..|.|.+.+- ...|.-.. .++|+..--+.++=.-+.|-.-||.+| --+. -.+|.+++.+ ..
T Consensus 320 qa~~ag~e~~e~L~~~IP---~s~~e~~~--pVNlN~~lrdvi~l~T~rLLA~GIvVd-W~Pa----~~LP~~~G~e~~l 389 (496)
T TIGR02938 320 QALAAGREALEALEKVIP---QSDAEAVV--PVNLNQVLRDVITLLTERLLAAGIVVD-WQPA----AVLPAVLGSESRL 389 (496)
T ss_pred HHHHHHHHHHHHHCCCCC---CCCCCCCC--CCCHHHHHHHHHHHHHHHHHHCCCEEC-CCCC----CCCCHHHCCCHHH
T ss_conf 998863999997505788---77244546--642778999999861055755754151-6561----0162220785257
Q ss_pred HHHHHHHHHHHHHCCCCC
Q ss_conf 999999999998578866
Q gi|254780399|r 510 PQLLRDIIDEIIDSSTTY 527 (594)
Q Consensus 510 ~~~l~dll~~l~~~~~~~ 527 (594)
..+++.|++.-.+.-...
T Consensus 390 RslfK~LvdNAIeaM~~~ 407 (496)
T TIGR02938 390 RSLFKALVDNAIEAMAQK 407 (496)
T ss_pred HHHHHHHHHHHHHHHHHC
T ss_conf 899999999999985307
No 62
>PRK10490 sensor protein KdpD; Provisional
Probab=96.78 E-value=0.0083 Score=39.81 Aligned_cols=21 Identities=5% Similarity=-0.051 Sum_probs=12.0
Q ss_pred HCCCCCCHHHHHHHHHHHHHC
Q ss_conf 458888989999999999818
Q gi|254780399|r 547 RSGRKMQSIEMNRLLREMEKN 567 (594)
Q Consensus 547 k~gd~L~~~e~~~Li~~L~~c 567 (594)
..|.-|-.+=|+.+++.+.-.
T Consensus 843 ~~GtGLGLaI~k~IveAhGG~ 863 (895)
T PRK10490 843 VPGVGLGLAICRAIVDVHGGT 863 (895)
T ss_pred CCCCCHHHHHHHHHHHHCCCE
T ss_conf 997447899999999987998
No 63
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=96.66 E-value=0.0091 Score=39.51 Aligned_cols=25 Identities=16% Similarity=0.114 Sum_probs=17.2
Q ss_pred CCCCCCCCEEEEEHHHHHHHHHHHC
Q ss_conf 1012567578852101211254310
Q gi|254780399|r 133 PVAMNPGTIVEVRDLFFTIPARLNF 157 (594)
Q Consensus 133 ~~~~~~GT~V~V~~LF~N~PvRrkf 157 (594)
|.--..|+.+-+-+....+-.|+++
T Consensus 248 P~~d~~g~~~G~~g~~rDITerk~a 272 (779)
T PRK11091 248 PFYDRVGKRHGLMGFGRDITERKRY 272 (779)
T ss_pred EEECCCCCEEEEEEEEECCHHHHHH
T ss_conf 1353899788786300160177899
No 64
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=96.57 E-value=0.0077 Score=40.03 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=24.7
Q ss_pred CCCCCCHHHHHHHHHHH----HHCCCCCCCCCCCEEEEEECH
Q ss_conf 58888989999999999----818888788788727998388
Q gi|254780399|r 548 SGRKMQSIEMNRLLREM----EKNPNSSQCNHGRPTFIKLKL 585 (594)
Q Consensus 548 ~gd~L~~~e~~~Li~~L----~~c~~P~~CpHGRPt~~~l~~ 585 (594)
.|+-|-.+=.++++++= .-.+.| -+||--+-+.++.
T Consensus 669 KGTGLGLAiVKkIvEeHGG~leL~da~--d~~GA~i~i~fp~ 708 (712)
T COG5000 669 KGTGLGLAIVKKIVEEHGGRLELHNAP--DFDGAMIRIKFPL 708 (712)
T ss_pred CCCCCCHHHHHHHHHHCCCEEEECCCC--CCCCCEEEEECCC
T ss_conf 666623999999999638827724789--9997679998365
No 65
>PTZ00108 DNA topoisomerase II; Provisional
Probab=96.55 E-value=0.051 Score=34.17 Aligned_cols=160 Identities=14% Similarity=0.117 Sum_probs=90.4
Q ss_pred CCCCHHHHHHHHHHHHHHCC----------CCEEEEEEECCCEEEEEEEECCCCCCHH--------HHHHH-HCCCCCCC
Q ss_conf 22697899999998777269----------9679999980984399999888998898--------99987-50246656
Q gi|254780399|r 19 IIERPSIAIKELIENSLDAE----------SSRVETVIAGGGKSFFQITDNGFGMTSE--------EIPMA-VQRHCTSK 79 (594)
Q Consensus 19 vi~~~~svVkELveNSlDAg----------At~I~v~i~~~g~~~i~V~DnG~Gi~~~--------dl~~~-~~rh~TSK 79 (594)
.+.-+.-+.-|.|=||.|.. -|.|.|.|... -..|.|.|||.||+-+ -.+++ +.-||.||
T Consensus 55 yvPGLyKIFDEILVNAaDNk~Rd~~~~~~pmt~IKVtID~e-ng~ISV~NNGRGIPVeiH~kekvyvPELIFGhLlTGsN 133 (1506)
T PTZ00108 55 YVPGLYKIFDEIIVNAADVKAREKEKSENPMTCIKIEINKD-NKKISVYNDGEGIPVDIHKEMNIYVPHMIFGELLTSDN 133 (1506)
T ss_pred ECCHHHHHHHHHHCCCHHHHHCCCCCCCCCCCEEEEEEECC-CCEEEEEECCCCCCCCCCCCCCCCHHHHHHCCCCCCCC
T ss_conf 66534754445641514443207543568766599999678-99799997999524368776797472686520767678
Q ss_pred CHHHHHHCCCCCCCHHHHHHHHHHE-EEEEEEECCCCCCCEEEEECCC--CC--CCCCCCCCCCCCEEEEEHHHHHHHHH
Q ss_conf 3124411214884048999876202-4899980489863015511010--00--00211012567578852101211254
Q gi|254780399|r 80 ISDDFSNIHTFGFRGEALPSIGAVS-HLTLMSRPPQNNTGAQIAISGE--KI--SSVRPVAMNPGTIVEVRDLFFTIPAR 154 (594)
Q Consensus 80 i~~dl~~i~t~GFRGEAL~sIa~vs-~l~i~s~~~~~~~~~~~~~~~g--~~--~~~~~~~~~~GT~V~V~~LF~N~PvR 154 (594)
..+|-+.+ |=|--|-....--..| .+++.+.......-++.++..+ +. ..+.......||.|+ |+-=+.|
T Consensus 134 FDDdeyKV-SGGrNGvGAKLvNIFSteF~VEt~D~~~kk~ykQtw~nNM~k~~~PkIk~~~gk~yTkIT----FkPD~~i 208 (1506)
T PTZ00108 134 YDDAEDRI-TGGRNGFGAKLTNIFSKEFIVQCGDSSRKKEFKMTWSDNMSKFSEPHIKNYNGKDYVKVT----FKPDLAK 208 (1506)
T ss_pred CCCCCCEE-CCCCCCCCEEEEEECCCEEEEEEEECCCEEEEEEEEECCCCCCCCCEEECCCCCCCEEEE----EECCHHH
T ss_conf 78995634-488887245787862681899998479537999997089713788747436899816999----9848898
Q ss_pred HHCCCCHHHH-HHHHHHHHHHHHHCCCCCEEEE
Q ss_conf 3103453689-9999999999873189974999
Q gi|254780399|r 155 LNFLKSEQVE-TNLITDVIRRMAIAYPKVSFTF 186 (594)
Q Consensus 155 rkflks~~~e-~~~I~~~v~~~aL~~P~V~f~l 186 (594)
-+.- .-..+ ...+.+.+..+|-. .+|.+.|
T Consensus 209 Fgmt-~ld~Di~sLL~KRvyDLAgt-~sVkVyL 239 (1506)
T PTZ00108 209 FGMT-EMDDDIESLLCKRVYDLAGT-CSVRVYL 239 (1506)
T ss_pred CCCC-CCCHHHHHHHHHHHHHHHCC-CCEEEEE
T ss_conf 0983-03778999999999997367-7806997
No 66
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=96.54 E-value=0.0098 Score=39.30 Aligned_cols=22 Identities=18% Similarity=0.440 Sum_probs=7.9
Q ss_pred EEEEECCCCCCHHHHHHHHCCC
Q ss_conf 9999888998898999875024
Q gi|254780399|r 54 FQITDNGFGMTSEEIPMAVQRH 75 (594)
Q Consensus 54 i~V~DnG~Gi~~~dl~~~~~rh 75 (594)
|.|+|+|.||++++++..|+++
T Consensus 595 ~~V~DTGiGI~~e~~~~IF~~F 616 (912)
T PRK11466 595 VEVEDSGCGIDPAKLAEIFQPF 616 (912)
T ss_pred EEEEECCCCCCHHHHHHHHCCC
T ss_conf 9985089999999999884476
No 67
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=96.53 E-value=0.031 Score=35.66 Aligned_cols=35 Identities=14% Similarity=0.241 Sum_probs=22.5
Q ss_pred HCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEC
Q ss_conf 45888898999999999981888878878872799838
Q gi|254780399|r 547 RSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPTFIKLK 584 (594)
Q Consensus 547 k~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt~~~l~ 584 (594)
+.|-.|. -|+.=+..|.- +.--.|-||.-+++.|+
T Consensus 459 v~G~Gl~--GmrERVsaLGG-~l~lssq~GTrviVnLP 493 (497)
T COG3851 459 VQGFGLT--GMRERVSALGG-TLTLSSQHGTRVIVNLP 493 (497)
T ss_pred CCCCCCC--HHHHHHHHHCC-CEEEEECCCCEEEEECC
T ss_conf 5675720--08999997478-25887436858999460
No 68
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=96.39 E-value=0.078 Score=32.80 Aligned_cols=22 Identities=23% Similarity=0.558 Sum_probs=8.5
Q ss_pred EEEEECCCCCCHHHHHHHHCCC
Q ss_conf 9999888998898999875024
Q gi|254780399|r 54 FQITDNGFGMTSEEIPMAVQRH 75 (594)
Q Consensus 54 i~V~DnG~Gi~~~dl~~~~~rh 75 (594)
+.|+|.|.||+++++...++++
T Consensus 619 fsV~DTGIGIsee~~~~LFepF 640 (947)
T PRK10841 619 FRVRDTGVGIPAKEVVRLFDPF 640 (947)
T ss_pred EEEEECCCCCCHHHHHHHHCHH
T ss_conf 9999828998999999884711
No 69
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=96.27 E-value=0.013 Score=38.52 Aligned_cols=55 Identities=9% Similarity=0.238 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-CCCCCCCCCCCEEEEEECHHH
Q ss_conf 999999997634866645888898999999999981-888878878872799838889
Q gi|254780399|r 531 DRIENILATMACYGSIRSGRKMQSIEMNRLLREMEK-NPNSSQCNHGRPTFIKLKLSD 587 (594)
Q Consensus 531 ~~~~~~l~s~ACr~AIk~gd~L~~~e~~~Li~~L~~-c~~P~~CpHGRPt~~~l~~~e 587 (594)
+..++++.-.....+|-.|-.||. ++.|+.++.. .....+--||--+++.++-.|
T Consensus 613 ~l~dkLl~PFttsK~vgLGlGLSI--sqSlmeqmqG~l~lAStLt~nA~ViL~f~v~~ 668 (673)
T COG4192 613 ELVDKLLTPFTTSKEVGLGLGLSI--SQSLMEQMQGRLALASTLTKNAMVILEFQVDE 668 (673)
T ss_pred HHHHHHCCCCCCCCCCCCCCCHHH--HHHHHHHHCCCCHHHHHCCCCCEEEEEEEECC
T ss_conf 677886077664310055532567--89999984274448655135748999984131
No 70
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=96.23 E-value=0.022 Score=36.75 Aligned_cols=73 Identities=22% Similarity=0.211 Sum_probs=46.0
Q ss_pred CHHHHHHHHHHHHHHC---CCCEEEEEEECC--CE--EEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCH
Q ss_conf 9789999999877726---996799999809--84--3999998889988989998750246656312441121488404
Q gi|254780399|r 22 RPSIAIKELIENSLDA---ESSRVETVIAGG--GK--SFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRG 94 (594)
Q Consensus 22 ~~~svVkELveNSlDA---gAt~I~v~i~~~--g~--~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRG 94 (594)
|.-.|+--|+.|||-- |.-.|.|.+... +. -.|.|.|+|.||++++++..++++.-. |-..-+-||--|
T Consensus 408 Rl~QIl~NLl~NAiKfT~~G~I~v~v~~~~~~~~~~~l~~~V~DTGiGI~~~~~~~iF~~F~q~----d~s~~r~~gGtG 483 (920)
T PRK11107 408 RLQQIITNLVGNAIKFTESGNIDILVELRALSDEKVQLEVQIRDTGIGISERQQSQLFQAFRQA----DASISRRHGGTG 483 (920)
T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCEEEEEEEEEEECCCCCHHHHHHHHCCCCCC----CCCCCCCCCCCC
T ss_conf 9999999999999971889937999999964798489999999970586999999785420156----765445679877
Q ss_pred HHHH
Q ss_conf 8999
Q gi|254780399|r 95 EALP 98 (594)
Q Consensus 95 EAL~ 98 (594)
=.|+
T Consensus 484 LGLa 487 (920)
T PRK11107 484 LGLV 487 (920)
T ss_pred CHHH
T ss_conf 4299
No 71
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=96.13 E-value=0.092 Score=32.31 Aligned_cols=10 Identities=10% Similarity=0.474 Sum_probs=4.0
Q ss_pred CCCHHHHHHH
Q ss_conf 9889899987
Q gi|254780399|r 62 GMTSEEIPMA 71 (594)
Q Consensus 62 Gi~~~dl~~~ 71 (594)
||+.|-|.++
T Consensus 81 GI~ADYl~li 90 (1197)
T PRK09959 81 GINADYLNLL 90 (1197)
T ss_pred CCCHHHHHHH
T ss_conf 8479999999
No 72
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.93 E-value=0.026 Score=36.21 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHCC
Q ss_conf 7999899998669
Q gi|254780399|r 472 LIMEHDEDLHRLG 484 (594)
Q Consensus 472 ~l~~~~~~l~~~G 484 (594)
-+...++..+.+|
T Consensus 332 GL~~mreRv~~lg 344 (365)
T COG4585 332 GLLGMRERVEALG 344 (365)
T ss_pred CHHHHHHHHHHCC
T ss_conf 6766999999869
No 73
>PRK10547 chemotaxis protein CheA; Provisional
Probab=95.88 E-value=0.034 Score=35.45 Aligned_cols=26 Identities=12% Similarity=0.373 Sum_probs=15.7
Q ss_pred HHCCCEEE-EECCCEEEEEECCCCCCC
Q ss_conf 86695999-607987999952611155
Q gi|254780399|r 481 HRLGIKAE-RFGPNAIAIREIPAILSK 506 (594)
Q Consensus 481 ~~~Gf~~e-~~g~~~~~i~~iP~~l~~ 506 (594)
..+|+.++ ..|...+.|+.++..+..
T Consensus 598 ~~~al~VD~l~g~~eiVvKpl~~~l~~ 624 (662)
T PRK10547 598 RRYALLVDQLIGQHQVVVKNLESNYRK 624 (662)
T ss_pred EEEEEEECEECCEEEEEEEECHHHCCC
T ss_conf 899999257612454899664131288
No 74
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS; InterPro: IPR014302 This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (IPR003594 from INTERPRO), HAMP (IPR003660 from INTERPRO), phosphoacceptor (IPR003661 from INTERPRO), and phosphotransfer (IPR008207 from INTERPRO) domains and a response regulator receiver domain (IPR001789 from INTERPRO)..
Probab=95.67 E-value=0.027 Score=36.15 Aligned_cols=102 Identities=19% Similarity=0.242 Sum_probs=74.8
Q ss_pred CCHHHHHHHHHHHHH---HCCCCEEEEEEECCCE-----EEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCC
Q ss_conf 697899999998777---2699679999980984-----39999988899889899987502466563124411214884
Q gi|254780399|r 21 ERPSIAIKELIENSL---DAESSRVETVIAGGGK-----SFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGF 92 (594)
Q Consensus 21 ~~~~svVkELveNSl---DAgAt~I~v~i~~~g~-----~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GF 92 (594)
.|.=.|+==||-|+| |-|.=.|.|.+.+++- ..+.|+|-||||.+++...+|..|.+-- ..-++.|-
T Consensus 621 ~riRQvL~NLvgNaIKFT~~Gsv~l~~~l~~~~~~gdsel~F~V~DtG~GIae~~~~~lF~aF~Qa~-----eg~~~~gG 695 (1052)
T TIGR02956 621 RRIRQVLINLVGNAIKFTDRGSVVLRVSLNDDSSSGDSELLFEVEDTGVGIAEEEQATLFDAFTQAD-----EGRRKSGG 695 (1052)
T ss_pred CHHHHHHHHHHHCCCEECCCCEEEEEEEECCCCCCCCCEEEEEEEECCCCCCHHHHHHHCCCCCCCC-----CCCCCCCC
T ss_conf 1344767654413200434526999988558889866347888862477998799985433101210-----13731377
Q ss_pred CHHHHHHHH-----HH-EE---EEEEEECC-CCCCCEEEEECCCCC
Q ss_conf 048999876-----20-24---89998048-986301551101000
Q gi|254780399|r 93 RGEALPSIG-----AV-SH---LTLMSRPP-QNNTGAQIAISGEKI 128 (594)
Q Consensus 93 RGEAL~sIa-----~v-s~---l~i~s~~~-~~~~~~~~~~~~g~~ 128 (594)
=|=-|| || ++ +. +.+.|... |+..+..+-+..|+.
