Query 004433
Match_columns 754
No_of_seqs 377 out of 2234
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 23:22:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004433.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004433hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1845 MORC family ATPases [C 100.0 1.8E-28 3.9E-33 283.8 11.6 420 222-692 115-606 (775)
2 COG0326 HtpG Molecular chapero 99.9 8.1E-22 1.8E-26 224.3 13.1 163 243-415 16-207 (623)
3 KOG1845 MORC family ATPases [C 99.9 1.7E-22 3.7E-27 234.5 4.3 335 292-694 1-357 (775)
4 PRK05218 heat shock protein 90 99.8 4.7E-20 1E-24 214.1 22.8 303 242-625 14-350 (613)
5 PTZ00130 heat shock protein 90 99.8 6.1E-21 1.3E-25 223.6 13.2 198 201-416 41-270 (814)
6 PRK14083 HSP90 family protein; 99.8 9.4E-20 2E-24 210.6 20.8 298 242-625 11-330 (601)
7 PTZ00272 heat shock protein 83 99.8 2.3E-19 5E-24 209.7 21.2 163 242-415 13-204 (701)
8 PF13589 HATPase_c_3: Histidin 99.7 9.6E-18 2.1E-22 160.0 3.3 97 255-356 3-100 (137)
9 KOG0019 Molecular chaperone (H 99.7 1.7E-16 3.8E-21 178.5 10.4 159 248-417 51-235 (656)
10 KOG0020 Endoplasmic reticulum 99.6 2.2E-16 4.8E-21 173.3 8.6 158 249-418 90-282 (785)
11 PF07496 zf-CW: CW-type Zinc F 99.6 2.6E-16 5.6E-21 126.5 1.3 45 644-688 1-49 (50)
12 PRK00095 mutL DNA mismatch rep 99.4 1.6E-11 3.5E-16 143.6 22.7 140 235-387 2-147 (617)
13 TIGR00585 mutl DNA mismatch re 99.3 1.3E-11 2.9E-16 133.0 12.3 139 236-387 3-148 (312)
14 COG0323 MutL DNA mismatch repa 99.3 8.6E-12 1.9E-16 146.1 11.5 139 236-386 4-148 (638)
15 COG1389 DNA topoisomerase VI, 99.2 7.5E-11 1.6E-15 130.3 10.3 145 242-391 19-183 (538)
16 KOG1979 DNA mismatch repair pr 98.9 2.6E-09 5.7E-14 120.7 9.8 141 235-387 7-153 (694)
17 KOG1978 DNA mismatch repair pr 98.9 2.8E-09 6.1E-14 122.8 8.4 138 237-386 2-145 (672)
18 PRK14868 DNA topoisomerase VI 98.8 4.8E-08 1E-12 115.0 14.5 94 254-353 46-149 (795)
19 PRK04184 DNA topoisomerase VI 98.8 7.6E-08 1.7E-12 110.7 14.3 96 255-353 37-142 (535)
20 TIGR01052 top6b DNA topoisomer 98.6 1.4E-07 3E-12 107.6 11.5 97 253-354 27-133 (488)
21 PRK05559 DNA topoisomerase IV 98.5 6.4E-07 1.4E-11 105.6 11.5 122 253-388 36-175 (631)
22 TIGR01055 parE_Gneg DNA topois 98.4 8.7E-07 1.9E-11 104.3 10.4 120 255-388 31-168 (625)
23 PRK05644 gyrB DNA gyrase subun 98.3 4.8E-06 1E-10 98.4 12.5 120 255-388 38-173 (638)
24 PRK14939 gyrB DNA gyrase subun 98.3 5.4E-06 1.2E-10 99.1 12.6 119 255-389 38-174 (756)
25 PF02518 HATPase_c: Histidine 98.2 9.1E-07 2E-11 80.1 4.3 90 254-351 5-99 (111)
26 TIGR01059 gyrB DNA gyrase, B s 98.2 5.9E-06 1.3E-10 98.0 11.9 122 254-389 30-167 (654)
27 PRK14867 DNA topoisomerase VI 98.2 4.7E-06 1E-10 98.0 10.6 94 255-353 37-140 (659)
28 smart00433 TOP2c Topoisomerase 98.2 4.7E-06 1E-10 97.8 10.5 116 258-388 5-138 (594)
29 KOG1977 DNA mismatch repair pr 98.1 2.1E-06 4.6E-11 99.1 3.8 106 238-353 4-115 (1142)
30 TIGR01058 parE_Gpos DNA topois 97.6 0.00028 6E-09 83.7 10.2 120 255-389 35-172 (637)
31 COG0187 GyrB Type IIA topoisom 97.4 0.00055 1.2E-08 79.7 8.8 158 255-437 37-212 (635)
32 cd00075 HATPase_c Histidine ki 97.3 0.00061 1.3E-08 57.8 6.5 86 256-350 2-93 (103)
33 COG3290 CitA Signal transducti 97.3 0.00052 1.1E-08 78.9 7.1 85 253-349 426-518 (537)
34 PLN03237 DNA topoisomerase 2; 97.2 0.0011 2.3E-08 83.9 10.2 86 255-349 78-179 (1465)
35 smart00387 HATPase_c Histidine 97.2 0.00073 1.6E-08 58.3 6.2 74 254-335 5-80 (111)
36 PRK10604 sensor protein RstB; 97.1 0.0012 2.6E-08 74.0 8.1 91 254-351 319-412 (433)
37 PRK09470 cpxA two-component se 97.1 0.0014 2.9E-08 72.7 8.1 89 255-350 354-445 (461)
38 PRK10364 sensor protein ZraS; 97.1 0.0015 3.2E-08 73.4 8.2 84 254-350 348-436 (457)
39 PHA02569 39 DNA topoisomerase 97.0 0.0021 4.6E-08 75.9 8.9 119 256-389 47-185 (602)
40 PRK09467 envZ osmolarity senso 97.0 0.0021 4.6E-08 71.0 8.2 88 254-350 331-421 (435)
41 TIGR01386 cztS_silS_copS heavy 96.8 0.0034 7.3E-08 69.2 8.4 88 254-348 353-445 (457)
42 PRK09303 adaptive-response sen 96.8 0.0038 8.1E-08 69.1 8.7 90 255-352 273-367 (380)
43 PRK11086 sensory histidine kin 96.8 0.0037 8.1E-08 70.7 8.6 82 255-349 434-522 (542)
44 TIGR02938 nifL_nitrog nitrogen 96.8 0.0033 7.1E-08 69.4 7.7 86 255-350 388-482 (494)
45 COG0642 BaeS Signal transducti 96.7 0.0025 5.3E-08 65.2 6.1 60 253-318 227-287 (336)
46 PRK10755 sensor protein BasS/P 96.7 0.0028 6.1E-08 68.4 6.8 87 254-351 247-338 (356)
47 PRK15053 dpiB sensor histidine 96.7 0.0039 8.5E-08 71.3 7.9 85 255-349 433-526 (545)
48 PRK11006 phoR phosphate regulo 96.7 0.0047 1E-07 68.9 8.4 90 254-350 317-411 (430)
49 TIGR02966 phoR_proteo phosphat 96.6 0.0071 1.5E-07 63.1 8.7 90 254-350 229-323 (333)
50 PTZ00109 DNA gyrase subunit b; 96.6 0.0063 1.4E-07 74.0 9.2 121 255-389 130-307 (903)
51 PRK11100 sensory histidine kin 96.6 0.0059 1.3E-07 67.6 8.1 89 254-350 368-461 (475)
52 PRK10549 signal transduction h 96.4 0.0085 1.8E-07 66.7 8.4 90 255-351 353-447 (466)
53 TIGR02916 PEP_his_kin putative 96.3 0.0079 1.7E-07 71.6 7.3 83 255-350 580-668 (679)
54 PTZ00108 DNA topoisomerase 2-l 96.2 0.02 4.3E-07 73.0 10.8 122 255-389 58-203 (1388)
55 PRK11360 sensory histidine kin 96.2 0.012 2.5E-07 66.6 7.8 84 255-351 501-590 (607)
56 PRK10815 sensor protein PhoQ; 96.2 0.01 2.2E-07 68.2 7.2 84 255-349 379-465 (485)
57 PLN03128 DNA topoisomerase 2; 96.1 0.012 2.6E-07 73.9 8.0 122 255-389 53-195 (1135)
58 PRK15347 two component system 95.9 0.02 4.2E-07 69.8 8.5 86 255-351 514-603 (921)
59 PRK11091 aerobic respiration c 95.8 0.023 5.1E-07 68.3 8.4 93 255-352 399-495 (779)
60 COG4191 Signal transduction hi 95.8 0.014 2.9E-07 68.1 5.8 57 254-316 497-558 (603)
61 PRK10337 sensor protein QseC; 95.7 0.021 4.5E-07 63.5 6.9 84 255-350 353-439 (449)
62 PRK13837 two-component VirA-li 95.6 0.025 5.4E-07 69.0 7.7 90 255-351 561-664 (828)
63 TIGR03785 marine_sort_HK prote 95.5 0.037 7.9E-07 66.7 8.2 90 255-351 598-692 (703)
64 TIGR01925 spIIAB anti-sigma F 95.4 0.042 9E-07 51.8 6.9 82 254-349 39-125 (137)
65 PRK11466 hybrid sensory histid 95.2 0.047 1E-06 66.7 8.3 87 255-352 562-652 (914)
66 PRK09835 sensor kinase CusS; P 95.2 0.041 8.9E-07 61.5 7.2 89 254-349 375-468 (482)
67 TIGR02956 TMAO_torS TMAO reduc 95.1 0.055 1.2E-06 66.4 8.3 89 254-352 579-673 (968)
68 PRK10490 sensor protein KdpD; 95.1 0.047 1E-06 67.6 7.7 89 254-351 778-871 (895)
69 PRK11073 glnL nitrogen regulat 95.1 0.042 9.1E-07 58.9 6.5 89 255-350 238-336 (348)
70 PRK10547 chemotaxis protein Ch 94.8 0.074 1.6E-06 63.9 8.1 87 257-351 388-512 (670)
71 PRK10841 hybrid sensory kinase 94.7 0.079 1.7E-06 65.9 8.4 89 255-351 563-656 (924)
72 PRK11107 hybrid sensory histid 94.5 0.098 2.1E-06 63.7 8.5 95 255-352 409-508 (919)
73 KOG0787 Dehydrogenase kinase [ 93.9 0.14 3E-06 57.2 7.1 74 255-334 261-349 (414)
74 PRK10618 phosphotransfer inter 93.7 0.19 4.2E-06 62.3 8.8 93 255-352 566-662 (894)
75 PRK04069 serine-protein kinase 93.7 0.11 2.5E-06 51.1 5.5 52 255-312 43-99 (161)
76 PRK03660 anti-sigma F factor; 93.6 0.21 4.6E-06 47.4 7.1 45 254-304 39-88 (146)
77 PF13581 HATPase_c_2: Histidin 93.6 0.14 2.9E-06 47.4 5.6 78 254-346 31-113 (125)
78 COG3850 NarQ Signal transducti 93.6 0.1 2.2E-06 60.5 5.5 76 255-353 482-559 (574)
79 PRK09959 hybrid sensory histid 93.4 0.21 4.6E-06 63.1 8.5 93 255-351 829-925 (1197)
80 TIGR01924 rsbW_low_gc serine-p 93.0 0.21 4.5E-06 49.3 6.2 85 254-348 42-131 (159)
81 COG4585 Signal transduction hi 93.0 0.13 2.7E-06 56.7 5.1 71 254-350 279-353 (365)
82 COG0643 CheA Chemotaxis protei 92.0 0.43 9.3E-06 57.9 8.1 101 236-352 422-563 (716)
83 PRK13557 histidine kinase; Pro 91.5 0.5 1.1E-05 53.3 7.7 92 255-351 278-383 (540)
84 PRK11644 sensory histidine kin 90.9 0.23 5E-06 57.5 4.3 45 255-305 411-456 (495)
85 COG2972 Predicted signal trans 90.8 0.31 6.8E-06 55.8 5.2 54 254-311 350-407 (456)
86 COG3920 Signal transduction hi 90.4 0.28 6.2E-06 51.2 4.1 46 255-305 123-174 (221)
87 PRK10600 nitrate/nitrite senso 90.3 0.26 5.6E-06 57.4 4.1 47 254-306 469-516 (569)
88 COG2205 KdpD Osmosensitive K+ 90.1 0.87 1.9E-05 55.5 8.1 57 256-318 777-836 (890)
89 PF07744 SPOC: SPOC domain; I 89.5 0.2 4.3E-06 46.3 1.9 45 70-114 66-119 (119)
90 PRK13560 hypothetical protein; 87.7 0.55 1.2E-05 55.8 4.4 44 257-305 714-762 (807)
91 COG5002 VicK Signal transducti 87.3 0.68 1.5E-05 51.7 4.4 72 255-334 343-417 (459)
92 COG2172 RsbW Anti-sigma regula 86.9 1.3 2.8E-05 43.5 5.8 86 253-352 39-130 (146)
93 COG4192 Signal transduction hi 86.2 1.2 2.7E-05 51.1 5.8 60 254-318 564-626 (673)
94 COG5000 NtrY Signal transducti 84.7 1.2 2.5E-05 52.9 4.8 52 255-312 601-661 (712)
95 smart00249 PHD PHD zinc finger 80.9 1.4 3E-05 33.3 2.4 33 642-674 10-45 (47)
96 COG4251 Bacteriophytochrome (l 80.7 2.3 5E-05 50.6 5.2 69 235-312 620-691 (750)
97 PRK13559 hypothetical protein; 80.0 1.7 3.7E-05 47.0 3.8 47 255-305 268-319 (361)
98 PRK10935 nitrate/nitrite senso 79.6 2.1 4.5E-05 49.3 4.4 46 255-305 472-518 (565)
99 COG4564 Signal transduction hi 75.0 5.4 0.00012 44.4 5.7 74 257-353 358-439 (459)
100 COG3852 NtrB Signal transducti 67.7 8.7 0.00019 42.6 5.2 59 254-312 241-309 (363)
101 PF00628 PHD: PHD-finger; Int 59.4 2 4.4E-05 34.0 -1.0 34 641-674 9-46 (51)
102 COG3851 UhpB Signal transducti 57.6 12 0.00027 42.2 4.2 46 254-305 410-456 (497)
103 COG3275 LytS Putative regulato 49.5 13 0.00029 43.3 3.0 45 255-305 457-507 (557)
104 PF14501 HATPase_c_5: GHKL dom 37.7 55 0.0012 29.3 4.6 42 254-301 5-51 (100)
105 TIGR03047 PS_II_psb28 photosys 36.7 16 0.00034 34.6 0.9 17 82-98 84-100 (109)
106 PF03912 Psb28: Psb28 protein; 35.5 14 0.0003 34.9 0.4 15 84-98 86-100 (108)
107 PRK13610 photosystem II reacti 35.2 16 0.00035 34.7 0.7 17 82-98 91-107 (113)
108 PLN00039 photosystem II reacti 34.6 18 0.0004 34.3 0.9 17 82-98 85-101 (111)
109 PRK13612 photosystem II reacti 33.5 19 0.00042 34.2 0.9 17 82-98 87-103 (113)
110 PRK13611 photosystem II reacti 32.9 20 0.00044 33.6 0.9 17 82-98 80-96 (104)
111 CHL00128 psbW photosystem II p 32.3 21 0.00045 34.0 0.9 17 82-98 87-103 (113)
112 KOG0355 DNA topoisomerase type 28.1 1.9E+02 0.0042 36.1 8.1 46 254-307 53-102 (842)
113 COG2865 Predicted transcriptio 28.0 66 0.0014 37.7 4.2 69 253-335 269-352 (467)
114 cd00594 KU Ku-core domain; inc 24.9 78 0.0017 33.6 3.8 67 49-116 87-161 (272)
115 PF05180 zf-DNL: DNL zinc fing 24.3 35 0.00075 29.7 0.8 23 640-662 23-45 (66)
116 KOG1973 Chromatin remodeling p 24.2 35 0.00075 37.0 1.0 30 644-674 230-263 (274)
117 smart00559 Ku78 Ku70 and Ku80 23.1 90 0.002 30.3 3.6 66 50-116 35-109 (140)
118 PF06540 GMAP: Galanin message 20.0 91 0.002 26.8 2.4 34 68-102 11-44 (62)
No 1
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.95 E-value=1.8e-28 Score=283.85 Aligned_cols=420 Identities=21% Similarity=0.230 Sum_probs=293.8
Q ss_pred CCceeeecCCCCceeeecCHHHHHHhhccccCCHHHHHHHHHhccccc---CCCccEEEEEecccccCCCCcCEEEEE--
Q 004433 222 EPRAVKQAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDA---KATKLEISIESIYFKKAGKDIPMLSII-- 296 (754)
Q Consensus 222 ~~~~~~~~~~~~~~~~~v~p~fL~slst~h~~~pf~AIaELIDNS~DA---gAt~V~I~I~~~~~~~~~~~~~~L~I~-- 296 (754)
.+.-+...+.++-.+++++|+|||+++|+| .|.++|++||+|||+|. +|+.+.|. .+. +.-+.....++|.
T Consensus 115 a~~~~~~~~~G~~~~iivhpkflhsnatsh-k~a~~a~aeLldnalDEi~~~~tf~~vd--~I~-p~~d~~i~a~~v~~~ 190 (775)
T KOG1845|consen 115 AELDVIIGKSGGTLHIIVHPKFLHSNATSH-KWAKGAIAELLDNALDEITNGATFVRVD--YIN-PVMDIFIRALVVQLK 190 (775)
T ss_pred ccccceeccCCceeEEEEehhhhcCCCccc-ccccChhhhhccccccccccccceEEee--eec-ccccccceeEEeecc
Confidence 344445666666799999999999999999 89999999999999998 56665443 221 1112224555555
Q ss_pred ---eCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCceeeeecccccceEEEEEeeC------CCCceeEEEEEec--C
Q 004433 297 ---DDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTA------DSRSIAFLSQSLN--Q 365 (754)
Q Consensus 297 ---DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~------g~~svg~ls~sf~--~ 365 (754)
|||+||.++-+..+|.+|++.+. +-...+|+||+||+++.|++|.+++|++|.. ..+++|+++++|. +
T Consensus 191 ~~s~~gg~~~~~~i~~~m~l~~~~k~-e~~~tv~q~~~gfktst~rlGa~~i~~~R~~~~~~~kstqsiglls~tfL~~t 269 (775)
T KOG1845|consen 191 RISDDGGGMKPEVIRKCMSLGYSSKK-EANSTVGQYGNGFKTSTMRLGADAIVFSRCESRRGLKSTQSIGLLSYTFLRKT 269 (775)
T ss_pred ceeccccccCHHHHHHHHHhhhhhhh-hhhhhhhhhccccccchhhhccceeEeehhhhhccCCcceeEEEEEEeeeccc
Confidence 77999999999999999998875 3468999999999999999999999999943 2578999999994 5
Q ss_pred CCeeEEEec----cccCCCC---cEEEEEeccccchhhhhhhhh-----hhhcCCCchh--hHHHh-h------h----c
Q 004433 366 GKDNLEIPI----VSYYRKG---QFMELDTVVQSEATAKYNLKS-----IKEFSPFNKY--LIGEK-A------G----L 420 (754)
Q Consensus 366 g~~~i~VPi----~s~~~~G---t~I~l~~~~~~e~~~~~~L~~-----I~kySPF~s~--pI~el-~------~----~ 420 (754)
+.++++||+ ..++... ..|.. +.. ..|..++.+ +++|+||... .+.+. . . +
T Consensus 270 ~~~d~iv~~~~i~~~~e~~~~~~~~i~~--~s~--~~~~~n~~i~~~~~~L~w~p~~~~~~~l~q~~v~~~~~~~ef~~~ 345 (775)
T KOG1845|consen 270 GKRDFIVPMRLIKMDYEKSDQLWQGILY--KSG--VDWAVNLEIEVTERFLKWSPYSHLLDLLGQNSVQYSKDFPEFGHQ 345 (775)
T ss_pred cCCceeEecchhhhhhhcccccccceee--ccc--cccceeeeeHHHHHHhhcCccccHHHHhhhhhhhhccccchhcch
Confidence 788999999 4444321 12221 111 234445554 9999999983 22220 0 0 1
Q ss_pred cc-CCCCCcEEEEEeccCCC---CceeeeccCCCCCCCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhhcC-
Q 004433 421 FQ-DKCTGTQIYIWNLDQWG---SNYCLEWDNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLV- 495 (754)
Q Consensus 421 ~~-~~~~GT~III~NL~r~~---~~~ELdF~~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLYL~- 495 (754)
+. ...+||.+|+||+++|. +-.++||+.+ +++|. ....++++.|.++||+.
T Consensus 346 ~~~~~~~g~~~I~Y~~~~~~~~~g~~e~df~l~--------~~~i~----------------~~~~~~~~s~~sil~~~~ 401 (775)
T KOG1845|consen 346 FNIMNKPGTDVIIYNLRRWKGDEGILELDFDLD--------PHVIP----------------WTYCHSHLSEASILLLTR 401 (775)
T ss_pred hhhccCCCceeeeechhhhcccccceeeccccC--------ccccc----------------ccchhhhhhcccccchhc
Confidence 22 25799999999997663 3478888765 24442 13456889999999974
Q ss_pred -CCeEEEEcCeeecccccccccCceeee--cccccc-------eEEEEEEccccccc-ccccceEEEEEeCeeee----e
Q 004433 496 -PRMKIYVQGSLVRSRPLAKSLNKTCVE--TGIIMG-------KSAHLTLGRCQLEW-EQMNCGIFLYWHGRLIE----A 560 (754)
Q Consensus 496 -Prm~I~LnG~kV~~~~i~~~L~~~~v~--~~~~~~-------k~V~It~Gf~k~e~-~~~~~Gi~VY~nnRLIk----~ 560 (754)
++|.+.+.|+.+.++.+.....++... .+.... .......||.+... ....+|+.|||.+|||. +
T Consensus 402 ~~~~~~v~~~~~~~h~sv~~~q~~~~~~~~~p~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nV~~~~~lie~~~~~ 481 (775)
T KOG1845|consen 402 RLRFKSVLRGKDVEHHSVINYQVQTEEILYQPQRAPADGKQRLIKLSPKPGFVKDAPRPIDVQQFNVSHGPRLIEHGCRP 481 (775)
T ss_pred cccchhccccccchhhhHHHHHHHHHHHhcccccccCCccchhhcccCCCCcccccCCCCCccCCccccCCcchhhcccc
Confidence 899999999999999888766554321 111100 11122445555432 23456999999999999 9
Q ss_pred eeeccccccCCCCCceEEEEEecCcccccCCCceecccCccCccCchHHHHHHHHHHHHHHHHHhhcccccccccc---c
Q 004433 561 YKRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVKD---G 637 (754)
Q Consensus 561 ~~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~~---~ 637 (754)
+||.++. .+..++++++++..++ . +++|++|+|+++-.-.+++.+..++++.||...++.+.+... .
T Consensus 482 ~~k~~n~--~~s~~~~~~~il~~n~-~-------~~a~~~~~v~~~~v~a~~es~~~~~~~~~~~~~~~~i~~~~~q~~~ 551 (775)
T KOG1845|consen 482 FVKIDNA--TGSLGQAVIPILVGNF-V-------ETAPDSQGVEKTIVLASSESRDKQSLNTYEEKKCLRIDEAGRQLQK 551 (775)
T ss_pred eeeecCC--Cccccccccceecccc-c-------ccCCCccccccccccccchhhhhhcccccccccccccCccchhhhh
Confidence 9999985 5579999999999984 3 469999999999999999999999999999999998876521 1
Q ss_pred CCCC-----CCCceeeCccchhhccCCCCCCCCCCCCCceecCCC---CCCCCCCCcccccCC
Q 004433 638 ALYK-----PDQEWVQCNKCRKWRMLDPGFDTKSLPVEWFCYMKP---FEGLCDLPEQKVDAG 692 (754)
Q Consensus 638 ~~~~-----~~~~WvQCd~C~KWR~Lp~~~~~~~lp~~W~C~mnp---~~~sC~~pEe~~~~~ 692 (754)
.++. ....=-||- += ++. ...--..|+|..++ .++.|+-+-...+.+
T Consensus 552 ~~~~~~~~~Ke~~~~~~~---~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 606 (775)
T KOG1845|consen 552 ERESTTTVVKEEKPENNH---LS--SSK---RTQRRKSTGRAISVAVEKFNLRSGPNGRGQID 606 (775)
T ss_pred hhcccceeecccccccch---hc--chh---ccccccccccccccchhhhccccccCCcCCcc
Confidence 1111 011112221 11 111 12334689999998 357776665555444
No 2
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=8.1e-22 Score=224.35 Aligned_cols=163 Identities=25% Similarity=0.347 Sum_probs=132.4
Q ss_pred HHHHhhccccCCHHHHHHHHHhcccccC----------------CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHh
Q 004433 243 YLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD 306 (754)
Q Consensus 243 fL~slst~h~~~pf~AIaELIDNS~DAg----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee 306 (754)
.|+.+..+.|+....+|||||+||.||. ...+.|.|.. +.+..+|+|.|||+|||++|
T Consensus 16 ll~lmihSlYSnKeIFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~------Dk~~kTLtI~DNGIGMT~~E 89 (623)
T COG0326 16 LLDLMIHSLYSNKEIFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISF------DKDNKTLTISDNGIGMTKDE 89 (623)
T ss_pred HHHHHHHhccCCcHHHHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEE------cccCCEEEEEeCCCCCCHHH
Confidence 5667788888999999999999999992 2356666653 44678999999999999999
Q ss_pred HHHhhh-cccCCC--------CC-CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccc
Q 004433 307 VVRMTY-FGHKQP--------DA-DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVS 376 (754)
Q Consensus 307 l~~~l~-fG~S~k--------~~-~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s 376 (754)
+++.++ ++.|.. .. ++...|||||+|||||+| ++++|+|+||+.+..... .|.+ .|..+++|....
