Query 004492
Match_columns 749
No_of_seqs 368 out of 2263
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 00:19:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004492.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004492hhsearch_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 99.9 8.9E-25 1.9E-29 253.3 10.5 420 222-687 115-606 (775)
2 COG0326 HtpG Molecular chapero 99.9 1.2E-21 2.6E-26 222.8 18.0 165 242-416 15-208 (623)
3 PRK05218 heat shock protein 90 99.8 1.7E-19 3.7E-24 209.6 21.7 302 242-619 14-349 (613)
4 PTZ00130 heat shock protein 90 99.8 1.9E-20 4E-25 219.5 13.3 198 201-416 41-270 (814)
5 PRK14083 HSP90 family protein; 99.8 5.1E-19 1.1E-23 204.6 22.4 297 242-619 11-329 (601)
6 KOG1845 MORC family ATPases [C 99.8 1.7E-20 3.7E-25 217.9 5.2 336 292-689 1-357 (775)
7 PTZ00272 heat shock protein 83 99.8 9.4E-19 2E-23 204.7 14.1 164 242-416 13-205 (701)
8 PF13589 HATPase_c_3: Histidin 99.7 8E-18 1.7E-22 160.6 2.9 98 255-357 3-101 (137)
9 KOG0020 Endoplasmic reticulum 99.7 2.1E-16 4.5E-21 173.2 9.0 159 248-418 89-282 (785)
10 KOG0019 Molecular chaperone (H 99.6 3.2E-16 6.9E-21 176.3 10.4 159 248-417 51-235 (656)
11 PF07496 zf-CW: CW-type Zinc F 99.6 2.8E-16 6.1E-21 126.1 1.3 45 639-683 1-49 (50)
12 COG0323 MutL DNA mismatch repa 99.5 2E-13 4.4E-18 159.6 19.6 108 236-352 4-117 (638)
13 PRK00095 mutL DNA mismatch rep 99.5 2.2E-12 4.7E-17 151.0 21.9 109 236-353 3-117 (617)
14 TIGR00585 mutl DNA mismatch re 99.3 1.9E-11 4E-16 131.9 12.4 139 236-387 3-148 (312)
15 COG1389 DNA topoisomerase VI, 99.2 1.8E-11 3.9E-16 135.0 8.0 157 228-391 12-183 (538)
16 KOG1979 DNA mismatch repair pr 99.0 1.3E-09 2.9E-14 122.9 9.9 141 235-387 7-153 (694)
17 PRK14868 DNA topoisomerase VI 98.9 1.2E-08 2.6E-13 119.8 12.9 94 254-353 46-149 (795)
18 PRK04184 DNA topoisomerase VI 98.9 1.2E-08 2.5E-13 117.3 11.8 121 228-353 12-142 (535)
19 KOG1978 DNA mismatch repair pr 98.9 4.9E-09 1.1E-13 120.7 8.6 105 238-351 3-113 (672)
20 TIGR01052 top6b DNA topoisomer 98.7 3.8E-08 8.3E-13 112.0 8.8 96 254-354 28-133 (488)
21 PRK05559 DNA topoisomerase IV 98.5 5.3E-07 1.2E-11 106.3 11.1 123 253-389 36-176 (631)
22 TIGR01055 parE_Gneg DNA topois 98.4 6.6E-07 1.4E-11 105.3 10.0 121 255-389 31-169 (625)
23 PRK14939 gyrB DNA gyrase subun 98.3 4.1E-06 8.9E-11 100.1 11.9 120 255-389 38-174 (756)
24 PRK14867 DNA topoisomerase VI 98.3 3.4E-06 7.4E-11 99.1 10.5 94 255-353 37-140 (659)
25 TIGR01059 gyrB DNA gyrase, B s 98.2 5.5E-06 1.2E-10 98.3 11.5 121 255-389 31-167 (654)
26 PRK05644 gyrB DNA gyrase subun 98.2 6.9E-06 1.5E-10 97.1 12.2 120 255-388 38-173 (638)
27 PF02518 HATPase_c: Histidine 98.2 1E-06 2.2E-11 79.8 3.9 88 255-350 6-98 (111)
28 smart00433 TOP2c Topoisomerase 98.2 4.7E-06 1E-10 97.8 10.2 116 258-388 5-138 (594)
29 KOG1977 DNA mismatch repair pr 98.1 2.7E-06 5.8E-11 98.2 3.9 104 240-353 6-115 (1142)
30 TIGR01058 parE_Gpos DNA topois 97.6 0.00031 6.7E-09 83.3 10.4 120 255-389 35-172 (637)
31 cd00075 HATPase_c Histidine ki 97.4 0.00045 9.7E-09 58.7 6.6 86 256-350 2-93 (103)
32 PLN03128 DNA topoisomerase 2; 97.4 0.00069 1.5E-08 84.5 10.4 86 255-349 53-154 (1135)
33 COG3290 CitA Signal transducti 97.3 0.00027 5.8E-09 81.1 6.0 85 253-349 426-518 (537)
34 PLN03237 DNA topoisomerase 2; 97.3 0.00079 1.7E-08 85.0 10.4 86 255-349 78-179 (1465)
35 COG0187 GyrB Type IIA topoisom 97.3 0.00052 1.1E-08 79.9 8.2 158 255-437 37-212 (635)
36 smart00387 HATPase_c Histidine 97.2 0.00073 1.6E-08 58.4 6.2 73 255-335 6-80 (111)
37 PRK10604 sensor protein RstB; 97.2 0.00097 2.1E-08 74.8 8.2 88 255-350 320-411 (433)
38 PRK09470 cpxA two-component se 97.0 0.0016 3.4E-08 72.3 8.1 89 255-350 354-445 (461)
39 PRK10364 sensor protein ZraS; 97.0 0.0016 3.5E-08 73.1 8.1 84 254-350 348-436 (457)
40 PRK09467 envZ osmolarity senso 97.0 0.002 4.3E-08 71.3 8.3 87 255-350 332-421 (435)
41 PHA02569 39 DNA topoisomerase 97.0 0.002 4.3E-08 76.1 8.6 118 257-389 48-185 (602)
42 PRK09303 adaptive-response sen 96.9 0.0031 6.8E-08 69.8 8.8 89 255-351 273-366 (380)
43 TIGR01386 cztS_silS_copS heavy 96.9 0.0029 6.4E-08 69.8 8.4 86 255-348 354-445 (457)
44 TIGR02938 nifL_nitrog nitrogen 96.8 0.0028 6.1E-08 70.0 7.7 86 255-350 388-482 (494)
45 PRK10755 sensor protein BasS/P 96.8 0.0023 5E-08 69.2 6.6 87 254-351 247-338 (356)
46 COG0642 BaeS Signal transducti 96.8 0.0026 5.7E-08 65.1 6.4 59 253-317 227-286 (336)
47 PRK11086 sensory histidine kin 96.7 0.0041 9E-08 70.5 8.5 82 255-349 434-522 (542)
48 TIGR02966 phoR_proteo phosphat 96.6 0.0059 1.3E-07 63.8 8.0 89 255-350 230-323 (333)
49 PRK11100 sensory histidine kin 96.6 0.0059 1.3E-07 67.7 8.1 89 254-350 368-461 (475)
50 PRK11006 phoR phosphate regulo 96.6 0.0055 1.2E-07 68.4 7.7 89 254-350 317-411 (430)
51 PTZ00109 DNA gyrase subunit b; 96.5 0.0077 1.7E-07 73.3 9.3 120 256-389 131-307 (903)
52 PRK15053 dpiB sensor histidine 96.5 0.0047 1E-07 70.7 7.2 85 255-349 433-526 (545)
53 PRK10549 signal transduction h 96.4 0.0064 1.4E-07 67.8 7.2 88 255-350 353-446 (466)
54 COG4191 Signal transduction hi 96.4 0.0043 9.3E-08 72.0 5.8 59 254-318 497-560 (603)
55 PRK10815 sensor protein PhoQ; 96.3 0.0071 1.5E-07 69.4 7.0 85 255-350 379-466 (485)
56 PTZ00108 DNA topoisomerase 2-l 96.3 0.017 3.6E-07 73.6 10.6 122 255-389 58-203 (1388)
57 TIGR02916 PEP_his_kin putative 96.3 0.0067 1.5E-07 72.3 6.7 83 255-350 580-668 (679)
58 PRK11360 sensory histidine kin 96.2 0.012 2.5E-07 66.8 7.8 84 255-351 501-590 (607)
59 PRK15347 two component system 96.0 0.017 3.7E-07 70.3 8.6 85 255-351 514-603 (921)
60 PRK11091 aerobic respiration c 96.0 0.018 3.9E-07 69.4 8.5 91 255-351 399-494 (779)
61 PRK10337 sensor protein QseC; 95.9 0.015 3.3E-07 64.7 7.0 83 255-350 353-439 (449)
62 PRK13837 two-component VirA-li 95.7 0.022 4.7E-07 69.7 7.7 90 255-351 561-664 (828)
63 PRK09835 sensor kinase CusS; P 95.7 0.027 5.8E-07 63.0 7.9 88 254-349 375-468 (482)
64 TIGR01925 spIIAB anti-sigma F 95.5 0.039 8.5E-07 52.0 6.8 82 254-349 39-125 (137)
65 TIGR03785 marine_sort_HK prote 95.4 0.037 8E-07 66.7 8.2 90 255-351 598-692 (703)
66 PRK11073 glnL nitrogen regulat 95.4 0.038 8.2E-07 59.3 7.3 90 255-351 238-337 (348)