T Consensus 696 TGLGLA-Is~~Lv~AM~G~GrGl~v~S~~~~GScF~F~lpl~~~~~ 740 (1052)
T TIGR02956 696 TGLGLA-ISRRLVEAMDGEGRGLGVESELGQGSCFWFTLPLARGKP 740 (1052)
T ss_pred CCCHHH-HHHHHHHHHCCCCCCCEEEEECCCCCEEEEECCCCCCCH
T ss_conf 650689-999999970888765016664587502212423133750
No 75
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=95.63 E-value=0.02 Score=37.07 Aligned_cols=21 Identities=29% Similarity=0.449 Sum_probs=7.2
Q ss_pred ECCCEEEEEECCCCCCCCCHH
Q ss_conf 079879999526111556789
Q gi|254780399|r 490 FGPNAIAIREIPAILSKKNIP 510 (594)
Q Consensus 490 ~g~~~~~i~~iP~~l~~~~~~ 510 (594)
|++.-=.+-.+|.-+.+...+
T Consensus 437 F~~rL~v~i~id~~l~~~~iP 457 (557)
T COG3275 437 FGDRLDVVIDIDEELRQVQIP 457 (557)
T ss_pred CCCCEEEEEECCHHHHHCCCC
T ss_conf 488447999468777533686
No 76
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=95.57 E-value=0.047 Score=34.40 Aligned_cols=95 Identities=12% Similarity=0.137 Sum_probs=56.0
Q ss_pred ECCCEEEEEECCCCCC-----CCCHHHHHHHHHHHHHHCCCCCC-----------------------H----HHHHHHHH
Q ss_conf 0798799995261115-----56789999999999985788664-----------------------6----89999999
Q gi|254780399|r 490 FGPNAIAIREIPAILS-----KKNIPQLLRDIIDEIIDSSTTYT-----------------------L----QDRIENIL 537 (594)
Q Consensus 490 ~g~~~~~i~~iP~~l~-----~~~~~~~l~dll~~l~~~~~~~~-----------------------~----~~~~~~~l 537 (594)
+.+.. +..++|..+. ..-+++.+.++++.-..+..... + .+++-+.+
T Consensus 753 ~~~~~-i~v~~~~dl~li~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~~~~v~~~V~DeGpGIP~~~~~~IFD~F 831 (890)
T COG2205 753 FTGHK-IVVSVPVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVERENVVFSVIDEGPGIPEGELERIFDKF 831 (890)
T ss_pred CCCCE-EEEECCCCCCEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHHHHH
T ss_conf 47835-89955888716764788999999999987874289997699999982456999997189998856788764654
Q ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCC-CCCCCCEEEEEECHH
Q ss_conf 9763486664588889899999999998188887-887887279983888
Q gi|254780399|r 538 ATMACYGSIRSGRKMQSIEMNRLLREMEKNPNSS-QCNHGRPTFIKLKLS 586 (594)
Q Consensus 538 ~s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~-~CpHGRPt~~~l~~~ 586 (594)
....-.++ +.|--|-..=|+.+|+.+.-.-.-. +-++|--.++.|+..
T Consensus 832 ~r~~~~~~-~~G~GLGLsIc~~iv~ahgG~I~a~~~~~gGa~f~~~LP~~ 880 (890)
T COG2205 832 YRGNKESA-TRGVGLGLAICRGIVEAHGGTISAENNPGGGAIFVFTLPVE 880 (890)
T ss_pred HCCCCCCC-CCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEEECC
T ss_conf 14888778-88766229999999997488689877699935899994068
No 77
>PRK13560 hypothetical protein; Provisional
Probab=95.49 E-value=0.031 Score=35.74 Aligned_cols=19 Identities=5% Similarity=0.106 Sum_probs=8.7
Q ss_pred CHHHHHHHHHHHHHHHHCC
Q ss_conf 8347777999899998669
Q gi|254780399|r 466 LEGECALIMEHDEDLHRLG 484 (594)
Q Consensus 466 s~~e~~~l~~~~~~l~~~G 484 (594)
.|.+...+......+.+-|
T Consensus 526 hPeDr~~v~~~l~~~~~~G 544 (807)
T PRK13560 526 HPADLEQVAAEVAEFAAQG 544 (807)
T ss_pred CHHHHHHHHHHHHHHHCCC
T ss_conf 9788888999999874157
No 78
>TIGR01925 spIIAB anti-sigma F factor; InterPro: IPR010194 This entry describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter . SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex . The SpoIIE phosphatase dephosphorylates SpoIIAA.; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0016989 sigma factor antagonist activity, 0006468 protein amino acid phosphorylation, 0030435 sporulation, 0045892 negative regulation of transcription DNA-dependent.
Probab=95.47 E-value=0.022 Score=36.80 Aligned_cols=67 Identities=21% Similarity=0.321 Sum_probs=51.2
Q ss_pred CCCHHHHHHHHHHHHHHCCC-------CEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCC
Q ss_conf 26978999999987772699-------67999998098439999988899889899987502466563124411214884
Q gi|254780399|r 20 IERPSIAIKELIENSLDAES-------SRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGF 92 (594)
Q Consensus 20 i~~~~svVkELveNSlDAgA-------t~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GF 92 (594)
++..-.||.|-|-|||=-|= -.|.+.+++.-. .|.|.|||.|| +||+.|-++-+|||= ||++ .-+||
T Consensus 37 l~diK~~VSEAVTNAIIHGYE~~~~~~V~I~~~~~d~~~-~~~v~D~G~GI--~~lE~A~~PLyTskP--eLER-SGMGF 110 (137)
T TIGR01925 37 LTDIKTAVSEAVTNAIIHGYEENKEGVVIISATIEDDEV-SITVRDEGIGI--ENLEEAREPLYTSKP--ELER-SGMGF 110 (137)
T ss_pred HHHHHHHHHHHHHCCEEECEEECCCCEEEEEEEEECCEE-EEEEEECCCCH--HHHHHHCCCCCCCCC--CCCC-CCCCE
T ss_conf 555543332232120531456379977899999605489-99986467572--337853266457998--7220-67860
No 79
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=95.32 E-value=0.057 Score=33.82 Aligned_cols=26 Identities=12% Similarity=0.289 Sum_probs=12.2
Q ss_pred HHHHHHHHHCCCC----CCCCCCCEEEEEE
Q ss_conf 9999999818888----7887887279983
Q gi|254780399|r 558 NRLLREMEKNPNS----SQCNHGRPTFIKL 583 (594)
Q Consensus 558 ~~Li~~L~~c~~P----~~CpHGRPt~~~l 583 (594)
.++-..|..+... -.+-||.=|.+.+
T Consensus 419 ~Nv~~rl~~~~g~~~~~i~s~~~~gt~v~~ 448 (456)
T COG2972 419 SNVKERLKLYFGEPGLSIDSQPGKGTFVQI 448 (456)
T ss_pred HHHHHHHHHCCCCCCEEEEEECCCCEEEEE
T ss_conf 879999987189762179996489589999
No 80
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.07 E-value=0.073 Score=33.05 Aligned_cols=23 Identities=4% Similarity=0.017 Sum_probs=17.3
Q ss_pred HHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 86664588889899999999998
Q gi|254780399|r 543 YGSIRSGRKMQSIEMNRLLREME 565 (594)
Q Consensus 543 r~AIk~gd~L~~~e~~~Li~~L~ 565 (594)
|+.-+-|..|-.+=++.+|+...
T Consensus 405 RsR~~gGTGLGLaIakeiV~~hg 427 (459)
T COG5002 405 RSRKMGGTGLGLAIAKEIVQAHG 427 (459)
T ss_pred HHHCCCCCCHHHHHHHHHHHHHC
T ss_conf 54037877612999999999709
No 81
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=94.20 E-value=0.12 Score=31.59 Aligned_cols=19 Identities=5% Similarity=0.172 Sum_probs=8.9
Q ss_pred CCHHHHHHHHHHHHHHHHH
Q ss_conf 5979999999997898875
Q gi|254780399|r 309 RNPTIIRNFIIQSIQKAIN 327 (594)
Q Consensus 309 ~de~~i~~~i~~~i~~~L~ 327 (594)
.|...+-+.+..-++++..
T Consensus 237 ~d~DqliQv~LNlVrNAaq 255 (363)
T COG3852 237 GDRDQLIQVFLNLVRNAAQ 255 (363)
T ss_pred CCHHHHHHHHHHHHHHHHH
T ss_conf 6989999999999999999
No 82
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=94.05 E-value=0.14 Score=30.96 Aligned_cols=25 Identities=20% Similarity=0.441 Sum_probs=13.3
Q ss_pred HCCCEEE-EECCCEEEEEECCCCCCC
Q ss_conf 6695999-607987999952611155
Q gi|254780399|r 482 RLGIKAE-RFGPNAIAIREIPAILSK 506 (594)
Q Consensus 482 ~~Gf~~e-~~g~~~~~i~~iP~~l~~ 506 (594)
..|+.++ ..|...+.|+++-..+..
T Consensus 656 ~~al~VD~liGqqevVIK~L~~~l~~ 681 (716)
T COG0643 656 RVALLVDELIGQQEVVIKPLGGNLAK 681 (716)
T ss_pred EEEEEEEECCCCEEEEEEECHHCCCC
T ss_conf 79999621156146999312001578
No 83
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=94.01 E-value=0.55 Score=26.74 Aligned_cols=86 Identities=19% Similarity=0.181 Sum_probs=56.1
Q ss_pred CCCCCHHHHHHHHHHHHHHCCC-----CEEEEE--EECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCC
Q ss_conf 7226978999999987772699-----679999--980984399999888998898999875024665631244112148
Q gi|254780399|r 18 EIIERPSIAIKELIENSLDAES-----SRVETV--IAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTF 90 (594)
Q Consensus 18 evi~~~~svVkELveNSlDAgA-----t~I~v~--i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~ 90 (594)
+.|...--+|-|-+-|+|.-|- ..|.|. +.+. .-.|.|.|.|.|.++++++....+....+ ++..+
T Consensus 38 e~i~di~LAV~EA~tNaI~Hay~~~~~~~i~i~~~~~~~-~l~i~V~D~G~gfD~~~~~~~~~P~~~~~---~l~~~--- 110 (158)
T PRK04069 38 DDIEDLKIAVSEACTNAVQHAYKEEEVGEINIRFEIYED-RLEIVVADNGDSFDYETTKSKIGPYDPSE---PIDDL--- 110 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECC-EEEEEEEECCCCCCHHHCCCCCCCCCCCC---CHHHC---
T ss_conf 999889999999999999975156999479999999599-99999999174879567432458888888---61113---
Q ss_pred CCCHHHHHHHHHHE-EEEEEE
Q ss_conf 84048999876202-489998
Q gi|254780399|r 91 GFRGEALPSIGAVS-HLTLMS 110 (594)
Q Consensus 91 GFRGEAL~sIa~vs-~l~i~s 110 (594)
.-+|=-|+-|.++. .+++.+
T Consensus 111 ~~gGlGl~lI~~lmDeV~~~~ 131 (158)
T PRK04069 111 REGGLGLFLIETLMDDVTVYK 131 (158)
T ss_pred CCCCCHHHHHHHHCCEEEEEE
T ss_conf 678740999997525589990
No 84
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=93.95 E-value=0.16 Score=30.54 Aligned_cols=44 Identities=20% Similarity=0.383 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHHHHCCCC-----EEEEEE--ECCC-EEEEEEEECCCCCCH
Q ss_conf 9789999999877726996-----799999--8098-439999988899889
Q gi|254780399|r 22 RPSIAIKELIENSLDAESS-----RVETVI--AGGG-KSFFQITDNGFGMTS 65 (594)
Q Consensus 22 ~~~svVkELveNSlDAgAt-----~I~v~i--~~~g-~~~i~V~DnG~Gi~~ 65 (594)
.++-+|-||+-||+-=|+. +|.|.+ .++| .....|.|||.|++.
T Consensus 122 ~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~ 173 (221)
T COG3920 122 PLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPV 173 (221)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCEEEEEEEECCCCCCC
T ss_conf 9999999999988986178889977999999847997179999878989888
No 85
>pfam02742 Fe_dep_repr_C Iron dependent repressor, metal binding and dimerization domain. This family includes the Diphtheria toxin repressor.
Probab=93.37 E-value=0.1 Score=31.96 Aligned_cols=38 Identities=18% Similarity=0.187 Sum_probs=32.6
Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEE
Q ss_conf 63486664588889899999999998188887887887279
Q gi|254780399|r 540 MACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPTF 580 (594)
Q Consensus 540 ~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt~ 580 (594)
.||+-|-+.-+.|+.+-+++|..-| .+|-.||||+|+.
T Consensus 32 ~a~~~A~~iEH~ls~~~~~~l~~~l---~~p~~~PhG~~Ip 69 (71)
T pfam02742 32 EVHEEAERLEHVLSDELIDRLDEFL---GFPETCPHGDPIP 69 (71)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHC---CCCCCCCCCCCCC
T ss_conf 9999999983229999999999982---8999896949999
No 86
>TIGR01386 cztS_silS_copS heavy metal sensor kinase; InterPro: IPR006290 Members of this family contain a sensor histidine kinase domain (IPR003661 from INTERPRO) and a domain found in bacterial signal proteins (IPR003660 from INTERPRO). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. ; GO: 0000155 two-component sensor activity, 0016775 phosphotransferase activity nitrogenous group as acceptor, 0000160 two-component signal transduction system (phosphorelay), 0007600 sensory perception.
Probab=93.14 E-value=0.18 Score=30.26 Aligned_cols=20 Identities=0% Similarity=0.107 Sum_probs=12.7
Q ss_pred HHHHHHHHHCCCCCEEEEEE
Q ss_conf 99999987318997499998
Q gi|254780399|r 169 TDVIRRMAIAYPKVSFTFST 188 (594)
Q Consensus 169 ~~~v~~~aL~~P~V~f~l~~ 188 (594)
...+....-.|+++.+.+..
T Consensus 70 ~~~~~~~~~~h~~l~l~i~~ 89 (483)
T TIGR01386 70 AEKLDDLLAGHSDLALLILD 89 (483)
T ss_pred HHHHHHHHHHCCCEEEEEEC
T ss_conf 89999997313870788746
No 87
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.36 E-value=0.58 Score=26.54 Aligned_cols=20 Identities=15% Similarity=0.182 Sum_probs=11.8
Q ss_pred CCCCCCCEEEEEECHHHHHH
Q ss_conf 78878872799838889976
Q gi|254780399|r 571 SQCNHGRPTFIKLKLSDIEK 590 (594)
Q Consensus 571 ~~CpHGRPt~~~l~~~el~k 590 (594)
-..|||.-.-+.|++.-..+
T Consensus 433 ~s~p~GTel~v~Lp~~~~~~ 452 (459)
T COG4564 433 ESSPQGTELTVLLPLDASVR 452 (459)
T ss_pred EECCCCCEEEEEECCHHHHH
T ss_conf 75698727999814046665
No 88
>KOG0355 consensus
Probab=87.88 E-value=1.1 Score=24.50 Aligned_cols=164 Identities=15% Similarity=0.120 Sum_probs=89.5
Q ss_pred CCCCCHHHHHHHHHHHHHH----CCCCEEEEEEECCCEEEEEEEECCCCCCHHHHH--------HH-HCCCCCCCCHHHH
Q ss_conf 7226978999999987772----699679999980984399999888998898999--------87-5024665631244
Q gi|254780399|r 18 EIIERPSIAIKELIENSLD----AESSRVETVIAGGGKSFFQITDNGFGMTSEEIP--------MA-VQRHCTSKISDDF 84 (594)
Q Consensus 18 evi~~~~svVkELveNSlD----AgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~--------~~-~~rh~TSKi~~dl 84 (594)
.-+..+..+.-|.+-|+.| ++-..|.|.+. -....|.|.+||.||+-+-.+ +. +.-||.|+..+|
T Consensus 49 t~~pGl~ki~dEilvNaadk~rd~~m~~i~v~i~-~e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~- 126 (842)
T KOG0355 49 TYVPGLYKIFDEILVNAADKQRDPKMNTIKVTID-KEKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDD- 126 (842)
T ss_pred ECCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEEC-CCCCEEEEEECCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCC-
T ss_conf 3487178888998603323224877652688871-67767999957972131223422245347887664411567887-
Q ss_pred HHCCCCCCCHHHHHHHHHHE--EEEEEEECCCCCCCEEEEECCCCCCC----CCCCCCCCCCEEEEEHHHHHHHHHHHCC
Q ss_conf 11214884048999876202--48999804898630155110100000----2110125675788521012112543103
Q gi|254780399|r 85 SNIHTFGFRGEALPSIGAVS--HLTLMSRPPQNNTGAQIAISGEKISS----VRPVAMNPGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 85 ~~i~t~GFRGEAL~sIa~vs--~l~i~s~~~~~~~~~~~~~~~g~~~~----~~~~~~~~GT~V~V~~LF~N~PvRrkfl 158 (594)
.-+..|-|+--=+-++.+= ..++.|........++-.+..+.... ..+..-+.+|.|+-. |--.||.
T Consensus 127 -ekK~tggrngygakLcniFs~~f~~Et~d~~~~~~~kQ~w~~nm~~~~~~~i~~~~~~~yTkitF~------PDl~~F~ 199 (842)
T KOG0355 127 -EKKVTGGRNGYGAKLCNIFSTEFTVETADREYKMAFKQTWINNMTRDEEPKIVPSTDEDYTKITFS------PDLEKFK 199 (842)
T ss_pred -CCCCCCCCCCCCCEEEEECCCCCEEEEEEHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCCEEEEC------CCHHHCC
T ss_conf -543236777502034321145403653006777787776526876567865522589995369968------4767527
Q ss_pred CCHHHHHHH-HHHHHHH--HHHCCCCCEEEEEECCCCE
Q ss_conf 453689999-9999999--8731899749999879830
Q gi|254780399|r 159 KSEQVETNL-ITDVIRR--MAIAYPKVSFTFSTIKSNR 193 (594)
Q Consensus 159 ks~~~e~~~-I~~~v~~--~aL~~P~V~f~l~~~~~~~ 193 (594)
=. |+.+ +.+++.+ |-++-+-.+..+..++.+.
T Consensus 200 m~---eLD~Div~l~~rr~~d~a~~~~~vkv~ln~~~~ 234 (842)
T KOG0355 200 MK---ELDDDIVALMARRAYDLAGSVKSVKVELNGKNI 234 (842)
T ss_pred CH---HHCCHHHHHHHHHHHHHCCCCCCEEEEECCCCC
T ss_conf 22---322318876776666523442121565168877
No 89
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=87.83 E-value=2.2 Score=22.40 Aligned_cols=94 Identities=19% Similarity=0.260 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCC------E--EEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCC
Q ss_conf 72269789999999877726996------7--999998098439999988899889899987502466563124411214
Q gi|254780399|r 18 EIIERPSIAIKELIENSLDAESS------R--VETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHT 89 (594)
Q Consensus 18 evi~~~~svVkELveNSlDAgAt------~--I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t 89 (594)
+-+.+..-+|-|++.|++..+=. . |.+.+++ +.-.|.|.|.|.|+. |+..+..+..+. .+++..
T Consensus 36 ~~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~-~~~~i~i~D~G~~~~--~~~~~~~~~~~~--~~~~~~--- 107 (146)
T COG2172 36 VDIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDD-GKLEIRIWDQGPGIE--DLEESLGPGDTT--AEGLQE--- 107 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECC-CEEEEEEEECCCCCC--CHHHHCCCCCCC--CCCCCC---
T ss_conf 899999999999998999976303899865999999709-939999995798987--888853888888--875324---
Q ss_pred CCCCHHHHHHHH-HHEEEEEEEECCCCCCCEEEE
Q ss_conf 884048999876-202489998048986301551
Q gi|254780399|r 90 FGFRGEALPSIG-AVSHLTLMSRPPQNNTGAQIA 122 (594)
Q Consensus 90 ~GFRGEAL~sIa-~vs~l~i~s~~~~~~~~~~~~ 122 (594)
| |=-|+-+- .+-.+++.+.......+..+.