T Consensus 90 v~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~T~~~~~~~~~-~W~S--~g~g~ytv~~~~ 165 (623)
T COG0326 90 VIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFM-VADKVTVITRSAGEDEAY-HWES--DGEGEYTVEDID 165 (623)
T ss_pred HHHHHHHhhhccHHHHHHHhccccccccccccccchhhheee-eeeeEEEEeccCCCCcce-EEEE--cCCCceEEeecc
Confidence 999875 443321 11 367899999999999999 999999999999975444 6666 677788887777
Q ss_pred cCC-CCcEEEEEecccc-chhhhhhhhh-hhhcCCCchhhHH
Q 004433 377 YYR-KGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIG 415 (754)
Q Consensus 377 ~~~-~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySPF~s~pI~ 415 (754)
-+. +||+|+|+++++. ++..+|.|+. |++||.|..+||.
T Consensus 166 ~~~~~GT~I~L~Lk~~e~efl~~~rl~~ivkkYSd~i~~PI~ 207 (623)
T COG0326 166 KEPRRGTEITLHLKEEEDEFLEEWRLREIVKKYSDHIAYPIY 207 (623)
T ss_pred CCCCCCcEEEEEECCchHHHhhhhHHHHHHHHHhcccccceE
Confidence 777 4999999999764 7888999865 9999999999887
No 3
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.85 E-value=1.7e-22 Score=234.50 Aligned_cols=335 Identities=21% Similarity=0.256 Sum_probs=244.0
Q ss_pred EEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecC--CCee
Q 004433 292 MLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ--GKDN 369 (754)
Q Consensus 292 ~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~--g~~~ 369 (754)
+|++.|||.||+++++..+..|+. ....+|+||+|+|+++|++|+++.++|+....+++++++++|.+ ..+.
T Consensus 1 ~l~~~Ddg~Gms~d~a~~~~~f~~------~~~~ig~ygnG~ksgs~r~gkd~~~~tk~~~~~s~~~~sqt~~e~~~~~~ 74 (775)
T KOG1845|consen 1 MLCFLDDGLGMSPDEAPKAINFAV------GLYGIGDYGNGLKSGSMRIGKDFILFTKKESTMSCLFLSQTFHESEADDA 74 (775)
T ss_pred CcccccCCCCcCchhhhhhhhhcc------cccccccccCcccccccccCcccceeeccccccceeeeeccccccccccc
Confidence 478999999999999999998833 46789999999999999999999999999999999999999964 5577
Q ss_pred EEEeccccCCCCcEEEEEeccccchhhhhhhhhhhhcCCCchhhHHHhhhcccC--CCC-CcEEEEEeccCC-CCceeee
Q 004433 370 LEIPIVSYYRKGQFMELDTVVQSEATAKYNLKSIKEFSPFNKYLIGEKAGLFQD--KCT-GTQIYIWNLDQW-GSNYCLE 445 (754)
Q Consensus 370 i~VPi~s~~~~Gt~I~l~~~~~~e~~~~~~L~~I~kySPF~s~pI~el~~~~~~--~~~-GT~III~NL~r~-~~~~ELd 445 (754)
++||+++|..++..+.. .....++++|+.||+|... ..+.+.++. ... ||.+||.|+++. .+.++++
T Consensus 75 vvvP~~t~~~~~~~~~~-------~k~~~~l~~~~c~sfwKag--~~~~a~~~~~~~~~G~~~~iivhpkflhsnatshk 145 (775)
T KOG1845|consen 75 VVVPCPTFNPRTREIVT-------EKFAFSLEAIYCRSFWKAG--DYLLAELDVIIGKSGGTLHIIVHPKFLHSNATSHK 145 (775)
T ss_pred ceecccccccccccccc-------cccccccchhhhcCccccc--chhcccccceeccCCceeEEEEehhhhcCCCcccc
Confidence 89999999998876643 1245678899999999973 222333321 234 588888888876 4678899
Q ss_pred ccCCCCCCCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhhcCCCeEEEEcCeeecccccccccC--ceeeec
Q 004433 446 WDNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLVPRMKIYVQGSLVRSRPLAKSLN--KTCVET 523 (754)
Q Consensus 446 F~~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLYL~Prm~I~LnG~kV~~~~i~~~L~--~~~v~~ 523 (754)
|..| ..||+|+++- +.++-. +.|+.++|+.|+|.|++++..|+...+..+-. .+++.+
T Consensus 146 ~a~~--------a~aeLldnal---------DEi~~~---~tf~~vd~I~p~~d~~i~a~~v~~~~~s~~gg~~~~~~i~ 205 (775)
T KOG1845|consen 146 WAKG--------AIAELLDNAL---------DEITNG---ATFVRVDYINPVMDIFIRALVVQLKRISDDGGGMKPEVIR 205 (775)
T ss_pred cccC--------hhhhhccccc---------cccccc---cceEEeeeecccccccceeEEeeccceeccccccCHHHHH
Confidence 8776 4788876541 122222 44599999999999999999999887543321 122111
Q ss_pred c----------cccceEEEEEEcccccccccccceEEEEEeCeeeeeeeeccccccCCCCCceEEEEEecCcccccCCCc
Q 004433 524 G----------IIMGKSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEAYKRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGL 593 (754)
Q Consensus 524 ~----------~~~~k~V~It~Gf~k~e~~~~~~Gi~VY~nnRLIk~~~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~ 593 (754)
. +...+..+...||.... ...|..+|+-+|. +...+.++.+.||++..+||..
T Consensus 206 ~~m~l~~~~k~e~~~tv~q~~~gfktst---~rlGa~~i~~~R~---------~~~~~~kstqsiglls~tfL~~----- 268 (775)
T KOG1845|consen 206 KCMSLGYSSKKEANSTVGQYGNGFKTST---MRLGADAIVFSRC---------ESRRGLKSTQSIGLLSYTFLRK----- 268 (775)
T ss_pred HHHHhhhhhhhhhhhhhhhhccccccch---hhhccceeEeehh---------hhhccCCcceeEEEEEEeeecc-----
Confidence 0 11112334456666532 2389999999987 3334567899999999998754
Q ss_pred eecccCccCccCchHHHHHHHHHHHHHHHHHhhccccccccc--ccCCCCCCCceeeCccchhhccCCCCCCCCCCCCCc
Q 004433 594 VWVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVK--DGALYKPDQEWVQCNKCRKWRMLDPGFDTKSLPVEW 671 (754)
Q Consensus 594 ~~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~--~~~~~~~~~~WvQCd~C~KWR~Lp~~~~~~~lp~~W 671 (754)
|+ |+||..+- +|++...+...++|.. +-+.+ +..-..+..... .|+||+..+...+ .++..|
T Consensus 269 ---t~-~~d~iv~~---~~i~~~~e~~~~~~~~----i~~~s~~~~~~n~~i~~~~---~~L~w~p~~~~~~--~l~q~~ 332 (775)
T KOG1845|consen 269 ---TG-KRDFIVPM---RLIKMDYEKSDQLWQG----ILYKSGVDWAVNLEIEVTE---RFLKWSPYSHLLD--LLGQNS 332 (775)
T ss_pred ---cc-CCceeEec---chhhhhhhcccccccc----eeeccccccceeeeeHHHH---HHhhcCccccHHH--Hhhhhh
Confidence 78 99999877 8888888888999865 21111 111111111111 7999999999875 788999
Q ss_pred eecCCCC--CCCCCCCcccccCCce
Q 004433 672 FCYMKPF--EGLCDLPEQKVDAGVV 694 (754)
Q Consensus 672 ~C~mnp~--~~sC~~pEe~~~~~~~ 694 (754)
+|+.++. +..|.++.......++
T Consensus 333 v~~~~~~~ef~~~~~~~~~~g~~~I 357 (775)
T KOG1845|consen 333 VQYSKDFPEFGHQFNIMNKPGTDVI 357 (775)
T ss_pred hhhccccchhcchhhhccCCCceee
Confidence 9999974 6889999987776655
No 4
>PRK05218 heat shock protein 90; Provisional
Probab=99.85 E-value=4.7e-20 Score=214.14 Aligned_cols=303 Identities=20% Similarity=0.230 Sum_probs=187.6
Q ss_pred HHHHHhhccccCCHHHHHHHHHhcccccC----------------CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 242 ~fL~slst~h~~~pf~AIaELIDNS~DAg----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
+.|..++.+.|+++..+|+|||+||+||. +....|.|.. +.+...|+|.|||+||+.+
T Consensus 14 ~ll~ll~~~LYs~~~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~------d~~~~~i~I~DnG~GMt~e 87 (613)
T PRK05218 14 QLLHLMIHSLYSNKEIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISF------DKEARTLTISDNGIGMTRE 87 (613)
T ss_pred HHHHHHhhhhcCCchHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEE------cCCCCeEEEEECCCCCCHH
Confidence 46677788889999999999999999993 3445565542 2234579999999999999
Q ss_pred hHHHhh-hcccCCCC----------CCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEec
Q 004433 306 DVVRMT-YFGHKQPD----------ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI 374 (754)
Q Consensus 306 el~~~l-~fG~S~k~----------~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi 374 (754)
++...+ ..|.|.+. ..+...||+||+||+++++ +|++|.|.||+.+....++.|.+ ++...+.+-.
T Consensus 88 el~~~l~~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~-va~~v~V~Sr~~~~~~~~~~w~~--~g~~~~~i~~ 164 (613)
T PRK05218 88 EVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFM-VADKVTVITRSAGPAAEAVRWES--DGEGEYTIEE 164 (613)
T ss_pred HHHHHHHhhccccchhHHHHhhcccccccccccccCcCchhhhh-ccCEEEEEEcCCCCCCceEEEEE--eCCceeEEeE
Confidence 999865 46666321 1246899999999987654 99999999999774456777765 3444455433
Q ss_pred cccCCCCcEEEEEecccc-chhhhhhhhh-hhhcCCCchhhHHHhhhcccCCCCCcEEEEEeccCCCCceeeeccCCCCC
Q 004433 375 VSYYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNG 452 (754)
Q Consensus 375 ~s~~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySPF~s~pI~el~~~~~~~~~GT~III~NL~r~~~~~ELdF~~d~~~ 452 (754)
..-..+||+|+++++.+. ++...+.++. |.+||.|..+||.- .. +. |.+ -+....-|...
T Consensus 165 ~~~~~~GT~I~l~Lk~~~~e~~e~~~i~~li~kys~~l~~PI~~-----~~----~~---~~~---in~~~~~w~~~--- 226 (613)
T PRK05218 165 IEKEERGTEITLHLKEDEDEFLDEWRIRSIIKKYSDFIPVPIKL-----EK----EE---EET---INSASALWTRS--- 226 (613)
T ss_pred CCCCCCCcEEEEEECcchhhhcCHHHHHHHHHHHHhcCCCCEEE-----ec----cc---cee---ecCCccceecC---
Confidence 333368999999998765 5566666755 99999998877651 10 00 000 00001111111
Q ss_pred CCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhh---cCCCeEEEEcCee-ecccccccccCceeeecccccc
Q 004433 453 GSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIF---LVPRMKIYVQGSL-VRSRPLAKSLNKTCVETGIIMG 528 (754)
Q Consensus 453 ~~~~~~~DI~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLY---L~Prm~I~LnG~k-V~~~~i~~~L~~~~v~~~~~~~ 528 (754)
..|+. +.-...|..-++ -+|-+.|.++..- +..+-+ .+.|..
T Consensus 227 -----~~~i~-------------------~~~~~~fy~~~~~~~~~pl~~i~~~~e~~~~~~gl--------l~iP~~-- 272 (613)
T PRK05218 227 -----KSEIT-------------------DEEYKEFYKHLAHDFDDPLFWIHNNVEGPFEYTGL--------LYIPKK-- 272 (613)
T ss_pred -----Ccccc-------------------HHHHHHHhhhhcccccCCcEEEEcccCCceEEEEE--------EEeCCC--
Confidence 01210 001122222222 2344444432211 111111 001110
Q ss_pred eEEEEEEcccccccccccceEEEEEeCeeeeee-eeccccccCCCCCceEEEEEecCcccccCCCceecccCccCccCch
Q 004433 529 KSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCE 607 (754)
Q Consensus 529 k~V~It~Gf~k~e~~~~~~Gi~VY~nnRLIk~~-~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~ 607 (754)
..+++-. .....|+.+|.|+|+|.-. ..+-|. .-+=|-|||+.+.| | |+-+...+.++.
T Consensus 273 ----~~~~~~~---~~~~~~~~lyvn~v~I~d~~~~lLP~-----wl~Fv~GVVDs~dL--p------lnvSRE~lq~~~ 332 (613)
T PRK05218 273 ----APFDLFN---RDRKGGLKLYVKRVFIMDDAEELLPE-----YLRFVKGVIDSEDL--P------LNVSREILQEDR 332 (613)
T ss_pred ----Cccchhh---hcccccEEEEECcEEeeCchhhhchH-----HHhheEEEeecCCC--C------CccCHHHHhcCH
Confidence 0011110 1246899999999999754 335554 45667889999976 2 367888899999
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 004433 608 PYARLEEWLGKVADEYWD 625 (754)
Q Consensus 608 ~y~~L~~~L~e~l~eYW~ 625 (754)
.++++.+.|.+++.++..
T Consensus 333 ~l~~i~~~l~~kv~~~l~ 350 (613)
T PRK05218 333 VVKKIRKAITKKVLDELE 350 (613)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999888887766553
No 5
>PTZ00130 heat shock protein 90; Provisional
Probab=99.84 E-value=6.1e-21 Score=223.58 Aligned_cols=198 Identities=23% Similarity=0.315 Sum_probs=146.6
Q ss_pred CCCccccCCCCCcccccCCCCCCceeeecCCCCceeeecCHH-HHHHhhccccCCHHHHHHHHHhcccccCC--------
Q 004433 201 FSPVVGDRLSSESTIETCSRPEPRAVKQAGPLEKNFVRADPS-YLQTLGQAHSGWIFGAIAELVDNSRDAKA-------- 271 (754)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~p~-fL~slst~h~~~pf~AIaELIDNS~DAgA-------- 271 (754)
-.|.|-.|.-|-+.|++....-... ..-.+++.-+ .|+.+..+.|+++..||+|||+||+||.+
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~-------e~~~FQaEv~~Lldiii~sLYS~keIFLRELISNAsDAldKlr~~~lt 113 (814)
T PTZ00130 41 EKEEVKKDRDNIPEIEDGEKPTSGI-------EQHQYQTEVTRLMDIIVNSLYTQKEVFLRELISNAADALEKIRFLSLS 113 (814)
T ss_pred CcchhhcccccCcccccCCCCCccc-------ceeehHHHHHHHHHHHhhccCCCCCceeehHhhhHHHHHHHHHHHHcC
Confidence 3466677777777676655422211 1222555443 56667888899999999999999999964
Q ss_pred --------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCC---------CCCCCcccccCcee
Q 004433 272 --------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPD---------ADDPNRIGRFGVGF 333 (754)
Q Consensus 272 --------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~---------~~d~~~IG~fGiGf 333 (754)
..+.|.|.. +.....|+|.|||+|||++|+.+.++ +++|... ..+...|||||+||
T Consensus 114 ~~~~~~~~~~~~I~I~~------D~~~~tLtI~DnGIGMT~eEl~~nLgTIA~Sgt~~F~~~l~~~~~~~~lIGQFGVGF 187 (814)
T PTZ00130 114 DESVLGEEKKLEIRISA------NKEKNILSITDTGIGMTKEDLINNLGTIAKSGTSNFLEAISKSGGDMSLIGQFGVGF 187 (814)
T ss_pred CchhcCCCCCceEEEEE------CCCCCEEEEEECCCCCCHHHHHHHhhhhcccccHHHHHHhhccCCCcccccccccch
Confidence 366777763 34567999999999999999988763 5554311 12467999999999
Q ss_pred eeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccc---cCCCCcEEEEEecccc-chhhhhhhhh-hhhcCC
Q 004433 334 KTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVS---YYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSP 408 (754)
Q Consensus 334 KsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s---~~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySP 408 (754)
+||+| ++++|.|.||+.+. .++.|.+ .+...+.|-..+ -..+||+|+||++++. ++...+.++. |.+||.
T Consensus 188 YSaFm-VAdkV~V~Trs~~~--~~~~W~s--~g~g~y~I~e~~~~~~~~rGT~I~LhLked~~efl~~~~ik~likkYS~ 262 (814)
T PTZ00130 188 YSAFL-VADKVIVYTKNNND--EQYIWES--TADAKFTIYKDPRGSTLKRGTRISLHLKEDATNLMNDKKLVDLISKYSQ 262 (814)
T ss_pred hheee-ecCEEEEEEcCCCC--ceEEEEE--CCCCcEEEEECCCCCCCCCCcEEEEEECCchhhhccHHHHHHHHHHhhc
Confidence 99988 99999999998773 4677876 445566654432 2358999999999765 6778888865 999999
Q ss_pred CchhhHHH
Q 004433 409 FNKYLIGE 416 (754)
Q Consensus 409 F~s~pI~e 416 (754)
|..+||..
T Consensus 263 fI~~PI~l 270 (814)
T PTZ00130 263 FIQYPIYL 270 (814)
T ss_pred cCCCCEEE
Confidence 99999963
No 6
>PRK14083 HSP90 family protein; Provisional
Probab=99.83 E-value=9.4e-20 Score=210.57 Aligned_cols=298 Identities=15% Similarity=0.166 Sum_probs=192.8
Q ss_pred HHHHHhhccccCCHHHHHHHHHhcccccCCC----------ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHh-
Q 004433 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAKAT----------KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM- 310 (754)
Q Consensus 242 ~fL~slst~h~~~pf~AIaELIDNS~DAgAt----------~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~- 310 (754)
..|+.++.+.|+++..+|+|||+||+||.+. .|+|.+. +.+...|+|.|||+||+.+++.+.
T Consensus 11 ~ll~ll~~~LYs~~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-------d~~~~~l~I~DnGiGmt~eel~~~l 83 (601)
T PRK14083 11 GVIDLLSRHLYSSPRVYVRELLQNAVDAITARRALDPTAPGRIRIELT-------DAGGGTLIVEDNGIGLTEEEVHEFL 83 (601)
T ss_pred HHHHHHHHhhcCCcHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-------cCCCcEEEEEeCCCCCCHHHHHHHH
Confidence 3567778888899999999999999999764 4555551 124679999999999999999986
Q ss_pred hhcccCCCCCC-----CCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEec--cccCCCCcE
Q 004433 311 TYFGHKQPDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI--VSYYRKGQF 383 (754)
Q Consensus 311 l~fG~S~k~~~-----d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi--~s~~~~Gt~ 383 (754)
..+|.|.+... +...||+||+||++++| +|+++.|.||+.+. ..++.|.+..++ .+.+.. ..-..+||+
T Consensus 84 ~~ig~S~k~~~~~~~~~~~~IG~FGIGf~S~F~-vad~v~V~Tr~~~~-~~~~~W~~~~~g--~y~i~~~~~~~~~~GT~ 159 (601)
T PRK14083 84 ATIGRSSKRDENLGFARNDFLGQFGIGLLSCFL-VADEIVVVSRSAKD-GPAVEWRGKADG--TYSVRKLETERAEPGTT 159 (601)
T ss_pred hhhccchhhhhhhcccccccccccccceEEEEE-ecCEEEEEeccCCC-CceEEEEECCCC--ceEEEeCCCCCCCCCCE
Confidence 46888766431 35789999999988876 99999999999752 457788774433 444443 223358999
Q ss_pred EEEEecccc-chhhhhhhh-hhhhcCCCchhhHHHhhhcccCCCCCcEEEEEeccCCCCceeeeccCCCCCCCCCCcCcc
Q 004433 384 MELDTVVQS-EATAKYNLK-SIKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNGGSSFHQGDI 461 (754)
Q Consensus 384 I~l~~~~~~-e~~~~~~L~-~I~kySPF~s~pI~el~~~~~~~~~GT~III~NL~r~~~~~ELdF~~d~~~~~~~~~~DI 461 (754)
|+++++++. ++...+.++ +|.+||.|..+||.- .|+...|- . ...-|..+ +.+|
T Consensus 160 I~L~l~~d~~~~~~~~~i~~li~~ys~~i~~pI~l---------~~~~~~iN---~----~~~lW~~~--------~~ei 215 (601)
T PRK14083 160 VYLRPRPDAEEWLERETVEELAKKYGSLLPVPIRV---------EGEKGGVN---E----TPPPWTRD--------YPDP 215 (601)
T ss_pred EEEEecCchhhhccHHHHHHHHHHHhccCCCCccc---------CCceeeec---C----CCCCccCC--------cccc
Confidence 999998654 455556664 499999999998862 12111110 0 00011111 1122
Q ss_pred eeecccccCCCCcccccCcchhhHHHHHhhhhc-CCCeEEEEcCeeecccccccccCceeeecccccceEEEEEEccccc
Q 004433 462 LIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFL-VPRMKIYVQGSLVRSRPLAKSLNKTCVETGIIMGKSAHLTLGRCQL 540 (754)
Q Consensus 462 ~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLYL-~Prm~I~LnG~kV~~~~i~~~L~~~~v~~~~~~~k~V~It~Gf~k~ 540 (754)
. ..+.-..+|...+|= +|-..|.++-.-- .. ..+-..++-...
T Consensus 216 t-----------------~~~eey~~Fyk~~~~~~Pl~~ih~~~e~~---~~----------------~~~Ly~iP~~~~ 259 (601)
T PRK14083 216 E-----------------TRREALLAYGEELLGFTPLDVIPLDVPSG---GL----------------EGVAYVLPYAVS 259 (601)
T ss_pred C-----------------ccHHHHHHHHHHhcCCCchheeeecccch---hh----------------eEEEEecCCCCC
Confidence 0 011223455555553 4655555442210 00 111112222111
Q ss_pred ccccccceEEEEEeCeeeeee-eeccccccCCCCCceEEEEEecCcccccCCCceecccCccCccCchHHHHHHHHHHHH
Q 004433 541 EWEQMNCGIFLYWHGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKV 619 (754)
Q Consensus 541 e~~~~~~Gi~VY~nnRLIk~~-~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~~~L~e~ 619 (754)
. ....|+-+|+|+=||..- .-+-|. .-+=|=|||+.+.| | ++-+...+.+...++++.+.|.++
T Consensus 260 ~--~~~~~v~LY~~rVfI~d~~~~lLP~-----wl~FvrGVVDS~DL--p------LNvSRE~LQ~~~~l~~ir~~i~kk 324 (601)
T PRK14083 260 P--AARRKHRVYLKRMLLSEEAENLLPD-----WAFFVRCVVNTDEL--R------PTASREALYEDDALAAVREELGEA 324 (601)
T ss_pred c--cccCceEEEeeeeEeecchhhhhHH-----HHHHheeeeecCCC--C------CccCHHHHccCHHHHHHHHHHHHH
Confidence 1 134699999999999643 335553 44667799999976 2 367777889999999999888888
Q ss_pred HHHHHh
Q 004433 620 ADEYWD 625 (754)
Q Consensus 620 l~eYW~ 625 (754)
+.++..
T Consensus 325 i~~~L~ 330 (601)
T PRK14083 325 IRKWLI 330 (601)
T ss_pred HHHHHH
Confidence 765543
No 7
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=99.83 E-value=2.3e-19 Score=209.70 Aligned_cols=163 Identities=23% Similarity=0.305 Sum_probs=126.0
Q ss_pred HHHHHhhccccCCHHHHHHHHHhcccccCC----------------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 242 ~fL~slst~h~~~pf~AIaELIDNS~DAgA----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
+.|+.+..+.|+++..+|||||+||.||.. ..+.|.|.. +.+...|+|.|||+||+.+
T Consensus 13 ~Ll~lli~slYs~~~iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~------d~~~~~L~I~DnGiGMt~e 86 (701)
T PTZ00272 13 QLMSLIINTFYSNKEIFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVP------DKENKTLTVEDNGIGMTKA 86 (701)
T ss_pred HHHHHHHhcccCCccHhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEE------cCCCCEEEEEECCCCCCHH
Confidence 356666888889999999999999999942 245666653 3346789999999999999
Q ss_pred hHHHhhh-cccCCC--------CCCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEec-c
Q 004433 306 DVVRMTY-FGHKQP--------DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-V 375 (754)
Q Consensus 306 el~~~l~-fG~S~k--------~~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi-~ 375 (754)
|+.+.|+ ++.|.. ...+...|||||+||+|++| +|++|.|.||+.+. .++.|.+ .+...+.|-. +
T Consensus 87 dl~~~LgtIa~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fm-vad~V~V~Srs~~~--~~~~W~s--~~~g~y~i~~~~ 161 (701)
T PTZ00272 87 DLVNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVGFYSAYL-VADRVTVTSKNNSD--ESYVWES--SAGGTFTITSTP 161 (701)
T ss_pred HHHHHhhhhhhcchHHHHHHhhccCCccccCCCCcceEEEEE-eccEEEEEEecCCC--ceEEEEE--CCCCcEEEEeCC
Confidence 9988764 555422 12346799999999999988 99999999998764 5888877 4444555533 2
Q ss_pred cc-CCCCcEEEEEecccc-chhhhhhhhh-hhhcCCCchhhHH
Q 004433 376 SY-YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIG 415 (754)
Q Consensus 376 s~-~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySPF~s~pI~ 415 (754)
.. ..+||+|+|+++++. ++...+.++. |.+||.|..+||.
T Consensus 162 ~~~~~~GT~I~L~Lk~d~~ef~~~~~i~~li~kYs~fi~~PI~ 204 (701)
T PTZ00272 162 ESDMKRGTRITLHLKEDQMEYLEPRRLKELIKKHSEFIGYDIE 204 (701)
T ss_pred CCCCCCCCEEEEEECCchHHhccHHHHHHHHHHhccccCcceE
Confidence 22 258999999999775 6777788865 9999999999996
No 8
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B ....