67 PRK11466 hybrid sensory histid 95.4 0.039 8.5E-07 67.4 8.3 85 255-351 562-651 (914)
68 TIGR02956 TMAO_torS TMAO reduc 95.3 0.042 9.2E-07 67.5 8.3 87 255-351 580-672 (968)
69 PRK10490 sensor protein KdpD; 94.9 0.046 9.9E-07 67.7 7.1 87 255-351 779-871 (895)
70 PRK11107 hybrid sensory histid 94.9 0.075 1.6E-06 64.8 8.7 94 255-351 409-507 (919)
71 PRK10547 chemotaxis protein Ch 94.8 0.076 1.7E-06 63.8 8.1 87 257-351 388-512 (670)
72 PRK10841 hybrid sensory kinase 94.6 0.068 1.5E-06 66.4 7.4 89 255-351 563-656 (924)
73 KOG0787 Dehydrogenase kinase [ 94.5 0.087 1.9E-06 58.6 7.0 88 255-348 261-366 (414)
74 PRK11644 sensory histidine kin 94.3 0.061 1.3E-06 62.2 5.7 45 255-305 411-456 (495)
75 PRK10618 phosphotransfer inter 94.2 0.13 2.9E-06 63.7 8.8 91 255-351 566-661 (894)
76 PRK04069 serine-protein kinase 94.1 0.078 1.7E-06 52.2 5.1 52 255-312 43-99 (161)
77 PRK03660 anti-sigma F factor; 93.7 0.17 3.6E-06 48.2 6.6 45 254-304 39-88 (146)
78 COG3850 NarQ Signal transducti 93.5 0.14 3E-06 59.4 6.4 75 255-352 482-558 (574)
79 PF13581 HATPase_c_2: Histidin 93.5 0.14 3E-06 47.4 5.4 78 254-346 31-113 (125)
80 PRK09959 hybrid sensory histid 93.4 0.22 4.8E-06 63.0 8.7 92 255-351 829-925 (1197)
81 TIGR01924 rsbW_low_gc serine-p 93.2 0.14 3.1E-06 50.5 5.3 85 254-348 42-131 (159)
82 COG4585 Signal transduction hi 92.8 0.15 3.2E-06 56.3 5.3 71 254-350 279-353 (365)
83 COG2205 KdpD Osmosensitive K+ 92.8 0.34 7.4E-06 58.7 8.4 87 256-350 777-867 (890)
84 PRK13557 histidine kinase; Pro 91.5 0.45 9.7E-06 53.8 7.3 92 255-351 278-383 (540)
85 PRK10600 nitrate/nitrite senso 90.6 0.25 5.4E-06 57.6 4.3 46 254-305 469-515 (569)
86 COG3920 Signal transduction hi 90.5 0.28 6E-06 51.2 4.1 46 255-305 123-174 (221)
87 PF07744 SPOC: SPOC domain; I 89.6 0.2 4.2E-06 46.4 1.9 45 70-114 66-119 (119)
88 COG2972 Predicted signal trans 89.5 0.63 1.4E-05 53.3 6.3 55 253-311 349-407 (456)
89 COG4192 Signal transduction hi 89.2 0.63 1.4E-05 53.3 5.7 58 254-316 564-625 (673)
90 PRK13560 hypothetical protein; 88.0 0.46 9.9E-06 56.6 4.0 44 257-305 714-762 (807)
91 COG5002 VicK Signal transducti 87.2 0.78 1.7E-05 51.1 4.8 71 256-334 344-417 (459)
92 COG2172 RsbW Anti-sigma regula 86.6 1.3 2.9E-05 43.4 5.7 85 253-351 39-129 (146)
93 COG5000 NtrY Signal transducti 86.1 0.91 2E-05 53.6 4.8 51 256-312 602-661 (712)
94 COG0643 CheA Chemotaxis protei 84.4 2.1 4.4E-05 52.2 6.9 101 236-352 422-563 (716)
95 COG4251 Bacteriophytochrome (l 82.5 1.8 3.9E-05 51.5 5.2 51 256-312 638-691 (750)
96 PRK13559 hypothetical protein; 80.7 1.6 3.5E-05 47.3 3.8 47 255-305 268-319 (361)
97 PRK10935 nitrate/nitrite senso 80.7 1.8 4E-05 49.8 4.5 46 255-305 472-518 (565)
98 COG3852 NtrB Signal transducti 79.6 3.2 7E-05 45.7 5.6 58 255-312 242-309 (363)
99 smart00249 PHD PHD zinc finger 79.3 1.6 3.5E-05 32.8 2.4 33 637-669 10-45 (47)
100 COG4564 Signal transduction hi 76.7 4.9 0.00011 44.7 5.9 74 257-353 358-439 (459)
101 COG3851 UhpB Signal transducti 60.0 11 0.00024 42.5 4.3 45 254-304 410-455 (497)
102 PF00628 PHD: PHD-finger; Int 57.5 2.3 4.9E-05 33.7 -1.0 34 636-669 9-46 (51)
103 COG3275 LytS Putative regulato 48.5 17 0.00037 42.4 3.6 45 255-305 457-507 (557)
104 KOG0355 DNA topoisomerase type 41.7 85 0.0018 39.0 8.1 45 255-307 54-102 (842)
105 COG2865 Predicted transcriptio 41.0 15 0.00033 42.8 1.8 73 253-335 269-352 (467)
106 PF14501 HATPase_c_5: GHKL dom 37.6 57 0.0012 29.2 4.7 42 254-301 5-51 (100)
107 TIGR03047 PS_II_psb28 photosys 37.4 15 0.00033 34.7 0.9 17 82-98 84-100 (109)
108 PF03912 Psb28: Psb28 protein; 36.2 14 0.00029 34.9 0.4 15 84-98 86-100 (108)
109 PRK13610 photosystem II reacti 35.9 16 0.00034 34.7 0.7 17 82-98 91-107 (113)
110 PLN00039 photosystem II reacti 35.2 18 0.00038 34.3 0.9 17 82-98 85-101 (111)
111 PRK13612 photosystem II reacti 34.2 19 0.00041 34.3 0.9 17 82-98 87-103 (113)
112 PRK13611 photosystem II reacti 33.5 20 0.00042 33.7 0.9 17 82-98 80-96 (104)
113 CHL00128 psbW photosystem II p 33.0 20 0.00043 34.1 0.9 17 82-98 87-103 (113)
114 cd00594 KU Ku-core domain; inc 25.4 75 0.0016 33.7 3.8 67 49-116 87-161 (272)
115 smart00559 Ku78 Ku70 and Ku80 23.9 85 0.0019 30.4 3.6 66 50-116 35-109 (140)
116 KOG1973 Chromatin remodeling p 21.7 41 0.00089 36.4 1.0 30 639-669 230-263 (274)
117 PF06540 GMAP: Galanin message 20.5 88 0.0019 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=99.91 E-value=8.9e-25 Score=253.25 Aligned_cols=420 Identities=21% Similarity=0.229 Sum_probs=287.7
Q ss_pred CccceeccCCCCcceeecChHHHHHhcccccCCHHHHHHHHHHccccc---CCCccEEEEEeceeccCCCCccEEEEE--
Q 004492 222 EPRAVKQAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDA---KATKLEISIESIYFKKAGKDIPMLSII-- 296 (749)
Q Consensus 222 ~~~~~~~~~~~~~~~~~~~p~~L~~lst~h~~~p~~AIaELIDNA~DA---~At~V~I~I~~~~~~~~~~~~~~L~I~-- 296 (749)
+++.+.....+.-.++.++|+|||+++++| .|.++|++||||||+|- +|+-+.|.-- +..-+.....++|.
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-KWAKGAIAELLDNALDEITNGATFVRVDYI---NPVMDIFIRALVVQLK 190 (775)
T ss_pred ccccceeccCCceeEEEEehhhhcCCCccc-ccccChhhhhccccccccccccceEEeeee---cccccccceeEEeecc
Confidence 344445555556799999999999999999 79999999999999997 5666554321 11112224455555
Q ss_pred ---eCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccceeeeeccccCeEEEEEeeC------CCCceeEEEeeec--C
Q 004492 297 ---DDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTA------DSRSIAFLSQSLN--Q 365 (749)
Q Consensus 297 ---DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~------~~~s~~~ls~sf~--~ 365 (749)
|||+||.++-+...|.+|.+.+. +-...+|+||+||+++.|++|.+++|++|.. ...++|+++++|. +
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 77999999999999999988775 3467999999999999999999999999943 2578999999994 5
Q ss_pred CCeeEEEec----cccCCC---CcEEEEEecccchhhhhhhhhh-----hhhhCCCcch--hHHhhh-------cc----
Q 004492 366 GKDNLEIPI----VSYYRK---GQFMELDTVVQSEATAKYNLKS-----IKEFSPFNKY--LIGEKA-------GL---- 420 (749)
Q Consensus 366 g~~~i~VPi----~~~~~~---Gt~I~l~~~~~~e~~~~~~L~~-----I~kySpF~s~--pI~e~~-------~~---- 420 (749)
+...++||+ ...+.. -..|.. + +...|..++++ +++|+||.+. .+.+.. ..