T Consensus 108 -~--G~Gl~l~~~~~D~~~~~~~~~~~~~~~~~~ 138 (146)
T COG2172 108 -G--GLGLFLAKRLMDEFSYERSEDGRNRLTKIT 138 (146)
T ss_pred -C--CCCHHHHHHHHEEEEEEEECCCCEEEEEEE
T ss_conf -7--313788862110799996069855899999
No 90
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=85.90 E-value=0.83 Score=25.45 Aligned_cols=97 Identities=18% Similarity=0.298 Sum_probs=51.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCCEE-EEECCCEEEEEECCCCCCCCCHHHHH--HHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf 34678347777999899998669599-96079879999526111556789999--9999999857886646899999999
Q gi|254780399|r 462 IIDLLEGECALIMEHDEDLHRLGIKA-ERFGPNAIAIREIPAILSKKNIPQLL--RDIIDEIIDSSTTYTLQDRIENILA 538 (594)
Q Consensus 462 ~i~Ls~~e~~~l~~~~~~l~~~Gf~~-e~~g~~~~~i~~iP~~l~~~~~~~~l--~dll~~l~~~~~~~~~~~~~~~~l~ 538 (594)
.++++|. ...+....|.+.|+.- +..++ +.++.- +......++ +-+++.+.. ..-.+=.
T Consensus 33 ~L~Vsp~---sVt~ml~rL~~~GlV~~~~y~g--i~LT~~----G~~~a~~~~r~hrlle~fL~---------~~lg~~~ 94 (154)
T COG1321 33 RLKVSPP---SVTEMLKRLERLGLVEYEPYGG--VTLTEK----GREKAKELLRKHRLLERFLV---------DVLGLDW 94 (154)
T ss_pred HHCCCCH---HHHHHHHHHHHCCCEEEECCCC--EEECCC----HHHHHHHHHHHHHHHHHHHH---------HHHCCCH
T ss_conf 8589927---8999999998789978845888--678835----48999999999999999999---------9858988
Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEE
Q ss_conf 76348666458888989999999999818888788788727
Q gi|254780399|r 539 TMACYGSIRSGRKMQSIEMNRLLREMEKNPNSSQCNHGRPT 579 (594)
Q Consensus 539 s~ACr~AIk~gd~L~~~e~~~Li~~L~~c~~P~~CpHGRPt 579 (594)
..||+-|-.+.+.++..-..+|.+-| .+|-.||||+|+
T Consensus 95 ~~~~~ea~~leh~~s~~~~~rl~~~l---~~~~~~p~g~~i 132 (154)
T COG1321 95 EEAHEEAEGLEHALSDETAERLDELL---GFPTRCPHGKPI 132 (154)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHH---CCCCCCCCCCCC
T ss_conf 99999998886219999999999995---798659899801
No 91
>COG1929 Glycerate kinase [Carbohydrate transport and metabolism]
Probab=84.82 E-value=0.97 Score=24.96 Aligned_cols=68 Identities=26% Similarity=0.437 Sum_probs=46.7
Q ss_pred HHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHEEE
Q ss_conf 99999877726996799999809843999998889988989998750246656312441121488404899987620248
Q gi|254780399|r 27 IKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRGEALPSIGAVSHL 106 (594)
Q Consensus 27 VkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRGEAL~sIa~vs~l 106 (594)
.-||+--+||+||++|.|-| ||. --.|-|.|| +.-.+-++.-. +-.-+|+-|.+|..|+++..-
T Consensus 114 tGeLI~~Ald~Ga~~IiiGi--GGS---ATnDgG~Gm----l~ALG~~f~d~-------~g~~i~~gG~~L~~l~~id~s 177 (378)
T COG1929 114 TGELIKHALDAGAKHIIIGI--GGS---ATNDGGAGM----LQALGAQFLDA-------DGNDLGFGGGSLANLASIDLS 177 (378)
T ss_pred HHHHHHHHHHCCCCEEEEEC--CCC---CCCCCHHHH----HHHHCCHHHHC-------CCCCCCCCCHHHHHHHHCCHH
T ss_conf 88999999967973899951--554---357622889----99828433313-------588746662544545424262
Q ss_pred EEEE
Q ss_conf 9998
Q gi|254780399|r 107 TLMS 110 (594)
Q Consensus 107 ~i~s 110 (594)
.+-.
T Consensus 178 ~ld~ 181 (378)
T COG1929 178 NLDP 181 (378)
T ss_pred HCCC
T ss_conf 1795
No 92
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=79.78 E-value=4.7 Score=20.05 Aligned_cols=151 Identities=15% Similarity=0.149 Sum_probs=58.3
Q ss_pred EEEECCCEEEEEEEECCC---CCCHHHHH-HHHCCCCCCCCHHHHH------HCCCCCCCHHHHHHHHHHEE-EEEEEEC
Q ss_conf 999809843999998889---98898999-8750246656312441------12148840489998762024-8999804
Q gi|254780399|r 44 TVIAGGGKSFFQITDNGF---GMTSEEIP-MAVQRHCTSKISDDFS------NIHTFGFRGEALPSIGAVSH-LTLMSRP 112 (594)
Q Consensus 44 v~i~~~g~~~i~V~DnG~---Gi~~~dl~-~~~~rh~TSKi~~dl~------~i~t~GFRGEAL~sIa~vs~-l~i~s~~ 112 (594)
+.+++.+....++++|-- |..++||. .-..-..||+--.+|. .+.+.++ ..-...... +.++-
T Consensus 33 lvl~~~~~~Vlq~S~N~~~~LG~~~e~l~~~tl~~vl~~~qv~~l~~~l~~~~~~~~np----~~~w~~~~~~fDv~~-- 106 (750)
T COG4251 33 LVLDEADLMVLQASENCANILGREPEDLLGRTLGAVLTSEQVPPLQSALTVGGLTTLNP----TKMWTRKGGSFDVSA-- 106 (750)
T ss_pred EEEECCCCHHHHHHHHHHHHHCCCHHHHHCCCHHHHCCHHHCCHHHHHCCCCCCCCCCC----HHHHHHCCCCEEEEE--
T ss_conf 99635772365664568888577836650688788436531428887435567555783----056664177126898--
Q ss_pred CCCCCCEEEEECCCCCCCCCCCCCCCCCEEEEEHH-HHHHHHHHH-CCCC-HHH--HHHHHHHHHHHHHHCCCCCE-EEE
Q ss_conf 89863015511010000021101256757885210-121125431-0345-368--99999999999873189974-999
Q gi|254780399|r 113 PQNNTGAQIAISGEKISSVRPVAMNPGTIVEVRDL-FFTIPARLN-FLKS-EQV--ETNLITDVIRRMAIAYPKVS-FTF 186 (594)
Q Consensus 113 ~~~~~~~~~~~~~g~~~~~~~~~~~~GT~V~V~~L-F~N~PvRrk-flks-~~~--e~~~I~~~v~~~aL~~P~V~-f~l 186 (594)
.+ +++--+.+.+|. ||.=+..-| ||-.--+-. .|++ +.+ =+..+.+.|+++.= |--|= .+|
T Consensus 107 ------HR--~~~llIlEfEp~----~t~e~~~~l~f~h~~k~a~~~lq~a~~l~~l~~~~tqeVr~~tG-fDRVMlYrF 173 (750)
T COG4251 107 ------HR--SKELLILEFEPA----GTGETASFLGFYHLAKLAMNRLQSAANLRDLLSRTTQEVRRMTG-FDRVMLYRF 173 (750)
T ss_pred ------EE--CCCEEEEEEECC----CCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC-CCEEEEEEE
T ss_conf ------71--286799997237----66665432224889999999986386499999999999998608-754899960
Q ss_pred EECCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf 98798307997178810489999973216
Q gi|254780399|r 187 STIKSNRYKMNFQSTNGNFPERISQVIGE 215 (594)
Q Consensus 187 ~~~~~~~~~l~~~~~~~~l~~ri~~i~G~ 215 (594)
-.++.+ ++......+++..-+..-|..
T Consensus 174 ~~d~~G--~VIAEak~e~LesyLGl~yPa 200 (750)
T COG4251 174 DEDGSG--EVIAEAKREDLESYLGLRYPA 200 (750)
T ss_pred CCCCCC--CEEECCCCCCCHHHHCCCCCC
T ss_conf 578886--677404653204664656884
No 93
>KOG0787 consensus
Probab=76.19 E-value=5.8 Score=19.34 Aligned_cols=17 Identities=18% Similarity=0.065 Sum_probs=7.4
Q ss_pred EEEECCCCCEEECCCCE
Q ss_conf 13104551000025863
Q gi|254780399|r 410 CAQIHQNYIISQTTDGL 426 (594)
Q Consensus 410 igQ~~~~yIl~~~~~gL 426 (594)
.|+-+-.|-+.-.++|+
T Consensus 296 ~gdeDl~ikISDrGGGV 312 (414)
T KOG0787 296 KGDEDLLIKISDRGGGV 312 (414)
T ss_pred CCCCCEEEEEECCCCCC
T ss_conf 38863589971378996
No 94
>TIGR00973 leuA_bact 2-isopropylmalate synthase; InterPro: IPR005671 The branched-chain amino acids are synthesised by a common pathway that leads from pyruvate and alpha-ketobutyrate to valine and isoleucine, and a branch that leads from the immediate precursor of valine, alpha-ketoisovalerate, to leucine . This pathway operates in archaea, bacteria, fungi and plants, but not mammals, making the enzymes suitable targets for the development of novel antibiotics and herbicides. Isopropylmalate synthase is the enzyme responsible for the the first committed step in the leucine branch of this biosynthetic pathway, the conversion of alpha-ketoisovalerate to alpha-isopropylmalate. It is either dimeric or tetrameric, depending on the organism, with a monomer molecular mass of 60-70 kDa, a dependence on divalent metal ions for activity, and an alkaline pH optimum , , , . Like many other biosynthetic enzymes it is subject to feedback inhibition by the end product of the pathway, leucine. This entry represents the isopropylmalate synthase most commonly found in bacteria. A related form of this enzyme is found mainly in eukaryotes and some other bacteria (IPR005668 from INTERPRO). A homologous family in archaea may represent isozymes and/or related enzymes (IPR005675 from INTERPRO). ; GO: 0003852 2-isopropylmalate synthase activity, 0009098 leucine biosynthetic process.
Probab=74.93 E-value=1.9 Score=22.90 Aligned_cols=15 Identities=13% Similarity=0.505 Sum_probs=6.0
Q ss_pred HHHHHHHHCCCCEEE
Q ss_conf 999877726996799
Q gi|254780399|r 29 ELIENSLDAESSRVE 43 (594)
Q Consensus 29 ELveNSlDAgAt~I~ 43 (594)
|.||-+|+||||+|.
T Consensus 155 ~~~E~AI~AGATtIN 169 (514)
T TIGR00973 155 RVVEAAINAGATTIN 169 (514)
T ss_pred HHHHHHHHCCCEEEE
T ss_conf 999999827982872
No 95
>TIGR00080 pimt protein-L-isoaspartate O-methyltransferase; InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase () (PCMT) (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyzes the transfer of a methyl group from S- adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerization of normal L-aspartyl and L- asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process.
Probab=74.76 E-value=2.1 Score=22.59 Aligned_cols=35 Identities=29% Similarity=0.437 Sum_probs=28.9
Q ss_pred HHHHHHCCCCCCCCHHHHHH--HHHHHHHHCCCCEEE
Q ss_conf 99998526872269789999--999877726996799
Q gi|254780399|r 9 KIINQIAAGEIIERPSIAIK--ELIENSLDAESSRVE 43 (594)
Q Consensus 9 ~~~~~Iaagevi~~~~svVk--ELveNSlDAgAt~I~ 43 (594)
+....|-+|+.|+.|..|-+ |||||-|++|++-.+
T Consensus 52 ~~al~ig~~qtiS~p~mvA~m~~yL~nhL~~~~~vLe 88 (228)
T TIGR00080 52 DAALEIGYGQTISAPHMVAKMTEYLENHLKPGAKVLE 88 (228)
T ss_pred CCCCCCCCCCEECCHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf 5520025676244078999999988852140355665
No 96
>TIGR01211 ELP3 histone acetyltransferase, ELP3 family; InterPro: IPR005910 Histone acetylation is carried out by a class of enzymes known as histone acetyltransferases (HATs), which catalyse the transfer of an acetyl group from acetyl-CoA to the lysine E-amino groups on the N-terminal tails of histones . Early indication that HATs were involved in transcription came from the observation that in actively transcribed regions of chromatin, histones tend to be hyperacetylated, whereas in transcriptionally silent regions histones are hypoacetylated. The histone acetyltransferases are divided into five families. These include the Gcn5-related acetyltransferases (GNATs); the MYST (for 'MOZ, Ybf2/Sas3, Sas2 and Tip60)-related HATs; p300/CBP HATs; the general transcription factor HATs, which include the TFIID subunit TAF250; and the nuclear hormone-related HATs SRC1 and ACTR (SRC3). The GCN5-related N-acetyltransferase superfamily includes such enzymes as the histone acetyltransferases GCN5 and Hat1, the elongator complex subunit Elp3, the mediator-complex subunit Nut1, and Hpa2 . Many GNATs share several functional domains, including an N-terminal region of variable length, an acetyltransferase domain that encompasses the conserved sequence motifs described above, a region that interacts with the coactivator Ada2, and a C-terminal bromodomain that is believed to interact with acetyl-lysine residues. Members of the GNAT family are important for the regulation of cell growth and development. In mice, knockouts of Gcn5L are embryonic lethal. Yeast Gcn5 is needed for normal progression through the G2M boundary and mitotic gene expression. The importance of GNATs is probably related to their role in transcription and DNA repair. The yeast GCN5 (yGCN5) transcriptional coactivator functions as a histone acetyltransferase (HAT) to promote transcriptional activation. The crystal structure of the yeast histone acetyltransferase Hat1-acetyl coenzyme A (AcCoA) shows that Hat1 has an elongated, curved structure, and the AcCoA molecule is bound in a cleft on the concave surface of the protein, marking the active site of the enzyme. A channel of variable width and depth that runs across the protein is probably the binding site for the histone substrate . The central protein core associated with AcCoA binding that appears to be structurally conserved among a superfamily of N-acetyltransferases, including yeast histone acetyltransferase 1 and Serratia marcescens aminoglycoside 3-N-acetyltransferase . The Saccharomyces cerevisiae member YPL086C has been characterised in vitro as an N-terminal acetyltransferase (2.3.1.48 from EC) for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases. In vivo, ELP3 gene deletion confers typical ELP phenotypes such as slow growth adaptation, slow gene activation, and temperature sensitivity. This suggests a role for the proteins as novel, tightly RNAPII-associated histone acetyltransferases in transcription of DNA packaged in chromatin ..
Probab=72.95 E-value=1.3 Score=23.97 Aligned_cols=66 Identities=17% Similarity=0.190 Sum_probs=46.8
Q ss_pred CHHHHH----HHHCCCCCCC-CH--HHHHHCCCCCCCHHHHH--------HHHHHEEEEEEEECCCCCCCE-----EEEE
Q ss_conf 898999----8750246656-31--24411214884048999--------876202489998048986301-----5511
Q gi|254780399|r 64 TSEEIP----MAVQRHCTSK-IS--DDFSNIHTFGFRGEALP--------SIGAVSHLTLMSRPPQNNTGA-----QIAI 123 (594)
Q Consensus 64 ~~~dl~----~~~~rh~TSK-i~--~dl~~i~t~GFRGEAL~--------sIa~vs~l~i~s~~~~~~~~~-----~~~~ 123 (594)
+++||. .++.+|+=++ +- .|+.+..+-+-|-+=.. -||-|+-|-|.|++..=++|- ++..
T Consensus 13 ~k~~le~~K~~~~r~y~L~~G~Ps~seIL~~a~~~~~~~l~~~Lr~KPvRTiSGVAVVAvMTsP~~CPHGkytGniC~yC 92 (573)
T TIGR01211 13 DKEDLEDLKLEVSRKYGLSKGVPSNSEILNSAPDEEKKKLEDILRKKPVRTISGVAVVAVMTSPERCPHGKYTGNICLYC 92 (573)
T ss_pred CHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHCCCHHHHHHHHHHCCCCCEEECCCCCEEEECCCCCCCCCCCCCCEEEEC
T ss_conf 88889999999998756788988658999624800367888775169960115752001226216888854217876426
Q ss_pred CCCCCC
Q ss_conf 010000
Q gi|254780399|r 124 SGEKIS 129 (594)
Q Consensus 124 ~~g~~~ 129 (594)
-||--+
T Consensus 93 PGG~~s 98 (573)
T TIGR01211 93 PGGPDS 98 (573)
T ss_pred CCCCCC
T ss_conf 878866
No 97
>PRK10342 glycerate kinase I; Provisional
Probab=66.91 E-value=4.5 Score=20.18 Aligned_cols=32 Identities=34% Similarity=0.549 Sum_probs=13.5
Q ss_pred HHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCC
Q ss_conf 9999987772699679999980984399999888998
Q gi|254780399|r 27 IKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGM 63 (594)
Q Consensus 27 VkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi 63 (594)
+-||+-.+||.||++|-|-+ ||. --.|=|.||
T Consensus 114 ~GelI~~Al~~G~~~IiiGl--GGS---ATnDgG~G~ 145 (381)
T PRK10342 114 TGELILQALESGATNIIIGI--GGS---ATNDGGAGM 145 (381)
T ss_pred HHHHHHHHHHCCCCEEEEEC--CCC---CCCHHHHHH
T ss_conf 89999999987998899913--873---010478999
No 98
>TIGR02082 metH methionine synthase; InterPro: IPR011822 Vitamin B12 dependent methionine synthase 2.1.1.13 from EC (5-methyltetrahydrofolate--homocysteine S-methyltransferase) catalyses the conversion of 5-methyltetrahydrofolate and L-homocysteine to tetrahydrofolate and L-methionine as the final step in de novo methionine biosynthesis. The enzyme requires methylcobalamin as a cofactor. In humans, defects in this enzyme are the cause of autosomal recessive inherited methylcobalamin deficiency (CBLG), which causes mental retardation, macrocytic anemia and homocystinuria. Mild deficiencies in activity may result in mild hyperhomocysteinemia, and mutations in the enzyme may be involved in tumorigenesis. Vitamin B12 dependent methionine synthase is found in prokaryotes and eukaryotes, but in prokaryotes the cofactor is cobalamin. This enzyme is a large protein composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and tetrahydrofolate , the third module binds the B12 cofactor , and the C-terminal module (activation domain) binds S-adenosylmethionine. The activation domain is essential for the reductive activation of the enzyme. During the catalytic cycle, the highly reactive cob(I)alamin intermediate can be oxidised to produce an inactive cob(II)alamin enzyme; the enzyme is then reactivated via reductive methylation by the activation domain . The activation domain adopts an unusual alpha/beta fold.Recent studies suggest that this enzyme exists as an ensemble of conformations with equilibria dependent on the oxidation and methylation state of the cobalamin and on the concentrations of substrates or products .; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0050897 cobalt ion binding, 0009086 methionine biosynthetic process.