Probab=99.69 E-value=9.6e-18 Score=159.97 Aligned_cols=97 Identities=34% Similarity=0.511 Sum_probs=81.3
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCC-CCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDA-DDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~-~d~~~IG~fGiGf 333 (754)
+..||+|||+||+||+|+.|+|.|+.. ..+...|.|.|||.||+.++|..++.+|.+.+.. ++...+|+||+|+
T Consensus 3 ~~~al~ElI~Ns~DA~a~~I~I~i~~~-----~~~~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~~G~~G~G~ 77 (137)
T PF13589_consen 3 PEDALRELIDNSIDAGATNIKISIDED-----KKGERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQSIGRFGIGL 77 (137)
T ss_dssp CTHHHHHHHHHHHHHHHHHEEEEEEEE-----TTTTTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGGGGGGTSGC
T ss_pred HHHHHHHHHHHHHHccCCEEEEEEEcC-----CCCCcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhcCCCcceEH
Confidence 478999999999999999999999852 2356899999999999999999999999887641 2367899999999
Q ss_pred eeecccccceEEEEEeeCCCCce
Q 004433 334 KTGAMRLGKDALVLTQTADSRSI 356 (754)
Q Consensus 334 KsAsmrLG~~v~V~SK~~g~~sv 356 (754)
|.|++.+|+.+.|+|++.+....
T Consensus 78 k~A~~~~~~~~~v~S~~~~~~~~ 100 (137)
T PF13589_consen 78 KLAIFSLGDRVEVISKTNGESFT 100 (137)
T ss_dssp GGGGGGTEEEEEEEEESTTSSSE
T ss_pred HHHHHHhcCEEEEEEEECCCCcE
Confidence 99999999999999999987543
No 9
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=1.7e-16 Score=178.54 Aligned_cols=159 Identities=28% Similarity=0.367 Sum_probs=123.6
Q ss_pred hccccCCHHHHHHHHHhcccccCC--------------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-
Q 004433 248 GQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY- 312 (754)
Q Consensus 248 st~h~~~pf~AIaELIDNS~DAgA--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~- 312 (754)
..+.|+.-..+++|||.||.||.. ..+.|.|.. +.+...|+|.|.|+|||++||.++++
T Consensus 51 i~s~YS~kEvFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~------nk~~~tlti~DtGIGMTk~dLvnnLGT 124 (656)
T KOG0019|consen 51 AKSLYSHKEVFLRELISNASDALEKLRYLELKGDEKALPELEIRIIT------NKDKRTITIQDTGIGMTKEDLVNNLGT 124 (656)
T ss_pred HHHhhcchHHHHHhhhccccchHHHHHHHhhcCccccccceeEEecc------CCCcceEEEEecCCCcCHHHHHhhhhh
Confidence 445556677999999999999932 456666653 45688999999999999999999886
Q ss_pred cccC--------CC-CCCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcE
Q 004433 313 FGHK--------QP-DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQF 383 (754)
Q Consensus 313 fG~S--------~k-~~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~ 383 (754)
...| .+ ..++...|||||+|||+|++ ++++|.|+||+.+.. ++.|.+ .+...+.|-..+-..+||.
T Consensus 125 IAkSGtK~Fmealkea~ad~~~IGQFGvGFYSayl-VAdkV~V~tk~~~~e--~y~Wes--~~~gs~~v~~~~~~~rGTk 199 (656)
T KOG0019|consen 125 IAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAFM-VADRVVVTTRHPADE--GLQWTS--NGRGSYEIAEASGLRTGTK 199 (656)
T ss_pred hhhcccHHHHHHHHhcccchhhhhhcccchhhhhh-hhheeEEeeccCCCc--ceeeec--CCCCceEEeeccCccccce
Confidence 2222 23 34567899999999999988 999999999998875 666655 3444555555444678999
Q ss_pred EEEEecc-ccchhhhhhhhh-hhhcCCCchhhHHHh
Q 004433 384 MELDTVV-QSEATAKYNLKS-IKEFSPFNKYLIGEK 417 (754)
Q Consensus 384 I~l~~~~-~~e~~~~~~L~~-I~kySPF~s~pI~el 417 (754)
|+++++. |.++..+..++. |++||-|..+||.-+
T Consensus 200 i~l~lKe~~~ey~ee~rikeiVKK~S~Fv~yPI~l~ 235 (656)
T KOG0019|consen 200 IVIHLKEGDCEFLEEKRIKEVVKKYSNFVSYPIYLN 235 (656)
T ss_pred EEeeehhhhhhhccHhHHHHHHhhccccccccchhh
Confidence 9999997 457777777765 999999999999844
No 10
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=2.2e-16 Score=173.27 Aligned_cols=158 Identities=23% Similarity=0.348 Sum_probs=118.2
Q ss_pred ccccCCHHHHHHHHHhcccccCC----------------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh
Q 004433 249 QAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (754)
Q Consensus 249 t~h~~~pf~AIaELIDNS~DAgA----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~ 312 (754)
.+.|.+-..+++|||+||.||-. ..++|.|.. +.....|.|.|.|+||++++|.++++
T Consensus 90 NSLY~NKeIFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~------Dke~klLhi~DtGiGMT~edLi~NLG 163 (785)
T KOG0020|consen 90 NSLYRNKEIFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKA------DKEKKLLHITDTGIGMTREDLIKNLG 163 (785)
T ss_pred HHHhhhhHHHHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEee------chhhCeeeEecccCCccHHHHHHhhh
Confidence 34456777899999999999932 356666654 45678999999999999999999886
Q ss_pred -cccCC--------CCCC-----CCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccC
Q 004433 313 -FGHKQ--------PDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYY 378 (754)
Q Consensus 313 -fG~S~--------k~~~-----d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~ 378 (754)
+..|. .... ....|||||+|||+|++ +++.|.|+||+++.. .++|.+ ....+.|-...|.
T Consensus 164 TIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfL-VAD~vvVtsKhNdD~--QyiWES---dan~FsvseDprg 237 (785)
T KOG0020|consen 164 TIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFL-VADRVVVTSKHNDDS--QYIWES---DANSFSVSEDPRG 237 (785)
T ss_pred hhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhh-hcceEEEEeccCCcc--ceeeec---cCcceeeecCCCC
Confidence 22221 1111 14789999999999987 999999999998853 345544 2335666554443
Q ss_pred ---CCCcEEEEEecccc-chhhhhhhhh-hhhcCCCchhhHHHhh
Q 004433 379 ---RKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKA 418 (754)
Q Consensus 379 ---~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySPF~s~pI~el~ 418 (754)
.+||.|+|+++++. +++....++. |.+||.|+.+||..+.
T Consensus 238 ~tL~RGt~ItL~LkeEA~dyLE~dtlkeLvkkYSqFINFpI~lWs 282 (785)
T KOG0020|consen 238 NTLGRGTEITLYLKEEAGDYLEEDTLKELVKKYSQFINFPISLWS 282 (785)
T ss_pred CcccCccEEEEEehhhhhhhcchhHHHHHHHHHHHhcCCceeeee
Confidence 58999999999875 6777777765 9999999999887553
No 11
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=99.59 E-value=2.6e-16 Score=126.47 Aligned_cols=45 Identities=44% Similarity=1.005 Sum_probs=31.2
Q ss_pred CceeeCccchhhccCCCCCCC--CCCCCCceecCCCC--CCCCCCCccc
Q 004433 644 QEWVQCNKCRKWRMLDPGFDT--KSLPVEWFCYMKPF--EGLCDLPEQK 688 (754)
Q Consensus 644 ~~WvQCd~C~KWR~Lp~~~~~--~~lp~~W~C~mnp~--~~sC~~pEe~ 688 (754)
+.|||||.|+|||+||.+++. ..+|+.|+|+||++ .++|++|||.
T Consensus 1 ~~WVQCd~C~KWR~lp~~~~~~~~~~~d~W~C~~n~~~~~~sC~~pee~ 49 (50)
T PF07496_consen 1 DYWVQCDSCLKWRRLPEEVDPIREELPDPWYCSMNPDPPFNSCDAPEEI 49 (50)
T ss_dssp -EEEE-TTT--EEEE-CCHHCTSCCSSTT--GGGSS-CCC-STTS--SS
T ss_pred CeEEECCCCCceeeCChhhCcccccCCCeEEcCCCCCCCCCCCCCcccC
Confidence 479999999999999999877 78999999999986 5999999985
No 12
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.41 E-value=1.6e-11 Score=143.63 Aligned_cols=140 Identities=20% Similarity=0.244 Sum_probs=98.1
Q ss_pred eeeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhc
Q 004433 235 NFVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYF 313 (754)
Q Consensus 235 ~~~~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~f 313 (754)
.+..+++...+.+ |...+..|..+|+|||+||+||||+.|+|.+.. .+...|+|.|||.||+.+++..++..
T Consensus 2 ~I~~L~~~v~~~IaAgevI~~~~svvkElveNsiDAgat~I~v~i~~-------~g~~~i~V~DnG~Gi~~~~~~~~~~~ 74 (617)
T PRK00095 2 PIQLLPPQLANQIAAGEVVERPASVVKELVENALDAGATRIDIEIEE-------GGLKLIRVRDNGCGISKEDLALALAR 74 (617)
T ss_pred CceECCHHHHHHhcCcCcccCHHHHHHHHHHHHHhCCCCEEEEEEEe-------CCeEEEEEEEcCCCCCHHHHHHHhhc
Confidence 3578999999999 555678999999999999999999999999962 35678999999999999999988765
Q ss_pred ccCCCCCC--C---CCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEE
Q 004433 314 GHKQPDAD--D---PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 387 (754)
Q Consensus 314 G~S~k~~~--d---~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l~ 387 (754)
..++|-.. + ....|..|.|+.+.+ .+ .+++|.||+.+.. .|+ ...|..|.-.-.-|.. ...||+|++.
T Consensus 75 ~~tsKi~~~~dl~~~~t~GfrGeAL~sI~-~v-s~l~i~s~~~~~~-~~~-~~~~~~G~~~~~~~~~--~~~GT~V~v~ 147 (617)
T PRK00095 75 HATSKIASLDDLEAIRTLGFRGEALPSIA-SV-SRLTLTSRTADAA-EGW-QIVYEGGEIVEVKPAA--HPVGTTIEVR 147 (617)
T ss_pred cCCCCCCChhHhhccccCCcchhHHHhhh-hc-eEEEEEEecCCCC-ceE-EEEecCCcCcceeccc--CCCCCEEEec
Confidence 44444321 2 245677777764333 34 4899999987642 232 3335444211111111 2479998874
No 13
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.30 E-value=1.3e-11 Score=133.03 Aligned_cols=139 Identities=19% Similarity=0.253 Sum_probs=96.3
Q ss_pred eeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcc
Q 004433 236 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFG 314 (754)
Q Consensus 236 ~~~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG 314 (754)
+.++++...+.+ |...+.++..||.|||+||+||+|+.|.|.+.. .+...|.|.|||.||+++++..++..+
T Consensus 3 I~~l~~~~~~~i~s~~~i~~~~~~l~eLi~Na~dA~a~~I~i~~~~-------~~~~~i~V~DnG~Gi~~~~l~~~~~~~ 75 (312)
T TIGR00585 3 IKPLPPELVNKIAAGEVIERPASVVKELVENSLDAGATRIDVEIEE-------GGLKLIEVSDNGSGIDKEDLPLACERH 75 (312)
T ss_pred CeECCHHHHHHHhCcCchhhHHHHHHHHHHHHHHCCCCEEEEEEEe-------CCEEEEEEEecCCCCCHHHHHHHhhCC
Confidence 568999999999 445567999999999999999999999988863 234469999999999999999887644
Q ss_pred cCCCCC-----CCCCcccccCceeeeecccccceEEEEEee-CCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEE
Q 004433 315 HKQPDA-----DDPNRIGRFGVGFKTGAMRLGKDALVLTQT-ADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 387 (754)
Q Consensus 315 ~S~k~~-----~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~-~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l~ 387 (754)
.+.|.. ......|..|.|+.+. ..++ +++|.||+ .+. ..++.+. . .|. .+.-....-...||+|++.
T Consensus 76 ~tsk~~~~~~~~~~~~~G~rG~al~si-~~~s-~~~i~S~~~~~~-~~~~~~~-~-~g~-~~~~~~~~~~~~GTtV~v~ 148 (312)
T TIGR00585 76 ATSKIQSFEDLERIETLGFRGEALASI-SSVS-RLTITTKTSAAD-GLAWQAL-L-EGG-MIEEIKPAPRPVGTTVEVR 148 (312)
T ss_pred CcCCCCChhHhhcccccCccchHHHHH-HhhC-cEEEEEeecCCC-cceEEEE-E-CCC-cCcccccccCCCccEEEEc
Confidence 443321 1346789999988443 3345 89999998 343 3344333 2 222 1110112223579998874
No 14
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.30 E-value=8.6e-12 Score=146.10 Aligned_cols=139 Identities=22% Similarity=0.267 Sum_probs=97.4
Q ss_pred eeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcc
Q 004433 236 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFG 314 (754)
Q Consensus 236 ~~~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG 314 (754)
+..+++...+.+ |...+..|..+++|||+||+||||++|+|.++ .+|...|.|.|||+||+++|+.-++.-.
T Consensus 4 Ir~L~~~l~nqIAAGEVIerPaSVVKELVENSlDAGAt~I~I~ve-------~gG~~~I~V~DNG~Gi~~~Dl~la~~rH 76 (638)
T COG0323 4 IRQLPPDLVNQIAAGEVIERPASVVKELVENSLDAGATRIDIEVE-------GGGLKLIRVRDNGSGIDKEDLPLALLRH 76 (638)
T ss_pred ceeCCHHHHHHhcccceeecHHHHHHHHHhcccccCCCEEEEEEc-------cCCccEEEEEECCCCCCHHHHHHHHhhh
Confidence 578999999999 44566799999999999999999999999998 5678889999999999999998876533
Q ss_pred cCCCC--CCCCCcccccCceeeeec---ccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEE
Q 004433 315 HKQPD--ADDPNRIGRFGVGFKTGA---MRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 386 (754)
Q Consensus 315 ~S~k~--~~d~~~IG~fGiGfKsAs---mrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l 386 (754)
.++|- .+|...|-.| ||..-+ ++--.+++|.||+.+. . ..|+.+.+|..-.+-..+.-...||+|++
T Consensus 77 aTSKI~~~~DL~~I~Tl--GFRGEAL~SIasVsrlti~Srt~~~-~--~~~~~~~~g~~~~~~~~p~a~~~GTtVeV 148 (638)
T COG0323 77 ATSKIASLEDLFRIRTL--GFRGEALASIASVSRLTITSRTAEA-S--EGTQIYAEGGGMEVTVKPAAHPVGTTVEV 148 (638)
T ss_pred ccccCCchhHHHHhhcc--CccHHHHHHHHhhheeEEEeecCCc-C--ceEEEEecCCcccccccCCCCCCCCEEEe
Confidence 33332 2344455544 887533 3445899999995553 2 23333333332221111222334999876
No 15
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.18 E-value=7.5e-11 Score=130.32 Aligned_cols=145 Identities=20% Similarity=0.224 Sum_probs=106.7
Q ss_pred HHHHHh-----hccccCCHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhh
Q 004433 242 SYLQTL-----GQAHSGWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (754)
Q Consensus 242 ~fL~sl-----st~h~~~pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l 311 (754)
.|+.+| -+.-+.++.++|+|||+||+||.. ..|.|.|+.+ +.+...+.|+|||.||+.+.+.+.|
T Consensus 19 EFF~kNk~mlGf~~p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~-----~~d~y~v~veDNGpGIP~e~IPkvF 93 (538)
T COG1389 19 EFFRKNKEMLGFDGPIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERI-----GKDHYKVIVEDNGPGIPEEQIPKVF 93 (538)
T ss_pred HHHHhCHHhcCCCCchhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEec-----CCceEEEEEecCCCCCChhHhHHHH
Confidence 466555 123346788999999999999953 6888888863 4567899999999999999999988
Q ss_pred h-cccCCCCCCCCCcccccCceeeeec----ccccceEEEEEeeCCCCceeEEEEEecC-CCeeEEEeccccC----CCC
Q 004433 312 Y-FGHKQPDADDPNRIGRFGVGFKTGA----MRLGKDALVLTQTADSRSIAFLSQSLNQ-GKDNLEIPIVSYY----RKG 381 (754)
Q Consensus 312 ~-fG~S~k~~~d~~~IG~fGiGfKsAs----mrLG~~v~V~SK~~g~~svg~ls~sf~~-g~~~i~VPi~s~~----~~G 381 (754)
+ +-++++-....+..||+|+|.+.|. |..|+.+.|+|++.++..+...+...+. .++..+|....+. -+|
T Consensus 94 Gk~LygSKfh~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~~~~~~~~hG 173 (538)
T COG1389 94 GKMLYGSKFHRNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGEVENPGGWHG 173 (538)
T ss_pred HHHhccchhhhhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhcccccCCCCCCc
Confidence 6 2233332235788999999997654 5779999999999987766666655543 3445555443332 379
Q ss_pred cEEEEEeccc
Q 004433 382 QFMELDTVVQ 391 (754)
Q Consensus 382 t~I~l~~~~~ 391 (754)
|.|+++++..
T Consensus 174 T~Vel~~~~~ 183 (538)
T COG1389 174 TRVELELKGV 183 (538)
T ss_pred eEEEEEeccc
Confidence 9999988754
No 16
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=98.93 E-value=2.6e-09 Score=120.66 Aligned_cols=141 Identities=21% Similarity=0.377 Sum_probs=105.3
Q ss_pred eeeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHh-hh
Q 004433 235 NFVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM-TY 312 (754)
Q Consensus 235 ~~~~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~-l~ 312 (754)
.+-+++..+++++ +...|..|..||.|||.||+||++|.|.|.+. ++|...|.|.|||.||.++||.-+ =+
T Consensus 7 ~IrrLde~VVNRIAAGEVI~RP~NAlKEliENSLDA~ST~I~V~vk-------~GGLKLlQisDnG~GI~reDl~ilCeR 79 (694)
T KOG1979|consen 7 KIRRLDEDVVNRIAAGEVIQRPVNALKELIENSLDANSTSIDVLVK-------DGGLKLLQISDNGSGIRREDLPILCER 79 (694)
T ss_pred hhhcCcHHHHhHhhccchhhchHHHHHHHHhccccCCCceEEEEEe-------cCCeEEEEEecCCCccchhhhHHHHHH
Confidence 5678999999999 44566789999999999999999999999887 567888999999999999999764 46
Q ss_pred cccCCC-CCCCCCcccccCceeee---ecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEE
Q 004433 313 FGHKQP-DADDPNRIGRFGVGFKT---GAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 387 (754)
Q Consensus 313 fG~S~k-~~~d~~~IG~fGiGfKs---AsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l~ 387 (754)
|.+|.- ..+|...+..| ||.. |+++-..+|+|.||..+... | |-.+|.+|.- ..-|.+.--.+||.|++.
T Consensus 80 ftTSKL~kFEDL~~lsTy--GFRGEALASiShVA~VtV~TK~~~~~c-a-yrasY~DGkm-~~~pKpcAgk~GT~I~ve 153 (694)
T KOG1979|consen 80 FTTSKLTKFEDLFSLSTY--GFRGEALASISHVAHVTVTTKTAEGKC-A-YRASYRDGKM-IATPKPCAGKQGTIITVE 153 (694)
T ss_pred hhhhhcchhHHHHhhhhc--CccHHHHhhhhheeEEEEEEeecCcee-e-eEEEeecccc-ccCCCCccCCCceEEEeh
Confidence 776642 23466677777 6663 66778899999999998753 2 2233433321 112455555678888763
No 17
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=98.89 E-value=2.8e-09 Score=122.78 Aligned_cols=138 Identities=18% Similarity=0.231 Sum_probs=89.5
Q ss_pred eecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHh-hhcc
Q 004433 237 VRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM-TYFG 314 (754)
Q Consensus 237 ~~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~-l~fG 314 (754)
.+++++..|.+ +.+.+.++..|++|||+||+||||+.|+|.++ +.|...|.|.|||+|++..++.-+ +..-
T Consensus 2 k~i~~~tvhrI~S~qvI~sl~sAVKELvENSiDAGAT~I~I~~k-------dyG~d~IEV~DNG~GI~~~n~~~l~lkh~ 74 (672)
T KOG1978|consen 2 KQIPKDTVHRICSSQVITSLVSAVKELVENSIDAGATAIDIKVK-------DYGSDSIEVSDNGSGISATDFEGLALKHT 74 (672)
T ss_pred CCCChhhhhccccCCeeccHHHHHHHHHhcCcccCCceeeEecC-------CCCcceEEEecCCCCCCccchhhhhhhhh
Confidence 35778888999 44556789999999999999999999999987 457899999999999999998764 2222
Q ss_pred cC-CCCCCCCCcccccCceeeeecc-ccc--ceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEE
Q 004433 315 HK-QPDADDPNRIGRFGVGFKTGAM-RLG--KDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 386 (754)
Q Consensus 315 ~S-~k~~~d~~~IG~fGiGfKsAsm-rLG--~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l 386 (754)
.| ....+| ...-+-.||..-++ +|| .+|+|+|++... -+|..+.--+.| .+.--...-...||+|.+
T Consensus 75 TSKi~~f~D--l~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~-~vgt~l~~Dh~G--~I~~k~~~ar~~GTTV~v 145 (672)
T KOG1978|consen 75 TSKIVSFAD--LAVLFTLGFRGEALSSLCALGDVMISTRSHSA-KVGTRLVYDHDG--HIIQKKPVARGRGTTVMV 145 (672)
T ss_pred hhcccchhh--hhhhhhhhhHHHHHHhhhhccceEEEEeeccC-ccceeEEEccCC--ceeeeccccCCCCCEEEH
Confidence 22 112223 23344557775443 343 788899988732 233322221222 222111122346888864
No 18
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=98.80 E-value=4.8e-08 Score=115.03 Aligned_cols=94 Identities=24% Similarity=0.315 Sum_probs=69.9
Q ss_pred CHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCccc
Q 004433 254 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIG 327 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG 327 (754)
++..+|.|||+||+||++. .|.|.+.. ......|.|.|||.||+++++.++|. |.++++-.......|
T Consensus 46 ~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~------~g~~v~I~VeDNG~GIp~EdLp~IFerf~~tSKf~~~~~srG 119 (795)
T PRK14868 46 GLVTAVKEAVDNALDATEEAGILPDIYVEIEE------VGDYYRLVVEDNGPGITKEQIPKVFGKLLYGSRFHAREQSRG 119 (795)
T ss_pred HHHHHHHHHHHHHHHhCcccCCCceEEEEEEE------CCCEEEEEEEEcCCCCCHHHHHHHhhhhcccccccccccCCC
Confidence 5779999999999999865 46666653 22345799999999999999999985 554443222235678
Q ss_pred ccCceeeeecc----cccceEEEEEeeCCC
Q 004433 328 RFGVGFKTGAM----RLGKDALVLTQTADS 353 (754)
Q Consensus 328 ~fGiGfKsAsm----rLG~~v~V~SK~~g~ 353 (754)
+.|+|+.++.. ..|..+.|.|+..+.
T Consensus 120 ~rG~GLglai~~sqlt~GgpI~I~S~~~~~ 149 (795)
T PRK14868 120 QQGIGISAAVLYSQLTSGKPAKITSRTQGS 149 (795)
T ss_pred CCceehHHHHHHHHHcCCCcEEEEeCCCCC
Confidence 99999976542 347889999987664
No 19
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=98.76 E-value=7.6e-08 Score=110.71 Aligned_cols=96 Identities=25% Similarity=0.393 Sum_probs=67.9
Q ss_pred HHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccc
Q 004433 255 IFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGR 328 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~ 328 (754)
+..+|.|||+||+||.++ .|.|.+.... .+.+...|.|.|||.||+++++..+|. |..+.+........|.
T Consensus 37 L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~---~~~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~~~~~~s~G~ 113 (535)
T PRK04184 37 LYTTVKELVDNSLDACEEAGILPDIKIEIKRVD---EGKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKFHNLRQSRGQ 113 (535)
T ss_pred HHHHHHHHHHHHHHHhhhcCCCceEEEEEEEcc---CCCcEEEEEEEcCCCCCCHHHHHHHhhhhhccccccccccCCCC
Confidence 579999999999999865 4666665310 023356799999999999999999875 4333332111456799
Q ss_pred cCceeeeecc----cccceEEEEEeeCCC
Q 004433 329 FGVGFKTGAM----RLGKDALVLTQTADS 353 (754)
Q Consensus 329 fGiGfKsAsm----rLG~~v~V~SK~~g~ 353 (754)
+|+|+..+.. ..|..+.|.|+..+.
T Consensus 114 ~GLGLsiv~~isq~~~G~~I~V~S~~~~g 142 (535)
T PRK04184 114 QGIGISAAVLYAQMTTGKPVRVISSTGGS 142 (535)
T ss_pred CCcchHHHHHHHHHhcCCcEEEEEecCCC
Confidence 9999976532 236679999987664
No 20
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=98.64 E-value=1.4e-07 Score=107.61 Aligned_cols=97 Identities=25% Similarity=0.309 Sum_probs=71.1
Q ss_pred CCHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcc
Q 004433 253 GWIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRI 326 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DAgAt-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~I 326 (754)
..+..++.|||+||+||.++ .|.|.+... +.+...|.|.|||.||+++++..++. |.++.+........
T Consensus 27 ~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~-----g~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK~~~~~~s~ 101 (488)
T TIGR01052 27 RSLTTVIHELVTNSLDACEEAGILPDIKVEIEKI-----GKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSR 101 (488)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEC-----CCceEEEEEEECCCCCCHHHHHhhhhhccccCccccccccC
Confidence 35679999999999999875 567766531 11234799999999999999999875 44444432235667
Q ss_pred cccCceeeeecc----cccceEEEEEeeCCCC
Q 004433 327 GRFGVGFKTGAM----RLGKDALVLTQTADSR 354 (754)
Q Consensus 327 G~fGiGfKsAsm----rLG~~v~V~SK~~g~~ 354 (754)
|..|+|+.++.+ ..|..+.|.|+..+..