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--K--SGVDWAVNLEIEVTERFLKWSPYSHLLDLLGQNSVQYSKDFPEFGHQ 345 (775)
T ss_pred cCCceeEecchhhhhhhcccccccceee--c--cccccceeeeeHHHHHHhhcCccccHHHHhhhhhhhhccccchhcch
Confidence 788899999 443321 112211 1 11233344444 9999999983 222200 01
Q ss_pred cc-CCCCCcEEEEEcccCCCC---ceeeeccCCCCCCCCCCCCceeeecccccCCCCcccccCcchhhHHHHHHhhhcC-
Q 004492 421 FQ-DKCTGTQIYIWNLDQWGS---NYCLEWDNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLV- 495 (749)
Q Consensus 421 ~~-~~~~GT~IiI~nL~r~~~---~~eLdF~~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~~~dySLRaYLsiLYL~- 495 (749)
+. ...+||.+|+|++++|.+ -.+++|+.+ +++|. -...++++.|.++||+.
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 257999999999976642 377888664 23432 02456889999999974
Q ss_pred -CCeEEEEcCEEecccccccccccceeec--cccc--c-----eEEEEEEceecccc-ccccceEEEEEeCeeee----e
Q 004492 496 -PRMKIYVQGSLVRSRPLAKSLNKTCVET--GIIM--G-----KSAHLTLGRCQLEW-EQMNCGIFLYWHGRLIE----A 560 (749)
Q Consensus 496 -PrmkI~LnG~~V~~~~i~~~L~~~~v~~--~~i~--~-----k~V~it~Gf~~~e~-~~~~~G~~vY~nnRLI~----~ 560 (749)
+++++.+.|+.+.++.+......+.... +... + ..+....||..... .-...|+.|||.+|||+ +
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 8999999999999998876654432211 1100 0 01112334444321 22346999999999999 8
Q ss_pred EEeecceeccCCCcceEEEEEeCCCCcceeecCCccCCCCchHHHHHHHHHHHHHHHHHhhccccccccc---ccCCCC-
Q 004492 561 YKRVGGMIHNGDTGRGVIGVIDDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVK---DGALYK- 636 (749)
Q Consensus 561 y~kvg~q~~~~~~grGVIGVve~n~d~fl~PthnKQgFe~t~~y~~L~~~L~e~l~eYw~~~~~~~~~~~---~~~~~~- 636 (749)
+|+.++- ....++++++++..|+ .++.|++|||+.+-.-..++..+.++++.||...++.+.+.. ...++.
T Consensus 482 ~~k~~n~--~~s~~~~~~~il~~n~---~~~a~~~~~v~~~~v~a~~es~~~~~~~~~~~~~~~~i~~~~~q~~~~~~~~ 556 (775)
T KOG1845|consen 482 FVKIDNA--TGSLGQAVIPILVGNF---VETAPDSQGVEKTIVLASSESRDKQSLNTYEEKKCLRIDEAGRQLQKEREST 556 (775)
T ss_pred eeeecCC--Cccccccccceecccc---cccCCCccccccccccccchhhhhhcccccccccccccCccchhhhhhhccc
Confidence 8888765 3478999999999985 788999999999988889999999999999998888776542 111111
Q ss_pred ----CCCceeeCccchhhccCCCCCCCCCCCCCceecCCC---CCCCCCCCcccccCC
Q 004492 637 ----PDQEWVQCNKCRKWRMLDPGFDTKSLPVEWFCYMKP---FEGLCDLPEQKVDAG 687 (749)
Q Consensus 637 ----~~~~WvQCd~C~KWR~lp~~~~~~~lp~~W~C~~n~---~~~~C~~pEe~~~~~ 687 (749)
....--||- += ++. ...--..|+|..++ .++.|+-+-...+.+
T Consensus 557 ~~~~Ke~~~~~~~---~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 606 (775)
T KOG1845|consen 557 TTVVKEEKPENNH---LS--SSK---RTQRRKSTGRAISVAVEKFNLRSGPNGRGQID 606 (775)
T ss_pred ceeecccccccch---hc--chh---ccccccccccccccchhhhccccccCCcCCcc
Confidence 111122221 11 111 12334689999998 367777666555544
No 2
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.87 E-value=1.2e-21 Score=222.81 Aligned_cols=165 Identities=25% Similarity=0.339 Sum_probs=133.1
Q ss_pred HHHHHhcccccCCHHHHHHHHHHcccccC----------------CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 242 ~~L~~lst~h~~~p~~AIaELIDNA~DA~----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
..|+.+..+.|++...+|+|||+||.||. ...+.|.|.. +.+...|+|.|||+||+++
T Consensus 15 ~ll~lmihSlYSnKeIFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~------Dk~~kTLtI~DNGIGMT~~ 88 (623)
T COG0326 15 QLLDLMIHSLYSNKEIFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISF------DKDNKTLTISDNGIGMTKD 88 (623)
T ss_pred HHHHHHHHhccCCcHHHHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEE------cccCCEEEEEeCCCCCCHH
Confidence 45677788899999999999999999992 1356666653 3457899999999999999
Q ss_pred HHHhhhh-cccCCC--------CC-CCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEecc
Q 004492 306 DVVRMTY-FGHKQP--------DA-DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIV 375 (749)
Q Consensus 306 eL~~~~~-fG~s~k--------~~-~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~ 375 (749)
|+++.++ .+.|.. .. ++...|||||+||+||+| ++++|+|.||+.+..... .|.+ .|..+++|...
T Consensus 89 Ev~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~T~~~~~~~~~-~W~S--~g~g~ytv~~~ 164 (623)
T COG0326 89 EVIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFM-VADKVTVITRSAGEDEAY-HWES--DGEGEYTVEDI 164 (623)
T ss_pred HHHHHHHHhhhccHHHHHHHhccccccccccccccchhhheee-eeeeEEEEeccCCCCcce-EEEE--cCCCceEEeec
Confidence 9999885 333321 11 367899999999999999 999999999999875444 7776 56677888777
Q ss_pred ccCC-CCcEEEEEeccc-chhhhhhhhhh-hhhhCCCcchhHHh
Q 004492 376 SYYR-KGQFMELDTVVQ-SEATAKYNLKS-IKEFSPFNKYLIGE 416 (749)
Q Consensus 376 ~~~~-~Gt~I~l~~~~~-~e~~~~~~L~~-I~kySpF~s~pI~e 416 (749)
.-+. .||.|+|+++++ .++..+|.++. |.+||.|+.+||..
T Consensus 165 ~~~~~~GT~I~L~Lk~~e~efl~~~rl~~ivkkYSd~i~~PI~~ 208 (623)
T COG0326 165 DKEPRRGTEITLHLKEEEDEFLEEWRLREIVKKYSDHIAYPIYI 208 (623)
T ss_pred cCCCCCCcEEEEEECCchHHHhhhhHHHHHHHHHhcccccceEE
Confidence 7777 599999999875 47888999865 99999999999973
No 3
>PRK05218 heat shock protein 90; Provisional
Probab=99.83 E-value=1.7e-19 Score=209.58 Aligned_cols=302 Identities=20% Similarity=0.221 Sum_probs=183.9
Q ss_pred HHHHHhcccccCCHHHHHHHHHHcccccC----------------CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 242 ~~L~~lst~h~~~p~~AIaELIDNA~DA~----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
+.|..++.+.|+++..+|+|||+||+||. +....|.|.. +.+...|+|.|||+||+.+
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 3445666543 2234579999999999999
Q ss_pred HHHhhh-hcccCCCC----------CCCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEec
Q 004492 306 DVVRMT-YFGHKQPD----------ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI 374 (749)
Q Consensus 306 eL~~~~-~fG~s~k~----------~~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi 374 (749)
++...+ ..+.|.+. ..+...+|+||+||+++++ +|++++|.||+.+....++.|.+ ++...+.+-.
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 999876 46665321 1246789999999987555 99999999999774456777766 3444455433
Q ss_pred cccCCCCcEEEEEecccc-hhhhhhhhhh-hhhhCCCcchhHHhhhccccCCCCCcEEEEEcccCCCCceeeeccCCCCC
Q 004492 375 VSYYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNG 452 (749)
Q Consensus 375 ~~~~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~nL~r~~~~~eLdF~~d~~~ 452 (749)
..-..+||.|+++++++. ++...+.++. |.+|+.|..+||.. .. +. | +..+....-|...