Probab=66.53 E-value=2 Score=22.69 Aligned_cols=56 Identities=16% Similarity=0.244 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHCCCHHHCHHHHHHHHHHHH
Q ss_conf 2166654310022442036566662161103323206677515210007588899998755
Q gi|254780399|r 213 IGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFYVFINGRTVQDKFILSTIRTAYA 273 (594)
Q Consensus 213 ~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ifVNgR~V~~~~l~~AI~~aY~ 273 (594)
||.++.+=.-.|+.+..+.+|+|=+|+-+|+-.-.+.. ++-+.+=.|++||+.|--
T Consensus 535 ya~~fI~A~r~IK~~LP~a~isgGvSNvSFsfrGn~a~-----R~a~hsVFLy~ai~aGmD 590 (1265)
T TIGR02082 535 YAIDFIEAIRWIKEELPDAKISGGVSNVSFSFRGNPAV-----REALHSVFLYHAIRAGMD 590 (1265)
T ss_pred HHHHHHHHHHHHHHHCCCCEEECCEEEEECCCCCCCHH-----HHHHHHHHHHHHHHCCCC
T ss_conf 67899999999996589728853402221265787189-----999868999999951461
No 99
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=66.48 E-value=6.5 Score=19.00 Aligned_cols=39 Identities=18% Similarity=0.372 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCCHH
Q ss_conf 799989999866959996079879999526111556789
Q gi|254780399|r 472 LIMEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKNIP 510 (594)
Q Consensus 472 ~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~~~ 510 (594)
.+..+.+.|+.+|++++.-.+.-+.+-..|.++....+.
T Consensus 35 aVwK~Iq~Lr~~G~~I~s~~~kGY~L~~~~~ll~~~~i~ 73 (79)
T COG1654 35 AVWKHIQQLREEGVDIESVRGKGYLLPQLPDLLPQEIIQ 73 (79)
T ss_pred HHHHHHHHHHHHCCCEEECCCCCEECCCCCCCCCHHHHH
T ss_conf 999999999980971686078863656750107588887
No 100
>cd01213 tensin Tensin Phosphotyrosine-binding (PTB) domain. Tensin is a a focal adhesion protein, which contains a C-terminal SH2 domain followed by a PTB domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=64.39 E-value=8.4 Score=18.20 Aligned_cols=44 Identities=23% Similarity=0.308 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCC
Q ss_conf 999999877726996799999809843999998889988989998750246656
Q gi|254780399|r 26 AIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSK 79 (594)
Q Consensus 26 vVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSK 79 (594)
+|.+++++.-+.-+|.+..+|-.-| |+.+||-. .+.+.||+..+
T Consensus 30 Av~~~~~~~~~P~~t~VhfKVS~QG---ITLTDn~R-------k~FFRRHYp~~ 73 (138)
T cd01213 30 AIAQCSGQAPDPQATEVHFKVSSQG---ITLTDNTR-------KKFFRRHYKVD 73 (138)
T ss_pred HHHHHHCCCCCCCCEEEEEEECCCC---EEEEECCH-------HHHHHHCCCCC
T ss_conf 9999970899987668999975775---57884330-------13333116633
No 101
>pfam02595 Gly_kinase Glycerate kinase family. This is family of Glycerate kinases.
Probab=60.08 E-value=5.3 Score=19.67 Aligned_cols=32 Identities=44% Similarity=0.627 Sum_probs=13.9
Q ss_pred HHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCC
Q ss_conf 9999987772699679999980984399999888998
Q gi|254780399|r 27 IKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGM 63 (594)
Q Consensus 27 VkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi 63 (594)
+-||+-.+||+|+++|-|-+ ||. -..|=|.||
T Consensus 114 ~GelI~~Al~~G~~~iiiGl--GGS---aTnDgG~Gm 145 (378)
T pfam02595 114 TGELIAAALDAGAERIILGI--GGS---ATNDGGAGM 145 (378)
T ss_pred HHHHHHHHHHCCCCEEEEEC--CCC---CCCHHHHHH
T ss_conf 79999999987998899931--785---331168899
No 102
>TIGR02728 spore_gerQ spore coat protein GerQ; InterPro: IPR014099 Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase..
Probab=59.53 E-value=5.8 Score=19.35 Aligned_cols=33 Identities=27% Similarity=0.321 Sum_probs=29.2
Q ss_pred HHHHHCCCCEEEEEEECCCEEEEEEEECCCCCC
Q ss_conf 877726996799999809843999998889988
Q gi|254780399|r 32 ENSLDAESSRVETVIAGGGKSFFQITDNGFGMT 64 (594)
Q Consensus 32 eNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~ 64 (594)
|||-.-+|+.-.=.|+++|++.|.++|.+.|+.
T Consensus 27 ~N~~~~~~~~FRG~iE~AgRDHi~~~d~~s~~R 59 (82)
T TIGR02728 27 ENSKEWAAKVFRGVIEEAGRDHIVISDPKSGRR 59 (82)
T ss_pred ECCCCCCCEEECCEECCCCCCEEEEECCCCCCE
T ss_conf 088000422202212046677588815999824
No 103
>TIGR01009 rpsC_bact ribosomal protein S3; InterPro: IPR005704 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 , . Ribosomal protein S3 is one of the proteins from the small ribosomal subunit. This family describes the bacterial type of ribosomal protein S3 and also and many chloroplast forms. Chloroplast and mitochondrial forms have large, variable inserts between conserved N-terminal and C-terminal domains. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=58.85 E-value=9.2 Score=17.93 Aligned_cols=22 Identities=23% Similarity=0.382 Sum_probs=9.6
Q ss_pred EEEEEEECCCCCCCCCCHHHHHHHCCC
Q ss_conf 656666216110332320667751521
Q gi|254780399|r 231 ITLQGYTGIPTFNRGNANQFYVFINGR 257 (594)
Q Consensus 231 ~~i~G~is~P~~~r~~~~~q~ifVNgR 257 (594)
++|+|=++--++.|+ ..|.+||
T Consensus 157 v~VSGRLgGAEIAR~-----E~y~EGR 178 (217)
T TIGR01009 157 VQVSGRLGGAEIART-----EWYKEGR 178 (217)
T ss_pred EEEEECCCCHHHCCC-----CEEEECC
T ss_conf 998610574211222-----1043279
No 104
>COG3938 Proline racemase [Amino acid transport and metabolism]
Probab=56.36 E-value=14 Score=16.63 Aligned_cols=19 Identities=11% Similarity=0.445 Sum_probs=8.8
Q ss_pred EEEEEECCCCCCCEEEEECC
Q ss_conf 89998048986301551101
Q gi|254780399|r 106 LTLMSRPPQNNTGAQIAISG 125 (594)
Q Consensus 106 l~i~s~~~~~~~~~~~~~~~ 125 (594)
+.+++++.+.+.| ++++-|
T Consensus 7 i~~id~HteGe~g-rvV~GG 25 (341)
T COG3938 7 IHCIDCHTEGEPG-RVVVGG 25 (341)
T ss_pred EEEECCCCCCCCE-EEEECC
T ss_conf 9997024688634-489768
No 105
>cd00137 PLCc Phospholipase C, catalytic domain; Phosphoinositide-specific phospholipases C catalyze hydrolysis of phosphatidylinositol-4,5-bisphosphate (PIP2) to D-myo-inositol-1,4,5-trisphosphate (1,4,5-IP3) and sn-1,2-diacylglycerol (DAG). Both products function as second messengers in eukaryotic signal transduction cascades. 1,4,5-IP3 triggers inflow of calcium from intracellular stores; the membrane resident product DAG controls cellular protein phosphorylation states by activating various protein kinase C isozymes. The enzyme comprises 2 regions (X and Y) connected via a linker which may contain inserted domains, X and Y together form a TIM barrel-like structure containing the active site residues.
Probab=56.22 E-value=14 Score=16.62 Aligned_cols=30 Identities=20% Similarity=-0.025 Sum_probs=18.7
Q ss_pred CCCHHHHHHHHHHHHHHCCCCEEEEEEECCCE
Q ss_conf 26978999999987772699679999980984
Q gi|254780399|r 20 IERPSIAIKELIENSLDAESSRVETVIAGGGK 51 (594)
Q Consensus 20 i~~~~svVkELveNSlDAgAt~I~v~i~~~g~ 51 (594)
+.+.+| -|-...+|.+||.-|++.+++|..
T Consensus 28 l~g~ss--~~~y~~aL~~GcR~vElD~wdg~~ 57 (250)
T cd00137 28 VWGESS--IEGYIQALKHGCRCVELDCWDGPD 57 (250)
T ss_pred CCCCCC--HHHHHHHHHCCCCEEEEEEECCCC
T ss_conf 788766--899999998199489997214999
No 106
>KOG1845 consensus
Probab=55.35 E-value=14 Score=16.52 Aligned_cols=17 Identities=41% Similarity=0.880 Sum_probs=7.4
Q ss_pred EECCCCCCHHHHHHHHC
Q ss_conf 98889988989998750
Q gi|254780399|r 57 TDNGFGMTSEEIPMAVQ 73 (594)
Q Consensus 57 ~DnG~Gi~~~dl~~~~~ 73 (594)
.|||+||+++++..+..
T Consensus 5 ~Ddg~Gms~d~a~~~~~ 21 (775)
T KOG1845 5 LDDGLGMSPDEAPKAIN 21 (775)
T ss_pred CCCCCCCCCHHHHHHHH
T ss_conf 56877868045565444
No 107
>KOG3432 consensus
Probab=53.48 E-value=13 Score=16.84 Aligned_cols=15 Identities=20% Similarity=0.366 Sum_probs=7.3
Q ss_pred EEECCHHHHHHHHHHH
Q ss_conf 3540058998999999
Q gi|254780399|r 426 LVIVDQHAAHERLIFE 441 (594)
Q Consensus 426 L~iIDQHAAhERI~yE 441 (594)
+++|.||+| |+|+++
T Consensus 65 IiLInq~~A-e~iR~~ 79 (121)
T KOG3432 65 IILINQFIA-EMIRDR 79 (121)
T ss_pred EEEEHHHHH-HHHHHH
T ss_conf 987738899-999999
No 108
>PRK09932 glycerate kinase II; Provisional
Probab=52.83 E-value=8.2 Score=18.30 Aligned_cols=14 Identities=36% Similarity=0.563 Sum_probs=4.9
Q ss_pred HHHHHHHHCCCCEE
Q ss_conf 99987772699679
Q gi|254780399|r 29 ELIENSLDAESSRV 42 (594)
Q Consensus 29 ELveNSlDAgAt~I 42 (594)
||+-.+||+||++|
T Consensus 116 elI~~Al~~G~~~I 129 (381)
T PRK09932 116 ELIRHALDNGIRHI 129 (381)
T ss_pred HHHHHHHHCCCCEE
T ss_conf 99999997699889
No 109
>KOG2423 consensus
Probab=50.92 E-value=17 Score=16.04 Aligned_cols=107 Identities=17% Similarity=0.288 Sum_probs=51.5
Q ss_pred HHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCC-----
Q ss_conf 999873189974999987983079971788104899999732166654310022442036566662161103323-----
Q gi|254780399|r 172 IRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGN----- 246 (594)
Q Consensus 172 v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~----- 246 (594)
|..++--+|.|+|.-..++ .-+.+++.+-+++. + .+......+++ ||||-|+..+++
T Consensus 266 v~~lSkeyPTiAfHAsi~n--------sfGKgalI~llRQf-~--------kLh~dkkqISV-GfiGYPNvGKSSiINTL 327 (572)
T KOG2423 266 VRHLSKEYPTIAFHASINN--------SFGKGALIQLLRQF-A--------KLHSDKKQISV-GFIGYPNVGKSSIINTL 327 (572)
T ss_pred HHHHHHHCCCEEEEHHHCC--------CCCHHHHHHHHHHH-H--------HHCCCCCCEEE-EEECCCCCCHHHHHHHH
T ss_conf 9997522762454022237--------65216999999999-8--------64467652256-66248887558888887
Q ss_pred ---------------CHHHHHHHCCCH--HHCHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEHHHHCCC
Q ss_conf ---------------206677515210--0075888999987554427999807999999606571247
Q gi|254780399|r 247 ---------------ANQFYVFINGRT--VQDKFILSTIRTAYAETIPLGRYPVVVLLLEIDPRQVDVN 298 (594)
Q Consensus 247 ---------------~~~q~ifVNgR~--V~~~~l~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~vDVN 298 (594)
+-|||+-+-.|. |+|+.+..--.+.+.+.+-+| -+-|=+++-|-+.||--
T Consensus 328 R~KkVCkvAPIpGETKVWQYItLmkrIfLIDcPGvVyps~dset~ivLkG--vVRVenv~~pe~yi~~v 394 (572)
T KOG2423 328 RKKKVCKVAPIPGETKVWQYITLMKRIFLIDCPGVVYPSSDSETDIVLKG--VVRVENVKNPEDYIDGV 394 (572)
T ss_pred HHCCCCCCCCCCCCCHHHHHHHHHHCEEEECCCCCCCCCCCCHHHHHHHC--EEEEEECCCHHHHHHHH
T ss_conf 53453112588884038899988721367447972488887467777641--25664158988988999
No 110
>TIGR01499 folC FolC bifunctional protein; InterPro: IPR001645 Folylpolyglutamate synthase 6.3.2.17 from EC (FPGS) is responsible for the addition of a polyglutamate tail to folate and folate derivatives, is an ATP-dependent enzyme isolated from eukaryotic and bacterial sources, where it plays a key role in the retention of the intracellular folate pool Its sequence is moderately conserved between prokaryotes (gene folC) and eukaryotes. FPGS belongs to a protein family that contains a number of related peptidoglycan synthetases (Mur) 6.3.2. from EC (see ). A crystal structure of the MgATP complex of the enzyme from Lactobacillus casei reveals that folylpolyglutamate synthetase is a modular protein consisting of two domains, one with a typical mononucleotide-binding fold and the other strikingly similar to the folate-binding enzyme dihydrofolate reductase. The active site of the enzyme is located in a large interdomain cleft adjacent to an ATP-binding P-loop motif. Opposite this site, in the C domain, a cavity likely to be the folate binding site has been identified, and inspection of this cavity and the surrounding protein structure suggests that the glutamate tail of the substrate may project into the active site. A further feature of the structure is a well defined Omega loop, which contributes both to the active site and to interdomain interactions .; GO: 0004326 tetrahydrofolylpolyglutamate synthase activity, 0005524 ATP binding, 0009396 folic acid and derivative biosynthetic process.
Probab=50.75 E-value=17 Score=16.02 Aligned_cols=76 Identities=12% Similarity=0.206 Sum_probs=44.6
Q ss_pred HHHCCC-CCE--EEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCHHHH
Q ss_conf 873189-974--99998798307997178810489999973216665431002244203656666216110332320667
Q gi|254780399|r 175 MAIAYP-KVS--FTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGNANQFY 251 (594)
Q Consensus 175 ~aL~~P-~V~--f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~~~~q~ 251 (594)
-+|.|| +=. +..+|..- |-|.||--.-+..|++ +..+++| |+.+.|...+-+= -
T Consensus 9 ~~LG~P~~~~~a~~~IHVaG-------TNGKGST~a~l~~iL~------------~~~G~~V-G~fTSPHl~~f~E---R 65 (460)
T TIGR01499 9 EALGNPHQDLNALPVIHVAG-------TNGKGSTCAFLESILR------------EAAGYKV-GLFTSPHLVSFNE---R 65 (460)
T ss_pred HHCCCCHHHHCCCCEEEEEE-------ECCCHHHHHHHHHHHH------------HHCCCEE-EEEECCEEEEEEE---E
T ss_conf 97088737924897799972-------0687589999999988------------7539778-8887373874223---4
Q ss_pred HHHCCCHHHCHHHHHHHHHHHH
Q ss_conf 7515210007588899998755
Q gi|254780399|r 252 VFINGRTVQDKFILSTIRTAYA 273 (594)
Q Consensus 252 ifVNgR~V~~~~l~~AI~~aY~ 273 (594)
|.|||+||.+..+..++.+.+.
T Consensus 66 I~~nG~~i~d~~~~~~~~~~~~ 87 (460)
T TIGR01499 66 IRVNGEPISDEELAQAFEQVRP 87 (460)
T ss_pred EEECCEECCHHHHHHHHHHHHH
T ss_conf 7898857688999999999999
No 111
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase; InterPro: IPR000191 Formamidopyrimidine-DNA glycosylase (3.2.2.23 from EC) (Fapy-DNA glycosylase) (gene fpg) is a bacterial enzyme involved in DNA repair and which excise oxidized purine bases to release 2,6-diamino-4-hydroxy-5N-methylformamido- pyrimidine (Fapy) and 7,8-dihydro-8-oxoguanine (8-OxoG) residues. In addition to its glycosylase activity, FPG can also nick DNA at apurinic/apyrimidinic sites (AP sites). FPG is a monomeric protein of about 32 Kd which binds and require zinc for its activity. The C-terminal region is the zinc binding site in the enzyme where four conserved and essential cysteines are located ..