T Consensus 102 G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~ 133 (488)
T TIGR01052 102 GQQGIGISGAVLYSQMTTGKPVKVISSTGGEI 133 (488)
T ss_pred CCccEehhHHHHHHHHcCCceEEEEEecCCce
Confidence 999999975532 3466799999988653
No 21
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=98.48 E-value=6.4e-07 Score=105.56 Aligned_cols=122 Identities=16% Similarity=0.152 Sum_probs=84.0
Q ss_pred CCHHHHHHHHHhccccc----CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--------hhh-cccCCCC
Q 004433 253 GWIFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPD 319 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DA----gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--------~l~-fG~S~k~ 319 (754)
.-+...+.||||||+|+ .|+.|.|.+.. ...|+|.|||.||+.+.... +|. +..+.|-
T Consensus 36 ~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~---------dg~I~V~DnGrGIP~~~~~~~~~~~~E~v~t~lhagsKf 106 (631)
T PRK05559 36 RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHA---------DGSVSVRDNGRGIPVGIHPEEGKSGVEVILTKLHAGGKF 106 (631)
T ss_pred chhhhhhhhhhccccchhhcCCCCEEEEEEeC---------CCcEEEEEcCCCCCcccccccCCcchheeeeeccccCcc
Confidence 46789999999999998 79999999973 24899999999999988776 443 1222221
Q ss_pred C--CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEec-ccc--CCCCcEEEEEe
Q 004433 320 A--DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDT 388 (754)
Q Consensus 320 ~--~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi-~s~--~~~Gt~I~l~~ 388 (754)
. .-....|..|+|.++. -.++..+.|.|++++.. +.++|..|.-.-.++. ... ...||+|++.+
T Consensus 107 ~~~~yk~SgGl~GvGls~v-NalS~~l~V~s~r~g~~----~~~~f~~G~~~~~l~~~~~~~~~~~GT~V~f~P 175 (631)
T PRK05559 107 SNKAYKFSGGLHGVGVSVV-NALSSRLEVEVKRDGKV----YRQRFEGGDPVGPLEVVGTAGKRKTGTRVRFWP 175 (631)
T ss_pred CCccccccCcccccchhhh-hhheeeEEEEEEeCCeE----EEEEEECCcCccCccccccccCCCCCcEEEEEE
Confidence 1 1246789999999544 44889999999987642 4556644321111111 111 45799998755
No 22
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=98.41 E-value=8.7e-07 Score=104.32 Aligned_cols=120 Identities=18% Similarity=0.160 Sum_probs=81.9
Q ss_pred HHHHHHHHHhcccc---c-CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHh--------HHHhhh-cccCCCCC-
Q 004433 255 IFGAIAELVDNSRD---A-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD--------VVRMTY-FGHKQPDA- 320 (754)
Q Consensus 255 pf~AIaELIDNS~D---A-gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee--------l~~~l~-fG~S~k~~- 320 (754)
+...+.||||||+| | +|+.|.|.|+. ...|+|.|||.||+.++ +.-+|+ ...+.|-.
T Consensus 31 ~~~lv~ElvdNsiDE~~ag~a~~I~V~i~~---------d~~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~lhagsK~~~ 101 (625)
T TIGR01055 31 PNHLVQEVIDNSVDEALAGFASIIMVILHQ---------DQSIEVFDNGRGMPVDIHPKEGVSAVEVILTTLHAGGKFSN 101 (625)
T ss_pred cceeehhhhhcccchhhcCCCCEEEEEEeC---------CCeEEEEecCCccCcccccccCCcHHHHhhhcccccCCCCC
Confidence 45689999999999 9 69999999973 26899999999999888 555553 22222221
Q ss_pred -CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEec-ccc--CCCCcEEEEEe
Q 004433 321 -DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDT 388 (754)
Q Consensus 321 -~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi-~s~--~~~Gt~I~l~~ 388 (754)
.-..+.|..|+|+++. -.+++.+.|.|++++.. +.++|..|.-...++. ... ...||+|++.+
T Consensus 102 ~~~~~SgG~~GvGls~v-nalS~~l~v~~~r~g~~----~~~~~~~G~~~~~~~~i~~~~~~~~GT~V~F~P 168 (625)
T TIGR01055 102 KNYHFSGGLHGVGISVV-NALSKRVKIKVYRQGKL----YSIAFENGAKVTDLISAGTCGKRLTGTSVHFTP 168 (625)
T ss_pred CcceecCCCcchhHHHH-HHhcCeEEEEEEECCeE----EEEEEECCeEccccccccccCCCCCCeEEEEEE
Confidence 1236789999999544 34899999999988753 5566654422111221 122 23799998754
No 23
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=98.28 E-value=4.8e-06 Score=98.39 Aligned_cols=120 Identities=18% Similarity=0.174 Sum_probs=78.0
Q ss_pred HHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--------hhhcc-cCCCCC-
Q 004433 255 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYFG-HKQPDA- 320 (754)
Q Consensus 255 pf~AIaELIDNS~D---Ag-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--------~l~fG-~S~k~~- 320 (754)
+...+.|||+||+| || |+.|+|.|+. ...|+|.|||.||+.+.... +|+.- .+.+-.
T Consensus 38 l~~~v~ElvdNaiDe~~ag~a~~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~lhag~kfd~ 108 (638)
T PRK05644 38 LHHLVYEIVDNSIDEALAGYCDHIEVTINE---------DGSITVTDNGRGIPVDIHPKTGKPAVEVVLTVLHAGGKFGG 108 (638)
T ss_pred HHhhhHHhhhcccccccCCCCCEEEEEEeC---------CCcEEEEEeCccccCCccCCCCCCchHHheeeecccCccCC
Confidence 45689999999999 99 9999999973 23899999999999863221 22211 112211
Q ss_pred -CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEe-ccccCCCCcEEEEEe
Q 004433 321 -DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDT 388 (754)
Q Consensus 321 -~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VP-i~s~~~~Gt~I~l~~ 388 (754)
.-..+.|..|+|.++.. .+++.++|.|++++. .+.++|..|.-.-.++ +..-...||+|+..+
T Consensus 109 ~~yk~s~G~~G~Gls~vn-alS~~~~v~t~r~g~----~~~~~~~~G~~~~~~~~~~~~~~~GT~I~F~P 173 (638)
T PRK05644 109 GGYKVSGGLHGVGVSVVN-ALSTWLEVEVKRDGK----IYYQEYERGVPVTPLEVIGETDETGTTVTFKP 173 (638)
T ss_pred CcccccCCccccchhhhh-heeceEEEEEEeCCc----EEEEEEECCeEccCccccCCcCCCCcEEEEEE
Confidence 12347899999995544 488999999998775 2345554432111111 112235799998643
No 24
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=98.27 E-value=5.4e-06 Score=99.15 Aligned_cols=119 Identities=17% Similarity=0.195 Sum_probs=79.4
Q ss_pred HHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHH----------hHHHhhh-cccCCCC
Q 004433 255 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ----------DVVRMTY-FGHKQPD 319 (754)
Q Consensus 255 pf~AIaELIDNS~D---Ag-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e----------el~~~l~-fG~S~k~ 319 (754)
+...+.||||||+| || |+.|+|.|+. ...++|.|||.||+.+ |+. |. +..+.|-
T Consensus 38 Lhhlv~EivdNaiDE~~AG~a~~I~V~i~~---------dgsIsV~DnGrGIPvd~h~~~g~~~~Elv--lt~lhAggKf 106 (756)
T PRK14939 38 LHHMVYEVVDNAIDEALAGHCDDITVTIHA---------DGSVSVSDNGRGIPTDIHPEEGVSAAEVI--MTVLHAGGKF 106 (756)
T ss_pred hhhhhhHhhcccccccccCCCCEEEEEEcC---------CCeEEEEEcCCcccCCcccccCCchhhhe--eeeecccCCC
Confidence 56789999999999 99 9999999873 2489999999999987 222 21 1112221
Q ss_pred C--CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEe-ccccCCCCcEEEEEec
Q 004433 320 A--DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDTV 389 (754)
Q Consensus 320 ~--~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VP-i~s~~~~Gt~I~l~~~ 389 (754)
. .-.-+-|..|+|.++ .-.+++.+.|.|++++.. +.++|..|.-.-.+. +..-...||.|+..+.
T Consensus 107 d~~~ykvSgGlhGvG~sv-vNAlS~~l~v~v~r~gk~----~~q~f~~G~~~~~l~~~g~~~~~GT~V~F~PD 174 (756)
T PRK14939 107 DQNSYKVSGGLHGVGVSV-VNALSEWLELTIRRDGKI----HEQEFEHGVPVAPLKVVGETDKTGTEVRFWPS 174 (756)
T ss_pred CCCcccccCCccCccceE-eehccCeEEEEEEeCCeE----EEEEEecCccccCccccCCcCCCCcEEEEEEC
Confidence 1 123478999999954 445899999999987753 556665442111111 1222457999987553
No 25
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=98.24 E-value=9.1e-07 Score=80.05 Aligned_cols=90 Identities=20% Similarity=0.309 Sum_probs=65.5
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..+|.||++||+++... .|.|.+.. ..+...|.|.|||.||+.+++..++.-+.+.+. +....+.+|+
T Consensus 5 ~l~~il~~ll~Na~~~~~~~~~I~i~~~~------~~~~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~--~~~~~~g~Gl 76 (111)
T PF02518_consen 5 RLRQILSELLDNAIKHSPEGGKIDITIEE------DDDHLSIEISDNGVGIPPEELEKLFEPFFTSDK--SETSISGHGL 76 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHTSEEEEEEEE------ETTEEEEEEEESSSSTTHHHHHHHCSTTSHSSS--SSGGSSSSSH
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEEEEE------ecCeEEEEEEeccccccccccccchhhcccccc--cccccCCCCh
Confidence 3568999999999999765 78888774 335789999999999999999998764433322 3455667999
Q ss_pred eeeeecc---cccceEEEEEeeC
Q 004433 332 GFKTGAM---RLGKDALVLTQTA 351 (754)
Q Consensus 332 GfKsAsm---rLG~~v~V~SK~~ 351 (754)
|++.+.. .++-++.+.+...
T Consensus 77 GL~~~~~~~~~~~g~l~~~~~~~ 99 (111)
T PF02518_consen 77 GLYIVKQIAERHGGELTIESSEG 99 (111)
T ss_dssp HHHHHHHHHHHTTEEEEEEEETT
T ss_pred HHHHHHHHHHHCCCEEEEEEcCC
Confidence 9975432 3455666666543
No 26
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=98.23 E-value=5.9e-06 Score=97.96 Aligned_cols=122 Identities=16% Similarity=0.105 Sum_probs=78.8
Q ss_pred CHHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHH--------Hhhhc-ccCCCC-
Q 004433 254 WIFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV--------RMTYF-GHKQPD- 319 (754)
Q Consensus 254 ~pf~AIaELIDNS~D---Ag-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~--------~~l~f-G~S~k~- 319 (754)
-+...+.|||+||+| || |+.|+|.|+. ...|+|.|||.||+.+--. .+++. ..+.+-
T Consensus 30 gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~ag~kf~ 100 (654)
T TIGR01059 30 GLHHLVYEVVDNSIDEAMAGYCDTINVTIND---------DGSVTVEDNGRGIPVDIHPEEGISAVEVVLTVLHAGGKFD 100 (654)
T ss_pred hHHhhhHHhhhccccccccCCCCEEEEEEeC---------CCcEEEEEeCCCcCccccCcCCCCchHHheeeecccCccC
Confidence 356789999999999 99 9999999973 2359999999999986211 12221 112221
Q ss_pred -CCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEe-ccccCCCCcEEEEEec
Q 004433 320 -ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDTV 389 (754)
Q Consensus 320 -~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VP-i~s~~~~Gt~I~l~~~ 389 (754)
.....+.|..|+|+++.. .+++.++|.|++++.. +.++|..|.-.-.+. ...-...||+|+....
T Consensus 101 ~~~~k~s~G~~G~gl~~in-alS~~l~v~~~~~g~~----~~~~~~~G~~~~~l~~~~~~~~~GT~V~F~pd 167 (654)
T TIGR01059 101 KDSYKVSGGLHGVGVSVVN-ALSEWLEVTVFRDGKI----YRQEFERGIPLGPLEVVGETKKTGTTVRFWPD 167 (654)
T ss_pred CCcceecCCccchhHHHHH-HhcCeEEEEEEECCeE----EEEEEeCCCcccCceeccCCCCCCcEEEEEEC
Confidence 112467899999995544 4889999999987753 455664442111000 1122357999986543
No 27
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.22 E-value=4.7e-06 Score=98.00 Aligned_cols=94 Identities=26% Similarity=0.284 Sum_probs=67.6
Q ss_pred HHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccc
Q 004433 255 IFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGR 328 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~ 328 (754)
+..++.|||+||+||++. .|.|.+... +.+...|.|.|||.||+++++..++. |-.++|-.......|.
T Consensus 37 L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~-----g~~~~~I~V~DNG~GIp~e~l~~iFerF~atSK~~~~~qS~G~ 111 (659)
T PRK14867 37 MTTIIHELVTNSLDACEEAEILPDIKVEIEKL-----GSDHYKVAVEDNGPGIPPEFVPKVFGKMLAGSKMHRLIQSRGQ 111 (659)
T ss_pred HHHHHHHHHHHHHHHhhccCCCceEEEEEEEC-----CCcEEEEEEEeeCeeCCHHHHhhhhccccccCcccceeccCCC
Confidence 448899999999999875 577776531 12235699999999999999999886 3333332112366788
Q ss_pred cCceeeeec----ccccceEEEEEeeCCC
Q 004433 329 FGVGFKTGA----MRLGKDALVLTQTADS 353 (754)
Q Consensus 329 fGiGfKsAs----mrLG~~v~V~SK~~g~ 353 (754)
.|+|+.++. +..|..+.|.|+..+.
T Consensus 112 rG~GLa~a~~vsql~~G~pI~I~S~~g~G 140 (659)
T PRK14867 112 QGIGAAGVLLFSQITTGKPLKITTSTGDG 140 (659)
T ss_pred CcccHHHHHHHHHHhcCCcEEEEEEcCCC
Confidence 999996654 3347888999987554
No 28
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=98.22 E-value=4.7e-06 Score=97.82 Aligned_cols=116 Identities=20% Similarity=0.234 Sum_probs=74.9
Q ss_pred HHHHHHhcccccC----CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--------hhhcc-cCCCC--CCC
Q 004433 258 AIAELVDNSRDAK----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYFG-HKQPD--ADD 322 (754)
Q Consensus 258 AIaELIDNS~DAg----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--------~l~fG-~S~k~--~~d 322 (754)
.+.||||||+||+ |+.|+|.|+. . ..|+|.|||.||+.+.... ++..- .+.+- ...
T Consensus 5 ~v~ElvdNAiD~~~~g~at~I~V~i~~-------~--g~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~~~ 75 (594)
T smart00433 5 LVDEIVDNAADEALAGYMDTIKVTIDK-------D--NSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAY 75 (594)
T ss_pred EEeeehhcccchhccCCCCEEEEEEeC-------C--CeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCCCc
Confidence 4789999999997 9999999973 2 3899999999998644321 12211 11121 112
Q ss_pred CCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecC-CCe--eEEEeccccCCCCcEEEEEe
Q 004433 323 PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ-GKD--NLEIPIVSYYRKGQFMELDT 388 (754)
Q Consensus 323 ~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~-g~~--~i~VPi~s~~~~Gt~I~l~~ 388 (754)
..+.|..|+|+++. -.++..++|.|+.++.. +.++|.. |.- ...+ ...-...||+|+..+
T Consensus 76 k~s~G~~G~Gls~v-nalS~~l~v~~~~~g~~----~~~~~~~~G~~~~~~~~-~~~~~~~GT~V~F~P 138 (594)
T smart00433 76 KVSGGLHGVGASVV-NALSTEFEVEVARDGKE----YKQSFSNNGKPLSEPKI-IGDTKKDGTKVTFKP 138 (594)
T ss_pred cccCCcccchHHHH-HHhcCceEEEEEeCCcE----EEEEEeCCCeECcccee-cCCCCCCCcEEEEEE
Confidence 45789999999544 45889999999998753 4455633 321 1111 111235799988643
No 29
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=98.08 E-value=2.1e-06 Score=99.07 Aligned_cols=106 Identities=21% Similarity=0.293 Sum_probs=69.3
Q ss_pred ecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhh-hccc
Q 004433 238 RADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT-YFGH 315 (754)
Q Consensus 238 ~v~p~fL~sl-st~h~~~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l-~fG~ 315 (754)
.++..+=+++ |...+.++..++.|||-||+||+|+.|.|.+.. ....+.|.|||.||+++|+..+- ++..
T Consensus 4 ~L~~~V~~~lrSg~~~~sla~~VeElv~NSiDA~At~V~v~V~~--------~t~sv~ViDdG~G~~rdDl~~lg~ry~T 75 (1142)
T KOG1977|consen 4 CLSVEVQAKLRSGLAISSLAQCVEELVLNSIDAEATCVAVRVNM--------ETFSVQVIDDGFGMGRDDLEKLGNRYFT 75 (1142)
T ss_pred ccchhHHHHHhccchHHHHHHHHHHHHhhccccCceEEEEEecC--------ceeEEEEEecCCCccHHHHHHHHhhhhh
Confidence 3445555666 444456788999999999999999999999874 35788999999999999998753 2222
Q ss_pred CC-CCCCCCCcccccCceeeeec---ccccceEEEEEeeCCC
Q 004433 316 KQ-PDADDPNRIGRFGVGFKTGA---MRLGKDALVLTQTADS 353 (754)
Q Consensus 316 S~-k~~~d~~~IG~fGiGfKsAs---mrLG~~v~V~SK~~g~ 353 (754)
|. ...++....-.| ||...+ ++--..+.|+|++.+.
T Consensus 76 SK~h~~ndl~~~~ty--GfRGeALasIsd~s~l~v~skkk~r 115 (1142)
T KOG1977|consen 76 SKCHSVNDLENPRTY--GFRGEALASISDMSSLVVISKKKNR 115 (1142)
T ss_pred hhceecccccccccc--ccchhhhhhhhhhhhhhhhhhhcCC
Confidence 21 111223333344 454332 2223455677776663
No 30
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=97.56 E-value=0.00028 Score=83.67 Aligned_cols=120 Identities=18% Similarity=0.193 Sum_probs=75.2
Q ss_pred HHHHHHHHHhccccc----CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--------hhhc-ccCCCCC-
Q 004433 255 IFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYF-GHKQPDA- 320 (754)
Q Consensus 255 pf~AIaELIDNS~DA----gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--------~l~f-G~S~k~~- 320 (754)
+...+.|+||||+|. .++.|+|.|+. ...++|.|||.||+.+--.. .|+. -.+.+-.
T Consensus 35 L~hlv~EIvdNavDE~~ag~~~~I~V~i~~---------dgsitV~DnGrGIPv~~h~~~~~~~~E~v~t~LhaGgkfd~ 105 (637)
T TIGR01058 35 LHHLVWEIVDNSVDEVLAGYADNITVTLHK---------DNSITVQDDGRGIPTGIHQDGNISTVETVFTVLHAGGKFDQ 105 (637)
T ss_pred hheehhhhhcchhhhhhcCCCcEEEEEEcC---------CCeEEEEECCCcccCcccCcCCCccceeEEEEecccCcCCC
Confidence 345678999999993 57899998872 35899999999998642111 1211 1111211
Q ss_pred -CCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCC-C--eeEEEeccccCCCCcEEEEEec
Q 004433 321 -DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQG-K--DNLEIPIVSYYRKGQFMELDTV 389 (754)
Q Consensus 321 -~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g-~--~~i~VPi~s~~~~Gt~I~l~~~ 389 (754)
.-...-|..|+|.+ +.=.|...+.|.+++++. .+.++|..| . ..+.+. ..-..+||+|...+.
T Consensus 106 ~~ykvSGGlhGvG~s-vvNAlS~~~~V~v~r~gk----~~~q~f~~Gg~~~~~l~~~-~~~~~~GT~V~F~PD 172 (637)
T TIGR01058 106 GGYKTAGGLHGVGAS-VVNALSSWLEVTVKRDGQ----IYQQRFENGGKIVQSLKKI-GTTKKTGTLVHFHPD 172 (637)
T ss_pred CcccccCCccccccc-ccceeeceEEEEEEECCE----EEEEEEecCCcCcCCcccc-cCCCCCceEEEEEeC
Confidence 12456799999994 444589999999987774 355666543 2 111111 122357998876553
No 31
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=97.35 E-value=0.00055 Score=79.73 Aligned_cols=158 Identities=17% Similarity=0.158 Sum_probs=94.9
Q ss_pred HHHHHHHHHhccccc----CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHH--------Hhhhc-ccCCCCCC
Q 004433 255 IFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV--------RMTYF-GHKQPDAD 321 (754)
Q Consensus 255 pf~AIaELIDNS~DA----gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~--------~~l~f-G~S~k~~~ 321 (754)
+..-+.|.||||+|. .|+.|+|.+.. ...|+|.|||-||+-+--. -+|+. ....|-.+
T Consensus 37 LhHlv~EVvDNsiDEalaG~~~~I~V~l~~---------d~sisV~DnGRGIPvdiH~~~~~~~vEvI~T~LHAGGKFd~ 107 (635)
T COG0187 37 LHHLVWEVVDNSIDEALAGYADRIDVTLHE---------DGSISVEDNGRGIPVDIHPKEKVSAVEVIFTVLHAGGKFDN 107 (635)
T ss_pred ceeeEeEeeechHhHHhhCcCcEEEEEEcC---------CCeEEEEECCCCCccccCCCCCCCceEEEEEeeccCcccCC
Confidence 445678999999997 37899998863 5789999999999876622 22321 11112111
Q ss_pred C--CCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCe--eEE-EeccccCCCCcEEEEEeccccchhh
Q 004433 322 D--PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKD--NLE-IPIVSYYRKGQFMELDTVVQSEATA 396 (754)
Q Consensus 322 d--~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~--~i~-VPi~s~~~~Gt~I~l~~~~~~e~~~ 396 (754)
+ .-+=|..|+|. |+.=.|...+.|.+++++. .+.+.|..|.- ++. +-...-...||+|...+.++.-
T Consensus 108 ~~YkvSGGLHGVG~-SVVNALS~~l~v~v~r~gk----~y~q~f~~G~~~~~l~~ig~~~~~~~GT~V~F~PD~~iF--- 179 (635)
T COG0187 108 DSYKVSGGLHGVGV-SVVNALSTWLEVEVKRDGK----IYRQRFERGVPVTPLEVIGSTDTKKTGTKVRFKPDPEIF--- 179 (635)
T ss_pred CccEeecCCCccce-EEEecccceEEEEEEECCE----EEEEEEeCCCcCCCceecccCCCCCCccEEEEEcChHhc---
Confidence 1 34568999998 6666799999999999875 35566654332 221 1112334569998876543311
Q ss_pred hhhhhhhhhcCCCchhhHHHhhhcccCCCCCcEEEEEeccC
Q 004433 397 KYNLKSIKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQ 437 (754)
Q Consensus 397 ~~~L~~I~kySPF~s~pI~el~~~~~~~~~GT~III~NL~r 437 (754)
.-..|....|...+..+.---.|..|.+.+-+.
T Consensus 180 --------~~~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~ 212 (635)
T COG0187 180 --------GETEFDYEILKRRLRELAFLNKGVKITLTDERT 212 (635)
T ss_pred --------CCcccCHHHHHHHHHHHhccCCCCEEEEEeccC
Confidence 002233323333332222225788888876544
No 32
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
Probab=97.31 E-value=0.00061 Score=57.78 Aligned_cols=86 Identities=19% Similarity=0.239 Sum_probs=56.5
Q ss_pred HHHHHHHHhcccccCC---CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCce
Q 004433 256 FGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 256 f~AIaELIDNS~DAgA---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiG 332 (754)
..++.||++||+++++ ..|.|.+.. ..+...+.|.|+|.||++..+...+...... ......+..|+|
T Consensus 2 ~~~~~~ll~Na~~~~~~~~~~v~i~~~~------~~~~~~v~i~d~g~g~~~~~~~~~~~~~~~~---~~~~~~~~~g~g 72 (103)
T cd00075 2 QQVLLNLLSNAIKHTPEGGGRITISVER------DGDHLEIRVEDNGPGIPEEDLERIFERFSDG---SRSRKGGGTGLG 72 (103)
T ss_pred HHHHHHHHHHHHHhCcCCCCeEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHHhhhhhcC---CCCCCCCccccC
Confidence 4689999999999987 455555543 3345678999999999999988876432111 112334567888
Q ss_pred eeeec---ccccceEEEEEee
Q 004433 333 FKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 333 fKsAs---mrLG~~v~V~SK~ 350 (754)
++.+. -+.|..+.+.+..
T Consensus 73 l~~~~~~~~~~~g~~~~~~~~ 93 (103)
T cd00075 73 LSIVKKLVELHGGRIEVESEP 93 (103)
T ss_pred HHHHHHHHHHcCCEEEEEeCC
Confidence 86432 2345577776543
No 33
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.25 E-value=0.00052 Score=78.85 Aligned_cols=85 Identities=21% Similarity=0.306 Sum_probs=66.9
Q ss_pred CCHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCccc
Q 004433 253 GWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 327 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG 327 (754)
....+.+.-|||||+||-+ ..|.+.+.. .++...|.|.|||+||+++....++..|.|.|. -+
T Consensus 426 ~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~------~~~~lvieV~D~G~GI~~~~~~~iFe~G~Stk~------~~ 493 (537)
T COG3290 426 HDLVTILGNLIDNALEALLAPEENKEIELSLSD------RGDELVIEVADTGPGIPPEVRDKIFEKGVSTKN------TG 493 (537)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEe------cCCEEEEEEeCCCCCCChHHHHHHHhcCccccC------CC
Confidence 3577899999999999966 567777764 456788999999999999999999999999875 23
Q ss_pred ccCceeeee---cccccceEEEEEe
Q 004433 328 RFGVGFKTG---AMRLGKDALVLTQ 349 (754)
Q Consensus 328 ~fGiGfKsA---smrLG~~v~V~SK 349 (754)
.-|+|++.. .=++|-.+.|.+.