T Consensus 165 ~~~~~~GT~I~l~Lk~~~~e~~e~~~i~~li~kys~~l~~PI~~-----~~----~~---~---~~in~~~~~w~~~--- 226 (613)
T PRK05218 165 IEKEERGTEITLHLKEDEDEFLDEWRIRSIIKKYSDFIPVPIKL-----EK----EE---E---ETINSASALWTRS--- 226 (613)
T ss_pred CCCCCCCcEEEEEECcchhhhcCHHHHHHHHHHHHhcCCCCEEE-----ec----cc---c---eeecCCccceecC---
Confidence 333368999999998754 5566667754 99999998887752 10 00 0 0000001111111
Q ss_pred CCCCCCCceeeecccccCCCCcccccCcchhhHHHHHHhhh---cCCCeEEEEcCEE-ecccccccccccceeecccccc
Q 004492 453 GSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIF---LVPRMKIYVQGSL-VRSRPLAKSLNKTCVETGIIMG 528 (749)
Q Consensus 453 ~~~~~~~DI~i~~~~~~~~~~q~~~~~~~dySLRaYLsiLY---L~PrmkI~LnG~~-V~~~~i~~~L~~~~v~~~~i~~ 528 (749)
..|+. +.-...|...++ -+|-+.|.++..- +..+-+ .+.|..
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 111123322222 1244444332111 111100 001110
Q ss_pred eEEEEEEceeccccccccceEEEEEeCeeeee-EEeecceeccCCCcceEEEEEeCCCCcceeecCCccCCCCchHHHHH
Q 004492 529 KSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEA-YKRVGGMIHNGDTGRGVIGVIDDEGNGLVWVHNNKQGFLDCEPYARL 607 (749)
Q Consensus 529 k~V~it~Gf~~~e~~~~~~G~~vY~nnRLI~~-y~kvg~q~~~~~~grGVIGVve~n~d~fl~PthnKQgFe~t~~y~~L 607 (749)
..+++-. .....|+.+|.|+|+|.- .+.+-|.| .+=|-|||+++- +-|+-+-..++.+...+++
T Consensus 273 ----~~~~~~~---~~~~~~~~lyvn~v~I~d~~~~lLP~w-----l~Fv~GVVDs~d---LplnvSRE~lq~~~~l~~i 337 (613)
T PRK05218 273 ----APFDLFN---RDRKGGLKLYVKRVFIMDDAEELLPEY-----LRFVKGVIDSED---LPLNVSREILQEDRVVKKI 337 (613)
T ss_pred ----Cccchhh---hcccccEEEEECcEEeeCchhhhchHH-----HhheEEEeecCC---CCCccCHHHHhcCHHHHHH
Confidence 0011110 124689999999999954 44566763 344567899773 4567777788888888888
Q ss_pred HHHHHHHHHHHH
Q 004492 608 EEWLGKVADEYW 619 (749)
Q Consensus 608 ~~~L~e~l~eYw 619 (749)
.+.|.+++.++-
T Consensus 338 ~~~l~~kv~~~l 349 (613)
T PRK05218 338 RKAITKKVLDEL 349 (613)
T ss_pred HHHHHHHHHHHH
Confidence 887777666554
No 4
>PTZ00130 heat shock protein 90; Provisional
Probab=99.83 E-value=1.9e-20 Score=219.50 Aligned_cols=198 Identities=23% Similarity=0.312 Sum_probs=146.2
Q ss_pred CCCccccCCCCCcccccCCCCCccceeccCCCCcceeecCh-HHHHHhcccccCCHHHHHHHHHHcccccCC--------
Q 004492 201 FSPVVGDRLSSESTIETCSRPEPRAVKQAGPLEKNFVRADP-SYLQTLGQAHSGWIFGAIAELVDNSRDAKA-------- 271 (749)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~L~~lst~h~~~p~~AIaELIDNA~DA~A-------- 271 (749)
-.|.|-.|.-|-+.|++....-... ..-.|.+.- +.|+.+..+.|+++..+|+|||+||+||.+
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~-------e~~~FQaEv~~Lldiii~sLYS~keIFLRELISNAsDAldKlr~~~lt 113 (814)
T PTZ00130 41 EKEEVKKDRDNIPEIEDGEKPTSGI-------EQHQYQTEVTRLMDIIVNSLYTQKEVFLRELISNAADALEKIRFLSLS 113 (814)
T ss_pred CcchhhcccccCcccccCCCCCccc-------ceeehHHHHHHHHHHHhhccCCCCCceeehHhhhHHHHHHHHHHHHcC
Confidence 3466777777777776655422221 112255543 456667888999999999999999999964
Q ss_pred --------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCC--------C-CCCCCcccccccce
Q 004492 272 --------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQP--------D-ADDPNRIGRFGVGF 333 (749)
Q Consensus 272 --------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k--------~-~~d~~~IG~fGiGf 333 (749)
..+.|.|.. +.....|+|.|||+||++++|.+.++ ++.|.. . ..+...|||||+||
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 356777763 33567999999999999999998763 555431 1 12467999999999
Q ss_pred eeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEeccc---cCCCCcEEEEEecccc-hhhhhhhhhh-hhhhCC
Q 004492 334 KTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVS---YYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSP 408 (749)
Q Consensus 334 KsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~~---~~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySp 408 (749)
++|+| +|++|.|.||+.+. .++.|.+ .|...+.|...+ -..+||.|+|+++++. ++...+.++. |.+||.
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 99999999998763 4678877 444556654432 2358999999998754 6778888865 999999
Q ss_pred CcchhHHh
Q 004492 409 FNKYLIGE 416 (749)
Q Consensus 409 F~s~pI~e 416 (749)
|..+||..
T Consensus 263 fI~~PI~l 270 (814)
T PTZ00130 263 FIQYPIYL 270 (814)
T ss_pred cCCCCEEE
Confidence 99999974
No 5
>PRK14083 HSP90 family protein; Provisional
Probab=99.82 E-value=5.1e-19 Score=204.58 Aligned_cols=297 Identities=15% Similarity=0.154 Sum_probs=187.8
Q ss_pred HHHHHhcccccCCHHHHHHHHHHcccccCCC----------ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhh
Q 004492 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAKAT----------KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (749)
Q Consensus 242 ~~L~~lst~h~~~p~~AIaELIDNA~DA~At----------~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~ 311 (749)
..|+.++.+.|+++..+|+|||+||+||.+. .|.|.+. +.+...|+|.|||+||+.+++.+.+
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 3567778888999999999999999999764 4555441 1246799999999999999999875
Q ss_pred -hcccCCCCC-----CCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEecc--ccCCCCcE
Q 004492 312 -YFGHKQPDA-----DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIV--SYYRKGQF 383 (749)
Q Consensus 312 -~fG~s~k~~-----~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~--~~~~~Gt~ 383 (749)
.+|.|.+.. .+...||+||+||++++| +|+++.|.||+.+. ..++.|.+..++ .+.+... .-..+||+
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 678776633 135689999999988777 99999999998752 457788775444 4444431 23358999
Q ss_pred EEEEecccc-hhhhhhhhh-hhhhhCCCcchhHHhhhccccCCCCCcEEEEEcccCCCCceeeeccCCCCCCCCCCCCce
Q 004492 384 MELDTVVQS-EATAKYNLK-SIKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNGGSSFHQGDI 461 (749)
Q Consensus 384 I~l~~~~~~-e~~~~~~L~-~I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~nL~r~~~~~eLdF~~d~~~~~~~~~~DI 461 (749)
|+++++++. ++..++.++ +|.+||.|..+||... |+...|-.. ..-|..+ +.+|
T Consensus 160 I~L~l~~d~~~~~~~~~i~~li~~ys~~i~~pI~l~---------~~~~~iN~~-------~~lW~~~--------~~ei 215 (601)
T PRK14083 160 VYLRPRPDAEEWLERETVEELAKKYGSLLPVPIRVE---------GEKGGVNET-------PPPWTRD--------YPDP 215 (601)
T ss_pred EEEEecCchhhhccHHHHHHHHHHHhccCCCCcccC---------CceeeecCC-------CCCccCC--------cccc
Confidence 999997653 455556665 5999999999998621 211111100 1112111 1121
Q ss_pred eeecccccCCCCcccccCcchhhHHHHHHhhhc-CCCeEEEEcCEEecccccccccccceeecccccceEEEEEEceecc
Q 004492 462 LIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFL-VPRMKIYVQGSLVRSRPLAKSLNKTCVETGIIMGKSAHLTLGRCQL 540 (749)
Q Consensus 462 ~i~~~~~~~~~~q~~~~~~~dySLRaYLsiLYL-~PrmkI~LnG~~V~~~~i~~~L~~~~v~~~~i~~k~V~it~Gf~~~ 540 (749)
- ..+.-..+|...+|= +|-+.|.++-.- . . -..+-+.++....