Probab=47.06 E-value=12 Score=17.17 Aligned_cols=61 Identities=15% Similarity=0.177 Sum_probs=35.3
Q ss_pred HCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHHHH--CCHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 4279998079999996065712475711112553--597999999999789887531788761
Q gi|254780399|r 275 TIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYIRF--RNPTIIRNFIIQSIQKAINKKGISTSS 335 (594)
Q Consensus 275 ~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eVrf--~de~~i~~~i~~~i~~~L~~~~~~~~~ 335 (594)
.|...++=+.+=||-.|=.+.=-=|||.+.-=.+ ++-+.++..|.+.+++|....+.+..+
T Consensus 173 ~LLDQ~~V~G~GNIYADE~LF~A~ihP~~~A~~L~~~~~~~L~~~i~~vL~~Aie~GGtt~~~ 235 (292)
T TIGR00577 173 ALLDQRLVAGLGNIYADEVLFRAGIHPERLANQLSKEECELLHKAIKEVLRKAIEAGGTTIRD 235 (292)
T ss_pred HHHCCCEEEEEHHHHHHHHHHHHCCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 865487576510106668998736881010001588899999999999999998648970002
No 112
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=46.46 E-value=20 Score=15.57 Aligned_cols=14 Identities=36% Similarity=0.703 Sum_probs=11.5
Q ss_pred ECCCEEEEEEEECC
Q ss_conf 80984399999888
Q gi|254780399|r 47 AGGGKSFFQITDNG 60 (594)
Q Consensus 47 ~~~g~~~i~V~DnG 60 (594)
.+||.-.|=|+|+|
T Consensus 40 ~~gG~iiiGV~d~~ 53 (467)
T COG2865 40 ADGGYIIIGVSDKG 53 (467)
T ss_pred CCCCEEEEEECCCC
T ss_conf 68988999955787
No 113
>pfam03667 consensus
Probab=43.55 E-value=22 Score=15.26 Aligned_cols=12 Identities=17% Similarity=0.268 Sum_probs=4.0
Q ss_pred CHHHHHHHHHHH
Q ss_conf 989999999999
Q gi|254780399|r 553 QSIEMNRLLREM 564 (594)
Q Consensus 553 ~~~e~~~Li~~L 564 (594)
+.+|.+.|.++|
T Consensus 89 s~ee~~el~~~l 100 (206)
T pfam03667 89 DDEEVKEHCQEL 100 (206)
T ss_pred CHHHHHHHHHHH
T ss_conf 999999999994
No 114
>TIGR02686 relax_trwC conjugative relaxase domain; InterPro: IPR014059 This domain is in the N-terminal (relaxase) region of TrwC, a relaxase-helicase that acts in plasmid R388 conjugation. The relaxase domain has DNA cleavage and strand transfer activities. Plasmid transfer protein TraI is also a member of this domain family. Members of this family are typically found near other genes characteristic of conjugative plasmids and appear to identify integrated plasmids when found in bacterial chromosomes..
Probab=42.49 E-value=16 Score=16.30 Aligned_cols=83 Identities=13% Similarity=0.232 Sum_probs=43.1
Q ss_pred HHHHHHHCCCEEEEECC-CEEEEEECCCC-CCCCCHHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 89999866959996079-87999952611-155678999999999998578-8664689999999976348666458888
Q gi|254780399|r 476 HDEDLHRLGIKAERFGP-NAIAIREIPAI-LSKKNIPQLLRDIIDEIIDSS-TTYTLQDRIENILATMACYGSIRSGRKM 552 (594)
Q Consensus 476 ~~~~l~~~Gf~~e~~g~-~~~~i~~iP~~-l~~~~~~~~l~dll~~l~~~~-~~~~~~~~~~~~l~s~ACr~AIk~gd~L 552 (594)
....++++||+++..|. ..|-|.+||.= +..-.... .+|.+.+.+.| .+.. +....+ +--+++..-.+.
T Consensus 220 La~~~~eLGY~~~~~Gk~G~FEi~Gvp~~~~~aFS~R~--~~I~~~~~E~GldPn~-----~~~~~~-~~~a~l~Tr~~k 291 (314)
T TIGR02686 220 LANELKELGYQLRVAGKHGLFEIDGVPEEVIKAFSKRR--EQIEEKVAEKGLDPNA-----TSSAKS-RDIAALDTRKKK 291 (314)
T ss_pred HHHHHHHHHHHEEEECCCCCCCCCCCCHHHHHHCCCCC--HHHHHHHHHCCCCCCC-----HHHHHH-HHHHHHHCCCCC
T ss_conf 99998851122021077566254678878873206843--5489897323888420-----106899-999865215575
Q ss_pred CHHHHHHHHHHHHH
Q ss_conf 98999999999981
Q gi|254780399|r 553 QSIEMNRLLREMEK 566 (594)
Q Consensus 553 ~~~e~~~Li~~L~~ 566 (594)
+...-+.|-.+|.+
T Consensus 292 ~~~D~~~l~~~W~~ 305 (314)
T TIGR02686 292 EVIDREALKEEWQQ 305 (314)
T ss_pred CEECHHHHHHHHHH
T ss_conf 31065888899999
No 115
>TIGR01012 Sa_S2_E_A ribosomal protein S2; InterPro: IPR005707 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 describes the ribosomal protein of the eukaryotic cytosol and of Archaea, homologous to S2 of bacteria. It is designated typically as Sa in eukaryotes and Sa or S2 in the archaea. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=42.48 E-value=19 Score=15.72 Aligned_cols=35 Identities=29% Similarity=0.529 Sum_probs=29.0
Q ss_pred CCCCEEECCCCEEECCHHHHHHHHHHH-HHHHHHCC
Q ss_conf 551000025863540058998999999-98522103
Q gi|254780399|r 415 QNYIISQTTDGLVIVDQHAAHERLIFE-KMRQDFNS 449 (594)
Q Consensus 415 ~~yIl~~~~~gL~iIDQHAAhERI~yE-~l~~~~~~ 449 (594)
++||---..||||++|-.-.|||++.= |++..|++
T Consensus 26 ~~fiyk~r~DG~Y~ld~~K~dErL~~AAk~l~~~EN 61 (197)
T TIGR01012 26 EKFIYKVRSDGLYVLDLRKTDERLRVAAKFLSRFEN 61 (197)
T ss_pred CEEEEEECCCCEEEECCHHHHHHHHHHHHHHHHHCC
T ss_conf 212556647870787011340899999999874248
No 116
>KOG1024 consensus
Probab=41.41 E-value=17 Score=16.09 Aligned_cols=25 Identities=16% Similarity=0.383 Sum_probs=22.7
Q ss_pred CCCHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 8898999999999981888878878
Q gi|254780399|r 551 KMQSIEMNRLLREMEKNPNSSQCNH 575 (594)
Q Consensus 551 ~L~~~e~~~Li~~L~~c~~P~~CpH 575 (594)
..+..||...+.+=.+..+||+||.
T Consensus 501 eIDPfEm~~ylkdGyRlaQP~NCPD 525 (563)
T KOG1024 501 EIDPFEMEHYLKDGYRLAQPFNCPD 525 (563)
T ss_pred CCCHHHHHHHHHCCCEECCCCCCCH
T ss_conf 3599999999853532148889938
No 117
>PRK11040 peptidase PmbA; Provisional
Probab=41.23 E-value=23 Score=15.02 Aligned_cols=44 Identities=18% Similarity=0.236 Sum_probs=29.4
Q ss_pred HHHHHCCCCCCCCHHHHHHHHHHHHHHC---CCCEEEEEEECCCEEEEEEEEC
Q ss_conf 9998526872269789999999877726---9967999998098439999988
Q gi|254780399|r 10 IINQIAAGEIIERPSIAIKELIENSLDA---ESSRVETVIAGGGKSFFQITDN 59 (594)
Q Consensus 10 ~~~~Iaagevi~~~~svVkELveNSlDA---gAt~I~v~i~~~g~~~i~V~Dn 59 (594)
|+.|.||+.- -+.|++|++|+. +|...+|.+..+--..|.+.|+
T Consensus 3 ~~~~~~~~~~------~le~~v~~~l~~a~~~Ad~aEV~i~~~~~~sv~~~~g 49 (446)
T PRK11040 3 VISQVAAQRK------ILEEAVSTALELASGKSDGAEVAVSKTTGISVSTRYG 49 (446)
T ss_pred HHHHHHHHHH------HHHHHHHHHHHHHHCCCCEEEEEEEECCEEEEEEECC
T ss_conf 7889999999------9999999999998649987999999454077999899
No 118
>TIGR00611 recf DNA replication and repair protein RecF; InterPro: IPR001238 All proteins in this family, including recF, for which functions are known are DNA binding proteins that assist the filamentation of RecA onto DNA for the initiation of recombination or recombinational repair. RecF is involved in DNA metabolism and is required for recombinational DNA repair and for induction of the SOS response , . ; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=40.28 E-value=24 Score=14.92 Aligned_cols=55 Identities=15% Similarity=0.169 Sum_probs=30.8
Q ss_pred HHCCCCCE-EEEEECCCCEEEEECCCCC--HHHHHHHHHHH-HHHHHHH-HHH-CCCCCEEEEEEEEECC
Q ss_conf 73189974-9999879830799717881--04899999732-1666543-100-2244203656666216
Q gi|254780399|r 176 AIAYPKVS-FTFSTIKSNRYKMNFQSTN--GNFPERISQVI-GEDFINN-AVE-LNEKSNEITLQGYTGI 239 (594)
Q Consensus 176 aL~~P~V~-f~l~~~~~~~~~l~~~~~~--~~l~~ri~~i~-G~~~~~~-l~~-i~~~~~~~~i~G~is~ 239 (594)
++.+|++. |-+=.|+ +|. .++.+.|..+. |+++... .-+ |.+..+.+.|+|-+..
T Consensus 31 Cvl~p~~Nq~~~G~Ng---------qGKrPTnllEAiy~L~~~rShR~~~~~~lIr~~~~~~~~~g~~~~ 91 (399)
T TIGR00611 31 CVLSPGVNQVFVGPNG---------QGKRPTNLLEAIYYLALGRSHRTSRDKELIRFGAEAAVIEGRVSK 91 (399)
T ss_pred HCCCCCCCEEEECCCC---------CCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCEEEEEEEEEE
T ss_conf 0117887448876788---------986407899999998744435442056301127861799999980
No 119
>TIGR00045 TIGR00045 glycerate kinase; InterPro: IPR004381 This family includes glycerate kinase 2 (2.7.1.31 from EC), which catalyses the phosphorylation of (R)-glycerate to 3-phospho-(R)-glycerate in the presence of ATP.; GO: 0008887 glycerate kinase activity, 0031388 organic acid phosphorylation.
Probab=38.01 E-value=26 Score=14.68 Aligned_cols=73 Identities=25% Similarity=0.346 Sum_probs=49.3
Q ss_pred HHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCC---HHHHHHHHHH
Q ss_conf 9999987772699679999980984399999888998898999875024665631244112148840---4899987620
Q gi|254780399|r 27 IKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFR---GEALPSIGAV 103 (594)
Q Consensus 27 VkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFR---GEAL~sIa~v 103 (594)
+-||+..+||.|+++|-+-+ ||. --.|-|-|| +.-.+-|..-. +=..+|.- |.+|..++++
T Consensus 114 tGeli~~al~~g~~~i~~g~--GGs---atnDgG~G~----~~alG~~~~d~-------~G~~~~~g~lcG~~L~~~~~i 177 (380)
T TIGR00045 114 TGELIRHALDHGAKKIILGI--GGS---ATNDGGAGL----LQALGVRFLDA-------DGQELGPGLLCGGALAELASI 177 (380)
T ss_pred HHHHHHHHHHCCCCEEEEEC--CCC---CCCHHHHHH----HHHHHHHHHHC-------CCCCCCCHHHHHHHHHHHHCC
T ss_conf 38999999756884899852--766---455155678----98610465413-------674123013300334312101
Q ss_pred EEEEEEEECCCC
Q ss_conf 248999804898
Q gi|254780399|r 104 SHLTLMSRPPQN 115 (594)
Q Consensus 104 s~l~i~s~~~~~ 115 (594)
.--.+-.|-++-
T Consensus 178 d~~~~dp~l~~~ 189 (380)
T TIGR00045 178 DLSGLDPRLKDV 189 (380)
T ss_pred CCCCCCCCCCCC
T ss_conf 400045100032
No 120
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=34.38 E-value=30 Score=14.29 Aligned_cols=15 Identities=20% Similarity=0.448 Sum_probs=6.7
Q ss_pred EECCCCCCCCCCHHH
Q ss_conf 621611033232066
Q gi|254780399|r 236 YTGIPTFNRGNANQF 250 (594)
Q Consensus 236 ~is~P~~~r~~~~~q 250 (594)
|+=..++.+.||.-+
T Consensus 51 ~vfKsSfDKANRsSi 65 (279)
T COG2877 51 YVFKSSFDKANRSSI 65 (279)
T ss_pred EEEECCCCCCCCCCC
T ss_conf 698624342333321
No 121
>KOG2550 consensus
Probab=33.66 E-value=30 Score=14.21 Aligned_cols=16 Identities=13% Similarity=0.192 Sum_probs=8.6
Q ss_pred EEEEEEEECCCCCCCCCCHHHHH
Q ss_conf 36566662161103323206677
Q gi|254780399|r 230 EITLQGYTGIPTFNRGNANQFYV 252 (594)
Q Consensus 230 ~~~i~G~is~P~~~r~~~~~q~i 252 (594)
+-++-|+++ +|+++|+
T Consensus 151 ~~KLvG~vt-------srdi~f~ 166 (503)
T KOG2550 151 GSKLVGIIT-------SRDIQFL 166 (503)
T ss_pred CCEEEEEEE-------HHHHHHH
T ss_conf 651577774-------2023455
No 122
>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]
Probab=33.34 E-value=18 Score=15.84 Aligned_cols=54 Identities=22% Similarity=0.255 Sum_probs=36.1
Q ss_pred HHHCCCCCCCCH--HHHHHCCCCCCCHHHHH---------HHHHHEEEEEEEECCCCCCCEEEEECCC
Q ss_conf 875024665631--24411214884048999---------8762024899980489863015511010
Q gi|254780399|r 70 MAVQRHCTSKIS--DDFSNIHTFGFRGEALP---------SIGAVSHLTLMSRPPQNNTGAQIAISGE 126 (594)
Q Consensus 70 ~~~~rh~TSKi~--~dl~~i~t~GFRGEAL~---------sIa~vs~l~i~s~~~~~~~~~~~~~~~g 126 (594)
.++..|+-|+.- .|+-+-.+.+-| |- .||.|+-+-+.+++..=++|.++...||
T Consensus 24 ~~~r~y~l~~~p~~~dil~~~~~~~~---l~~~lr~KPvRt~sgvaVVaVmt~p~~CPHg~CvfCpgg 88 (515)
T COG1243 24 EVSRKYGLSKVPRNSDILNAAPPEER---LREILRRKPVRTISGVAVVAVMTSPHGCPHGRCVFCPGG 88 (515)
T ss_pred HHHHHHCCCCCCCHHHHHHHCCHHHH---HHHHHHHCCCEECCCCEEEEEECCCCCCCCCEEEECCCC
T ss_conf 99887186558964689870885788---999985367200246268998438889999807758997
No 123
>pfam09899 DUF2126 Putative amidoligase enzyme (DUF2126). Members of this family of bacterial domains are predominantly found in transglutaminase and transglutaminase-like proteins. Their exact function is, as yet, unknown, but they are likely to act as amidoligase enzymes Protein in this family are found in conserved gene neighborhoods encoding a glutamine amidotransferase-like thiol peptidase (in proteobacteria) or an Aig2 family cyclotransferase protein (in firmicutes).
Probab=33.28 E-value=31 Score=14.17 Aligned_cols=43 Identities=30% Similarity=0.452 Sum_probs=28.4
Q ss_pred HHHHHHHHHHH---------HCCCCCCEEEEEEEEEEHHHHCCCCCCHHHHH
Q ss_conf 88999987554---------42799980799999960657124757111125
Q gi|254780399|r 264 ILSTIRTAYAE---------TIPLGRYPVVVLLLEIDPRQVDVNVHPAKSYI 306 (594)
Q Consensus 264 l~~AI~~aY~~---------~l~~g~~P~~vL~i~i~p~~vDVNVHP~K~eV 306 (594)
|..||..+-.. +-|..-.-+-++.++=||.-+.|||||+++.-
T Consensus 348 LiaaiE~tA~~l~~pv~iEGY~PP~D~Rl~~~~VTPDPGVIEVNihPa~sW~ 399 (817)
T pfam09899 348 LVAAIEATAEELGLPVHIEGYPPPRDPRLNVLKVTPDPGVIEVNIHPAASWR 399 (817)
T ss_pred HHHHHHHHHHHCCCCEEEECCCCCCCCCEEEEEEECCCCEEEECCCCCCCHH
T ss_conf 9999999998549966871479799863336897089975774467431799
No 124
>pfam03484 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=33.22 E-value=31 Score=14.16 Aligned_cols=41 Identities=22% Similarity=0.430 Sum_probs=26.0
Q ss_pred HHHHHHHHCCCEEEEECCCEEEEEECCCCCCCC-CHHHHHHHHH
Q ss_conf 989999866959996079879999526111556-7899999999
Q gi|254780399|r 475 EHDEDLHRLGIKAERFGPNAIAIREIPAILSKK-NIPQLLRDII 517 (594)
Q Consensus 475 ~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~-~~~~~l~dll 517 (594)
+..+.|+++||.++. +++.+.+ .+|++=..- ...++++|++
T Consensus 23 ~i~~~L~~lg~~~~~-~~~~~~v-~vPs~R~Di~~~~DliEEi~ 64 (69)
T pfam03484 23 EIKKILKRLGFKVEE-DEDTLKV-TVPSYRPDILHEVDLIEEVA 64 (69)
T ss_pred HHHHHHHHCCCEEEE-CCCEEEE-ECCCCCCCCCCCCHHHHHHH
T ss_conf 999999986998994-7986999-89998576686256999999
No 125
>COG1171 IlvA Threonine dehydratase [Amino acid transport and metabolism]
Probab=32.44 E-value=19 Score=15.61 Aligned_cols=23 Identities=22% Similarity=0.550 Sum_probs=21.2
Q ss_pred HHHHHCCCCCCCHHHHHHHHHHEE
Q ss_conf 244112148840489998762024
Q gi|254780399|r 82 DDFSNIHTFGFRGEALPSIGAVSH 105 (594)
Q Consensus 82 ~dl~~i~t~GFRGEAL~sIa~vs~ 105 (594)
|||..+.+|=+|| |++.|+++|.