T Consensus 494 ~rGiGL~Lvkq~V~~~~G~I~~~s~ 518 (537)
T COG3290 494 GRGIGLYLVKQLVERLGGSIEVESE 518 (537)
T ss_pred CCchhHHHHHHHHHHcCceEEEeeC
Confidence 458888632 2366777777775
No 34
>PLN03237 DNA topoisomerase 2; Provisional
Probab=97.24 E-value=0.0011 Score=83.88 Aligned_cols=86 Identities=21% Similarity=0.373 Sum_probs=58.7
Q ss_pred HHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--h----hhccc---CCCC-
Q 004433 255 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQPD- 319 (754)
Q Consensus 255 pf~AIaELIDNS~DAg-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--~----l~fG~---S~k~- 319 (754)
+.-.+-|+|+||.|-. ++.|+|.|+. ....|+|.|||-||+-+--.. + +-||+ +.+-
T Consensus 78 L~kifdEIldNAvDe~~r~g~~~~I~V~I~~--------~~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAGgkFd 149 (1465)
T PLN03237 78 LYKIFDEILVNAADNKQRDPKMDSLRVVIDV--------EQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYD 149 (1465)
T ss_pred hhhhHHHHhhhhHhHHhhcCCCCEEEEEEEc--------CCCEEEEEecCccccCCCCCCCCCccceEEEEeeeccccCC
Confidence 4567899999999963 4788888873 246899999999998652211 0 11222 2221
Q ss_pred -CCCCCcccccCceeeeecccccceEEEEEe
Q 004433 320 -ADDPNRIGRFGVGFKTGAMRLGKDALVLTQ 349 (754)
Q Consensus 320 -~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK 349 (754)
..-...-|+.|+|.+. .-.|...+.|.++
T Consensus 150 d~~yKvSGGlhGVGasv-vNaLS~~f~Vev~ 179 (1465)
T PLN03237 150 DNEKKTTGGRNGYGAKL-TNIFSTEFVIETA 179 (1465)
T ss_pred CCcceeeccccccCccc-cccccCeeEEEEE
Confidence 1124678999999954 4458899999997
No 35
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.23 E-value=0.00073 Score=58.31 Aligned_cols=74 Identities=18% Similarity=0.356 Sum_probs=53.7
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++.||++||+++... .|.|.+.. ..+...+.|.|+|.||+.+++...+..+.+... .....+..|+
T Consensus 5 ~l~~~~~~l~~n~~~~~~~~~~v~i~~~~------~~~~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~--~~~~~~~~g~ 76 (111)
T smart00387 5 RLRQVLSNLLDNAIKYTPEGGRITVTLER------DGDHLEITVEDNGPGIPPEDLEKIFEPFFRTDG--RSRKIGGTGL 76 (111)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------cCCEEEEEEEeCCCCCCHHHHHHHhcCeEECCC--CCCCCCcccc
Confidence 3568899999999999875 66666653 334678999999999999999887754443321 2234456788
Q ss_pred eeee
Q 004433 332 GFKT 335 (754)
Q Consensus 332 GfKs 335 (754)
|++.
T Consensus 77 gl~~ 80 (111)
T smart00387 77 GLSI 80 (111)
T ss_pred cHHH
Confidence 8864
No 36
>PRK10604 sensor protein RstB; Provisional
Probab=97.11 E-value=0.0012 Score=73.99 Aligned_cols=91 Identities=15% Similarity=0.199 Sum_probs=63.1
Q ss_pred CHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 254 WIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
.+..++..||+||+.++...|.|.+.. .++.-.|.|.|||.||+++++.+.+.-.+..... ....-|.+|+|+
T Consensus 319 ~l~~vl~NLl~NAik~~~~~I~I~~~~------~~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~-~~~~~~g~GLGL 391 (433)
T PRK10604 319 LMERVLDNLLNNALRYAHSRVRVSLLL------DGNQACLIVEDDGPGIPPEERERVFEPFVRLDPS-RDRATGGCGLGL 391 (433)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEE------ECCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCC-CCCCCCCccchH
Confidence 356789999999999988888888764 2345679999999999999999987633322111 112335679998
Q ss_pred eee---cccccceEEEEEeeC
Q 004433 334 KTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~~ 351 (754)
.-+ .-..|.++.|.+...
T Consensus 392 ~ivk~i~~~~gG~i~v~s~~~ 412 (433)
T PRK10604 392 AIVHSIALAMGGSVNCDESEL 412 (433)
T ss_pred HHHHHHHHHCCCEEEEEecCC
Confidence 532 234566777766543
No 37
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=97.08 E-value=0.0014 Score=72.68 Aligned_cols=89 Identities=18% Similarity=0.196 Sum_probs=60.8
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCceee
Q 004433 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGfK 334 (754)
+..++.+||+||+.++...|.|.+.. ..+.-.|+|.|||.||+++++.+.+.-.++.... .....+.+|+|+.
T Consensus 354 l~~~l~nli~NA~~~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~-~~~~~~g~GlGL~ 426 (461)
T PRK09470 354 LASALENIVRNALRYSHTKIEVAFSV------DKDGLTITVDDDGPGVPEEEREQIFRPFYRVDEA-RDRESGGTGLGLA 426 (461)
T ss_pred HHHHHHHHHHHHHHhCCCcEEEEEEE------ECCEEEEEEEECCCCCCHHHHHHhcCCCccCCcc-cCCCCCCcchhHH
Confidence 45689999999999988888887764 2345679999999999999999887533322111 1123356788985
Q ss_pred ee---cccccceEEEEEee
Q 004433 335 TG---AMRLGKDALVLTQT 350 (754)
Q Consensus 335 sA---smrLG~~v~V~SK~ 350 (754)
.+ ....|.++.+.|..
T Consensus 427 iv~~~v~~~~G~l~~~s~~ 445 (461)
T PRK09470 427 IVENAIQQHRGWVKAEDSP 445 (461)
T ss_pred HHHHHHHHCCCEEEEEECC
Confidence 32 22456666666643
No 38
>PRK10364 sensor protein ZraS; Provisional
Probab=97.06 E-value=0.0015 Score=73.37 Aligned_cols=84 Identities=14% Similarity=0.139 Sum_probs=59.3
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++..||+||+++.+ ..|.|.+.. ..+.-.|.|.|||.||+++.+.+++.-+.+.+. +..|+
T Consensus 348 ~l~~il~NLl~NA~k~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~k~-------~g~Gl 414 (457)
T PRK10364 348 RLTQVLLNLYLNAIQAIGQHGVISVTASE------SGAGVKISVTDSGKGIAADQLEAIFTPYFTTKA-------EGTGL 414 (457)
T ss_pred HHHHHHHHHHHHHHHhcCCCCeEEEEEEE------eCCeEEEEEEECCCCCCHHHHHHHhCccccCCC-------CCCcc
Confidence 356789999999999843 467776653 234568999999999999999999876665442 22588
Q ss_pred eeeeec---ccccceEEEEEee
Q 004433 332 GFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~ 350 (754)
|+..+- -.+|-++.+.+..
T Consensus 415 GL~iv~~~v~~~gG~i~i~s~~ 436 (457)
T PRK10364 415 GLAVVHNIVEQHGGTIQVASQE 436 (457)
T ss_pred cHHHHHHHHHHCCCEEEEEeCC
Confidence 875322 2456667766643
No 39
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=96.98 E-value=0.0021 Score=75.86 Aligned_cols=119 Identities=19% Similarity=0.191 Sum_probs=73.9
Q ss_pred HHHHHHHHhccccc------C-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--h--h-----hccc---C
Q 004433 256 FGAIAELVDNSRDA------K-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M--T-----YFGH---K 316 (754)
Q Consensus 256 f~AIaELIDNS~DA------g-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--~--l-----~fG~---S 316 (754)
...+.|+||||+|. | ++.|+|.++ ...++|.|||.||+-+--.. - + -|+. +
T Consensus 47 ~hi~~EIldNavDe~~~~~~g~~~~I~V~i~----------dgsisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaG 116 (602)
T PHA02569 47 VKIIDEIIDNSVDEAIRTNFKFANKIDVTIK----------NNQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAG 116 (602)
T ss_pred eeeeehhhhhhhhhhhccCCCCCcEEEEEEc----------CCEEEEEECCCcccCCcccccccccccceEEEEEeeccc
Confidence 34567999999995 2 677777775 35899999999998643211 0 1 1221 1
Q ss_pred CCC-CCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEEec
Q 004433 317 QPD-ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELDTV 389 (754)
Q Consensus 317 ~k~-~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~ls~sf~~g~~~i~VPi~s~~~~Gt~I~l~~~ 389 (754)
.+- ..-...-|..|+|. ++.-.|...+.|.++..+. .+.++|..|.....++...-..+||+|...+.
T Consensus 117 gkFd~~ykvSGGlhGVG~-svvNaLS~~~~V~v~~~~~----~~~q~f~~G~~~~~~~~~~~~~~GT~V~F~PD 185 (602)
T PHA02569 117 SNFDDTNRVTGGMNGVGS-SLTNFFSVLFIGETCDGKN----EVTVNCSNGAENISWSTKPGKGKGTSVTFIPD 185 (602)
T ss_pred cccCCcceeeCCcCCccc-eeeeccchhhheEEEcCCE----EEEEEecCCcccCCcccCCCCCCccEEEEEEC
Confidence 121 11245679999999 4455589999998865553 25677755532222233333457998877654
No 40
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=96.96 E-value=0.0021 Score=71.00 Aligned_cols=88 Identities=15% Similarity=0.107 Sum_probs=59.7
Q ss_pred CHHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 254 WIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
.+..++.+||+||+.++...|.|.+.. ..+.-.|+|.|||.||+++++.+++.-++.... .+. .+.+|+|+
T Consensus 331 ~l~~il~NLl~NA~k~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~--~~~-~~g~GlGL 401 (435)
T PRK09467 331 AIKRALANLVVNAARYGNGWIKVSSGT------EGKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDS--ARG-SSGTGLGL 401 (435)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEe------cCCEEEEEEEecCCCcCHHHHHHhcCCcccCCC--CCC-CCCeehhH
Confidence 356789999999999998888888764 234567999999999999999998764432211 111 24578887
Q ss_pred eee---cccccceEEEEEee
Q 004433 334 KTG---AMRLGKDALVLTQT 350 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~ 350 (754)
.-+ .-..|.++.+.+..
T Consensus 402 ~iv~~i~~~~~g~l~i~~~~ 421 (435)
T PRK09467 402 AIVKRIVDQHNGKVELGNSE 421 (435)
T ss_pred HHHHHHHHHCCCEEEEEECC
Confidence 432 11345566665543
No 41
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=96.83 E-value=0.0034 Score=69.23 Aligned_cols=88 Identities=19% Similarity=0.179 Sum_probs=57.6
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++.+|++||++++. ..|.|.+.. .++...|+|.|||.||+++++.+++.-.++.+.... ..-+..|+
T Consensus 353 ~l~~~~~nll~Nai~~~~~~~~I~i~~~~------~~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~-~~~~g~Gl 425 (457)
T TIGR01386 353 MFRRAISNLLSNALRHTPDGGTITVRIER------RSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARS-NSGEGTGL 425 (457)
T ss_pred HHHHHHHHHHHHHHHcCCCCceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhccccccCCcccC-CCCCCccc
Confidence 356789999999999874 456666653 334568999999999999999988764343221111 12334788
Q ss_pred eeeeec---ccccceEEEEE
Q 004433 332 GFKTGA---MRLGKDALVLT 348 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~S 348 (754)
|+..+. -++|-.+.+.+
T Consensus 426 GL~i~~~~~~~~~G~~~~~~ 445 (457)
T TIGR01386 426 GLAIVRSIMEAHGGRASAES 445 (457)
T ss_pred cHHHHHHHHHHCCCEEEEEe
Confidence 875322 23455566555
No 42
>PRK09303 adaptive-response sensory kinase; Validated
Probab=96.82 E-value=0.0038 Score=69.11 Aligned_cols=90 Identities=17% Similarity=0.209 Sum_probs=58.8
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCce
Q 004433 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiG 332 (754)
+..+|..||+||+.+... .|.|.+... ..+.-.|.|.|||.||+++++.++|.-.++.+. ....+-+|+|
T Consensus 273 l~qvl~NLl~NAik~~~~~~~I~i~~~~~-----~~~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~---~~~~~G~GLG 344 (380)
T PRK09303 273 IRQVLLNLLDNAIKYTPEGGTITLSMLHR-----TTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR---DEGTEGYGIG 344 (380)
T ss_pred HHHHHHHHHHHHHhcCCCCceEEEEEEec-----CCCEEEEEEEEcCCCCCHHHHHHHccCceeCCC---CCCCCccccc
Confidence 457899999999999764 444443321 233467999999999999999998863332221 1122457888
Q ss_pred eeee---cccccceEEEEEeeCC
Q 004433 333 FKTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 333 fKsA---smrLG~~v~V~SK~~g 352 (754)
+..+ .-.+|..+.|.|...+
T Consensus 345 L~i~~~iv~~~gG~i~v~s~~~~ 367 (380)
T PRK09303 345 LSVCRRIVRVHYGQIWVDSEPGQ 367 (380)
T ss_pred HHHHHHHHHHcCCEEEEEecCCC
Confidence 8532 2246777777775443
No 43
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.78 E-value=0.0037 Score=70.72 Aligned_cols=82 Identities=18% Similarity=0.289 Sum_probs=56.6
Q ss_pred HHHHHHHHHhcccccCC----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccC
Q 004433 255 IFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFG 330 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fG 330 (754)
+..++.+|++||++|.. ..|.|.+.. ..+.-.|.|.|||.||++++..++|.-+++.+. +..|
T Consensus 434 l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~------~~~~~~i~V~D~G~gi~~~~~~~iF~~~~~~~~-------~g~G 500 (542)
T PRK11086 434 LITILGNLIENALEAVGGEEGGEISVSLHY------RNGWLHCEVSDDGPGIAPDEIDAIFDKGYSTKG-------SNRG 500 (542)
T ss_pred HHHHHHHHHHHHHHHhhcCCCcEEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHHhCCCccCC-------CCCc
Confidence 56789999999999842 356666653 334567899999999999999999875554442 1248
Q ss_pred ceeeeec---ccccceEEEEEe
Q 004433 331 VGFKTGA---MRLGKDALVLTQ 349 (754)
Q Consensus 331 iGfKsAs---mrLG~~v~V~SK 349 (754)
+|+..+- -..|..+.|.|.
T Consensus 501 lGL~iv~~iv~~~~G~i~v~s~ 522 (542)
T PRK11086 501 VGLYLVKQSVENLGGSIAVESE 522 (542)
T ss_pred CcHHHHHHHHHHcCCEEEEEeC
Confidence 8875321 234566666654
No 44
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=96.76 E-value=0.0033 Score=69.35 Aligned_cols=86 Identities=19% Similarity=0.207 Sum_probs=56.2
Q ss_pred HHHHHHHHHhcccccCCC------ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccc
Q 004433 255 IFGAIAELVDNSRDAKAT------KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt------~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~ 328 (754)
+..++.+|+.||+++.+. .|.|.+.. ..+.-.|+|.|||.||+++...++|.-.++.+.. ..+.
T Consensus 388 l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~------~~~~~~~~V~D~G~Gi~~~~~~~iF~~f~~~~~~----~~~G 457 (494)
T TIGR02938 388 LRSLFKALVDNAIEAMNIKGWKRRELSITTAL------NGDLIVVSILDSGPGIPQDLRYKVFEPFFTTKGG----SRKH 457 (494)
T ss_pred HHHHHHHHHHHHHHHhhccCCCcceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhcCCCcccCCC----CCCC
Confidence 457999999999998533 24444432 3456689999999999999999988633333321 1233
Q ss_pred cCceeeeec---ccccceEEEEEee
Q 004433 329 FGVGFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 329 fGiGfKsAs---mrLG~~v~V~SK~ 350 (754)
-|+|+..+- -.+|-.+.|.|..
T Consensus 458 ~GlGL~i~~~iv~~~gG~i~~~s~~ 482 (494)
T TIGR02938 458 IGMGLSVAQEIVADHGGIIDLDDDY 482 (494)
T ss_pred CcccHHHHHHHHHHcCCEEEEEECC
Confidence 578875321 1356777666643
No 45
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.74 E-value=0.0025 Score=65.16 Aligned_cols=60 Identities=15% Similarity=0.246 Sum_probs=47.4
Q ss_pred CCHHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCC
Q 004433 253 GWIFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQP 318 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k 318 (754)
.++..+|..||+||++|.. ..|.|.+.. ..+.-.|.|.|||.||+++.+..++..+.+.+
T Consensus 227 ~~l~~vl~nLi~NAi~~~~~~~i~i~~~~------~~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~~ 287 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTPGGEITISVRQ------DDEQVTISVEDTGPGIPEEELERIFEPFFRTD 287 (336)
T ss_pred HHHHHHHHHHHHHHhccCCCCeEEEEEEe------cCCeEEEEEEcCCCCCCHHHHHHhccCeeccC
Confidence 3567799999999999994 788887764 22246899999999999999888876555444
No 46
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.73 E-value=0.0028 Score=68.41 Aligned_cols=87 Identities=14% Similarity=0.225 Sum_probs=60.2
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
++..++..||+||+.+.. ..|.|.+.. .++.-.|.|.|||.||+++++.+++.-.+.... .-+..|+
T Consensus 247 ~l~~il~nLi~NA~k~~~~~~~I~I~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~-----~~~g~Gl 315 (356)
T PRK10755 247 LLRLLLRNLVENAHRYSPEGSTITIKLSQ------EDGGAVLAVEDEGPGIDESKCGELSKAFVRMDS-----RYGGIGL 315 (356)
T ss_pred HHHHHHHHHHHHHHhhCCCCCcEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHhCCCeEeCCC-----CCCCcCH
Confidence 566899999999999863 567777653 334568999999999999999998764332211 1234688
Q ss_pred eeeee---cccccceEEEEEeeC
Q 004433 332 GFKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 332 GfKsA---smrLG~~v~V~SK~~ 351 (754)
|++.+ .-.+|..+.+.|...
T Consensus 316 GL~i~~~i~~~~gg~i~i~s~~~ 338 (356)
T PRK10755 316 GLSIVSRITQLHHGQFFLQNRQE 338 (356)
T ss_pred HHHHHHHHHHHCCCEEEEEECCC
Confidence 87533 224567777776543
No 47
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.69 E-value=0.0039 Score=71.26 Aligned_cols=85 Identities=19% Similarity=0.249 Sum_probs=58.3
Q ss_pred HHHHHHHHHhcccccC------CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccc
Q 004433 255 IFGAIAELVDNSRDAK------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (754)
Q Consensus 255 pf~AIaELIDNS~DAg------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~ 328 (754)
+...+.+|++||+++. ...|.|.+.. ..+...|.|.|||.||++++..++|..|++.+.. .-|.
T Consensus 433 l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~----~~~g 502 (545)
T PRK15053 433 FAAIVGNLLDNAFEASLRSDEGNKIVELFLSD------EGDDVVIEVADQGCGVPESLRDKIFEQGVSTRAD----EPGE 502 (545)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCceEEEEEEE------CCCEEEEEEEeCCCCcCHHHHHHHhCCCCCCCCC----CCCC
Confidence 5578999999999983 3567776653 3345679999999999999999998766665421 1234
Q ss_pred cCceeeeec---ccccceEEEEEe
Q 004433 329 FGVGFKTGA---MRLGKDALVLTQ 349 (754)
Q Consensus 329 fGiGfKsAs---mrLG~~v~V~SK 349 (754)
.|+|+..+- -..|..+.|.|.
T Consensus 503 ~GlGL~ivk~iv~~~~G~i~v~s~ 526 (545)
T PRK15053 503 HGIGLYLIASYVTRCGGVITLEDN 526 (545)
T ss_pred ceeCHHHHHHHHHHcCCEEEEEEC
Confidence 588885322 134555666554
No 48
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.69 E-value=0.0047 Score=68.85 Aligned_cols=90 Identities=17% Similarity=0.201 Sum_probs=57.9
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++..|++||+++... .|.|.+.. ..+...|+|.|||.||+++++.+++.-.+..+.. .....|..|+
T Consensus 317 ~l~~vl~NLl~NAik~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~-~~~~~~G~GL 389 (430)
T PRK11006 317 QLRSAISNLVYNAVNHTPEGTHITVRWQR------VPQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKA-RSRQTGGSGL 389 (430)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHhccCcccccCC-CCCCCCCCch
Confidence 3568899999999999654 45555442 2345679999999999999999987633322211 1122345688
Q ss_pred eeeeec---ccccceEEEEEee
Q 004433 332 GFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~ 350 (754)
|+..+- -..|..+.|.|..
T Consensus 390 GL~ivk~iv~~~gG~i~i~s~~ 411 (430)
T PRK11006 390 GLAIVKHALSHHDSRLEIESEV 411 (430)
T ss_pred HHHHHHHHHHHCCCEEEEEecC
Confidence 875321 2356666666643
No 49
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=96.62 E-value=0.0071 Score=63.06 Aligned_cols=90 Identities=16% Similarity=0.169 Sum_probs=58.1
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++.+||.||+++... .|.|.+.. ..+...|.|.|||.||+++.+.+++......... .....+..|+
T Consensus 229 ~l~~vl~nll~Nai~~~~~~~~i~i~~~~------~~~~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~-~~~~~~g~gl 301 (333)
T TIGR02966 229 ELRSAFSNLVSNAIKYTPEGGTITVRWRR------DGGGAEFSVTDTGIGIAPEHLPRLTERFYRVDKS-RSRDTGGTGL 301 (333)
T ss_pred HHHHHHHHHHHHhheeCCCCCeEEEEEEE------cCCEEEEEEEecCCCCCHHHHhhhccCceecCcc-cccCCCCCcc
Confidence 3567999999999998654 45555543 2344679999999999999999987643322111 0111233588
Q ss_pred eeeeec---ccccceEEEEEee
Q 004433 332 GFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~ 350 (754)
|++.+- -..|.++.+.|..
T Consensus 302 GL~~~~~~~~~~gG~i~~~s~~ 323 (333)
T TIGR02966 302 GLAIVKHVLSRHHARLEIESEL 323 (333)
T ss_pred cHHHHHHHHHHCCCEEEEEecC
Confidence 886432 2356777776654
No 50
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=96.62 E-value=0.0063 Score=74.02 Aligned_cols=121 Identities=19% Similarity=0.229 Sum_probs=76.6
Q ss_pred HHHHHHHHHhccccc----CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--------hhh-------ccc
Q 004433 255 IFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-------FGH 315 (754)
Q Consensus 255 pf~AIaELIDNS~DA----gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--------~l~-------fG~ 315 (754)
+...+.|+||||+|. .++.|+|.|.. ...++|.|||-||+-+.-.+ +|+ |+.
T Consensus 130 LhhLv~EIlDNSVDE~laG~~~~I~V~i~~---------DgsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGKF~~ 200 (903)
T PTZ00109 130 LHQLLFEILDNSVDEYLAGECNKITVVLHK---------DGSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGKFQD 200 (903)
T ss_pred ceEEEEEEeeccchhhccCCCcEEEEEEcC---------CCeEEEEeCCccccccccccCCCcceeEEEEEeccCccccC
Confidence 445678999999996 26889988862 35899999999998643221 111 322
Q ss_pred CC------------------C----------------C--CCCCCcccccCceeeeecccccceEEEEEeeCCCCceeEE
Q 004433 316 KQ------------------P----------------D--ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFL 359 (754)
Q Consensus 316 S~------------------k----------------~--~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~g~~svg~l 359 (754)
.. + . ..=...-|..|+|. ++.=.|...+.|.++.++. .+
T Consensus 201 ~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~-SVVNALS~~l~VeV~RdGK----~y 275 (903)
T PTZ00109 201 TFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGL-SVVNALSSFLKVDVFKGGK----IY 275 (903)
T ss_pred cccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcce-eeeeeccCeEEEEEEECCE----EE
Confidence 10 0 0 00024778999999 5555699999999999885 46
Q ss_pred EEEecCCCe--eEEEeccccCCCCcEEEEEec
Q 004433 360 SQSLNQGKD--NLEIPIVSYYRKGQFMELDTV 389 (754)
Q Consensus 360 s~sf~~g~~--~i~VPi~s~~~~Gt~I~l~~~ 389 (754)
.++|..|.- .+.+--.+-...||+|...+.
T Consensus 276 ~q~F~rG~~v~pLkvig~~~~~tGT~VtF~PD 307 (903)
T PTZ00109 276 SIELSKGKVTKPLSVFSCPLKKRGTTIHFLPD 307 (903)
T ss_pred EEEeCCCcccCCccccCCcCCCCceEEEEEeC
Confidence 677755431 111101111347998876553
No 51
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.58 E-value=0.0059 Score=67.57 Aligned_cols=89 Identities=20% Similarity=0.226 Sum_probs=59.9
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
++..++.+||.||+.+.. ..|.|.+.. .++...|+|.|||.||+++++.+.+.-.++.+.. ...-+..|+
T Consensus 368 ~l~~vl~nli~Na~~~~~~~~~i~i~~~~------~~~~~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~--~~~~~~~Gl 439 (475)
T PRK11100 368 LLRQALGNLLDNAIDFSPEGGTITLSAEV------DGEQVALSVEDQGPGIPDYALPRIFERFYSLPRP--ANGRKSTGL 439 (475)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHHHHHccCCCC--CCCCCCcch
Confidence 577899999999999864 467777663 3456789999999999999999988644432211 111234588
Q ss_pred eeeeec---ccccceEEEEEee
Q 004433 332 GFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~ 350 (754)
|++.+- ..+|..+.+.|..
T Consensus 440 GL~i~~~~~~~~~G~i~i~s~~ 461 (475)
T PRK11100 440 GLAFVREVARLHGGEVTLRNRP 461 (475)
T ss_pred hHHHHHHHHHHCCCEEEEEEcC
Confidence 876432 2356666666643
No 52
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.45 E-value=0.0085 Score=66.73 Aligned_cols=90 Identities=14% Similarity=0.178 Sum_probs=59.0
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCce
Q 004433 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiG 332 (754)
+..++.+||+||+.+... .|.|.+.. ..+.-.|.|.|||.||+++++.+++.-.+..+.. .....|..|+|
T Consensus 353 l~qvl~nll~NAi~~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~-~~~~~~g~GlG 425 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDSGGSLHISAEQ------RDKTLRLTFADSAPGVSDEQLQKLFERFYRTEGS-RNRASGGSGLG 425 (466)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEE------cCCEEEEEEEecCCCcCHHHHHHhccCcccCCCC-cCCCCCCCcHH
Confidence 557899999999998654 56666653 3345678999999999999999887533322211 12234567888
Q ss_pred eeee---cccccceEEEEEeeC
Q 004433 333 FKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 333 fKsA---smrLG~~v~V~SK~~ 351 (754)
+..+ .-..|.++.+.+...