T Consensus 216 t-----------------~~~eey~~Fyk~~~~~~Pl~~ih~~~e~---~-~---------------~~~~Ly~iP~~~~ 259 (601)
T PRK14083 216 E-----------------TRREALLAYGEELLGFTPLDVIPLDVPS---G-G---------------LEGVAYVLPYAVS 259 (601)
T ss_pred C-----------------ccHHHHHHHHHHhcCCCchheeeecccc---h-h---------------heEEEEecCCCCC
Confidence 0 011123455554442 454555444221 0 0 0111111221111
Q ss_pred ccccccceEEEEEeCeeee-eEEeecceeccCCCcceEEEEEeCCCCcceeecCCccCCCCchHHHHHHHHHHHHHHHHH
Q 004492 541 EWEQMNCGIFLYWHGRLIE-AYKRVGGMIHNGDTGRGVIGVIDDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYW 619 (749)
Q Consensus 541 e~~~~~~G~~vY~nnRLI~-~y~kvg~q~~~~~~grGVIGVve~n~d~fl~PthnKQgFe~t~~y~~L~~~L~e~l~eYw 619 (749)
.....|+-+|+|+=||. -.+.+.|.|- +=|=|||+++. +-++-+...++.+..++++.+.|.+++.++-
T Consensus 260 --~~~~~~v~LY~~rVfI~d~~~~lLP~wl-----~FvrGVVDS~D---LpLNvSRE~LQ~~~~l~~ir~~i~kki~~~L 329 (601)
T PRK14083 260 --PAARRKHRVYLKRMLLSEEAENLLPDWA-----FFVRCVVNTDE---LRPTASREALYEDDALAAVREELGEAIRKWL 329 (601)
T ss_pred --ccccCceEEEeeeeEeecchhhhhHHHH-----HHheeeeecCC---CCCccCHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 01346899999999994 3455666632 33456888763 4556677778888888888887777776554
No 6
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.80 E-value=1.7e-20 Score=217.91 Aligned_cols=336 Identities=21% Similarity=0.269 Sum_probs=240.7
Q ss_pred EEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecC--CCee
Q 004492 292 MLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ--GKDN 369 (749)
Q Consensus 292 ~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~--g~~~ 369 (749)
+|++.|||.||+++++..+..|+. ....+|+||.|+|+++|++|+++.++|+..+.+++++++++|.+ ....
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 478899999999999999988832 46789999999999999999999999999999999999999964 4567
Q ss_pred EEEeccccCCCCcEEEEEecccchhhhhhhhhhhhhhCCCcc--hhHHhhhccccCCCCCcEEEEEcccCCC-Cceeeec
Q 004492 370 LEIPIVSYYRKGQFMELDTVVQSEATAKYNLKSIKEFSPFNK--YLIGEKAGLFQDKCTGTQIYIWNLDQWG-SNYCLEW 446 (749)
Q Consensus 370 i~VPi~~~~~~Gt~I~l~~~~~~e~~~~~~L~~I~kySpF~s--~pI~e~~~~~~~~~~GT~IiI~nL~r~~-~~~eLdF 446 (749)
+.||+++|+.++..+.. .....++++|..||+|.. +.+.+..... ....||.++|.|+++.. +..+++|
T Consensus 75 vvvP~~t~~~~~~~~~~-------~k~~~~l~~~~c~sfwKag~~~~a~~~~~~-~~~G~~~~iivhpkflhsnatshk~ 146 (775)
T KOG1845|consen 75 VVVPCPTFNPRTREIVT-------EKFAFSLEAIYCRSFWKAGDYLLAELDVII-GKSGGTLHIIVHPKFLHSNATSHKW 146 (775)
T ss_pred ceecccccccccccccc-------cccccccchhhhcCcccccchhccccccee-ccCCceeEEEEehhhhcCCCccccc
Confidence 88999999998876643 123457888999999988 3333332222 22345999999998875 5688888
Q ss_pred cCCCCCCCCCCCCceeeecccccCCCCcccccCcchhhHHHHHHhhhcCCCeEEEEcCEEecccccccccc--cceeec-
Q 004492 447 DNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLVPRMKIYVQGSLVRSRPLAKSLN--KTCVET- 523 (749)
Q Consensus 447 ~~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~~~dySLRaYLsiLYL~PrmkI~LnG~~V~~~~i~~~L~--~~~v~~- 523 (749)
..| ..||+++++- +.++ .=+.|+.++|++|+|.|++++..|+...+..+.. .+.+..
T Consensus 147 a~~--------a~aeLldnal---------DEi~---~~~tf~~vd~I~p~~d~~i~a~~v~~~~~s~~gg~~~~~~i~~ 206 (775)
T KOG1845|consen 147 AKG--------AIAELLDNAL---------DEIT---NGATFVRVDYINPVMDIFIRALVVQLKRISDDGGGMKPEVIRK 206 (775)
T ss_pred ccC--------hhhhhccccc---------cccc---cccceEEeeeecccccccceeEEeeccceeccccccCHHHHHH
Confidence 776 4688876531 1222 1244599999999999999999999877543321 122111
Q ss_pred c---------cccceEEEEEEceeccccccccceEEEEEeCeeeeeEEeecceeccCCCcceEEEEEeCCCCcceeecCC
Q 004492 524 G---------IIMGKSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEAYKRVGGMIHNGDTGRGVIGVIDDEGNGLVWVHNN 594 (749)
Q Consensus 524 ~---------~i~~k~V~it~Gf~~~e~~~~~~G~~vY~nnRLI~~y~kvg~q~~~~~~grGVIGVve~n~d~fl~Pthn 594 (749)
. +...+..++..||... ...-|..+|+-+|. +...+.+..+.||++...| +.+|+
T Consensus 207 ~m~l~~~~k~e~~~tv~q~~~gfkts---t~rlGa~~i~~~R~---------~~~~~~kstqsiglls~tf---L~~t~- 270 (775)
T KOG1845|consen 207 CMSLGYSSKKEANSTVGQYGNGFKTS---TMRLGADAIVFSRC---------ESRRGLKSTQSIGLLSYTF---LRKTG- 270 (775)
T ss_pred HHHhhhhhhhhhhhhhhhhccccccc---hhhhccceeEeehh---------hhhccCCcceeEEEEEEee---ecccc-
Confidence 0 1111233445556542 23478888888887 2223467788899999764 78899
Q ss_pred ccCCCCchHHHHHHHHHHHHHHHHHhhccccccccc--ccCCCCCCCceeeCccchhhccCCCCCCCCCCCCCceecCCC
Q 004492 595 KQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVK--DGALYKPDQEWVQCNKCRKWRMLDPGFDTKSLPVEWFCYMKP 672 (749)
Q Consensus 595 KQgFe~t~~y~~L~~~L~e~l~eYw~~~~~~~~~~~--~~~~~~~~~~WvQCd~C~KWR~lp~~~~~~~lp~~W~C~~n~ 672 (749)
|++|..+. ++++...+...++|.. +-+.+ +..-..+.... ..|+||+..+...+ .++..|+|..++
T Consensus 271 ~~d~iv~~---~~i~~~~e~~~~~~~~----i~~~s~~~~~~n~~i~~~---~~~L~w~p~~~~~~--~l~q~~v~~~~~ 338 (775)
T KOG1845|consen 271 KRDFIVPM---RLIKMDYEKSDQLWQG----ILYKSGVDWAVNLEIEVT---ERFLKWSPYSHLLD--LLGQNSVQYSKD 338 (775)
T ss_pred CCceeEec---chhhhhhhcccccccc----eeeccccccceeeeeHHH---HHHhhcCccccHHH--Hhhhhhhhhccc
Confidence 99999887 7888888999999855 11111 11111111111 17999999998875 688899999997
Q ss_pred --CCCCCCCCcccccCCce
Q 004492 673 --FEGLCDLPEQKVDAGVV 689 (749)
Q Consensus 673 --~~~~C~~pEe~~~~~~~ 689 (749)
.+..|.+++.+....++
T Consensus 339 ~~ef~~~~~~~~~~g~~~I 357 (775)
T KOG1845|consen 339 FPEFGHQFNIMNKPGTDVI 357 (775)
T ss_pred cchhcchhhhccCCCceee
Confidence 47999999988776655
No 7
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=99.78 E-value=9.4e-19 Score=204.66 Aligned_cols=164 Identities=23% Similarity=0.297 Sum_probs=126.2
Q ss_pred HHHHHhcccccCCHHHHHHHHHHcccccCC----------------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 242 ~~L~~lst~h~~~p~~AIaELIDNA~DA~A----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
+.|+-+..+.|+++..+|+|||+||.||.. ..+.|.|.. +.+...|+|.|||+||+.+
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 355666888899999999999999999942 245666653 2345789999999999999
Q ss_pred HHHhhhh-cccCCC--------CCCCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEec-c
Q 004492 306 DVVRMTY-FGHKQP--------DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-V 375 (749)
Q Consensus 306 eL~~~~~-fG~s~k--------~~~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi-~ 375 (749)
|+.+.|+ ++.|.. ...+...|||||+||++++| +|++|.|.||+.+. .++.|.+ .+...+.|-. +
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 9998763 554421 12346799999999999888 99999999998664 5888887 4444555533 3
Q ss_pred cc-CCCCcEEEEEecccc-hhhhhhhhhh-hhhhCCCcchhHHh
Q 004492 376 SY-YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGE 416 (749)
Q Consensus 376 ~~-~~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySpF~s~pI~e 416 (749)
.+ ..+||+|+|+++++. ++...+.++. |.+||.|..+||..