T Consensus 47 E~lQ~~gSFK~RG-A~n~i~~Ls~ 69 (347)
T COG1171 47 ENLQPVGSFKIRG-AYNKLSSLSE 69 (347)
T ss_pred CCCCCCCCCHHHH-HHHHHHHCCH
T ss_conf 1275306421445-8899875685
No 126
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=32.29 E-value=32 Score=14.06 Aligned_cols=85 Identities=11% Similarity=0.138 Sum_probs=36.0
Q ss_pred HHHHHHHCCCCHH---HHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCC-----HHHHHHHHHHHHHHHHHHH
Q ss_conf 1125431034536---8999999999998731899749999879830799717881-----0489999973216665431
Q gi|254780399|r 150 TIPARLNFLKSEQ---VETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTN-----GNFPERISQVIGEDFINNA 221 (594)
Q Consensus 150 N~PvRrkflks~~---~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~-----~~l~~ri~~i~G~~~~~~l 221 (594)
-+=.|+++.+... .|++ +.+.+.+.-+++--+++-++....+++.+.-.-+. -+ .+.|++.= +-...+
T Consensus 320 ~~~iR~~~~rP~~~m~~eL~-~~~~l~~eIIs~lP~GlLVYdF~sN~~i~SNkIAdhLLPhl~-LqkI~~MA--~qH~Gv 395 (881)
T PRK10618 320 YTTFRHQYGRPTESMSGELR-ILRAINEEIVSLLPLGLLVYDFSSNRTVISNKIADHLLPHLN-LQKITTMA--EQHQGV 395 (881)
T ss_pred HHHHHHHHCCCCHHHHHHHH-HHHHHHHHHHHCCCCEEEEEECCCCCEEEHHHHHHHHCCCCC-HHHHHHHH--HHHCCE
T ss_conf 99987762699654888999-998868889854875069997468957730267886557667-89999999--973786
Q ss_pred HHCCCCCEEEEEEEEEC
Q ss_conf 00224420365666621
Q gi|254780399|r 222 VELNEKSNEITLQGYTG 238 (594)
Q Consensus 222 ~~i~~~~~~~~i~G~is 238 (594)
+.+....+-|.|.-|=|
T Consensus 396 IQ~tInNevYEIr~~rS 412 (881)
T PRK10618 396 IQATINNELYEIRMFRS 412 (881)
T ss_pred EEEEECCEEEEEEEEEC
T ss_conf 89988360678885422
No 127
>KOG3862 consensus
Probab=32.24 E-value=21 Score=15.40 Aligned_cols=10 Identities=60% Similarity=1.165 Sum_probs=4.8
Q ss_pred HHHCCCHHHC
Q ss_conf 7515210007
Q gi|254780399|r 252 VFINGRTVQD 261 (594)
Q Consensus 252 ifVNgR~V~~ 261 (594)
+||||||..+
T Consensus 19 vFVNGRPlpd 28 (327)
T KOG3862 19 VFVNGRPLPD 28 (327)
T ss_pred EEECCCCCCH
T ss_conf 5566850855
No 128
>TIGR02069 cyanophycinase cyanophycinase; InterPro: IPR011811 This entry describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.; GO: 0016787 hydrolase activity, 0044260 cellular macromolecule metabolic process.
Probab=32.16 E-value=18 Score=15.78 Aligned_cols=30 Identities=20% Similarity=0.287 Sum_probs=21.8
Q ss_pred EEECCHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 35400589989999999852210388421111
Q gi|254780399|r 426 LVIVDQHAAHERLIFEKMRQDFNSTKITSQTL 457 (594)
Q Consensus 426 L~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~L 457 (594)
-+||||| =|+|=+.=+|+..+... .++|.|
T Consensus 195 ~v~iDQH-F~~RgRlGRLl~Ai~~~-PPt~~L 224 (297)
T TIGR02069 195 DVLIDQH-FAQRGRLGRLLSAIAQN-PPTEVL 224 (297)
T ss_pred CCEEEEC-HHHCCHHHHHHHHHHHC-CCHHHC
T ss_conf 7437306-11022489999999737-860024
No 129
>KOG4407 consensus
Probab=30.87 E-value=7.1 Score=18.72 Aligned_cols=49 Identities=16% Similarity=0.112 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCC
Q ss_conf 789999999877726996799999809843999998889988989998750246656
Q gi|254780399|r 23 PSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSK 79 (594)
Q Consensus 23 ~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSK 79 (594)
-.+++-|+.+|++=||-|.....- +-.-||.-=+.-+|.++-.|.|+=|
T Consensus 639 ~q~~~~~~~q~~~la~qt~~~T~~--------~t~~~~~t~s~~~l~~a~~~~A~~~ 687 (1973)
T KOG4407 639 TQGEASSTAQAAALAGQTAATTSR--------QTSSNSSTDSNHNLAMAMIRRARPK 687 (1973)
T ss_pred CCCHHHHHHHHHHHHCCCEEEECC--------CCCCCCCCCCCHHHHHHHHCCCCCC
T ss_conf 232336888764541351022034--------5442655576765666653348988
No 130
>pfam03997 VPS28 VPS28 protein.
Probab=30.75 E-value=34 Score=13.88 Aligned_cols=57 Identities=14% Similarity=0.353 Sum_probs=35.5
Q ss_pred CHHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHC
Q ss_conf 789999999999985788---664689999999976348666458888989999999999818
Q gi|254780399|r 508 NIPQLLRDIIDEIIDSST---TYTLQDRIENILATMACYGSIRSGRKMQSIEMNRLLREMEKN 567 (594)
Q Consensus 508 ~~~~~l~dll~~l~~~~~---~~~~~~~~~~~l~s~ACr~AIk~gd~L~~~e~~~Li~~L~~c 567 (594)
+...++.|++..+...+. ...-..++.+++..+ ..-++.|.|+.+|.++|+-+|...
T Consensus 120 qLhPlL~dL~~sln~l~~~p~DFegr~kl~~Wl~~L---n~M~AsdeL~e~q~RqllfDle~a 179 (187)
T pfam03997 120 QLHPLLSELIVSMNRLSRLPIDFEGRNKVKQWLIRL---NKMSASDELTDVQARQLLFDLESA 179 (187)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHH---HCCCHHCCCCHHHHHHHHHHHHHH
T ss_conf 765689999999987047984644077899999998---367302016999999999999999
No 131
>PRK10436 hypothetical protein; Provisional
Probab=30.73 E-value=34 Score=13.88 Aligned_cols=136 Identities=13% Similarity=0.150 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCHHHHHH-HH
Q ss_conf 78999999987772699679999980984399999888998898999875024665631244112148840489998-76
Q gi|254780399|r 23 PSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRGEALPS-IG 101 (594)
Q Consensus 23 ~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRGEAL~s-Ia 101 (594)
....|-.+++.|+..||+-|+++-...+. .|+-.=||.=.....++. --+++|-| |-
T Consensus 81 iv~lvn~il~~Ai~~~ASDIHieP~~~~~-~Ir~RiDG~L~~~~~l~~---------------------~~~~~l~sriK 138 (461)
T PRK10436 81 VAQLLNQTLRSALQKRASDIHFEPAQNHY-RIRLRIDGVLHPLPDPSP---------------------ETGAALTARLK 138 (461)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEEECCCCE-EEEEEECCEEEEECCCCH---------------------HHHHHHHHHHH
T ss_conf 99999999999997599658998469818-999986899988515898---------------------78999999999
Q ss_pred HHEEEEEEEECCCCCCCEEEEECCCCC-CCCCCCCCCCCCEEEEEHHHHHH-HHHHHCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 202489998048986301551101000-00211012567578852101211-2543103453689999999999987318
Q gi|254780399|r 102 AVSHLTLMSRPPQNNTGAQIAISGEKI-SSVRPVAMNPGTIVEVRDLFFTI-PARLNFLKSEQVETNLITDVIRRMAIAY 179 (594)
Q Consensus 102 ~vs~l~i~s~~~~~~~~~~~~~~~g~~-~~~~~~~~~~GT~V~V~~LF~N~-PvRrkflks~~~e~~~I~~~v~~~aL~~ 179 (594)
-.|.+.|.-+..-++......+.+..+ ....-.+...|-.|+++=|-.+- +....-|--+..++..+.. ++..
T Consensus 139 ~la~ldiae~r~PQdGr~~~~~~~~~id~Rvst~Pt~~GE~ivlRlL~~~~~~~~L~~LG~~~~~~~~~~~-----~~~~ 213 (461)
T PRK10436 139 VLGNLDIAEHRLPQDGQFTVELAGNAYSFRIATLPCRGGEKVVLRLLQQVQQTLDLETLGMTPAQLAQFRQ-----ALQQ 213 (461)
T ss_pred HHCCCCHHHCCCCCCCCEEEEECCEEEEEEEEECCCCCCCEEEEEEECCCCCCCCHHHHCCCHHHHHHHHH-----HHHC
T ss_conf 97499812055687782799889968999999334678877899952466566888784889999999999-----9838
Q ss_pred CCCEEEE
Q ss_conf 9974999
Q gi|254780399|r 180 PKVSFTF 186 (594)
Q Consensus 180 P~V~f~l 186 (594)
|+ ++.|
T Consensus 214 p~-GliL 219 (461)
T PRK10436 214 PQ-GLVL 219 (461)
T ss_pred CC-CEEE
T ss_conf 99-7799
No 132
>TIGR02371 ala_DH_arch alanine dehydrogenase; InterPro: IPR012742 This enzyme, a homologue of bacterial ornithine cyclodeaminases and marsupial mu-crystallins, is a homodimeric NAD-dependent alanine dehydrogenase found in Archaeoglobus fulgidus and several other archaea..
Probab=29.55 E-value=35 Score=13.74 Aligned_cols=23 Identities=26% Similarity=0.579 Sum_probs=15.1
Q ss_pred CCCCEEECCHHHHHHHHHHHHHHHH
Q ss_conf 2586354005899899999998522
Q gi|254780399|r 422 TTDGLVIVDQHAAHERLIFEKMRQD 446 (594)
Q Consensus 422 ~~~gL~iIDQHAAhERI~yE~l~~~ 446 (594)
...||-|=|-=.| ++.||+-.+.
T Consensus 296 DSTGLaIQDvatA--~~vYErAv~~ 318 (327)
T TIGR02371 296 DSTGLAIQDVATA--KMVYERAVAE 318 (327)
T ss_pred CCCCCHHHHHHHH--HHHHHHHHHC
T ss_conf 1466514455623--5432345430
No 133
>PRK10846 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional
Probab=29.42 E-value=35 Score=13.73 Aligned_cols=84 Identities=12% Similarity=0.163 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCC
Q ss_conf 68999999999998731899749999879830799717881048999997321666543100224420365666621611
Q gi|254780399|r 162 QVETNLITDVIRRMAIAYPKVSFTFSTIKSNRYKMNFQSTNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPT 241 (594)
Q Consensus 162 ~~e~~~I~~~v~~~aL~~P~V~f~l~~~~~~~~~l~~~~~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~ 241 (594)
..-+.+|..++.++ -+|+-.+...|..- |.+.++...-+..++- ..++++ |..+.|.
T Consensus 29 ~lgL~ri~~ll~~l--g~p~~~~~~IhVaG-------TNGKGSt~~~l~~il~-------------~~G~~v-G~ftSPH 85 (416)
T PRK10846 29 DLGLERVSQVAARL--DVLKPAPFVFTVAG-------TNGKGTTCRTLESILM-------------AAGYRV-GVYSSPH 85 (416)
T ss_pred CCCHHHHHHHHHHC--CCCCCCCCEEEEEC-------CCCHHHHHHHHHHHHH-------------HCCCCC-CEECCCC
T ss_conf 69859999999972--99865799899968-------8557999999999999-------------879973-0778886
Q ss_pred CCCCCCHHHHHHHCCCHHHCHHHHHHHHHH
Q ss_conf 033232066775152100075888999987
Q gi|254780399|r 242 FNRGNANQFYVFINGRTVQDKFILSTIRTA 271 (594)
Q Consensus 242 ~~r~~~~~q~ifVNgR~V~~~~l~~AI~~a 271 (594)
..+-+- -+-|||++|.+..+.+++.+.
T Consensus 86 l~~~~E---Ri~ing~~Is~~~~~~~~~~v 112 (416)
T PRK10846 86 LVRYTE---RVRVQGQELPESAHTASFAEI 112 (416)
T ss_pred CCCEEE---EEEECCCCCCHHHHHHHHHHH
T ss_conf 795101---567999128989999999998
No 134
>TIGR01237 D1pyr5carbox2 delta-1-pyrroline-5-carboxylate dehydrogenase, putative; InterPro: IPR005932 The delta(1)-pyrroline-5-carboxylate synthetase (1.5.1.12 from EC) a mitochondrial inner membrane, ATP- and NADPH-dependent, bifunctional enzyme, catalyzes the reduction of glutamate to delta1-pyrroline-5-carboxylate, a critical step in the de novo biosynthesis of proline and ornithine. It is the rate-limiting enzyme in proline biosynthesis and is subject to feedback inhibition by proline. 1-pyrroline-5-carboxylate + NAD+ + H2O = L-glutamate + NADH This model represents one of several related branches of delta-1-pyrroline-5-carboxylate dehydrogenase.; GO: 0003842 1-pyrroline-5-carboxylate dehydrogenase activity, 0006561 proline biosynthetic process.
Probab=29.23 E-value=36 Score=13.71 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=10.6
Q ss_pred CCCCCCCCCCCC--CCCEEE
Q ss_conf 000002110125--675788
Q gi|254780399|r 126 EKISSVRPVAMN--PGTIVE 143 (594)
Q Consensus 126 g~~~~~~~~~~~--~GT~V~ 143 (594)
+++.++.||..+ .||+=.
T Consensus 47 ~kI~SiNPcd~sevvG~v~k 66 (518)
T TIGR01237 47 AKIDSINPCDKSEVVGKVAK 66 (518)
T ss_pred CCEEEECCCCCCCCCCCEEE
T ss_conf 62023178887310110100
No 135
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253; InterPro: IPR011950 This family of sequences from archaea and metazoans includes the human uncharacterised protein CTE7. Pyrococcus species appear to have three different forms of this enzyme, so it is unclear whether all members of this family have the same function. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterised by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA ..
Probab=28.19 E-value=31 Score=14.09 Aligned_cols=71 Identities=14% Similarity=0.169 Sum_probs=37.6
Q ss_pred HHHHHCCCEEEEECCCEEEEEE-CCCCCCCCCHHHHHHHHHHHHH---HCCCCCCHHHHHHHHHHHHHHH--HHHHCCCC
Q ss_conf 9998669599960798799995-2611155678999999999998---5788664689999999976348--66645888
Q gi|254780399|r 478 EDLHRLGIKAERFGPNAIAIRE-IPAILSKKNIPQLLRDIIDEII---DSSTTYTLQDRIENILATMACY--GSIRSGRK 551 (594)
Q Consensus 478 ~~l~~~Gf~~e~~g~~~~~i~~-iP~~l~~~~~~~~l~dll~~l~---~~~~~~~~~~~~~~~l~s~ACr--~AIk~gd~ 551 (594)
..|++.|+.+- +||. .|...-+.-..--++++.+.+. +.+.....|++....+..+--+ -|||.||.
T Consensus 123 ~~LR~~Gy~Lg-------~iT~G~~~~Q~eKl~~lg~~~fFD~V~~s~e~g~~KPhP~IF~~Al~~~gV~p~eaVmVGD~ 195 (244)
T TIGR02253 123 MELRESGYRLG-------LITDGLTVKQWEKLERLGIRDFFDAVITSEELGVEKPHPKIFYAALRRLGVKPEEAVMVGDR 195 (244)
T ss_pred HHHHHCCCEEE-------EEECCCHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCEEEECCC
T ss_conf 99986477889-------98668778999999982775357705722444776978589999999708893666676785
Q ss_pred CCHH
Q ss_conf 8989
Q gi|254780399|r 552 MQSI 555 (594)
Q Consensus 552 L~~~ 555 (594)
|..+
T Consensus 196 L~~D 199 (244)
T TIGR02253 196 LDKD 199 (244)
T ss_pred CCCC
T ss_conf 0002
No 136
>KOG1283 consensus
Probab=27.92 E-value=37 Score=13.55 Aligned_cols=44 Identities=16% Similarity=0.233 Sum_probs=20.5
Q ss_pred CCEEEEEH-HHHHHHHHHHC---------CCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 75788521-01211254310---------3453689999999999987318997
Q gi|254780399|r 139 GTIVEVRD-LFFTIPARLNF---------LKSEQVETNLITDVIRRMAIAYPKV 182 (594)
Q Consensus 139 GT~V~V~~-LF~N~PvRrkf---------lks~~~e~~~I~~~v~~~aL~~P~V 182 (594)
-|=+.+-| ||-.-||---| -++...-...+..+++.+--.||+.
T Consensus 66 ~TWlk~adllfvDnPVGaGfSyVdg~~~Y~~~~~qia~Dl~~llk~f~~~h~e~ 119 (414)
T KOG1283 66 WTWLKDADLLFVDNPVGAGFSYVDGSSAYTTNNKQIALDLVELLKGFFTNHPEF 119 (414)
T ss_pred CHHHHHCCEEEECCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 535531668886277767600564853100447999999999999997449431
No 137
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=26.23 E-value=40 Score=13.35 Aligned_cols=27 Identities=22% Similarity=0.314 Sum_probs=14.4
Q ss_pred CCCCCEEEEEHHHHHHHHHHHCCCCHH
Q ss_conf 256757885210121125431034536
Q gi|254780399|r 136 MNPGTIVEVRDLFFTIPARLNFLKSEQ 162 (594)
Q Consensus 136 ~~~GT~V~V~~LF~N~PvRrkflks~~ 162 (594)
...||+.+.+++-.-.=+==+|+=||-
T Consensus 74 iGaGTVl~~~~~~~a~~aGA~FiVSP~ 100 (223)
T PRK07114 74 LGVGSIVDAATAALYIQLGANFVVGPL 100 (223)
T ss_pred EEEECCCCHHHHHHHHHCCCCEEECCC
T ss_conf 965518899999999985998999999
No 138
>pfam00292 PAX 'Paired box' domain.
Probab=25.12 E-value=34 Score=13.88 Aligned_cols=22 Identities=27% Similarity=0.425 Sum_probs=13.6
Q ss_pred HHHHCCCHHHCHHHHHHHHHHH
Q ss_conf 7751521000758889999875
Q gi|254780399|r 251 YVFINGRTVQDKFILSTIRTAY 272 (594)
Q Consensus 251 ~ifVNgR~V~~~~l~~AI~~aY 272 (594)
=+||||||..+..-.+-|.-|.
T Consensus 10 G~fvnGRPLp~~~R~kIVeLa~ 31 (125)
T pfam00292 10 GVFVNGRPLPNHIRQKIVELAH 31 (125)
T ss_pred CCCCCCCCCCHHHHHHHHHHHH
T ss_conf 6241994286889999999998
No 139
>smart00148 PLCXc Phospholipase C, catalytic domain (part); domain X. Phosphoinositide-specific phospholipases C. These enzymes contain 2 regions (X and Y) which together form a TIM barrel-like structure containing the active site residues. Phospholipase C enzymes (PI-PLC) act as signal transducers that generate two second messengers, inositol-1,4,5-trisphosphate and diacylglycerol. The bacterial enzyme [6] appears to be a homologue of the mammalian PLCs.