T Consensus 426 L~iv~~i~~~~~G~l~~~s~~~ 447 (466)
T PRK10549 426 LAICLNIVEAHNGRIIAAHSPF 447 (466)
T ss_pred HHHHHHHHHHcCCEEEEEECCC
Confidence 8532 224566666666443
No 53
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=96.28 E-value=0.0079 Score=71.63 Aligned_cols=83 Identities=19% Similarity=0.225 Sum_probs=56.9
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHh-HHHhhhcccCCCCCCCCCcccccCc
Q 004433 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD-VVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee-l~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
+..++.+||+||+++.. ..|.|.+.. .++.-.|.|.|||.||+++. ..+.+...++.+. +..|+
T Consensus 580 l~~vl~nLl~NAik~~~~~~~I~I~~~~------~~~~~~i~V~D~G~Gi~~~~i~~~lF~pf~~~~~-------~G~GL 646 (679)
T TIGR02916 580 LERVLGHLVQNALEATPGEGRVAIRVER------ECGAARIEIEDSGCGMSPAFIRERLFKPFDTTKG-------AGMGI 646 (679)
T ss_pred HHHHHHHHHHHHHHhCCCCCcEEEEEEE------cCCEEEEEEEEcCCCcChHHHHHhcCCCCCCCCC-------CCcch
Confidence 45689999999999964 467777663 23567899999999999998 5666654443331 34588
Q ss_pred eeeeec---ccccceEEEEEee
Q 004433 332 GFKTGA---MRLGKDALVLTQT 350 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~ 350 (754)
|+..+- -.+|-++.|.|..
T Consensus 647 GL~i~~~iv~~~gG~i~v~s~~ 668 (679)
T TIGR02916 647 GVYECRQYVEEIGGRIEVESTP 668 (679)
T ss_pred hHHHHHHHHHHcCCEEEEEecC
Confidence 875432 2356677776643
No 54
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=96.25 E-value=0.02 Score=72.96 Aligned_cols=122 Identities=19% Similarity=0.256 Sum_probs=77.6
Q ss_pred HHHHHHHHHhcccccC--------CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--h----hhccc---CC
Q 004433 255 IFGAIAELVDNSRDAK--------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQ 317 (754)
Q Consensus 255 pf~AIaELIDNS~DAg--------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--~----l~fG~---S~ 317 (754)
+.-.+-|+|+||.|-. ++.|+|.|+. +...|+|.|||.||+-+--.. + +-||+ +.
T Consensus 58 L~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~--------d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGg 129 (1388)
T PTZ00108 58 LYKIFDEILVNAADNKARDKGGHRMTYIKVTIDE--------ENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSS 129 (1388)
T ss_pred hhhhHHHHhhhhhhhhcccCCCCCccEEEEEEec--------cCCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccc
Confidence 5568899999999952 4788888873 236899999999997653211 1 11332 22
Q ss_pred CC--CCCCCcccccCceeeeecccccceEEEEEeeC--CCCceeEEEEEecCCCeeEEEecc-cc-C-CCCcEEEEEec
Q 004433 318 PD--ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTA--DSRSIAFLSQSLNQGKDNLEIPIV-SY-Y-RKGQFMELDTV 389 (754)
Q Consensus 318 k~--~~d~~~IG~fGiGfKsAsmrLG~~v~V~SK~~--g~~svg~ls~sf~~g~~~i~VPi~-s~-~-~~Gt~I~l~~~ 389 (754)
+- ..-...-|+.|+|.+. .-.|...+.|.+... +. .+.++|..|-....-|.. +. . .+||.|+..+.
T Consensus 130 kfdd~~yKvSGGlhGVGasv-vNalS~~f~Vev~r~~~gk----~y~q~f~~Gm~~~~~p~i~~~~~~~~GT~VtF~PD 203 (1388)
T PTZ00108 130 NYDDTEKRVTGGRNGFGAKL-TNIFSTKFTVECVDSKSGK----KFKMTWTDNMSKKSEPRITSYDGKKDYTKVTFYPD 203 (1388)
T ss_pred cCCCCceeeecccccCCccc-cccccceEEEEEEECCCCC----EEEEEecCCCcCCCCCccCCCCCCCCceEEEEEeC
Confidence 21 1124678999999954 445899999999988 54 355666544211112221 22 2 47898877654
No 55
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=96.20 E-value=0.012 Score=66.63 Aligned_cols=84 Identities=17% Similarity=0.149 Sum_probs=56.2
Q ss_pred HHHHHHHHHhcccccCCCc--cEEEEEecccccCCCCc-CEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 255 IFGAIAELVDNSRDAKATK--LEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~--V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
+..++.+||+||+.+.... |.|.+.. ..+. ..|.|.|||.||+++++.+.+....+.+. +..|+
T Consensus 501 l~~~~~nli~na~~~~~~~~~i~v~~~~------~~~~~~~i~v~D~G~G~~~~~~~~~f~~~~~~~~-------~g~gl 567 (607)
T PRK11360 501 LKQVLLNILINAVQAISARGKIRIRTWQ------YSDGQVAVSIEDNGCGIDPELLKKIFDPFFTTKA-------KGTGL 567 (607)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEEEE------cCCCEEEEEEEeCCCCCCHHHHhhhcCCceeCCC-------CCCch
Confidence 6688999999999986544 4554432 1223 78999999999999999888765443332 13477
Q ss_pred eeeee---cccccceEEEEEeeC
Q 004433 332 GFKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 332 GfKsA---smrLG~~v~V~SK~~ 351 (754)
|+..+ .-.+|.++.+.|...
T Consensus 568 GL~~~~~~~~~~~G~i~~~s~~~ 590 (607)
T PRK11360 568 GLALSQRIINAHGGDIEVESEPG 590 (607)
T ss_pred hHHHHHHHHHHcCCEEEEEEcCC
Confidence 77532 124566777766543
No 56
>PRK10815 sensor protein PhoQ; Provisional
Probab=96.17 E-value=0.01 Score=68.19 Aligned_cols=84 Identities=14% Similarity=0.156 Sum_probs=57.8
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCceee
Q 004433 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGfK 334 (754)
+..++..||+||+++....+.|.+.. ..+.-.|.|.|||.||+++++.+.+.-++.... ..+-.|+|+.
T Consensus 379 l~~vl~NLi~NAik~~~~~i~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~-----~~~G~GLGL~ 447 (485)
T PRK10815 379 FMEVMGNVLDNACKYCLEFVEISARQ------TDEHLHIVVEDDGPGIPESKRELIFDRGQRADT-----LRPGQGLGLS 447 (485)
T ss_pred HHHHHHHHHHHHHHhcCCcEEEEEEE------eCCEEEEEEEECCCCcCHHHHHHHhCCcccCCC-----CCCCcchhHH
Confidence 46799999999999988888887763 234567999999999999999988753332211 1123688885
Q ss_pred eec---ccccceEEEEEe
Q 004433 335 TGA---MRLGKDALVLTQ 349 (754)
Q Consensus 335 sAs---mrLG~~v~V~SK 349 (754)
.+. -..|-++.|.|.
T Consensus 448 Ivk~iv~~~gG~i~v~s~ 465 (485)
T PRK10815 448 VAREITEQYEGKISAGDS 465 (485)
T ss_pred HHHHHHHHcCCEEEEEEC
Confidence 321 134555555554
No 57
>PLN03128 DNA topoisomerase 2; Provisional
Probab=96.14 E-value=0.012 Score=73.93 Aligned_cols=122 Identities=19% Similarity=0.251 Sum_probs=76.3
Q ss_pred HHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH--h----hhccc---CCCCC
Q 004433 255 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQPDA 320 (754)
Q Consensus 255 pf~AIaELIDNS~DAg-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~--~----l~fG~---S~k~~ 320 (754)
+.-.+-|+|+||.|-. ++.|+|.|+. +...|+|.|||.||+-+--.. . +-||+ +.+-.
T Consensus 53 L~ki~dEIldNAvDe~~~~g~~~~I~V~i~~--------~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFd 124 (1135)
T PLN03128 53 LYKIFDEILVNAADNKQRDPSMDSLKVDIDV--------EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFD 124 (1135)
T ss_pred HHHHHHHHHHHHHHHhhhcCCCcEEEEEEEc--------CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccC
Confidence 4567899999999964 3788888873 246899999999998653211 0 11222 22211
Q ss_pred --CCCCcccccCceeeeecccccceEEEEEe--eCCCCceeEEEEEecCCCeeEEEecc-cc--CCCCcEEEEEec
Q 004433 321 --DDPNRIGRFGVGFKTGAMRLGKDALVLTQ--TADSRSIAFLSQSLNQGKDNLEIPIV-SY--YRKGQFMELDTV 389 (754)
Q Consensus 321 --~d~~~IG~fGiGfKsAsmrLG~~v~V~SK--~~g~~svg~ls~sf~~g~~~i~VPi~-s~--~~~Gt~I~l~~~ 389 (754)
.-..+-|+.|+|.+. .-.|...+.|.+. .++. .+.++|..|......|.. +. ..+||+|+..+.
T Consensus 125 d~~ykvSGGlhGvGasv-vNaLS~~f~Vev~d~r~gk----~y~q~f~~G~~~~~~p~i~~~~~~~~GT~ItF~PD 195 (1135)
T PLN03128 125 DNEKKTTGGRNGYGAKL-ANIFSTEFTVETADGNRGK----KYKQVFTNNMSVKSEPKITSCKASENWTKITFKPD 195 (1135)
T ss_pred CccceeeccccCCCCeE-EEeecCeEEEEEEECCCCe----EEEEEeCCCcccCCCceeccCCCCCCceEEEEEEC
Confidence 124678999999954 4458999999998 4443 355677554222122221 22 247898877654
No 58
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=95.93 E-value=0.02 Score=69.76 Aligned_cols=86 Identities=10% Similarity=0.185 Sum_probs=59.6
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
+..+|..||+||+.+.. ..|.|.+.. ..+.-.|+|.|||.||+++++.+++.-.+..+ ...|-.|+|+
T Consensus 514 l~~il~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-----~~~~g~GLGL 582 (921)
T PRK15347 514 LRQILVNLLGNAVKFTETGGIRLRVKR------HEQQLCFTVEDTGCGIDIQQQQQIFTPFYQAD-----THSQGTGLGL 582 (921)
T ss_pred HHHHHHHHHHHHhhcCCCCCEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhcCcccCC-----CCCCCCchHH
Confidence 56789999999999853 467777663 33456899999999999999999875322222 1124568887
Q ss_pred eeec---ccccceEEEEEeeC
Q 004433 334 KTGA---MRLGKDALVLTQTA 351 (754)
Q Consensus 334 KsAs---mrLG~~v~V~SK~~ 351 (754)
..+- -.+|..+.|.|...
T Consensus 583 ~i~~~~~~~~gG~i~i~s~~~ 603 (921)
T PRK15347 583 TIASSLAKMMGGELTLFSTPG 603 (921)
T ss_pred HHHHHHHHHcCCEEEEEecCC
Confidence 5332 24577788877554
No 59
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=95.81 E-value=0.023 Score=68.32 Aligned_cols=93 Identities=14% Similarity=0.238 Sum_probs=61.8
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
+..++..||+||+++.. ..|.|.+... ..+.-.|.|.|||.||+++++.++|..-+..+........+--|+|+
T Consensus 399 l~qvl~NLl~NAik~~~~g~v~i~~~~~-----~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL 473 (779)
T PRK11091 399 LRQILWNLISNAVKFTQQGGVTVRVRYE-----EGDMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGL 473 (779)
T ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEEc-----cCCEEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHH
Confidence 56789999999999864 4577766531 13346889999999999999999886333332111222244567777
Q ss_pred eee---cccccceEEEEEeeCC
Q 004433 334 KTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~~g 352 (754)
..+ .-..|..+.|.|....
T Consensus 474 ~i~~~iv~~~gG~i~v~s~~g~ 495 (779)
T PRK11091 474 AVSKRLAQAMGGDITVTSEEGK 495 (779)
T ss_pred HHHHHHHHHcCCEEEEEecCCC
Confidence 422 1246888888876543
No 60
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=95.76 E-value=0.014 Score=68.12 Aligned_cols=57 Identities=21% Similarity=0.316 Sum_probs=46.2
Q ss_pred CHHHHHHHHHhcccccCC----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccC
Q 004433 254 WIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHK 316 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S 316 (754)
-+...+-.||.||+||-+ ..|.|.... .++.-.|+|.|||.|+.++-+.++|. |-++
T Consensus 497 RLeQVLvNLl~NALDA~~~~~~~~i~i~~~~------~~~~v~l~VrDnGpGi~~e~~~~lFePF~Tt 558 (603)
T COG4191 497 RLEQVLVNLLQNALDAMAGQEDRRLSIRAQR------EGGQVVLTVRDNGPGIAPEALPHLFEPFFTT 558 (603)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCeeEEEEEe------cCCeEEEEEccCCCCCCHHHHHhhcCCcccc
Confidence 478999999999999954 567776653 45677899999999999999999987 4443
No 61
>PRK10337 sensor protein QseC; Provisional
Probab=95.70 E-value=0.021 Score=63.52 Aligned_cols=84 Identities=15% Similarity=0.164 Sum_probs=54.2
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCceee
Q 004433 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGfK 334 (754)
+..++.+||+||+.+....-.|.+... ...|+|.|||.||+++++.+.+.-.+..+. ...+.+|+|+.
T Consensus 353 l~~vl~Nli~NA~k~~~~~~~i~i~~~--------~~~i~i~D~G~Gi~~~~~~~if~~f~~~~~----~~~~g~GlGL~ 420 (449)
T PRK10337 353 LSLLVRNLLDNAIRYSPQGSVVDVTLN--------ARNFTVRDNGPGVTPEALARIGERFYRPPG----QEATGSGLGLS 420 (449)
T ss_pred HHHHHHHHHHHHHhhCCCCCeEEEEEE--------eeEEEEEECCCCCCHHHHHHhcccccCCCC----CCCCccchHHH
Confidence 557899999999999765433444320 237999999999999999988753222111 12244788875
Q ss_pred ee---cccccceEEEEEee
Q 004433 335 TG---AMRLGKDALVLTQT 350 (754)
Q Consensus 335 sA---smrLG~~v~V~SK~ 350 (754)
.+ .-..|.++.+.+..
T Consensus 421 iv~~i~~~~gg~l~~~s~~ 439 (449)
T PRK10337 421 IVRRIAKLHGMNVSFGNAP 439 (449)
T ss_pred HHHHHHHHcCCEEEEEecC
Confidence 32 12346666665543
No 62
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=95.61 E-value=0.025 Score=69.04 Aligned_cols=90 Identities=16% Similarity=0.179 Sum_probs=59.2
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEeccccc---------CCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCC
Q 004433 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 323 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~ 323 (754)
+..++..||+||+.+.. ..|.|.+....... ..++.-.|.|.|||.||+++++.+++.-.++.+.
T Consensus 561 L~qvl~NLl~NAik~~~~~g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~~~~---- 636 (828)
T PRK13837 561 LQQVLMNLCSNAAQAMDGAGRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTTRA---- 636 (828)
T ss_pred HHHHHHHHHHHHHHHcccCCeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHHHHhhCCcccCCC----
Confidence 56789999999999843 56777665310000 0133457899999999999999998864333221
Q ss_pred CcccccCceeeee---cccccceEEEEEeeC
Q 004433 324 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 324 ~~IG~fGiGfKsA---smrLG~~v~V~SK~~ 351 (754)
+..|+|+..+ .-.+|..+.|.|...
T Consensus 637 ---~G~GLGL~i~~~iv~~~gG~i~v~s~~g 664 (828)
T PRK13837 637 ---GGTGLGLATVHGIVSAHAGYIDVQSTVG 664 (828)
T ss_pred ---CCCcchHHHHHHHHHHCCCEEEEEecCC
Confidence 4568887532 224677788877643
No 63
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=95.45 E-value=0.037 Score=66.71 Aligned_cols=90 Identities=16% Similarity=0.170 Sum_probs=59.3
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCce
Q 004433 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiG 332 (754)
+..++..||+||+++.. ..|.|.+.. ..+.-.|+|.|||.||+++++.+++.-..+.+.. .....+..|+|
T Consensus 598 L~~il~NLI~NAik~s~~~~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~-~~~~~~g~GLG 670 (703)
T TIGR03785 598 IAQMLDKLVDNAREFSPEDGLIEVGLSQ------NKSHALLTVSNEGPPLPEDMGEQLFDSMVSVRDQ-GAQDQPHLGLG 670 (703)
T ss_pred HHHHHHHHHHHHHHHCCCCCeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhCCCeecCCC-CCCCCCCccHH
Confidence 55789999999999854 346665553 3345679999999999999999988644432211 11122347888
Q ss_pred eeee---cccccceEEEEEeeC
Q 004433 333 FKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 333 fKsA---smrLG~~v~V~SK~~ 351 (754)
++.+ ....|-++.+.+...
T Consensus 671 L~Ivr~Iv~~~gG~I~v~s~~~ 692 (703)
T TIGR03785 671 LYIVRLIADFHQGRIQAENRQQ 692 (703)
T ss_pred HHHHHHHHHHcCCEEEEEECCC
Confidence 8643 224566777766543
No 64
>TIGR01925 spIIAB anti-sigma F factor. This model describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex. The SpoIIE phosphatase dephosphorylates SpoIIAA.
Probab=95.44 E-value=0.042 Score=51.78 Aligned_cols=82 Identities=20% Similarity=0.150 Sum_probs=48.6
Q ss_pred CHHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccc
Q 004433 254 WIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAg-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~ 328 (754)
.+..++.||+.||+..+ ...|.|.+.. ..+...|.|.|+|.||+. ..+.+....+.+. ..+.
T Consensus 39 ~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~------~~~~~~i~I~D~G~gi~~--~~~~~~~~~~~~~-----~~~~ 105 (137)
T TIGR01925 39 DIKTAVSEAVTNAIIHGYEENCEGVVYISATI------EDHEVYITVRDEGIGIEN--LEEAREPLYTSKP-----ELER 105 (137)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCcEEEEEEEE------eCCEEEEEEEEcCCCcCc--hhHhhCCCcccCC-----CCCC
Confidence 45689999999999754 2457776653 234567899999999973 3344332222221 1234
Q ss_pred cCceeeeecccccceEEEEEe
Q 004433 329 FGVGFKTGAMRLGKDALVLTQ 349 (754)
Q Consensus 329 fGiGfKsAsmrLG~~v~V~SK 349 (754)
.|+|+... -+++.++.+.+.
T Consensus 106 ~GlGL~lv-~~~~~~l~~~~~ 125 (137)
T TIGR01925 106 SGMGFTVM-ENFMDDVSVDSE 125 (137)
T ss_pred CcccHHHH-HHhCCcEEEEEC
Confidence 57777432 234455555443
No 65
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=95.23 E-value=0.047 Score=66.70 Aligned_cols=87 Identities=14% Similarity=0.195 Sum_probs=59.8
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
+..++..||+||+.+.. ..|.|.+.. ..+...|.|.|||.||+++++.+++...+... ...|..|+|+
T Consensus 562 l~qil~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-----~~~~g~GLGL 630 (914)
T PRK11466 562 IRQVITNLLSNALRFTDEGSIVLRSRT------DGEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS-----GKRGGTGLGL 630 (914)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHhchhhcCC-----CCCCCCcccH
Confidence 45788999999999853 456666653 23456799999999999999999875322211 1124568887
Q ss_pred eee---cccccceEEEEEeeCC
Q 004433 334 KTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~~g 352 (754)
..+ .-.+|.++.|.|...+
T Consensus 631 ~i~~~l~~~~gG~i~v~s~~~~ 652 (914)
T PRK11466 631 TISSRLAQAMGGELSATSTPEV 652 (914)
T ss_pred HHHHHHHHHcCCEEEEEecCCC
Confidence 532 2256888888876543
No 66
>PRK09835 sensor kinase CusS; Provisional
Probab=95.22 E-value=0.041 Score=61.48 Aligned_cols=89 Identities=11% Similarity=0.097 Sum_probs=57.5
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++.+||+||+.+.. ..|.|.+.. ..+.-.|.|.|||.||+++++...+.-.+.... .....-+..|+
T Consensus 375 ~l~~vl~nll~Na~~~~~~~~~I~i~~~~------~~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~-~~~~~~~g~Gl 447 (482)
T PRK09835 375 MLRRAISNLLSNALRYTPAGEAITVRCQE------VDHQVQLVVENPGTPIAPEHLPRLFDRFYRVDP-SRQRKGEGSGI 447 (482)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------eCCEEEEEEEECCCCcCHHHHHHHhCCcccCCC-CCCCCCCCcch
Confidence 366899999999999864 346666653 234467999999999999999988752222111 01112245788
Q ss_pred eeeee---cccccceEEEEEe
Q 004433 332 GFKTG---AMRLGKDALVLTQ 349 (754)
Q Consensus 332 GfKsA---smrLG~~v~V~SK 349 (754)
|+.-+ .-..|.++.+.|.
T Consensus 448 GL~i~~~i~~~~~g~i~~~s~ 468 (482)
T PRK09835 448 GLAIVKSIVVAHKGTVAVTSD 468 (482)
T ss_pred HHHHHHHHHHHCCCEEEEEEC
Confidence 88432 1235666766664
No 67
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=95.08 E-value=0.055 Score=66.41 Aligned_cols=89 Identities=16% Similarity=0.242 Sum_probs=60.9
Q ss_pred CHHHHHHHHHhcccccCC-CccEEEEEecccccCCCCc-CEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccccC
Q 004433 254 WIFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFG 330 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~fG 330 (754)
.+..+|..||+||+.+.. ..|.|.+.. ..+. -.|.|.|+|.||+++++.++|. |..... ....|..|
T Consensus 579 ~l~~il~nLi~NAik~~~~g~i~i~~~~------~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~----~~~~~g~G 648 (968)
T TIGR02956 579 RIRQVLINLVGNAIKFTDRGSVVLRVSL------NDDSSLLFEVEDTGCGIAEEEQATLFDAFTQADG----RRRSGGTG 648 (968)
T ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEEEE------cCCCeEEEEEEeCCCCCCHHHHHHHHhhhhccCC----CCCCCCcc
Confidence 356789999999999854 457777664 2233 6799999999999999999875 433221 12235568
Q ss_pred ceeeee---cccccceEEEEEeeCC
Q 004433 331 VGFKTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 331 iGfKsA---smrLG~~v~V~SK~~g 352 (754)
+|+..+ .-.+|.++.|.|...+
T Consensus 649 LGL~i~~~l~~~~gG~i~~~s~~~~ 673 (968)
T TIGR02956 649 LGLAISQRLVEAMDGELGVESELGV 673 (968)
T ss_pred HHHHHHHHHHHHcCCEEEEEecCCC
Confidence 887532 1246778888776543
No 68
>PRK10490 sensor protein KdpD; Provisional
Probab=95.08 E-value=0.047 Score=67.60 Aligned_cols=89 Identities=12% Similarity=0.124 Sum_probs=58.2
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
.+..++..||+||+.+... .|.|.+.. ..+.-.|.|.|||.||+++++.++|.-.++.+. ....+-.|+
T Consensus 778 ~L~qVL~NLL~NAik~s~~g~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~---~~~~~G~GL 848 (895)
T PRK10490 778 LFERVLINLLENAVKYAGAQAEIGIDAHV------EGERLQLDVWDNGPGIPPGQEQLIFDKFARGNK---ESAIPGVGL 848 (895)
T ss_pred HHHHHHHHHHHHHHHhCCCCCeEEEEEEE------eCCEEEEEEEECCCCCCHHHHHHhcCCCccCCC---CCCCCCccH
Confidence 3568899999999998643 46665543 234568999999999999999988863332221 112234678
Q ss_pred eeeeec---ccccceEEEEEeeC
Q 004433 332 GFKTGA---MRLGKDALVLTQTA 351 (754)
Q Consensus 332 GfKsAs---mrLG~~v~V~SK~~ 351 (754)
|+..+- -..|-++.+.|...
T Consensus 849 GL~Ivk~ive~hGG~I~v~s~~~ 871 (895)
T PRK10490 849 GLAICRAIVEVHGGTIWAENRPE 871 (895)
T ss_pred HHHHHHHHHHHcCCEEEEEECCC
Confidence 875321 23567777776543
No 69
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=95.07 E-value=0.042 Score=58.89 Aligned_cols=89 Identities=13% Similarity=0.137 Sum_probs=53.3
Q ss_pred HHHHHHHHHhcccccC-CC--ccEEEEEecccccCCC----CcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCccc
Q 004433 255 IFGAIAELVDNSRDAK-AT--KLEISIESIYFKKAGK----DIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 327 (754)
Q Consensus 255 pf~AIaELIDNS~DAg-At--~V~I~I~~~~~~~~~~----~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG 327 (754)
+..++..||+||+.+. .. .|.|.+.......... ....|.|.|||.||+++...+++.-+++.+. +
T Consensus 238 l~~vl~nLl~NA~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~iF~~~~~~~~-------~ 310 (348)
T PRK11073 238 IEQVLLNIVRNALQALGPEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGRE-------G 310 (348)
T ss_pred HHHHHHHHHHHHHHHhccCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHHhhccCCcccCCC-------C
Confidence 5688999999999985 33 4444332110000000 1236899999999999998888753333331 2
Q ss_pred ccCceeeee---cccccceEEEEEee
Q 004433 328 RFGVGFKTG---AMRLGKDALVLTQT 350 (754)
Q Consensus 328 ~fGiGfKsA---smrLG~~v~V~SK~ 350 (754)
-.|+|+..+ .-..|..+.|.|..