T Consensus 162 ~~~~~~GT~I~L~Lk~d~~ef~~~~~i~~li~kYs~fi~~PI~l 205 (701)
T PTZ00272 162 ESDMKRGTRITLHLKEDQMEYLEPRRLKELIKKHSEFIGYDIEL 205 (701)
T ss_pred CCCCCCCCEEEEEECCchHHhccHHHHHHHHHHhccccCcceEE
Confidence 32 258999999998765 6777788865 99999999999973
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=8e-18 Score=160.57 Aligned_cols=98 Identities=34% Similarity=0.498 Sum_probs=81.6
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCC-CCCCcccccccce
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDA-DDPNRIGRFGVGF 333 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~-~d~~~IG~fGiGf 333 (749)
++.||+|||+||+||+|++|.|.|... ..+...|.|.|||.||+.++|..++.+|.+.+.. .....+|+||+|+
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 479999999999999999999999852 2356899999999999999999998998887641 2367899999999
Q ss_pred eeeeccccCeEEEEEeeCCCCcee
Q 004492 334 KTGAMRLGKDALVLTQTADSRSIA 357 (749)
Q Consensus 334 KsAsm~lg~~v~V~Tk~~~~~s~~ 357 (749)
|.|++++|+.+.|.|++.+.....
T Consensus 78 k~A~~~~~~~~~v~S~~~~~~~~~ 101 (137)
T PF13589_consen 78 KLAIFSLGDRVEVISKTNGESFTY 101 (137)
T ss_dssp GGGGGGTEEEEEEEEESTTSSSEE
T ss_pred HHHHHHhcCEEEEEEEECCCCcEE
Confidence 999999999999999999875533
No 9
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=2.1e-16 Score=173.24 Aligned_cols=159 Identities=23% Similarity=0.324 Sum_probs=120.3
Q ss_pred cccccCCHHHHHHHHHHcccccCC----------------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhh
Q 004492 248 GQAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (749)
Q Consensus 248 st~h~~~p~~AIaELIDNA~DA~A----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~ 311 (749)
-.++|++-..+++|||.||.||-. ..++|.|.. +.....|.|.|.|+||++++|.+++
T Consensus 89 INSLY~NKeIFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~------Dke~klLhi~DtGiGMT~edLi~NL 162 (785)
T KOG0020|consen 89 INSLYRNKEIFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKA------DKEKKLLHITDTGIGMTREDLIKNL 162 (785)
T ss_pred HHHHhhhhHHHHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEee------chhhCeeeEecccCCccHHHHHHhh
Confidence 344567788999999999999932 456677764 4467899999999999999999988
Q ss_pred h-cccCC--------CCCC-----CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEecccc
Q 004492 312 Y-FGHKQ--------PDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSY 377 (749)
Q Consensus 312 ~-fG~s~--------k~~~-----d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~~~ 377 (749)
+ +..|. .... ....|||||+||++|++ ++++|.|+||+++. ..++|.+. ...+.|-..+|
T Consensus 163 GTIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfL-VAD~vvVtsKhNdD--~QyiWESd---an~FsvseDpr 236 (785)
T KOG0020|consen 163 GTIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFL-VADRVVVTSKHNDD--SQYIWESD---ANSFSVSEDPR 236 (785)
T ss_pred hhhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhh-hcceEEEEeccCCc--cceeeecc---CcceeeecCCC
Confidence 5 22221 1111 14689999999999888 99999999999875 34566652 23566655555
Q ss_pred C---CCCcEEEEEecccc-hhhhhhhhhh-hhhhCCCcchhHHhhh
Q 004492 378 Y---RKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKA 418 (749)
Q Consensus 378 ~---~~Gt~I~l~~~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~ 418 (749)
. .+||.|+++++++. +++.+..++. +.+||.|+++||..+.
T Consensus 237 g~tL~RGt~ItL~LkeEA~dyLE~dtlkeLvkkYSqFINFpI~lWs 282 (785)
T KOG0020|consen 237 GNTLGRGTEITLYLKEEAGDYLEEDTLKELVKKYSQFINFPISLWS 282 (785)
T ss_pred CCcccCccEEEEEehhhhhhhcchhHHHHHHHHHHHhcCCceeeee
Confidence 4 47999999998764 6777777765 9999999999997553
No 10
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=3.2e-16 Score=176.31 Aligned_cols=159 Identities=28% Similarity=0.368 Sum_probs=124.5
Q ss_pred cccccCCHHHHHHHHHHcccccCC--------------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-
Q 004492 248 GQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY- 312 (749)
Q Consensus 248 st~h~~~p~~AIaELIDNA~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~- 312 (749)
..+.|++-...++|||.||.||.. ..+.|.|.. +.+...|+|.|+|+||+++||.++++
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 556667778999999999999932 455666653 44688999999999999999999885
Q ss_pred --------cccCCC-CCCCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEeccccCCCCcE
Q 004492 313 --------FGHKQP-DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQF 383 (749)
Q Consensus 313 --------fG~s~k-~~~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~~~~~~Gt~ 383 (749)
|....+ ...+...|||||+||++|++ ++.+|.|+||+.+.. ++.|.+ .+...+.|...+-..+||.
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 222223 34467899999999999998 999999999998764 677766 3344566655444678999
Q ss_pred EEEEecc-cchhhhhhhhhh-hhhhCCCcchhHHhh
Q 004492 384 MELDTVV-QSEATAKYNLKS-IKEFSPFNKYLIGEK 417 (749)
Q Consensus 384 I~l~~~~-~~e~~~~~~L~~-I~kySpF~s~pI~e~ 417 (749)
|+++++. +.++..+..++. +.+||.|..+||.-.
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 9999987 557777777765 999999999999844
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=2.8e-16 Score=126.06 Aligned_cols=45 Identities=44% Similarity=1.005 Sum_probs=31.3
Q ss_pred CceeeCccchhhccCCCCCCC--CCCCCCceecCCCC--CCCCCCCccc
Q 004492 639 QEWVQCNKCRKWRMLDPGFDT--KSLPVEWFCYMKPF--EGLCDLPEQK 683 (749)
Q Consensus 639 ~~WvQCd~C~KWR~lp~~~~~--~~lp~~W~C~~n~~--~~~C~~pEe~ 683 (749)
+.|||||.|+|||+||.+++. ..+|+.|+|+||++ +++|++|||.
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 479999999999999999876 78999999999985 6999999986
No 12
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.54 E-value=2e-13 Score=159.62 Aligned_cols=108 Identities=22% Similarity=0.386 Sum_probs=85.6
Q ss_pred eeecChHHHHHh-cccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-c
Q 004492 236 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-F 313 (749)
Q Consensus 236 ~~~~~p~~L~~l-st~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-f 313 (749)
+..+++...+.+ +...+..|.+||+|||+||+||||++|+|.++ .+|...|.|.|||+||+++|+.-++. .
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 577899999999 44567899999999999999999999999998 56788899999999999999999875 4
Q ss_pred ccCC-CCCCCCCcccccccceeee---eccccCeEEEEEeeCC
Q 004492 314 GHKQ-PDADDPNRIGRFGVGFKTG---AMRLGKDALVLTQTAD 352 (749)
Q Consensus 314 G~s~-k~~~d~~~IG~fGiGfKsA---sm~lg~~v~V~Tk~~~ 352 (749)
.+|. ...+|...|-.| ||..- ++.-..+++|.||+.+
T Consensus 77 aTSKI~~~~DL~~I~Tl--GFRGEAL~SIasVsrlti~Srt~~ 117 (638)
T COG0323 77 ATSKIASLEDLFRIRTL--GFRGEALASIASVSRLTITSRTAE 117 (638)
T ss_pred ccccCCchhHHHHhhcc--CccHHHHHHHHhhheeEEEeecCC
Confidence 4432 222345556655 78754 4455689999999654
No 13
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.48 E-value=2.2e-12 Score=150.96 Aligned_cols=109 Identities=22% Similarity=0.294 Sum_probs=84.0
Q ss_pred eeecChHHHHHh-cccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcc
Q 004492 236 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFG 314 (749)
Q Consensus 236 ~~~~~p~~L~~l-st~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG 314 (749)
+..+++..+..+ |...+.+|.++|+|||+||+||||+.|.|.+.. ++...|+|.|||.||+.+++..++...
T Consensus 3 I~~L~~~v~~~IaAgevI~~~~svvkElveNsiDAgat~I~v~i~~-------~g~~~i~V~DnG~Gi~~~~~~~~~~~~ 75 (617)
T PRK00095 3 IQLLPPQLANQIAAGEVVERPASVVKELVENALDAGATRIDIEIEE-------GGLKLIRVRDNGCGISKEDLALALARH 75 (617)
T ss_pred ceECCHHHHHHhcCcCcccCHHHHHHHHHHHHHhCCCCEEEEEEEe-------CCeEEEEEEEcCCCCCHHHHHHHhhcc
Confidence 567899999999 445678999999999999999999999999962 356789999999999999999987644
Q ss_pred cCCCCCC--C---CCcccccccceeeeeccccCeEEEEEeeCCC
Q 004492 315 HKQPDAD--D---PNRIGRFGVGFKTGAMRLGKDALVLTQTADS 353 (749)
Q Consensus 315 ~s~k~~~--d---~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~ 353 (749)
.++|... + ....|..|.|+.+.+ .+ .+++|.||+.+.