Probab=24.99 E-value=42 Score=13.19 Aligned_cols=18 Identities=22% Similarity=0.028 Sum_probs=6.9
Q ss_pred HHHHHHCCCCEEEEEEEC
Q ss_conf 987772699679999980
Q gi|254780399|r 31 IENSLDAESSRVETVIAG 48 (594)
Q Consensus 31 veNSlDAgAt~I~v~i~~ 48 (594)
..++|++|+.-|++.+++
T Consensus 34 y~~aL~~GcR~vEld~wd 51 (135)
T smart00148 34 YIQALDHGCRCVELDCWD 51 (135)
T ss_pred HHHHHHCCCCEEEEEEEC
T ss_conf 999998199789998226
No 140
>TIGR01246 dapE_proteo succinyl-diaminopimelate desuccinylase; InterPro: IPR005941 The lysine/diaminopimelic acid branch of the aspartate pathway produces the essential amino acid lysine via the intermediate meso-diaminopimelic acid (meso-DAP), which is also a vital cell wall component in Gram-negative bacteria . The production of dihydropicolinate from aspartate-semialdehyde controls flux into the lysine/diaminopimelic acid pathway. Three variants of this pathway exist, differing in how tetrahydropicolinate (formed by reduction of dihydropicolinate) is metabolised to meso-DAP. One variant, the most commonly found one in archaea and bacteria, uses primarily succinyl intermediates, while a second variant, found only in Bacillus, utilises primarily acetyl intermediates. In the third variant, found in some Gram-positive bacteria, a dehydrogenase converts tetrahydropicolinate directly to meso-DAP. In all variants meso-DAP is subsequently converted to lysine by a decarboxylase, or, in Gram-negative bacteria, assimilated into the cell wall. Evidence exists that a fourth, currently unknown, variant of this pathway may function in plants . Succinyl-diaminopimelate desuccinylase (3.5.1.18 from EC) hydrolyses N-succinyl-L,L-diaminopimelic acid which is required for the bacterial synthesis of lysine and meso-diaminopimelic acid. This group of bacterial sequences belong to the MEROPS peptidase family M20 (clan MH), subfamily M20A (non-peptidase homologs). ; GO: 0009014 succinyl-diaminopimelate desuccinylase activity, 0009089 lysine biosynthetic process via diaminopimelate.
Probab=24.88 E-value=42 Score=13.18 Aligned_cols=32 Identities=13% Similarity=0.298 Sum_probs=19.8
Q ss_pred CCCCCHHHHHHHC----CHHHHHHHHHHHHHHHHHHC
Q ss_conf 4757111125535----97999999999789887531
Q gi|254780399|r 297 VNVHPAKSYIRFR----NPTIIRNFIIQSIQKAINKK 329 (594)
Q Consensus 297 VNVHP~K~eVrf~----de~~i~~~i~~~i~~~L~~~ 329 (594)
-||=|.--.|.|. -+.. .+-|++.|.+.|.++
T Consensus 247 ~NVIPg~L~v~FN~Rfs~e~~-~e~~k~~v~~il~~h 282 (383)
T TIGR01246 247 NNVIPGELKVQFNIRFSTEVS-EETLKSRVEAILDQH 282 (383)
T ss_pred CCCCCHHHHCCCCCCCCCCCC-HHHHHHHHHHHHHHH
T ss_conf 876611120013410286677-178999999999742
No 141
>TIGR00170 leuC 3-isopropylmalate dehydratase, large subunit; InterPro: IPR004430 3-isopropylmalate dehydratase (or isopropylmalate isomerase; 4.2.1.33 from EC) catalyses the stereo-specific isomerisation of 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. This enzyme performs the second step in the biosynthesis of leucine, and is present in most prokaryotes and many fungal species. The prokaryotic enzyme is a heterodimer composed of a large (LeuC) and small (LeuD) subunit, while the fungal form is a monomeric enzyme. Both forms of isopropylmalate are related and are part of the larger aconitase family . Aconitases are mostly monomeric proteins which share four domains in common and contain a single, labile [4Fe-4S] cluster. Three structural domains (1, 2 and 3) are tightly packed around the iron-sulphur cluster, while a fourth domain (4) forms a deep active-site cleft. The prokaryotic enzyme is encoded by two adjacent genes, leuC and leuD, corresponding to aconitase domains 1-3 and 4 respectively , . LeuC does not bind an iron-sulphur cluster. It is thought that some prokaryotic isopropylamalate dehydrogenases can also function as homoaconitase 4.2.1.36 from EC, converting cis-homoaconitate to homoisocitric acid in lysine biosynthesis . Homoaconitase has been identified in higher fungi (mitochondria) and several archaea and one thermophilic species of bacteria, Thermus thermophilus . Members of this entry are 3-isopropylmalate dehydratase, large subunit, or the large subunit domain of single-chain forms. Homoaconitase, aconitase, and 3-isopropylmalate dehydratase have similar overall structures. All are dehydratases (4.2.1 from EC) and bind a [4Fe-4S]-cluster. 3-isopropylmalate dehydratase is split into large (leuC) and small (leuD) chains in eubacteria. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The archaeal leuC-like proteins are not included in group.; GO: 0003861 3-isopropylmalate dehydratase activity, 0051539 4 iron 4 sulfur cluster binding, 0009098 leucine biosynthetic process, 0009316 3-isopropylmalate dehydratase complex.
Probab=24.75 E-value=42 Score=13.16 Aligned_cols=83 Identities=14% Similarity=0.077 Sum_probs=43.5
Q ss_pred EECCCCCEEECCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCC-CCCCCCCCCC-CHHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf 10455100002586354005899899999998522103884211-1122223467-834777799989999866959996
Q gi|254780399|r 412 QIHQNYIISQTTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQ-TLLTPEIIDL-LEGECALIMEHDEDLHRLGIKAER 489 (594)
Q Consensus 412 Q~~~~yIl~~~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q-~Ll~P~~i~L-s~~e~~~l~~~~~~l~~~Gf~~e~ 489 (594)
.+++-||=.-+++-+ =|-.+|=+=++=-| .--+.| .|.+|=.=.+ .-.|++-|+ ..|-+-||||..
T Consensus 344 kvd~VFIGSCTNsRi--eDLR~AA~~~kG~K-------~A~~v~~alVVPGSg~VK~QAE~EGLD---kIF~eAGfEWR~ 411 (472)
T TIGR00170 344 KVDKVFIGSCTNSRI--EDLRAAAAVVKGRK-------VADNVKLALVVPGSGLVKKQAEKEGLD---KIFIEAGFEWRE 411 (472)
T ss_pred EEEEEEEECCCCCHH--HHHHHHHHHHCCCC-------CCCCCCEEEEECCCCHHHHHHHHCCCC---HHHHHCCCCCCC
T ss_conf 750568724556057--89999999847810-------154375898957882367887331621---788871700014
Q ss_pred ECCCEEEEEECCCCCCCC
Q ss_conf 079879999526111556
Q gi|254780399|r 490 FGPNAIAIREIPAILSKK 507 (594)
Q Consensus 490 ~g~~~~~i~~iP~~l~~~ 507 (594)
.+-+..|--=|..|.+.
T Consensus 412 -~GCSmCL~MN~D~l~~~ 428 (472)
T TIGR00170 412 -PGCSMCLGMNNDVLDEG 428 (472)
T ss_pred -CCCCEECCCCCCCCCCC
T ss_conf -67724305776758655
No 142
>TIGR03377 glycerol3P_GlpA glycerol-3-phosphate dehydrogenase, anaerobic, A subunit. Members of this protein family are the A subunit, product of the glpA gene, of a three-subunit, membrane-anchored, FAD-dependent anaerobic glycerol-3-phosphate dehydrogenase.
Probab=24.41 E-value=43 Score=13.12 Aligned_cols=19 Identities=16% Similarity=0.228 Sum_probs=10.5
Q ss_pred HHHHCCCCCCHHHHHHHHH
Q ss_conf 6664588889899999999
Q gi|254780399|r 544 GSIRSGRKMQSIEMNRLLR 562 (594)
Q Consensus 544 ~AIk~gd~L~~~e~~~Li~ 562 (594)
..|-.|+.|..+|...-|.
T Consensus 486 ~~~~~g~~~~~~~~~~~~~ 504 (516)
T TIGR03377 486 RPILWGDALREAELTYWIY 504 (516)
T ss_pred CCCCHHHHHHHHHHHHHHH
T ss_conf 4021378999999999999
No 143
>cd00131 PAX Paired Box domain
Probab=24.28 E-value=36 Score=13.71 Aligned_cols=21 Identities=33% Similarity=0.507 Sum_probs=12.5
Q ss_pred HHHHCCCHHHCHHHHHHHHHH
Q ss_conf 775152100075888999987
Q gi|254780399|r 251 YVFINGRTVQDKFILSTIRTA 271 (594)
Q Consensus 251 ~ifVNgR~V~~~~l~~AI~~a 271 (594)
=+||||||..+..-.+-|.-|
T Consensus 10 G~fvnGRPLp~~~R~kIVeLa 30 (128)
T cd00131 10 GVFVNGRPLPDSIRQRIVELA 30 (128)
T ss_pred CCCCCCCCCCHHHHHHHHHHH
T ss_conf 625299438588999999999
No 144
>pfam08861 DUF1828 Domain of unknown function DUF1828. This presumed domain is functionally uncharacterized.
Probab=24.01 E-value=44 Score=13.06 Aligned_cols=59 Identities=20% Similarity=0.282 Sum_probs=32.8
Q ss_pred HHCCCCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHEEEEE
Q ss_conf 72699679999980984399999888998898999875024665631244112148840489998762024899
Q gi|254780399|r 35 LDAESSRVETVIAGGGKSFFQITDNGFGMTSEEIPMAVQRHCTSKISDDFSNIHTFGFRGEALPSIGAVSHLTL 108 (594)
Q Consensus 35 lDAgAt~I~v~i~~~g~~~i~V~DnG~Gi~~~dl~~~~~rh~TSKi~~dl~~i~t~GFRGEAL~sIa~vs~l~i 108 (594)
+|+--..|.+.++.++ +.++++|+|.=+. +|...+..-.. -|=|.+.+..|.+--.++.
T Consensus 4 ~d~~gD~I~~yi~~~~-~~~~ltDdG~TL~--~L~~~gid~~~------------s~kR~~i~~~il~~~gv~~ 62 (90)
T pfam08861 4 IDPDGDAIQIYIKKGE-DGYRLTDDGYTLF--HLESAGIDLDK------------SGKRQKILENILSGFGIEL 62 (90)
T ss_pred CCCCCCEEEEEEEECC-CEEEEECCCHHHH--HCCCCCCCCCC------------CHHHHHHHHHHHHHCCEEE
T ss_conf 2689999999999879-8489956827776--36223876202------------6779999999998768563
No 145
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=23.32 E-value=45 Score=12.97 Aligned_cols=16 Identities=25% Similarity=0.297 Sum_probs=13.0
Q ss_pred CHHHHHHHHHHHHHHH
Q ss_conf 0589989999999852
Q gi|254780399|r 430 DQHAAHERLIFEKMRQ 445 (594)
Q Consensus 430 DQHAAhERI~yE~l~~ 445 (594)
.-.-||||++||.|+-
T Consensus 290 ~~~~~~~R~L~EAF~G 305 (314)
T COG5220 290 NTNYAYERVLTEAFMG 305 (314)
T ss_pred CCHHHHHHHHHHHHCC
T ss_conf 6079999999999725
No 146
>TIGR00390 hslU heat shock protein HslVU, ATPase subunit HslU; InterPro: IPR004491 This family of proteins represent HslU, a bacterial clpX homolog, which is an ATPase and chaperone belonging to the AAA Clp/Hsp100 family and a component of the eubacterial proteasome. ATP-dependent protease complexes are present in all three kingdoms of life, where they rid the cell of misfolded or damaged proteins and control the level of certain regulatory proteins. They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, ClpXP) complex in other eubacteria. Genes homologous to eubacterial HslV, IPR001353 from INTERPRO, (ClpQ,) and HslU (ClpY, ClpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa. They are expressed as precursors, with a propeptide that is removed to produce the active protease. The protease is probably located in the kinetoplast (mitochondrion). Phylogenetic analysis shows that HslV and HslU from trypanosomatids form a single clad with other eubacterial homologs . ; GO: 0005515 protein binding, 0005524 ATP binding, 0009377 HslUV protease activity, 0016887 ATPase activity, 0005737 cytoplasm, 0009376 HslUV protease complex.
Probab=23.27 E-value=45 Score=12.97 Aligned_cols=116 Identities=12% Similarity=0.173 Sum_probs=61.0
Q ss_pred HHHHCCCCCEEEEEE------CCCCEEEEECCC-CCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCC
Q ss_conf 987318997499998------798307997178-8104899999732166654310022442036566662161103323
Q gi|254780399|r 174 RMAIAYPKVSFTFST------IKSNRYKMNFQS-TNGNFPERISQVIGEDFINNAVELNEKSNEITLQGYTGIPTFNRGN 246 (594)
Q Consensus 174 ~~aL~~P~V~f~l~~------~~~~~~~l~~~~-~~~~l~~ri~~i~G~~~~~~l~~i~~~~~~~~i~G~is~P~~~r~~ 246 (594)
.+||.|--.+..|.. ..+|..-+=.|. |..-+--||+-+.+.-| |+.+..-|+=-||+|.---+- =
T Consensus 25 AiALrNRyrR~~L~~~L~~EV~PKNILMiGpTGVGKTEIARRlAKL~~aPF------iKVEAtKfTEVGYVGrdVeSm-v 97 (463)
T TIGR00390 25 AIALRNRYRRSQLEEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF------IKVEATKFTEVGYVGRDVESM-V 97 (463)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCC------EEEEEEEEEECCEECCCHHHH-H
T ss_conf 999886677612871113565874304327889854479999999844891------466641001102142410036-7
Q ss_pred CHHHHHHH---CC---CHHHCHHHHHHHHHHHHHHCCCC------CCEEEEEEEEEEHHHHC
Q ss_conf 20667751---52---10007588899998755442799------98079999996065712
Q gi|254780399|r 247 ANQFYVFI---NG---RTVQDKFILSTIRTAYAETIPLG------RYPVVVLLLEIDPRQVD 296 (594)
Q Consensus 247 ~~~q~ifV---Ng---R~V~~~~l~~AI~~aY~~~l~~g------~~P~~vL~i~i~p~~vD 296 (594)
||..-..| -. --++++..-.|..+.-..++|+. +.|+-..|-..+|+.-|
T Consensus 98 RDL~~~aV~lV~~e~~~~~r~~aee~~~erI~~~L~pp~~n~sGvknPfe~f~~~~ePN~~~ 159 (463)
T TIGR00390 98 RDLVDTAVKLVKEEKIEKVRDRAEEAAEERIVDKLLPPAKNQSGVKNPFEMFWGSEEPNEKD 159 (463)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHEECCCCCCHHH
T ss_conf 87899999999998899889999999988999872888988776667223000566874024
No 147
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=23.24 E-value=45 Score=12.96 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=25.6
Q ss_pred HHHHHHHHHCCCEEEEECCCEEEEEECCCCCCCCC-HHHHHHHHH
Q ss_conf 99899998669599960798799995261115567-899999999
Q gi|254780399|r 474 MEHDEDLHRLGIKAERFGPNAIAIREIPAILSKKN-IPQLLRDII 517 (594)
Q Consensus 474 ~~~~~~l~~~Gf~~e~~g~~~~~i~~iP~~l~~~~-~~~~l~dll 517 (594)
++..+.|.++||.++.-+.+....-.+|++=.+-. ..++++|++
T Consensus 22 ~~i~~~L~~lg~~~~~~~~~~~~~v~~Ps~R~Di~~~~DliEEi~ 66 (71)
T smart00874 22 EEIEEILKRLGFEVEVSGDDDTLEVTVPSYRFDILIEADLIEEVA 66 (71)
T ss_pred HHHHHHHHHCCCEEEECCCCCEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 999999998699899657897599978997065597346999888
No 148
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=22.85 E-value=46 Score=12.91 Aligned_cols=31 Identities=19% Similarity=0.270 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHCCCCCCEEEEEEEEEEHHHH
Q ss_conf 8999987554427999807999999606571
Q gi|254780399|r 265 LSTIRTAYAETIPLGRYPVVVLLLEIDPRQV 295 (594)
Q Consensus 265 ~~AI~~aY~~~l~~g~~P~~vL~i~i~p~~v 295 (594)
..|.++.|++.|-.+..++.|+||+.+++.+
T Consensus 82 CSALK~~YRd~Lr~~~~~v~fv~L~g~~~~i 112 (176)
T PRK09825 82 CSSLKKQYRDILRKSSPNVHFLWLDGDYETI 112 (176)
T ss_pred EHHHHHHHHHHHHCCCCCEEEEEEECCHHHH
T ss_conf 1886799999997479987999971899999
No 149
>PRK13186 lpxC UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=22.72 E-value=46 Score=12.89 Aligned_cols=16 Identities=19% Similarity=0.378 Sum_probs=6.0
Q ss_pred HHHCCCCCCHHHHHHH
Q ss_conf 6645888898999999
Q gi|254780399|r 545 SIRSGRKMQSIEMNRL 560 (594)
Q Consensus 545 AIk~gd~L~~~e~~~L 560 (594)
|.|.|+.|+..=++.|
T Consensus 257 a~~~GH~ln~~l~~~l 272 (299)
T PRK13186 257 AYKSGHALNNKLLRAL 272 (299)
T ss_pred EECCCCHHHHHHHHHH
T ss_conf 9868719999999999
No 150
>pfam03145 Sina Seven in absentia protein family. The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non- neuronal cell type. The Sina protein contains an N-terminal RING finger domain pfam00097. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that thus Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1
Probab=22.55 E-value=46 Score=12.87 Aligned_cols=23 Identities=13% Similarity=0.223 Sum_probs=8.4
Q ss_pred HCCCEEEEECCC-EEEEEECCCCC
Q ss_conf 669599960798-79999526111
Q gi|254780399|r 482 RLGIKAERFGPN-AIAIREIPAIL 504 (594)
Q Consensus 482 ~~Gf~~e~~g~~-~~~i~~iP~~l 504 (594)
.+-+++|..|++ .+...++|.-+
T Consensus 140 nf~Yelel~~n~r~l~~q~~Prsi 163 (198)
T pfam03145 140 NFAYELELGGNGRKLTWQGFPRSI 163 (198)
T ss_pred CEEEEEEECCCCCEEEEECCCCCH
T ss_conf 806999986786578721166336
No 151
>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=22.08 E-value=47 Score=12.80 Aligned_cols=28 Identities=29% Similarity=0.398 Sum_probs=18.3
Q ss_pred CCCCCEEEEEHHHHHHHHHHHCCCCHHH
Q ss_conf 2567578852101211254310345368
Q gi|254780399|r 136 MNPGTIVEVRDLFFTIPARLNFLKSEQV 163 (594)
Q Consensus 136 ~~~GT~V~V~~LF~N~PvRrkflks~~~ 163 (594)
...||+.+++++-.-.-+-=+|+=||-.