T Consensus 311 g~GlGL~i~~~iv~~~gG~i~~~s~~ 336 (348)
T PRK11073 311 GTGLGLSIARNLIDQHSGKIEFTSWP 336 (348)
T ss_pred CccCCHHHHHHHHHHcCCeEEEEecC
Confidence 247777432 22456777776643
No 70
>PRK10547 chemotaxis protein CheA; Provisional
Probab=94.80 E-value=0.074 Score=63.89 Aligned_cols=87 Identities=20% Similarity=0.325 Sum_probs=55.3
Q ss_pred HHHHHHHhcccccCC--------------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHH-------------
Q 004433 257 GAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR------------- 309 (754)
Q Consensus 257 ~AIaELIDNS~DAgA--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~------------- 309 (754)
..|..||.||+|+|- ..|.|.... .++.-.|.|.|||.||+++.+.+
T Consensus 388 dpL~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~------~~~~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~l 461 (670)
T PRK10547 388 DPLTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEH------QGGNICIEVTDDGAGLNRERILAKAASQGLAVSENM 461 (670)
T ss_pred HHHHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEE------cCCEEEEEEEeCCCCCCHHHHHHHHHHcCCCccccC
Confidence 457799999999862 246666543 23456799999999999987653
Q ss_pred --------hhhcccCCCCCCCCCcccccCceeee---ecccccceEEEEEeeC
Q 004433 310 --------MTYFGHKQPDADDPNRIGRFGVGFKT---GAMRLGKDALVLTQTA 351 (754)
Q Consensus 310 --------~l~fG~S~k~~~d~~~IG~fGiGfKs---AsmrLG~~v~V~SK~~ 351 (754)
.|.-|++.+.. ...+.-.|+|+.- ..-.+|..+.|.|...
T Consensus 462 s~~e~~~lIF~pgfst~~~--~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~~g 512 (670)
T PRK10547 462 SDEEVGMLIFAPGFSTAEQ--VTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQG 512 (670)
T ss_pred CHHHHHHHhhcCCcccccc--cccCCCCchhHHHHHHHHHHcCCEEEEEecCC
Confidence 23334544321 1223445888742 2335778888887653
No 71
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.75 E-value=0.079 Score=65.85 Aligned_cols=89 Identities=17% Similarity=0.222 Sum_probs=58.9
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccccCce
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~fGiG 332 (754)
+..+|..||+||+.+.. ..|.|.+.. ..+.-.|.|.|+|.||+++++.+++. |-..... .....+-.|+|
T Consensus 563 L~qvl~NLl~NAik~t~~G~I~I~v~~------~~~~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~--~~~~~~GtGLG 634 (924)
T PRK10841 563 LQQVISNLLSNAIKFTDTGCIVLHVRV------DGDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTG--VQRNFQGTGLG 634 (924)
T ss_pred HHHHHHHHHHHHHhhCCCCcEEEEEEE------eCCEEEEEEEEcCcCCCHHHHHHHhcccccCCCC--CCCCCCCeehh
Confidence 45789999999999854 356666553 23456789999999999999999875 3221111 11122346888
Q ss_pred eeeec---ccccceEEEEEeeC
Q 004433 333 FKTGA---MRLGKDALVLTQTA 351 (754)
Q Consensus 333 fKsAs---mrLG~~v~V~SK~~ 351 (754)
+..+. -.+|.++.|.|...
T Consensus 635 L~I~k~lv~~~gG~I~v~S~~g 656 (924)
T PRK10841 635 LAICEKLINMMDGDISVDSEPG 656 (924)
T ss_pred HHHHHHHHHHCCCEEEEEEcCC
Confidence 75331 24678888888654
No 72
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=94.53 E-value=0.098 Score=63.66 Aligned_cols=95 Identities=20% Similarity=0.259 Sum_probs=59.4
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccccCce
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~fGiG 332 (754)
+..+|..||+||+.+.. ..|.|.+...... .+...-.|.|.|||.||+++++.+.+. |-..... .....|-.|+|
T Consensus 409 l~~vl~NLl~NAik~~~~g~v~i~v~~~~~~-~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~--~~~~~~g~GLG 485 (919)
T PRK11107 409 LQQIITNLVGNAIKFTESGNIDILVELRALS-NTKVQLEVQIRDTGIGISERQQSQLFQAFRQADAS--ISRRHGGTGLG 485 (919)
T ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEEEecC-CCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCC--CCCCCCCcchh
Confidence 55789999999999854 3455555421100 011134689999999999999998875 3222111 11234567888
Q ss_pred eeee---cccccceEEEEEeeCC
Q 004433 333 FKTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 333 fKsA---smrLG~~v~V~SK~~g 352 (754)
+.-+ .-.+|.++.|.|...+
T Consensus 486 L~i~~~i~~~~gG~i~v~s~~~~ 508 (919)
T PRK11107 486 LVITQKLVNEMGGDISFHSQPNR 508 (919)
T ss_pred HHHHHHHHHHhCCEEEEEecCCC
Confidence 7532 2246788888886553
No 73
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=93.89 E-value=0.14 Score=57.18 Aligned_cols=74 Identities=23% Similarity=0.456 Sum_probs=54.8
Q ss_pred HHHHHHHHHhcccccC----------CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCC--C
Q 004433 255 IFGAIAELVDNSRDAK----------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDAD--D 322 (754)
Q Consensus 255 pf~AIaELIDNS~DAg----------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~--d 322 (754)
+.-.+-||..||..|. -..|+|.+-. +++...+.|.|-|+|++++++..++.|++|..... +
T Consensus 261 L~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~------gdeDl~ikISDrGGGV~~~~~drlf~Y~ySTa~~~~~d 334 (414)
T KOG0787|consen 261 LYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAK------GDEDLLIKISDRGGGVPHRDIDRLFSYMYSTAPAPSSD 334 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEec------CCcceEEEEecCCCCcChhHHHHHHhhhcccCCCCCCC
Confidence 5678899999999992 2457777763 45667889999999999999999999998864321 1
Q ss_pred ---CCcccccCceee
Q 004433 323 ---PNRIGRFGVGFK 334 (754)
Q Consensus 323 ---~~~IG~fGiGfK 334 (754)
....--||-|+-
T Consensus 335 ~~~~~plaGfG~GLP 349 (414)
T KOG0787|consen 335 NNRTAPLAGFGFGLP 349 (414)
T ss_pred CCCcCcccccccCCc
Confidence 334455666654
No 74
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=93.72 E-value=0.19 Score=62.31 Aligned_cols=93 Identities=14% Similarity=0.184 Sum_probs=59.0
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
+..++..||+||+.+.+ ..|.|.+.... ...+.-.|.|.|+|.||+++++.+++.--...+.. ...-+-.|+|+
T Consensus 566 L~QVL~NLL~NAik~t~~G~I~I~v~~~~---~~~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~--~~~~~GtGLGL 640 (894)
T PRK10618 566 LRKILLLLLNYAITTTAYGKITLEVDQDE---SSPDRLTIRILDTGAGVSIKELDNLHFPFLNQTQG--DRYGKASGLTF 640 (894)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEEcc---CCCcEEEEEEEECCCCCCHHHHHHhcCccccCCCC--CCCCCCcChhH
Confidence 55789999999999854 35666665310 01234578999999999999999987522222211 11122357776
Q ss_pred eee---cccccceEEEEEeeCC
Q 004433 334 KTG---AMRLGKDALVLTQTAD 352 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~~g 352 (754)
..+ .-.+|..+.|.|...+
T Consensus 641 aI~k~Lve~~GG~I~v~S~~g~ 662 (894)
T PRK10618 641 FLCNQLCRKLGGHLTIKSREGL 662 (894)
T ss_pred HHHHHHHHHcCCEEEEEECCCC
Confidence 322 2246888989887543
No 75
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=93.68 E-value=0.11 Score=51.07 Aligned_cols=52 Identities=15% Similarity=0.127 Sum_probs=39.9
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh
Q 004433 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~ 312 (754)
+..|+.|++.||+..+- ..|.|.+.. ..+...+.|.|+|.||+++.+...+.
T Consensus 43 l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~------~~~~l~i~V~D~G~g~d~~~~~~~~~ 99 (161)
T PRK04069 43 MKIAVSEACTNAVQHAYKEDEVGEIHIRFEI------YEDRLEIVVADNGVSFDYETLKSKLG 99 (161)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCeEEEEEEE------ECCEEEEEEEECCcCCChHHhccccC
Confidence 45799999999998864 246666553 34578899999999999888766554
No 76
>PRK03660 anti-sigma F factor; Provisional
Probab=93.64 E-value=0.21 Score=47.42 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=33.1
Q ss_pred CHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCH
Q 004433 254 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTH 304 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ 304 (754)
.+..++.||+.||+..+. ..|.|.+.. ..+...+.|.|+|.||+.
T Consensus 39 ~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~------~~~~l~i~I~D~G~g~~~ 88 (146)
T PRK03660 39 EIKTAVSEAVTNAIIHGYENNPDGVVYIEVEI------EEEELEITVRDEGKGIED 88 (146)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEE------CCCEEEEEEEEccCCCCh
Confidence 356899999999997642 346666553 234567899999999986
No 77
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=93.63 E-value=0.14 Score=47.45 Aligned_cols=78 Identities=15% Similarity=0.161 Sum_probs=50.9
Q ss_pred CHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccc
Q 004433 254 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~ 328 (754)
.+..|+.|++.||+..+.. .|.|.+.. ..+.-.|.|.|+|.|+++........-+. .....
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~------~~~~l~i~v~D~G~~~d~~~~~~~~~~~~--------~~~~~ 96 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEV------DPDRLRISVRDNGPGFDPEQLPQPDPWEP--------DSLRE 96 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEE------cCCEEEEEEEECCCCCChhhccCcccccC--------CCCCC
Confidence 3568999999999999753 56666553 34567899999999999987544321110 12223
Q ss_pred cCceeeeecccccceEEE
Q 004433 329 FGVGFKTGAMRLGKDALV 346 (754)
Q Consensus 329 fGiGfKsAsmrLG~~v~V 346 (754)
-|.|+... -.+.+++.+
T Consensus 97 ~G~Gl~li-~~l~D~~~~ 113 (125)
T PF13581_consen 97 GGRGLFLI-RSLMDEVDY 113 (125)
T ss_pred CCcCHHHH-HHHHcEEEE
Confidence 36666422 246777777
No 78
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=93.56 E-value=0.1 Score=60.48 Aligned_cols=76 Identities=17% Similarity=0.388 Sum_probs=56.1
Q ss_pred HHHHHHHHHhccccc-CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DA-gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
...-++|-+.||+.. .|++|+|.+.. ..+...+.|+|||+|++..+ ...|.||+-.
T Consensus 482 lLqIvREAlsNa~KHa~As~i~V~~~~------~~g~~~~~VeDnG~Gi~~~~-----------------e~~gHyGL~I 538 (574)
T COG3850 482 LLQIVREALSNAIKHAQASEIKVTVSQ------NDGQVTLTVEDNGVGIDEAA-----------------EPSGHYGLNI 538 (574)
T ss_pred HHHHHHHHHHHHHHhcccCeEEEEEEe------cCCeEEEEEeeCCcCCCCcc-----------------CCCCCcchHH
Confidence 567899999999965 79999999874 34788999999999987642 4567897765
Q ss_pred ee-ecccccceEEEEEeeCCC
Q 004433 334 KT-GAMRLGKDALVLTQTADS 353 (754)
Q Consensus 334 Ks-AsmrLG~~v~V~SK~~g~ 353 (754)
-. =+-+|+..+.|-.+..+.
T Consensus 539 M~ERA~~L~~~L~i~~~~~gG 559 (574)
T COG3850 539 MRERAQRLGGQLRIRRREGGG 559 (574)
T ss_pred HHHHHHHhcCeEEEeecCCCC
Confidence 11 012577777777765553
No 79
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=93.37 E-value=0.21 Score=63.12 Aligned_cols=93 Identities=11% Similarity=0.164 Sum_probs=57.4
Q ss_pred HHHHHHHHHhcccccCCC-ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCcee
Q 004433 255 IFGAIAELVDNSRDAKAT-KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt-~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiGf 333 (754)
+..+|..||+||+++... .+.|.+.... .......-.|.|.|||.||+++++.+++...+..+. ....+..|+|+
T Consensus 829 l~qvl~NLl~NAik~~~~g~i~i~~~~~~-~~~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~---~~~~~G~GLGL 904 (1197)
T PRK09959 829 FKQVLSNLLSNALKFTTEGAVKITTSLGH-IDDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSA---GRQQTGSGLGL 904 (1197)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEee-ecCCceEEEEEEEEcCCCCCHHHHHHhhcccccccc---CCCCCCcCchH
Confidence 567999999999999643 4555443210 000112245799999999999999998763332221 11223468887
Q ss_pred eee---cccccceEEEEEeeC
Q 004433 334 KTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 334 KsA---smrLG~~v~V~SK~~ 351 (754)
..+ .-..|.++.|.|...
T Consensus 905 ~i~~~iv~~~gG~i~v~s~~~ 925 (1197)
T PRK09959 905 MICKELIKNMQGDLSLESHPG 925 (1197)
T ss_pred HHHHHHHHHcCCEEEEEeCCC
Confidence 533 124677888877654
No 80
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.
Probab=93.04 E-value=0.21 Score=49.33 Aligned_cols=85 Identities=16% Similarity=0.046 Sum_probs=53.8
Q ss_pred CHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccc
Q 004433 254 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~ 328 (754)
.+.-|+.|++.||+..+- ..|.|.+.. ..+...+.|.|+|.|++++.+...+......... +....
T Consensus 42 ~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~------~~~~l~i~V~D~G~gfd~~~~~~~~~~~~~~~~~-~~~~~-- 112 (159)
T TIGR01924 42 DLKIAVSEACTNAVKHAYKEGENGEIGISFHI------YEDRLEIIVSDQGDSFDMDTFKQSLGPYDGSEPI-DDLRE-- 112 (159)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEE------eCCEEEEEEEEcccccCchhhccccCCCCCCCCc-ccCCC--
Confidence 456899999999998852 356776653 3456788999999999988776544321111110 11122
Q ss_pred cCceeeeecccccceEEEEE
Q 004433 329 FGVGFKTGAMRLGKDALVLT 348 (754)
Q Consensus 329 fGiGfKsAsmrLG~~v~V~S 348 (754)
-|.|+...- .|.+++.+.+
T Consensus 113 ~G~GL~Li~-~L~D~v~~~~ 131 (159)
T TIGR01924 113 GGLGLFLIE-TLMDEVEVYE 131 (159)
T ss_pred CccCHHHHH-HhccEEEEEe
Confidence 377875432 4677777765
No 81
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=92.98 E-value=0.13 Score=56.73 Aligned_cols=71 Identities=24% Similarity=0.376 Sum_probs=53.4
Q ss_pred CHHHHHHHHHhccccc-CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCce
Q 004433 254 WIFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (754)
Q Consensus 254 ~pf~AIaELIDNS~DA-gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGiG 332 (754)
.++-++.|.|.|++.. +|+.+.|.+.. .++.-.|.|.|||.|.+.+... | |.|
T Consensus 279 ~l~rivQEaltN~~rHa~A~~v~V~l~~------~~~~l~l~V~DnG~Gf~~~~~~------------------~--~~G 332 (365)
T COG4585 279 ALFRIVQEALTNAIRHAQATEVRVTLER------TDDELRLEVIDNGVGFDPDKEG------------------G--GFG 332 (365)
T ss_pred HHHHHHHHHHHHHHhccCCceEEEEEEE------cCCEEEEEEEECCcCCCccccC------------------C--Ccc
Confidence 4789999999999977 68999999985 3456899999999998765521 2 344
Q ss_pred eee---ecccccceEEEEEee
Q 004433 333 FKT---GAMRLGKDALVLTQT 350 (754)
Q Consensus 333 fKs---AsmrLG~~v~V~SK~ 350 (754)
+++ =...+|-.+.|.|..
T Consensus 333 L~~mreRv~~lgG~l~i~S~~ 353 (365)
T COG4585 333 LLGMRERVEALGGTLTIDSAP 353 (365)
T ss_pred hhhHHHHHHHcCCEEEEEecC
Confidence 432 123478888888876
No 82
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=91.97 E-value=0.43 Score=57.93 Aligned_cols=101 Identities=23% Similarity=0.335 Sum_probs=68.0
Q ss_pred eeecCHHHHHHhhccccCCHHHHHHHHHhcccccCC--------------CccEEEEEecccccCCCCcCEEEEEeCCCC
Q 004433 236 FVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHG 301 (754)
Q Consensus 236 ~~~v~p~fL~slst~h~~~pf~AIaELIDNS~DAgA--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~G 301 (754)
...++..+|..|+ ..|-.||-||+|.|- -.|.+.... .++.-.|.|.|||.|
T Consensus 422 ~telDksIlE~l~--------dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~------~gn~ivIev~DDG~G 487 (716)
T COG0643 422 DTELDKSILERLG--------DPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYH------EGNNIVIEVSDDGAG 487 (716)
T ss_pred CeeehHHHHHHhc--------ccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEc------CCCeEEEEEeeCCCC
Confidence 3567777887663 346789999999972 345555442 455678899999999
Q ss_pred CCHHhHHH-hhh-----------------------cccCCCCCCCCCcccccCcee---eeecccccceEEEEEeeCC
Q 004433 302 MTHQDVVR-MTY-----------------------FGHKQPDADDPNRIGRFGVGF---KTGAMRLGKDALVLTQTAD 352 (754)
Q Consensus 302 Mt~eel~~-~l~-----------------------fG~S~k~~~d~~~IG~fGiGf---KsAsmrLG~~v~V~SK~~g 352 (754)
|+++.+.+ ++. -|+|.+. .-..+.--|+|| |+..-+||-.+.|.|+...
T Consensus 488 id~ekI~~KAiErGli~~~~a~~lSd~Ei~~LIF~PGFSTa~--~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~ 563 (716)
T COG0643 488 IDREKIREKAIERGLITEEEAETLSDEEILNLIFAPGFSTAE--QVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGK 563 (716)
T ss_pred CCHHHHHHHHHHcCCCChHHhccCCHHHHHHHHhcCCCCcch--hhhcccCCccCHHHHHHHHHHcCCEEEEEecCCC
Confidence 99998764 332 2455442 123333348887 4555678888888887654
No 83
>PRK13557 histidine kinase; Provisional
Probab=91.50 E-value=0.5 Score=53.31 Aligned_cols=92 Identities=16% Similarity=0.191 Sum_probs=56.7
Q ss_pred HHHHHHHHHhcccccCCCc--cEEEEEeccccc---------CCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCC
Q 004433 255 IFGAIAELVDNSRDAKATK--LEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 323 (754)
Q Consensus 255 pf~AIaELIDNS~DAgAt~--V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~ 323 (754)
+..++..|+.||+++.... +.|......... ..++.-.|.|.|||.||++++..+++...++.+.
T Consensus 278 l~~vl~nll~NA~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~---- 353 (540)
T PRK13557 278 AEVALLNVLINARDAMPEGGRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKE---- 353 (540)
T ss_pred HHHHHHHHHHHHHHhcccCCeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHhccCCCcccCC----
Confidence 5578999999999985433 444332110000 0122346999999999999999988864443332
Q ss_pred CcccccCceeeee---cccccceEEEEEeeC
Q 004433 324 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 351 (754)
Q Consensus 324 ~~IG~fGiGfKsA---smrLG~~v~V~SK~~ 351 (754)
..+-.|+|+..+ .-.+|..+.|.|...
T Consensus 354 -~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~ 383 (540)
T PRK13557 354 -EGKGTGLGLSMVYGFAKQSGGAVRIYSEVG 383 (540)
T ss_pred -CCCCCCccHHHHHHHHHHCCCEEEEEecCC
Confidence 123457776422 235678888877644
No 84
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=90.90 E-value=0.23 Score=57.46 Aligned_cols=45 Identities=24% Similarity=0.291 Sum_probs=35.0
Q ss_pred HHHHHHHHHhcccccC-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 255 IFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 255 pf~AIaELIDNS~DAg-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
+..++.|+++||+.+. +..|.|.+.. .++.-.|+|.|||.||+++
T Consensus 411 L~ril~nlL~NAiKha~~~~I~I~l~~------~~~~i~l~V~DnG~Gi~~~ 456 (495)
T PRK11644 411 LFRVCQEGLNNIVKHADASAVTLQGWQ------QDERLMLVIEDDGSGLPPG 456 (495)
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEEEEE------cCCEEEEEEEECCCCCCcC
Confidence 5678999999999874 4667777653 3345679999999999865
No 85
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=90.81 E-value=0.31 Score=55.75 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=39.5
Q ss_pred CHHHHHHHHHhcccccCC----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhh
Q 004433 254 WIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l 311 (754)
.|.-.|-=|||||+-||- ....|.+.... ..+.-.+.|.|||.||+++......
T Consensus 350 ~p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~----~~~~i~i~i~Dng~g~~~~~~~~~~ 407 (456)
T COG2972 350 DPKLVLQPLVENAIEHGIEPKRPGGSIAISAKK----QDDVIQISISDNGPGIDEEKLEGLS 407 (456)
T ss_pred CchHHHhHHHHHHHHHhcccCCCCCEEEEEEEE----cCCEEEEEEeeCCCCCChhHHHHHH
Confidence 578889999999999973 33444443211 3456788999999999998876654
No 86
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.42 E-value=0.28 Score=51.18 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=34.5
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCC-cCEEEEEeCCCCCCHH
Q 004433 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKD-IPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~-~~~L~I~DNG~GMt~e 305 (754)
+--++-||+.||+..++ ..|.|.+... ..+ ...+.|+|||.|++.+
T Consensus 123 Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~-----~~~~~~~l~v~deg~G~~~~ 174 (221)
T COG3920 123 LGLIVHELVTNALKHAFLSRPGGEIRITLSRE-----GDGGRFLLTVWDEGGGPPVE 174 (221)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEc-----CCCCeEEEEEEECCCCCCCC
Confidence 45789999999999876 4677777641 122 3689999999998654
No 87
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=90.31 E-value=0.26 Score=57.43 Aligned_cols=47 Identities=17% Similarity=0.343 Sum_probs=36.8
Q ss_pred CHHHHHHHHHhcccccC-CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHh
Q 004433 254 WIFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD 306 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAg-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee 306 (754)
++...+.|+|+||+.+. ++.|.|.+.. .++.-.|.|.|||.||+++.
T Consensus 469 ~l~~il~ell~NA~kha~a~~i~V~~~~------~~~~~~l~V~D~G~Gi~~~~ 516 (569)
T PRK10600 469 HLLQIAREALSNALKHAQASEVVVTVAQ------NQNQVKLSVQDNGCGVPENA 516 (569)
T ss_pred HHHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCccc
Confidence 46789999999999864 5678877753 33456899999999998753
No 88
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=90.09 E-value=0.87 Score=55.45 Aligned_cols=57 Identities=18% Similarity=0.329 Sum_probs=43.4
Q ss_pred HHHHHHHHhcccccCCC--ccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCC
Q 004433 256 FGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQP 318 (754)
Q Consensus 256 f~AIaELIDNS~DAgAt--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k 318 (754)
..+|..|+|||.....+ +|.|.... ..+.-.+.|.|+|.|++.+++.+.|. |-...+
T Consensus 777 eQVLiNLleNA~Kyap~~s~I~I~~~~------~~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~ 836 (890)
T COG2205 777 EQVLINLLENALKYAPPGSEIRINAGV------ERENVVFSVIDEGPGIPEGELERIFDKFYRGNK 836 (890)
T ss_pred HHHHHHHHHHHHhhCCCCCeEEEEEEE------ecceEEEEEEeCCCCCChhHHHHhhhhhhcCCC
Confidence 47899999999988654 45555443 34567899999999999999999885 544333
No 89
>PF07744 SPOC: SPOC domain; InterPro: IPR012921 Spen (split end) proteins regulate the expression of key transcriptional effectors in diverse signalling pathways. They are large proteins characterised by N-terminal RNA-binding motifs and a highly conserved C-terminal SPOC (Spen paralog and ortholog C-terminal) domain. The function of the SPOC domain is unknown, but the SPOC domain of the SHARP Spen protein has been implicated in the interaction of SHARP with the SMRT/NcoR corepressor, where SHARP plays an essential role in the repressor complex []. The SPOC domain is folded into a single compact domain consisting of a beta-barrel with seven strands framed by six alpha helices. A number of deep grooves and clefts in the surface, plus two nonpolar loops, render the SPOC domain well suited to protein-protein interactions; most of the conserved residues occur on the protein surface rather than in the core. Other proteins containing a SPOC domain include drosophila Split ends, which promotes sclerite development in the head and restricts it in the thorax, and mouse MINT (homologue of SHARP), which is involved in skeletal and neuronal development via its repression of Msx2.; PDB: 1OW1_A.
Probab=89.52 E-value=0.2 Score=46.31 Aligned_cols=45 Identities=16% Similarity=0.538 Sum_probs=35.5
Q ss_pred Ccccccc-CC--CCCchhhhHHHHHHHhhcCCeEEEEEece------eEEEEeC
Q 004433 70 SHCFLSP-AP--ECSRDHNEWRRFLIYLQGRDMVAIAKFKF------WEFYILP 114 (754)
Q Consensus 70 ~~~~~~p-~~--~~~~~~~ew~~f~~~l~~~~~~~~~~~~~------~~~~~~~ 114 (754)
-.+++.+ .| .++.+...+.+|..||...+|+|||.++. ..|||+|
T Consensus 66 ~v~v~~~~~~~~~~~~~~~~~~~l~~Yl~~k~r~GVv~~~~~~~~~~~dlYl~P 119 (119)
T PF07744_consen 66 DVCVVALSSPESDSNSDRRPFQKLVDYLKSKQRAGVVSVGNSPSGQVKDLYLFP 119 (119)
T ss_dssp EEEEEEE-SSHHHHHHHHHHHHHTHHHHHHHTEEEEEEE--TT--S-EEEEEE-
T ss_pred eEEEEEEcCCcccCHHHHHHHHHHHHHHhhCCEEEEEecCCCCCCceeEEEEcC
Confidence 4455555 34 67888999999999999999999999995 8899998
No 90
>PRK13560 hypothetical protein; Provisional
Probab=87.66 E-value=0.55 Score=55.84 Aligned_cols=44 Identities=27% Similarity=0.437 Sum_probs=31.8
Q ss_pred HHHHHHHhcccccC-----CCccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 257 GAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 257 ~AIaELIDNS~DAg-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
..|.+|+.||+.+. +..|.|.+... ..+.-.|+|.|||+||+++
T Consensus 714 ~il~NLl~NAik~~~~~~~~~~i~i~~~~~-----~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 714 LIISELLSNALKHAFPDGAAGNIKVEIREQ-----GDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred HHHHHHHHHHHHhhccCCCCceEEEEEEEc-----CCCEEEEEEEeCCCcCCcc
Confidence 47889999999873 23566655431 2345679999999999986
No 91
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=87.27 E-value=0.68 Score=51.66 Aligned_cols=72 Identities=17% Similarity=0.374 Sum_probs=51.1
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh-cccCCCCCCCCCcccccCc
Q 004433 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~-fG~S~k~~~d~~~IG~fGi 331 (754)
....|-.+|.||+-.+. .+|.|.+.. ....-.++|.|.|.|++++++.+.|. |-.-.+. +....|--|+
T Consensus 343 ~tQVldNii~NA~KYsP~Gg~Itv~~~~------~~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkA--RsR~~gGTGL 414 (459)
T COG5002 343 MTQVLDNIISNALKYSPDGGRITVSVKQ------RETWVEISISDQGLGIPKEDLEKIFDRFYRVDKA--RSRKMGGTGL 414 (459)
T ss_pred HHHHHHHHHHHHhhcCCCCCeEEEEEee------eCcEEEEEEccCCCCCCchhHHHHHHHHhhhhhh--hhhcCCCCch
Confidence 35678889999998754 567776663 23456789999999999999999885 4333321 3445676678
Q ss_pred eee
Q 004433 332 GFK 334 (754)
Q Consensus 332 GfK 334 (754)
|+.