T Consensus 76 ~tsKi~~~~dl~~~~t~GfrGeAL~sI~-~v-s~l~i~s~~~~~ 117 (617)
T PRK00095 76 ATSKIASLDDLEAIRTLGFRGEALPSIA-SV-SRLTLTSRTADA 117 (617)
T ss_pred CCCCCCChhHhhccccCCcchhHHHhhh-hc-eEEEEEEecCCC
Confidence 4444321 2 245677777763322 34 489999998754
No 14
>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=99.28 E-value=1.9e-11 Score=131.94 Aligned_cols=139 Identities=19% Similarity=0.262 Sum_probs=95.1
Q ss_pred eeecChHHHHHh-cccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcc
Q 004492 236 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFG 314 (749)
Q Consensus 236 ~~~~~p~~L~~l-st~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG 314 (749)
+.++++...+.+ |.+.+.++..||.|||+||+||+|+.|.|.+.. ++...|.|.|||.||+.+++..++.-+
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 467899999999 445567999999999999999999999888763 234569999999999999999987533
Q ss_pred cCCCCC-----CCCCcccccccceeeeeccccCeEEEEEee-CCCCceeEEEeeecCCCeeEEEeccccCCCCcEEEEE
Q 004492 315 HKQPDA-----DDPNRIGRFGVGFKTGAMRLGKDALVLTQT-ADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 387 (749)
Q Consensus 315 ~s~k~~-----~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~-~~~~s~~~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l~ 387 (749)
.+.+.. ......|..|.|+.+ ...++ +++|.|++ .+. ..++.+. . .|. .+.-....-...||.|++.
T Consensus 76 ~tsk~~~~~~~~~~~~~G~rG~al~s-i~~~s-~~~i~S~~~~~~-~~~~~~~-~-~g~-~~~~~~~~~~~~GTtV~v~ 148 (312)
T TIGR00585 76 ATSKIQSFEDLERIETLGFRGEALAS-ISSVS-RLTITTKTSAAD-GLAWQAL-L-EGG-MIEEIKPAPRPVGTTVEVR 148 (312)
T ss_pred CcCCCCChhHhhcccccCccchHHHH-HHhhC-cEEEEEeecCCC-cceEEEE-E-CCC-cCcccccccCCCccEEEEc
Confidence 333321 134577888998833 33345 89999998 333 3343333 2 222 1110112223579998774
No 15
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.22 E-value=1.8e-11 Score=134.95 Aligned_cols=157 Identities=21% Similarity=0.221 Sum_probs=115.1
Q ss_pred ccCCCCcceeecChHHHHHhcccccCCHHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCC
Q 004492 228 QAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGM 302 (749)
Q Consensus 228 ~~~~~~~~~~~~~p~~L~~lst~h~~~p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GM 302 (749)
++..++..+|+-++..|.--+.. ..+.++|.|||+||+||.. ..|.|.|+.. +.+-..+.|+|||.||
T Consensus 12 ~re~SvAEFF~kNk~mlGf~~p~--RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~-----~~d~y~v~veDNGpGI 84 (538)
T COG1389 12 FRELSVAEFFRKNKEMLGFDGPI--RSLTTTVHELVTNSLDACEEAGILPDIKVEIERI-----GKDHYKVIVEDNGPGI 84 (538)
T ss_pred hhhcCHHHHHHhCHHhcCCCCch--hHHHHHHHHHHhcchhhHHhcCCCCceEEEEEec-----CCceEEEEEecCCCCC
Confidence 55666677777777666443433 4688999999999999953 6888888853 4567889999999999
Q ss_pred CHHHHHhhhh-cccCCCCCCCCCcccccccceeeee----ccccCeEEEEEeeCCCCceeEEEeeecC-CCeeEEEeccc
Q 004492 303 THQDVVRMTY-FGHKQPDADDPNRIGRFGVGFKTGA----MRLGKDALVLTQTADSRSIAFLSQSLNQ-GKDNLEIPIVS 376 (749)
Q Consensus 303 t~~eL~~~~~-fG~s~k~~~d~~~IG~fGiGfKsAs----m~lg~~v~V~Tk~~~~~s~~~ls~sf~~-g~~~i~VPi~~ 376 (749)
+.+.+.++|+ +-.+++.....+..||+|+|.+.|. |..|+.+.|+|.+.++......+..... .++..+|....
T Consensus 85 P~e~IPkvFGk~LygSKfh~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~ 164 (538)
T COG1389 85 PEEQIPKVFGKMLYGSKFHRNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGE 164 (538)
T ss_pred ChhHhHHHHHHHhccchhhhhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhccc
Confidence 9999999985 3333343345789999999997654 5789999999999987666666654432 34445554422
Q ss_pred cC----CCCcEEEEEeccc
Q 004492 377 YY----RKGQFMELDTVVQ 391 (749)
Q Consensus 377 ~~----~~Gt~I~l~~~~~ 391 (749)
+. -+||.|+++++..
T Consensus 165 ~~~~~~~hGT~Vel~~~~~ 183 (538)
T COG1389 165 VENPGGWHGTRVELELKGV 183 (538)
T ss_pred ccCCCCCCceEEEEEeccc
Confidence 32 3799999988753
No 16
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=98.98 E-value=1.3e-09 Score=122.86 Aligned_cols=141 Identities=21% Similarity=0.355 Sum_probs=105.0
Q ss_pred ceeecChHHHHHhc-ccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhh-h
Q 004492 235 NFVRADPSYLQTLG-QAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT-Y 312 (749)
Q Consensus 235 ~~~~~~p~~L~~ls-t~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~-~ 312 (749)
.+-+++..++.+++ ...+..|..||+|||+||+||+++.|.|.+. ++|...|.|.|||.||.++||.-+- +
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 45789999999994 3566799999999999999999999999887 5678899999999999999998764 6
Q ss_pred cccCCC-CCCCCCccccccccee---eeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEeccccCCCCcEEEEE
Q 004492 313 FGHKQP-DADDPNRIGRFGVGFK---TGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 387 (749)
Q Consensus 313 fG~s~k-~~~d~~~IG~fGiGfK---sAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l~ 387 (749)
|.+|.- ..+|...+..| ||. .|+++-..+|+|.||+.+.... +-.+|.+|.-. .-|.+.--..||.|+++
T Consensus 80 ftTSKL~kFEDL~~lsTy--GFRGEALASiShVA~VtV~TK~~~~~ca--yrasY~DGkm~-~~pKpcAgk~GT~I~ve 153 (694)
T KOG1979|consen 80 FTTSKLTKFEDLFSLSTY--GFRGEALASISHVAHVTVTTKTAEGKCA--YRASYRDGKMI-ATPKPCAGKQGTIITVE 153 (694)
T ss_pred hhhhhcchhHHHHhhhhc--CccHHHHhhhhheeEEEEEEeecCceee--eEEEeeccccc-cCCCCccCCCceEEEeh
Confidence 877643 23467777777 666 4677788999999999886432 22334343211 11444444578888663
No 17
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=98.87 E-value=1.2e-08 Score=119.84 Aligned_cols=94 Identities=24% Similarity=0.315 Sum_probs=70.0
Q ss_pred CHHHHHHHHHHcccccCCC-----ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccc
Q 004492 254 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIG 327 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG 327 (749)
++..+|.|||+||+||++. .|.|.+.. .+....|.|.|||.||+++++.++|. |.++++........|
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 4779999999999999865 46666653 22345799999999999999999985 554444222235678
Q ss_pred ccccceeeeec----cccCeEEEEEeeCCC
Q 004492 328 RFGVGFKTGAM----RLGKDALVLTQTADS 353 (749)
Q Consensus 328 ~fGiGfKsAsm----~lg~~v~V~Tk~~~~ 353 (749)
+.|+|+.++.+ .-|..+.|.|+..+.
T Consensus 120 ~rG~GLglai~~sqlt~GgpI~I~S~~~~~ 149 (795)
T PRK14868 120 QQGIGISAAVLYSQLTSGKPAKITSRTQGS 149 (795)
T ss_pred CCceehHHHHHHHHHcCCCcEEEEeCCCCC
Confidence 89999876543 347889999988664
No 18
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=98.86 E-value=1.2e-08 Score=117.27 Aligned_cols=121 Identities=22% Similarity=0.304 Sum_probs=77.5
Q ss_pred ccCCCCcceeecChHHHHHhcccccCCHHHHHHHHHHcccccCCC-----ccEEEEEeceeccCCCCccEEEEEeCCCCC
Q 004492 228 QAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGM 302 (749)
Q Consensus 228 ~~~~~~~~~~~~~p~~L~~lst~h~~~p~~AIaELIDNA~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GM 302 (749)
+++.++..+|.-++..+.--+.. ..+..+|.|||+||+||.+. .|.|.+... ..+++...|.|.|||.||
T Consensus 12 ~~~~s~aEfF~kn~~~~gf~~p~--~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~---~~~~~~~~I~V~DNG~GI 86 (535)
T PRK04184 12 FREISVAEFFEKNKELLGFDNPA--RALYTTVKELVDNSLDACEEAGILPDIKIEIKRV---DEGKDHYRVTVEDNGPGI 86 (535)
T ss_pred hhhCCHHHHHHhCccceeecCCH--HHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEc---cCCCcEEEEEEEcCCCCC
Confidence 34444444454444443222211 12579999999999999865 466666531 002245679999999999
Q ss_pred CHHHHHhhhh-cccCCCCCCCCCcccccccceeeeec----cccCeEEEEEeeCCC
Q 004492 303 THQDVVRMTY-FGHKQPDADDPNRIGRFGVGFKTGAM----RLGKDALVLTQTADS 353 (749)
Q Consensus 303 t~~eL~~~~~-fG~s~k~~~d~~~IG~fGiGfKsAsm----~lg~~v~V~Tk~~~~ 353 (749)
+++++..+|. |..+.+........|.+|+|+..+.+ ..|..+.|.|+..+.