T Consensus 67 iGaGTV~~~e~~~~a~~aGA~FiVSP~~ 94 (210)
T PRK07455 67 IGTGTLLTLEDLEEAIAAGAQFCFTPHV 94 (210)
T ss_pred EEEEECCCHHHHHHHHHCCCCEEECCCC
T ss_conf 9888187899999999869999986888
No 152
>TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=22.07 E-value=24 Score=14.91 Aligned_cols=115 Identities=23% Similarity=0.291 Sum_probs=50.3
Q ss_pred CEEECC-HHH--HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCEEEEEECC
Q ss_conf 635400-589--98999999985221038842111122223467834777799989999866959996079879999526
Q gi|254780399|r 425 GLVIVD-QHA--AHERLIFEKMRQDFNSTKITSQTLLTPEIIDLLEGECALIMEHDEDLHRLGIKAERFGPNAIAIREIP 501 (594)
Q Consensus 425 gL~iID-QHA--AhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~~Gf~~e~~g~~~~~i~~iP 501 (594)
+|+||| ||. .++|-.+.+=-+.-.-.+.....|. +.-||-==.+. |.-+|. + ++=+|+.+|
T Consensus 431 ~lVIiDEQHRFGV~QR~~L~~KG~~~~~~G~~PH~L~----MtATPIPRTLA------Lt~yGD-l-----d~S~I~elP 494 (721)
T TIGR00643 431 GLVIIDEQHRFGVEQRKKLREKGQEGSMIGFAPHVLV----MTATPIPRTLA------LTVYGD-L-----DVSIIDELP 494 (721)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCEEE----EECCCCHHHHH------HHHHHC-C-----EEEEECCCC
T ss_conf 7489932335607899999986220688677777646----63788147899------776500-0-----033431685
Q ss_pred C--------CCCCCCH----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHCC
Q ss_conf 1--------1155678----9999999999985788664689999999976348666458888-9899999999998188
Q gi|254780399|r 502 A--------ILSKKNI----PQLLRDIIDEIIDSSTTYTLQDRIENILATMACYGSIRSGRKM-QSIEMNRLLREMEKNP 568 (594)
Q Consensus 502 ~--------~l~~~~~----~~~l~dll~~l~~~~~~~~~~~~~~~~l~s~ACr~AIk~gd~L-~~~e~~~Li~~L~~c~ 568 (594)
. +..+..- +.+.+-+..++..-...+.+-..|++. +.| +...+..+...|...-
T Consensus 495 ~GR~pi~T~~~~~~~~~aW~~~v~~~~~~E~~~GrQaYvv~PlI~ES-------------E~lp~lk~A~~~~~~l~~~f 561 (721)
T TIGR00643 495 PGRKPITTYLIKHKEKGAWIDIVYEFIEEEIAKGRQAYVVYPLIEES-------------EKLPDLKAAEALYERLKKAF 561 (721)
T ss_pred CCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCC-------------CCCCHHHHHHHHHHHHHHHH
T ss_conf 45933899888427887756899999999983289089996440320-------------04716899999999988861
No 153
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family; InterPro: IPR006266 This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic. ; GO: 0005524 ATP binding, 0016776 phosphotransferase activity phosphate group as acceptor, 0019201 nucleotide kinase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process.
Probab=22.03 E-value=36 Score=13.63 Aligned_cols=25 Identities=16% Similarity=0.205 Sum_probs=15.7
Q ss_pred HHHHHHCCC-CCCEEE--EEEEEEEHHH
Q ss_conf 875544279-998079--9999960657
Q gi|254780399|r 270 TAYAETIPL-GRYPVV--VLLLEIDPRQ 294 (594)
Q Consensus 270 ~aY~~~l~~-g~~P~~--vL~i~i~p~~ 294 (594)
+||...+|. .=-|-+ ||||+||-+.
T Consensus 95 ~~W~~~~P~~kv~~~~alVlF~dC~e~~ 122 (189)
T TIGR01359 95 EAWEKLMPDNKVNVKFALVLFFDCPEEV 122 (189)
T ss_pred HHHHHHCCCCCCCEEEEEEEEEECCCCE
T ss_conf 8898617877612026789998679714
No 154
>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed
Probab=21.79 E-value=48 Score=12.76 Aligned_cols=28 Identities=11% Similarity=0.161 Sum_probs=19.4
Q ss_pred CCCCCEEEEEHHHHHHHHHHHCCCCHHH
Q ss_conf 2567578852101211254310345368
Q gi|254780399|r 136 MNPGTIVEVRDLFFTIPARLNFLKSEQV 163 (594)
Q Consensus 136 ~~~GT~V~V~~LF~N~PvRrkflks~~~ 163 (594)
...||+.+++++-.-+=+=-+|+=||-.
T Consensus 65 iGAGTVlt~e~~~~ai~aGA~FiVSP~~ 92 (206)
T PRK09140 65 IGAGTVLSPEQVDRLADAGGRLIVTPNI 92 (206)
T ss_pred EEEEECCCHHHHHHHHHCCCCEEECCCC
T ss_conf 9862046799999999859999999999
No 155
>PRK07531 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated
Probab=21.74 E-value=48 Score=12.76 Aligned_cols=21 Identities=10% Similarity=-0.024 Sum_probs=14.0
Q ss_pred CCCEEEEEHHHHHHHHHHHCC
Q ss_conf 675788521012112543103
Q gi|254780399|r 138 PGTIVEVRDLFFTIPARLNFL 158 (594)
Q Consensus 138 ~GT~V~V~~LF~N~PvRrkfl 158 (594)
.|.-..+++.+.|+-+.++.+
T Consensus 77 ~dADlVqEaVPE~LdIKq~vf 97 (489)
T PRK07531 77 AGADWIQESVPERLDLKHKVL 97 (489)
T ss_pred CCCCEEEECCCCCHHHHHHHH
T ss_conf 479999987856699999999
No 156
>pfam07223 DUF1421 Protein of unknown function (DUF1421). This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=21.70 E-value=34 Score=13.87 Aligned_cols=18 Identities=6% Similarity=0.098 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHCC
Q ss_conf 689999999999987318
Q gi|254780399|r 162 QVETNLITDVIRRMAIAY 179 (594)
Q Consensus 162 ~~e~~~I~~~v~~~aL~~ 179 (594)
|-|+..-...+.++=|++
T Consensus 14 KQEiaEtQ~eLaKLQl~k 31 (359)
T pfam07223 14 KQEIVETQKELAKLQLSH 31 (359)
T ss_pred HHHHHHHHHHHHHHHHCC
T ss_conf 789999999998764153
No 157
>COG2321 Predicted metalloprotease [General function prediction only]
Probab=21.53 E-value=49 Score=12.73 Aligned_cols=11 Identities=18% Similarity=0.456 Sum_probs=4.7
Q ss_pred CCCCCCHHHHH
Q ss_conf 11556789999
Q gi|254780399|r 503 ILSKKNIPQLL 513 (594)
Q Consensus 503 ~l~~~~~~~~l 513 (594)
+|...|+++.+
T Consensus 228 ~Le~gDleeAl 238 (295)
T COG2321 228 LLETGDLEEAL 238 (295)
T ss_pred CCCCCHHHHHH
T ss_conf 77644399999
No 158
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=21.30 E-value=49 Score=12.70 Aligned_cols=49 Identities=16% Similarity=0.343 Sum_probs=26.8
Q ss_pred CCCEEEEEEEEEE-HHHHCCCCCCHHHHHHHC------CHHHHHHHHHHHHHHHHHH
Q ss_conf 9980799999960-657124757111125535------9799999999978988753
Q gi|254780399|r 279 GRYPVVVLLLEID-PRQVDVNVHPAKSYIRFR------NPTIIRNFIIQSIQKAINK 328 (594)
Q Consensus 279 g~~P~~vL~i~i~-p~~vDVNVHP~K~eVrf~------de~~i~~~i~~~i~~~L~~ 328 (594)
-|||+.|+.+.-+ -.+||.||.-.--|-.++ .... ...+.+.|-+.|..
T Consensus 279 TrYpflV~qF~kded~Ev~Lnvede~~~e~y~dklK~~Yd~~-~~ev~s~v~~gLt~ 334 (508)
T COG5165 279 TRYPFLVVQFQKDEDVEVELNVEDEDYEENYKDKLKGEYDGL-LSEVFSEVMEGLTV 334 (508)
T ss_pred CCCCEEEEEEECCCCEEEEECCCHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHCC
T ss_conf 537769999840554056612434465666777654210334-89999999875323
No 159
>PRK09454 ugpQ cytoplasmic glycerophosphodiester phosphodiesterase; Provisional
Probab=21.14 E-value=49 Score=12.67 Aligned_cols=45 Identities=9% Similarity=-0.045 Sum_probs=24.6
Q ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCCEEEEEEEEC
Q ss_conf 9985268722697899999998777269967999998098439999988
Q gi|254780399|r 11 INQIAAGEIIERPSIAIKELIENSLDAESSRVETVIAGGGKSFFQITDN 59 (594)
Q Consensus 11 ~~~Iaagevi~~~~svVkELveNSlDAgAt~I~v~i~~~g~~~i~V~Dn 59 (594)
+++=+++..-|+--... +.|+++||+-|+..|....-..+.|.-|
T Consensus 12 aHRG~~~~~PENTl~Af----~~A~~~G~d~iE~DV~lTkDg~~Vv~HD 56 (249)
T PRK09454 12 AHRGGGKLAPENTLAAI----DVGARYGHKMIEFDAKLSADGVIFLLHD 56 (249)
T ss_pred ECCCCCCCCCCHHHHHH----HHHHHCCCCEEEEEEEECCCCCEEEECC
T ss_conf 88998989972049999----9999849999999856968999999769
No 160
>pfam00388 PI-PLC-X Phosphatidylinositol-specific phospholipase C, X domain. This associates with pfam00387 to form a single structural unit.
Probab=21.12 E-value=50 Score=12.67 Aligned_cols=18 Identities=17% Similarity=-0.129 Sum_probs=7.5
Q ss_pred HHHHHHCCCCEEEEEEEC
Q ss_conf 987772699679999980
Q gi|254780399|r 31 IENSLDAESSRVETVIAG 48 (594)
Q Consensus 31 veNSlDAgAt~I~v~i~~ 48 (594)
..++|..|+.-|++.+++
T Consensus 32 y~~aL~~GcR~vEid~wd 49 (144)
T pfam00388 32 YIQALLRGCRCVELDCWD 49 (144)
T ss_pred HHHHHHCCCCEEEEEEEC
T ss_conf 999998399779988564
No 161
>COG3893 Inactivated superfamily I helicase [DNA replication, recombination, and repair]
Probab=20.98 E-value=50 Score=12.65 Aligned_cols=46 Identities=15% Similarity=0.211 Sum_probs=36.4
Q ss_pred HHHHHHCCCCCCHHHHHHHHHHHHHCC--CCCCCCCCCEEEEEECHHH
Q ss_conf 486664588889899999999998188--8878878872799838889
Q gi|254780399|r 542 CYGSIRSGRKMQSIEMNRLLREMEKNP--NSSQCNHGRPTFIKLKLSD 587 (594)
Q Consensus 542 Cr~AIk~gd~L~~~e~~~Li~~L~~c~--~P~~CpHGRPt~~~l~~~e 587 (594)
-|+.|+.|..|+..|-..+++.|..-+ .|-.-.|-|-.++..-+.-
T Consensus 529 ~~gl~~~~a~ls~~ew~diLd~L~~ge~vkp~~~~hprv~I~gaLEaR 576 (697)
T COG3893 529 LRGLIEAGAQLSAPEWPDILDALVAGETVKPAPGTHPRVRIMGALEAR 576 (697)
T ss_pred HHHHHHCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCHHHH
T ss_conf 999986146567305789999861776236788888716883104665
No 162
>KOG1133 consensus
Probab=20.98 E-value=50 Score=12.65 Aligned_cols=79 Identities=15% Similarity=0.108 Sum_probs=31.2
Q ss_pred CCCCEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH-CC-CEEEEEC--------
Q ss_conf 2586354005899899999998522103884211112222346783477779998999986-69-5999607--------
Q gi|254780399|r 422 TTDGLVIVDQHAAHERLIFEKMRQDFNSTKITSQTLLTPEIIDLLEGECALIMEHDEDLHR-LG-IKAERFG-------- 491 (594)
Q Consensus 422 ~~~gL~iIDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~Ls~~e~~~l~~~~~~l~~-~G-f~~e~~g-------- 491 (594)
.++|+++.=.--+.....+..+.+.=....+...+ ++-.|-...-.++|+.|.+..+. -| +-+...|
T Consensus 628 VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK---~vF~E~k~~~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGIN 704 (821)
T KOG1133 628 VPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKK---KVFYEPKDTVEDVLEGYAEAAERGRGAILLAVVGGKLSEGIN 704 (821)
T ss_pred CCCCEEEEEECHHHHHHHHHHHHHCCHHHHHHCCC---HHHCCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCC
T ss_conf 89967999315999999999998637688775031---021056657899999999875348870799874451145666
Q ss_pred -----CCEEEEEECCCC
Q ss_conf -----987999952611
Q gi|254780399|r 492 -----PNAIAIREIPAI 503 (594)
Q Consensus 492 -----~~~~~i~~iP~~ 503 (594)
+..+.+-++|-.
T Consensus 705 F~D~LgRaVvvVGlPyP 721 (821)
T KOG1133 705 FSDDLGRAVVVVGLPYP 721 (821)
T ss_pred CCCCCCCEEEEEECCCC
T ss_conf 64454547999706889
No 163
>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter; InterPro: IPR005898 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain . The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , . The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. This model describes a family of cyclic peptide transporters in bacteria. Syringomycin is an amphipathic, cyclic lipodepsipeptide when inserted into host causes formation of channels, permeable to a variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.; GO: 0005524 ATP binding, 0015197 peptide transporter activity, 0015833 peptide transport, 0016021 integral to membrane.
Probab=20.81 E-value=50 Score=12.63 Aligned_cols=69 Identities=22% Similarity=0.282 Sum_probs=41.4
Q ss_pred EEEEECCCCCEEECCCC----------E-------EE------CCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 11310455100002586----------3-------54------0058998999999985221038842111122223467
Q gi|254780399|r 409 ACAQIHQNYIISQTTDG----------L-------VI------VDQHAAHERLIFEKMRQDFNSTKITSQTLLTPEIIDL 465 (594)
Q Consensus 409 ~igQ~~~~yIl~~~~~g----------L-------~i------IDQHAAhERI~yE~l~~~~~~~~~~~Q~Ll~P~~i~L 465 (594)
-|.|=+=-||+.+++.| | ++ =|.-.-|-|=+|...+.+|. ||--.+.-
T Consensus 364 ~I~~G~~VyIVG~NGCGK~TL~K~l~GLY~PQ~G~~LL~G~~V~~~~R~DYR~LFS~~F~Dy~---------LF~~L~~P 434 (555)
T TIGR01194 364 RIASGDLVYIVGENGCGKSTLIKLLLGLYIPQEGELLLDGEAVSDDSRDDYRDLFSAVFADYY---------LFDDLVQP 434 (555)
T ss_pred EEECCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCEEECCCCCCCCCCHHHHHHHHHHHHHHH---------HHHHHCCC
T ss_conf 574352899964889738999999972587876754435754563320238999999988899---------88864287
Q ss_pred CHHHHHHHHHHHHHHHHCCCE
Q ss_conf 834777799989999866959
Q gi|254780399|r 466 LEGECALIMEHDEDLHRLGIK 486 (594)
Q Consensus 466 s~~e~~~l~~~~~~l~~~Gf~ 486 (594)
.+.+..-+++-...|+.+|++
T Consensus 435 de~~~~S~~~A~~YL~~L~~~ 455 (555)
T TIGR01194 435 DEKKQASLDNATTYLSRLELE 455 (555)
T ss_pred CCCCCCCHHHHHHHHHHCCCC
T ss_conf 666665458899999752621
No 164
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=20.77 E-value=50 Score=12.62 Aligned_cols=26 Identities=23% Similarity=0.280 Sum_probs=15.3
Q ss_pred CCCCEEEEEHHHHHHHHHHHCCCCHH
Q ss_conf 56757885210121125431034536
Q gi|254780399|r 137 NPGTIVEVRDLFFTIPARLNFLKSEQ 162 (594)
Q Consensus 137 ~~GT~V~V~~LF~N~PvRrkflks~~ 162 (594)
..||+.+++++-.-.=+-=+|+=||-
T Consensus 71 GaGTV~~~e~~~~a~~aGA~FiVSP~ 96 (209)
T PRK06552 71 GAGTVLDAVTARQAILAGAQFIVSPS 96 (209)
T ss_pred EEECCCCHHHHHHHHHCCCCEEECCC
T ss_conf 88727489999999985998897699
No 165
>TIGR00653 GlnA glutamine synthetase, type I; InterPro: IPR004809 Glutamine synthetase type I (or glutamate-ammonia ligase) has a dodecameric form, which can be subdivided into 1-alpha and 1-beta forms. The phylogeny of the 1-alpha and 1-beta forms appears polyphyletic. Escherichia coli, Synechocystis sp. (strain PCC 6803) , Aquifex aeolicus, and the crenarcheon Sulfolobus acidocaldarius have form 1-beta, while Bacillus subtilis, Thermotoga maritima, and various euryarchaea has form 1-alpha. The 1-beta dodecamer from the crenarcheon S. acidocaldarius differs from that in E. coli in that it is not regulated by adenylation. ; GO: 0004356 glutamate-ammonia ligase activity, 0009399 nitrogen fixation, 0005737 cytoplasm.
Probab=20.76 E-value=35 Score=13.79 Aligned_cols=47 Identities=11% Similarity=0.156 Sum_probs=29.0
Q ss_pred CCCEEEEEEEEEEHH-HHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 998079999996065-712475711112553597999999999789887
Q gi|254780399|r 279 GRYPVVVLLLEIDPR-QVDVNVHPAKSYIRFRNPTIIRNFIIQSIQKAI 326 (594)
Q Consensus 279 g~~P~~vL~i~i~p~-~vDVNVHP~K~eVrf~de~~i~~~i~~~i~~~L 326 (594)
=...+.+.+=||-+. +.-|++-..+ -|+-.|.=.++..+.++|-+--
T Consensus 211 ~G~~~E~~HHEVA~aGQ~Eid~kf~~-l~~~AD~~~~yKyvvK~vA~~~ 258 (486)
T TIGR00653 211 LGLDVEVHHHEVATAGQHEIDFKFDT-LLKTADDIQTYKYVVKNVAKKH 258 (486)
T ss_pred CCCEEEEEECCCCCCCCEEEECCHHH-HHHHHCCEEEHHHHHHHHHHHC
T ss_conf 59828886010147874253046478-9874050451478998999983
No 166
>PRK01641 leuD isopropylmalate isomerase small subunit; Provisional
Probab=20.07 E-value=52 Score=12.52 Aligned_cols=14 Identities=21% Similarity=0.487 Sum_probs=5.8
Q ss_pred EEEEEEEEEEHHHH
Q ss_conf 07999999606571
Q gi|254780399|r 282 PVVVLLLEIDPRQV 295 (594)
Q Consensus 282 P~~vL~i~i~p~~v 295 (594)
|..-+.|++....|
T Consensus 137 p~~~i~IDL~~q~I 150 (201)
T PRK01641 137 PGAELTVDLEAQTV 150 (201)
T ss_pred CCCEEEEEECCCEE
T ss_conf 99746897045889
Done!