T Consensus 415 GLa 417 (459)
T COG5002 415 GLA 417 (459)
T ss_pred hHH
Confidence 874
No 92
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=86.85 E-value=1.3 Score=43.52 Aligned_cols=86 Identities=19% Similarity=0.190 Sum_probs=51.5
Q ss_pred CCHHHHHHHHHhcccccCC------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcc
Q 004433 253 GWIFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRI 326 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DAgA------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~I 326 (754)
...-.|+.|++.|++.++- ..|.|.+.. ..+...++|+|.|.|+ +++...+.-+.... .....
T Consensus 39 ~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~------~~~~~~i~i~D~G~~~--~~~~~~~~~~~~~~---~~~~~ 107 (146)
T COG2172 39 ADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSL------DDGKLEIRIWDQGPGI--EDLEESLGPGDTTA---EGLQE 107 (146)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEE------cCCeEEEEEEeCCCCC--CCHHHhcCCCCCCC---ccccc
Confidence 3567999999999998842 345554442 3456889999999665 44445554442222 12223
Q ss_pred cccCceeeeecccccceEEEEEeeCC
Q 004433 327 GRFGVGFKTGAMRLGKDALVLTQTAD 352 (754)
Q Consensus 327 G~fGiGfKsAsmrLG~~v~V~SK~~g 352 (754)
| |.|| ....++.+++.+.....+
T Consensus 108 ~--G~Gl-~l~~~~~D~~~~~~~~~~ 130 (146)
T COG2172 108 G--GLGL-FLAKRLMDEFSYERSEDG 130 (146)
T ss_pred c--cccH-HHHhhhheeEEEEeccCC
Confidence 3 6666 334456677776643333
No 93
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=86.24 E-value=1.2 Score=51.10 Aligned_cols=60 Identities=20% Similarity=0.249 Sum_probs=46.1
Q ss_pred CHHHHHHHHHhcccccCC---CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCC
Q 004433 254 WIFGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQP 318 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgA---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k 318 (754)
.+...+..|+-||+||.. ..|+|.+.. ...+..++.|.|||.|-+.+-+.+.+..-+++|
T Consensus 564 ~ieQVlvNl~~NaldA~~h~~p~i~~~~~~-----~~~e~l~i~i~DnGqGwp~~l~dkLl~PFttsK 626 (673)
T COG4192 564 SIEQVLVNLIVNALDASTHFAPWIKLIALG-----TEQEMLRIAIIDNGQGWPHELVDKLLTPFTTSK 626 (673)
T ss_pred hHHHHHHHHHHHHHhhhccCCceEEEEeec-----CcccceEEEEecCCCCCchhHHHHhcCCccccc
Confidence 467899999999999964 556666653 145678899999999999999989887434334
No 94
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=84.70 E-value=1.2 Score=52.91 Aligned_cols=52 Identities=17% Similarity=0.358 Sum_probs=39.3
Q ss_pred HHHHHHHHHhcccccCC---------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhh
Q 004433 255 IFGAIAELVDNSRDAKA---------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA---------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~ 312 (754)
+-.|+-.|+.||.+|.. ..|.+..+. .++.-.+.|.|||.|.+.+..++++-
T Consensus 601 l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~------~~g~i~v~V~DNGkG~p~e~r~r~~E 661 (712)
T COG5000 601 LGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDD------ADGRIVVDVIDNGKGFPRENRHRALE 661 (712)
T ss_pred HHHHHHHHHHhHHHHhhhcccccCCcceEEEEEec------CCCeEEEEEecCCCCCChHHhhhhcc
Confidence 34788899999998842 124444442 45677899999999999999999875
No 95
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=80.69 E-value=2.3 Score=50.64 Aligned_cols=69 Identities=22% Similarity=0.266 Sum_probs=49.6
Q ss_pred eeeecCHHHHHHhhccccCCHHHHHHHHHhcccccCC---CccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhh
Q 004433 235 NFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (754)
Q Consensus 235 ~~~~v~p~fL~slst~h~~~pf~AIaELIDNS~DAgA---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l 311 (754)
..+++.| |..+...-+ -+-..+..||.||+-.+. +.|.|..+. .....++.|.|||.|++++-+.+.|
T Consensus 620 aei~i~~--lp~v~~d~~-~l~qv~~NLi~Naik~~~~e~~~i~I~~~r------~ed~~t~sV~dng~Gi~~a~~~riF 690 (750)
T COG4251 620 AEIRIAP--LPVVAADAT-QLGQVFQNLIANAIKFGGPENPDIEISAER------QEDEWTFSVRDNGIGIDPAYFERIF 690 (750)
T ss_pred ceEEecc--cceeecCHH-HHHHHHHHHHhhheecCCCCCCceEEeeec------cCCceEEEecCCCCCcCHHHHHHHH
Confidence 3345555 444433321 345677899999998864 567777665 3467899999999999999999987
Q ss_pred h
Q 004433 312 Y 312 (754)
Q Consensus 312 ~ 312 (754)
.
T Consensus 691 ~ 691 (750)
T COG4251 691 V 691 (750)
T ss_pred H
Confidence 5
No 97
>PRK13559 hypothetical protein; Provisional
Probab=80.01 E-value=1.7 Score=46.99 Aligned_cols=47 Identities=15% Similarity=0.053 Sum_probs=33.4
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
+..++.||+.||+.+++ ..|.|.+... ...+...|.+.|||.|++++
T Consensus 268 l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~----~~~~~~~i~v~d~G~~~~~~ 319 (361)
T PRK13559 268 LGLVLHELAVNAIKHGALSADQGRISISWKPS----PEGAGFRIDWQEQGGPTPPK 319 (361)
T ss_pred HHHHHHHHHHhHHHhccccCCCcEEEEEEEec----CCCCeEEEEEECCCCCCCCC
Confidence 45789999999999854 3566665211 13445688999999997654
No 98
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=79.56 E-value=2.1 Score=49.29 Aligned_cols=46 Identities=22% Similarity=0.245 Sum_probs=33.6
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
....+.+|+.||+.+.. ..|.|.+... ..+.-.|.|.|||.||+++
T Consensus 472 l~qv~~nll~NA~k~~~~~~i~i~~~~~-----~~~~~~i~V~D~G~Gi~~~ 518 (565)
T PRK10935 472 LLQIIREATLNAIKHANASEIAVSCVTN-----PDGEHTVSIRDDGIGIGEL 518 (565)
T ss_pred HHHHHHHHHHHHHhcCCCCeEEEEEEEc-----CCCEEEEEEEECCcCcCCC
Confidence 45789999999998643 4577766531 1345679999999999864
No 99
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=75.00 E-value=5.4 Score=44.44 Aligned_cols=74 Identities=23% Similarity=0.412 Sum_probs=50.1
Q ss_pred HHHHHHHhccc-----ccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhHHHhhhcccCCCCCCCCCcccccCc
Q 004433 257 GAIAELVDNSR-----DAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (754)
Q Consensus 257 ~AIaELIDNS~-----DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel~~~l~fG~S~k~~~d~~~IG~fGi 331 (754)
+|+--.++-|+ -|||++|.|.+.. ..+.-.+.|.|||.|++-++..+- +.|+
T Consensus 358 talyRv~QEaltNIErHa~Atrv~ill~~------~~d~vql~vrDnG~GF~~~~~~~~-----------------~~Gi 414 (459)
T COG4564 358 TALYRVVQEALTNIERHAGATRVTILLQQ------MGDMVQLMVRDNGVGFSVKEALQK-----------------RHGI 414 (459)
T ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEEecc------CCcceEEEEecCCCCccchhhccC-----------------cccc
Confidence 44444444444 3589999998874 567788999999999988775332 1488
Q ss_pred eeeee--cc-cccceEEEEEeeCCC
Q 004433 332 GFKTG--AM-RLGKDALVLTQTADS 353 (754)
Q Consensus 332 GfKsA--sm-rLG~~v~V~SK~~g~ 353 (754)
|+.-- -| .+|..+.|.|-..|+
T Consensus 415 GLRNMrERma~~GG~~~v~s~p~GT 439 (459)
T COG4564 415 GLRNMRERMAHFGGELEVESSPQGT 439 (459)
T ss_pred ccccHHHHHHHhCceEEEEecCCCc
Confidence 87521 11 368888888866665
No 100
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=67.65 E-value=8.7 Score=42.58 Aligned_cols=59 Identities=20% Similarity=0.156 Sum_probs=37.5
Q ss_pred CHHHHHHHHHhcccccCCC----ccEEEEEecccc--cC----CCCcCEEEEEeCCCCCCHHhHHHhhh
Q 004433 254 WIFGAIAELVDNSRDAKAT----KLEISIESIYFK--KA----GKDIPMLSIIDDGHGMTHQDVVRMTY 312 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAgAt----~V~I~I~~~~~~--~~----~~~~~~L~I~DNG~GMt~eel~~~l~ 312 (754)
-+..|+-.||.||..|.+. .=.|.+.....- +. ..-...|.|.|||.|++++-....|.
T Consensus 241 qliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L~~~lF~ 309 (363)
T COG3852 241 QLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDLQDHLFY 309 (363)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHHhhhccc
Confidence 3678999999999999762 122333211100 00 11134578999999999888777775
No 101
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=59.35 E-value=2 Score=34.04 Aligned_cols=34 Identities=24% Similarity=0.735 Sum_probs=22.9
Q ss_pred CCCCceeeCccchhhccCCC-CCC---CCCCCCCceec
Q 004433 641 KPDQEWVQCNKCRKWRMLDP-GFD---TKSLPVEWFCY 674 (754)
Q Consensus 641 ~~~~~WvQCd~C~KWR~Lp~-~~~---~~~lp~~W~C~ 674 (754)
.....|||||.|.+|-...= +.. .......|+|.
T Consensus 9 ~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~ 46 (51)
T PF00628_consen 9 DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCP 46 (51)
T ss_dssp CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSH
T ss_pred CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECc
Confidence 44679999999999988762 221 12233489985
No 102
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=57.64 E-value=12 Score=42.23 Aligned_cols=46 Identities=28% Similarity=0.394 Sum_probs=36.5
Q ss_pred CHHHHHHHHHhccc-ccCCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 254 WIFGAIAELVDNSR-DAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 254 ~pf~AIaELIDNS~-DAgAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
.++-..-|++.|=. -|.|+.|+|.+-. +++.-++.|+|||.|++..
T Consensus 410 TLyRl~QE~LNNI~KHA~AS~V~i~l~~------~~e~l~Lei~DdG~Gl~~~ 456 (497)
T COG3851 410 TLYRLCQELLNNICKHADASAVTIQLWQ------QDERLMLEIEDDGSGLPPG 456 (497)
T ss_pred eHHHHHHHHHHHHHhccccceEEEEEee------CCcEEEEEEecCCcCCCCC
Confidence 47788899999977 4689999998863 3445789999999998653
No 103
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=49.53 E-value=13 Score=43.27 Aligned_cols=45 Identities=18% Similarity=0.168 Sum_probs=34.6
Q ss_pred HHHHHHHHHhcccccCC------CccEEEEEecccccCCCCcCEEEEEeCCCCCCHH
Q 004433 255 IFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (754)
Q Consensus 255 pf~AIaELIDNS~DAgA------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 305 (754)
|.--|-=||+||+-.|- -.|.|.+.. .+..-.+.|+|||.|+.++
T Consensus 457 P~filQPLVENAIKHG~~~~~~~g~V~I~V~~------~d~~l~i~VeDng~li~p~ 507 (557)
T COG3275 457 PSFILQPLVENAIKHGISQLKDTGRVTISVEK------EDADLRIEVEDNGGLIQPD 507 (557)
T ss_pred chhhhhHHHHHHHHhcccchhcCCceEEEEEE------eCCeEEEEEecCCCCcCCC
Confidence 55567789999998863 467777765 3345789999999999986
No 104
>PF14501 HATPase_c_5: GHKL domain
Probab=37.73 E-value=55 Score=29.32 Aligned_cols=42 Identities=19% Similarity=0.217 Sum_probs=28.0
Q ss_pred CHHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCcCEEEEEeCCCC
Q 004433 254 WIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHG 301 (754)
Q Consensus 254 ~pf~AIaELIDNS~DAg-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~G 301 (754)
++...|.-|+|||++|. ...|.|.+.. ..+...|.|.-...+
T Consensus 5 dl~~il~nlldNAiea~~~~~~~~~I~i~~~~------~~~~~~i~i~N~~~~ 51 (100)
T PF14501_consen 5 DLCRILGNLLDNAIEACKKYEDKRFISISIRE------ENGFLVIIIENSCEK 51 (100)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEe------cCCEEEEEEEECCCC
Confidence 45678999999999983 3466666653 334556666665444
No 105
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=36.65 E-value=16 Score=34.63 Aligned_cols=17 Identities=24% Similarity=0.821 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 84 ~s~~~WdRFMRFmeRYA 100 (109)
T TIGR03047 84 KSEDEWDRFMRFMERYA 100 (109)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 106
>PF03912 Psb28: Psb28 protein; InterPro: IPR005610 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein Psb28 (PsbW) found in PSII, where it is a subunit of the oxygen-evolving complex. Psb28 appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of Psb28, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 1 Psb28.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0016020 membrane; PDB: 2KVO_A.
Probab=35.50 E-value=14 Score=34.92 Aligned_cols=15 Identities=27% Similarity=0.831 Sum_probs=12.8
Q ss_pred hhhHHHHHHHhhcCC
Q 004433 84 HNEWRRFLIYLQGRD 98 (754)
Q Consensus 84 ~~ew~~f~~~l~~~~ 98 (754)
..+|++||||+.+++
T Consensus 86 ~~~WdRFMRFMeRYA 100 (108)
T PF03912_consen 86 EEEWDRFMRFMERYA 100 (108)
T ss_dssp SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 469999999998764
No 107
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=35.21 E-value=16 Score=34.65 Aligned_cols=17 Identities=12% Similarity=0.378 Sum_probs=13.9
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 91 ~s~~~WdRFMRFMeRYA 107 (113)
T PRK13610 91 NSEEAFERFMRFASRYA 107 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998775
No 108
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=34.55 E-value=18 Score=34.33 Aligned_cols=17 Identities=29% Similarity=0.794 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 85 ~s~~~WdRFMRFMeRYA 101 (111)
T PLN00039 85 RSPREWDRFMRFMERYA 101 (111)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 109
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=33.53 E-value=19 Score=34.24 Aligned_cols=17 Identities=24% Similarity=0.792 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T PRK13612 87 KSEQEWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 110
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=32.86 E-value=20 Score=33.64 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=14.1
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 80 ~s~~~wdRFMRFmeRYA 96 (104)
T PRK13611 80 ETEAEWDRFLRFMERFS 96 (104)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 35679999999998775
No 111
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=32.34 E-value=21 Score=34.05 Aligned_cols=17 Identities=18% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004433 82 RDHNEWRRFLIYLQGRD 98 (754)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (754)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T CHL00128 87 KNPEAWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 112
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=28.05 E-value=1.9e+02 Score=36.08 Aligned_cols=46 Identities=17% Similarity=0.388 Sum_probs=34.7
Q ss_pred CHHHHHHHHHhcccc-c---CCCccEEEEEecccccCCCCcCEEEEEeCCCCCCHHhH
Q 004433 254 WIFGAIAELVDNSRD-A---KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 307 (754)
Q Consensus 254 ~pf~AIaELIDNS~D-A---gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eel 307 (754)
-++..+-|++.||.| . +-..|.+.|+. +...+.|.+||.|++-+..
T Consensus 53 Gl~ki~dEilvNaadk~rd~~m~~i~v~i~~--------e~~~isv~nnGkGIPv~~H 102 (842)
T KOG0355|consen 53 GLYKIFDEILVNAADKQRDPKMNTIKVTIDK--------EKNEISVYNNGKGIPVTIH 102 (842)
T ss_pred cHHHHHHHHhhcccccccCCCcceeEEEEcc--------CCCEEEEEeCCCcceeeec
Confidence 366788999999998 1 22456666653 5689999999999987654
No 113
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=28.05 E-value=66 Score=37.71 Aligned_cols=69 Identities=20% Similarity=0.305 Sum_probs=48.3
Q ss_pred CCHHHHHHHHHhccccc-----CCCccEEEEEecccccCCCCcCEEEEEeCCC---CCCHHhHHHhhhcccCCCC-----
Q 004433 253 GWIFGAIAELVDNSRDA-----KATKLEISIESIYFKKAGKDIPMLSIIDDGH---GMTHQDVVRMTYFGHKQPD----- 319 (754)
Q Consensus 253 ~~pf~AIaELIDNS~DA-----gAt~V~I~I~~~~~~~~~~~~~~L~I~DNG~---GMt~eel~~~l~fG~S~k~----- 319 (754)
..|..|++|+|-||+=. ....|+|.+. ...|.|.-.|. ||+++++.+- .|..+
T Consensus 269 dyP~~alREai~NAv~HRDYs~~~~~v~I~iy----------dDRieI~NPGgl~~gi~~~~l~~~----~s~~RNp~LA 334 (467)
T COG2865 269 DYPLEALREAIINAVIHRDYSIRGRNVHIEIY----------DDRIEITNPGGLPPGITPEDLLKG----RSKSRNPVLA 334 (467)
T ss_pred cCCHHHHHHHHHHHHHhhccccCCCceEEEEE----------CCeEEEECCCCCCCCCChhHcccC----CCcccCHHHH
Confidence 35889999999999954 2347888776 36899998886 8888876553 22111
Q ss_pred --CCCCCcccccCceeee
Q 004433 320 --ADDPNRIGRFGVGFKT 335 (754)
Q Consensus 320 --~~d~~~IG~fGiGfKs 335 (754)
..+...+-++|-|+..
T Consensus 335 ~~l~~~~liE~~GSGi~r 352 (467)
T COG2865 335 KVLRDMGLIEERGSGIRR 352 (467)
T ss_pred HHHHHhhhHHHhCccHHH
Confidence 1245677889999853
No 114
>cd00594 KU Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen recognized by the sera of patients with an autoimmunity disease. In eukaryotes, the Ku heterodimer contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by non-homologous end-joining. The bacterial Ku homologs does not contain the conserved N-terminal extension that is present in the eukaryotic Ku protein.
Probab=24.89 E-value=78 Score=33.59 Aligned_cols=67 Identities=22% Similarity=0.335 Sum_probs=50.5
Q ss_pred CCccccccccccccee---eccCCCccccccCCCCCchhhhHHHHHHHhhcCCeEEEEEeceeE-----EEEeCCC
Q 004433 49 LPHHWNVNDIVPTSKI---ILDGMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAIAKFKFWE-----FYILPPD 116 (754)
Q Consensus 49 ~p~~~~~~~~~~~~~~---~~~~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~~~~~~~~-----~~~~~~~ 116 (754)
-+..+.|.+|+|.+-+ -+.+.++++. |.........--.-+.+=|...++|||+++-.-. +..|-|.
T Consensus 87 ~~~~l~ilgF~~~~~i~~~~~~~~s~~l~-P~~~~~~s~~af~aL~~am~~~~kvai~r~v~r~~~~p~l~aL~P~ 161 (272)
T cd00594 87 TSKGLDILGFVPASEIPPYYFDKESYYLV-PDDSDKGSEKAFSALRRALLEKDKVAIARYVLRRNSRPRLVALRPQ 161 (272)
T ss_pred CCCeEEEEeEechHhCCcceecCCcEEEE-cCCCCcccHHHHHHHHHHHHHcCcEEEEEEEEcCCCCcEEEEEecc
Confidence 4567889999999988 3555566666 7775556666778888999999999999986543 6666565
No 115
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=24.26 E-value=35 Score=29.68 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=14.4
Q ss_pred CCCCCceeeCccchhhccCCCCC
Q 004433 640 YKPDQEWVQCNKCRKWRMLDPGF 662 (754)
Q Consensus 640 ~~~~~~WvQCd~C~KWR~Lp~~~ 662 (754)
|..-..+|||+.|..|..+.+.+
T Consensus 23 Y~~GvViv~C~gC~~~HlIaDnL 45 (66)
T PF05180_consen 23 YHKGVVIVQCPGCKNRHLIADNL 45 (66)
T ss_dssp HHTSEEEEE-TTS--EEES--SS
T ss_pred HhCCeEEEECCCCcceeeehhhh
Confidence 44455899999999999999875
No 116
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=24.19 E-value=35 Score=37.04 Aligned_cols=30 Identities=20% Similarity=0.772 Sum_probs=22.8
Q ss_pred CceeeCcc--ch-hhccCC-CCCCCCCCCCCceec
Q 004433 644 QEWVQCNK--CR-KWRMLD-PGFDTKSLPVEWFCY 674 (754)
Q Consensus 644 ~~WvQCd~--C~-KWR~Lp-~~~~~~~lp~~W~C~ 674 (754)
..-|.||. |. .|=+++ -++. ..-.++|||.
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CVGL~-~~PkgkWyC~ 263 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCVGLK-TKPKGKWYCP 263 (274)
T ss_pred ccccccCCCCCCcceEEEeccccc-cCCCCcccch
Confidence 37899996 99 999998 4443 3456789996
No 117
>smart00559 Ku78 Ku70 and Ku80 are 70kDa and 80kDa subunits of the Lupus Ku autoantigen. This is a single stranded DNA- and ATP-depedent helicase that has a role in chromosome translocation. This is a domain of unknown function C-terminal to its von Willebrand factor A domain, that also occurs in bacterial hypothetical proteins.
Probab=23.14 E-value=90 Score=30.27 Aligned_cols=66 Identities=17% Similarity=0.201 Sum_probs=46.6
Q ss_pred Cccccccccccccee-e--ccCCCccccccCCCC-CchhhhHHHHHHHhhcCCeEEEEEece-----eEEEEeCCC
Q 004433 50 PHHWNVNDIVPTSKI-I--LDGMSHCFLSPAPEC-SRDHNEWRRFLIYLQGRDMVAIAKFKF-----WEFYILPPD 116 (754)
Q Consensus 50 p~~~~~~~~~~~~~~-~--~~~~~~~~~~p~~~~-~~~~~ew~~f~~~l~~~~~~~~~~~~~-----~~~~~~~~~ 116 (754)
+..+.|.+|+|.+-+ . +.++++.+. |.+.. .....--.-+.+=|...++||||++-. -.+-.|-|.
T Consensus 35 ~~~l~ilgF~~~~~i~~~~~~~~s~~i~-P~~~~~~~s~~a~~aL~~am~~~~~~aiar~v~r~~~~p~l~aL~P~ 109 (140)
T smart00559 35 EPGLELLGFKPLSSLPPYYFLRPSYFLV-PDDKSVIGSTKAFSALVEALLETDKIAIARYTLRTKSNPRLVALRPY 109 (140)
T ss_pred CCeEEEEeecChHHCCHhHccCCcEEEe-eCCcccchhHHHHHHHHHHHHhcCCEEEEEEEEcCCCCCEEEEEEee
Confidence 578899999999988 2 445556666 77753 224445556777789999999999932 456666665
No 118
>PF06540 GMAP: Galanin message associated peptide (GMAP); InterPro: IPR013068 Galanin is a peptide hormone that controls various biological activities []. Galanin-like immuno-reactivity has been found in the central and peripheral nervous systems of mammals, with high concentrations demonstrated in discrete regions of the central nervous system, including the median eminence, hypothalamus, arcuate nucleus, septum, neuro-intermediate lobe of the pituitary, and the spinal cord. Its localisation within neurosecretory granules suggests that galanin may function as a neurotransmitter, and it has been shown to coexist with a variety of other peptide and amine neurotransmitters within individual neurons []. Although the precise physiological role of galanin is uncertain, it has a number of pharmacological properties: it stimulates food intake, when injected into the third ventricle of rats; it increases levels of plasma growth hormone and prolactin, and decreases dopamine levels in the median eminence []; and infusion into humans results in hyperglycemia and glucose intolerance, and inhibits pancreatic release of insulin, somatostatin and pancreatic peptide. Galanin also modulates smooth muscle contractility within the gastro-intestinal and genito-urinary tracts, all such activities suggesting that the hormone may play an important role in the nervous modulation of endocrine and smooth muscle function []. This domain represents the galanin message-associated peptide (GMAP) domain which is found C-terminal to the galanin domain in the preprogalanin precursor protein. GMAP sequences in different species show a high degree of homology, but the biological function of the GMAP peptide is not known [].
Probab=20.03 E-value=91 Score=26.77 Aligned_cols=34 Identities=18% Similarity=0.128 Sum_probs=24.9
Q ss_pred CCCccccccCCCCCchhhhHHHHHHHhhcCCeEEE
Q 004433 68 GMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAI 102 (754)
Q Consensus 68 ~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~ 102 (754)
+.+=++-+|.| +++-++-=.+||+||+=...=|.
T Consensus 11 ~r~G~~~r~l~-d~nivrTiiEFLtfLhLKEaGAL 44 (62)
T PF06540_consen 11 FRPGSFDRPLA-DDNIVRTIIEFLTFLHLKEAGAL 44 (62)
T ss_pred cccccccCCCc-hhHHHHHHHHHHHHHHHHHhcch
Confidence 34446667888 56778899999999986665443
Done!