T Consensus 87 p~e~l~~iF~~f~~~SK~~~~~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g 142 (535)
T PRK04184 87 PPEEIPKVFGKLLYGSKFHNLRQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGS 142 (535)
T ss_pred CHHHHHHHhhhhhccccccccccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCC
Confidence 9999999874 43333321114567999999976542 236679999987654
No 19
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=98.85 E-value=4.9e-09 Score=120.71 Aligned_cols=105 Identities=21% Similarity=0.296 Sum_probs=75.9
Q ss_pred ecChHHHHHh-cccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhh-hhccc
Q 004492 238 RADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM-TYFGH 315 (749)
Q Consensus 238 ~~~p~~L~~l-st~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~-~~fG~ 315 (749)
.+++...|.+ +.+.+.++..||+|||+||+||||+.|+|.++ +.|...|.|.|||+|++..++.-+ +...+
T Consensus 3 ~i~~~tvhrI~S~qvI~sl~sAVKELvENSiDAGAT~I~I~~k-------dyG~d~IEV~DNG~GI~~~n~~~l~lkh~T 75 (672)
T KOG1978|consen 3 QIPKDTVHRICSSQVITSLVSAVKELVENSIDAGATAIDIKVK-------DYGSDSIEVSDNGSGISATDFEGLALKHTT 75 (672)
T ss_pred CCChhhhhccccCCeeccHHHHHHHHHhcCcccCCceeeEecC-------CCCcceEEEecCCCCCCccchhhhhhhhhh
Confidence 4677888888 44556689999999999999999999999987 347889999999999999998774 22222
Q ss_pred CC-CCCCCCCcccccccceeeeec---cccCeEEEEEeeC
Q 004492 316 KQ-PDADDPNRIGRFGVGFKTGAM---RLGKDALVLTQTA 351 (749)
Q Consensus 316 s~-k~~~d~~~IG~fGiGfKsAsm---~lg~~v~V~Tk~~ 351 (749)
|. ....|. ..-+-.||..-++ .--.+++|.|++.
T Consensus 76 SKi~~f~Dl--~~l~T~GFRGEALSsLCa~~dv~I~Trt~ 113 (672)
T KOG1978|consen 76 SKIVSFADL--AVLFTLGFRGEALSSLCALGDVMISTRSH 113 (672)
T ss_pred hcccchhhh--hhhhhhhhHHHHHHhhhhccceEEEEeec
Confidence 21 122232 2334457765443 2337888888886
No 20
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=98.69 E-value=3.8e-08 Score=112.02 Aligned_cols=96 Identities=25% Similarity=0.315 Sum_probs=70.7
Q ss_pred CHHHHHHHHHHcccccCCC-----ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccc
Q 004492 254 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIG 327 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG 327 (749)
.+..++.|||+||+||.+. .|.|.+... +.+...|.|.|||.||+++++..+|. |..+.+........|
T Consensus 28 ~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~-----g~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK~~~~~~s~G 102 (488)
T TIGR01052 28 SLTTVIHELVTNSLDACEEAGILPDIKVEIEKI-----GKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSRG 102 (488)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCceEEEEEEEC-----CCceEEEEEEECCCCCCHHHHHhhhhhccccCccccccccCC
Confidence 4679999999999999875 566666531 11234799999999999999999885 555544322356679
Q ss_pred ccccceeeeec----cccCeEEEEEeeCCCC
Q 004492 328 RFGVGFKTGAM----RLGKDALVLTQTADSR 354 (749)
Q Consensus 328 ~fGiGfKsAsm----~lg~~v~V~Tk~~~~~ 354 (749)
..|+|+.++.+ ..|..+.|.|+..+..
T Consensus 103 ~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~ 133 (488)
T TIGR01052 103 QQGIGISGAVLYSQMTTGKPVKVISSTGGEI 133 (488)
T ss_pred CccEehhHHHHHHHHcCCceEEEEEecCCce
Confidence 99999965443 3456699999988653
No 21
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=98.49 E-value=5.3e-07 Score=106.28 Aligned_cols=123 Identities=15% Similarity=0.159 Sum_probs=84.7
Q ss_pred CCHHHHHHHHHHccccc----CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCC
Q 004492 253 GWIFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPD 319 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~ 319 (749)
.-+...|.||||||+|+ .|+.|.|.+.. ...|+|.|||.||+.+.... +|. +..+.+.
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 46889999999999998 78999999873 24899999999999988876 443 2333332
Q ss_pred CC--CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEec-ccc--CCCCcEEEEEec
Q 004492 320 AD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDTV 389 (749)
Q Consensus 320 ~~--d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi-~~~--~~~Gt~I~l~~~ 389 (749)
.. -....|..|+|.++ .-.++..++|.|++++.. +.++|..|...-.++. ... ...||.|++.+.
T Consensus 107 ~~~~yk~SgGl~GvGls~-vNalS~~l~V~s~r~g~~----~~~~f~~G~~~~~l~~~~~~~~~~~GT~V~f~PD 176 (631)
T PRK05559 107 SNKAYKFSGGLHGVGVSV-VNALSSRLEVEVKRDGKV----YRQRFEGGDPVGPLEVVGTAGKRKTGTRVRFWPD 176 (631)
T ss_pred CCccccccCcccccchhh-hhhheeeEEEEEEeCCeE----EEEEEECCcCccCccccccccCCCCCcEEEEEEC
Confidence 11 23678999999954 445889999999987642 4455544421111111 111 457999988653
No 22
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=98.43 E-value=6.6e-07 Score=105.32 Aligned_cols=121 Identities=17% Similarity=0.160 Sum_probs=82.4
Q ss_pred HHHHHHHHHHcccc---c-CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHH--------HHhhhh-cccCCCCCC
Q 004492 255 IFGAIAELVDNSRD---A-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD--------VVRMTY-FGHKQPDAD 321 (749)
Q Consensus 255 p~~AIaELIDNA~D---A-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~e--------L~~~~~-fG~s~k~~~ 321 (749)
|..+|.||||||+| | +|++|.|.|.. ...|+|.|||.||+.++ +.-+|. ...+.+...
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 56789999999999 9 69999999872 26899999999999988 555552 322333211
Q ss_pred --CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEec-ccc--CCCCcEEEEEec
Q 004492 322 --DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDTV 389 (749)
Q Consensus 322 --d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi-~~~--~~~Gt~I~l~~~ 389 (749)
-....|.-|+|+++ .-.++..+.|.|++++.. +.++|..|.-...++. ... ...||.|++.+.
T Consensus 102 ~~~~~SgG~~GvGls~-vnalS~~l~v~~~r~g~~----~~~~~~~G~~~~~~~~i~~~~~~~~GT~V~F~PD 169 (625)
T TIGR01055 102 KNYHFSGGLHGVGISV-VNALSKRVKIKVYRQGKL----YSIAFENGAKVTDLISAGTCGKRLTGTSVHFTPD 169 (625)
T ss_pred CcceecCCCcchhHHH-HHHhcCeEEEEEEECCeE----EEEEEECCeEccccccccccCCCCCCeEEEEEEC
Confidence 23678999999954 445899999999987753 4555644421111121 122 237999987553
No 23
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=98.28 E-value=4.1e-06 Score=100.14 Aligned_cols=120 Identities=17% Similarity=0.183 Sum_probs=79.5
Q ss_pred HHHHHHHHHHcccc---cC-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH----------HHHhhhhcccCCCCC
Q 004492 255 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ----------DVVRMTYFGHKQPDA 320 (749)
Q Consensus 255 p~~AIaELIDNA~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~----------eL~~~~~fG~s~k~~ 320 (749)
+...+.||||||+| || |+.|.|.|.. ...|+|.|||.||+.+ |+.-. .+..+.|..
T Consensus 38 Lhhlv~EivdNaiDE~~AG~a~~I~V~i~~---------dgsIsV~DnGrGIPvd~h~~~g~~~~Elvlt-~lhAggKfd 107 (756)
T PRK14939 38 LHHMVYEVVDNAIDEALAGHCDDITVTIHA---------DGSVSVSDNGRGIPTDIHPEEGVSAAEVIMT-VLHAGGKFD 107 (756)
T ss_pred hhhhhhHhhcccccccccCCCCEEEEEEcC---------CCeEEEEEcCCcccCCcccccCCchhhheee-eecccCCCC
Confidence 45789999999999 99 9999999872 2489999999999987 32211 122222321
Q ss_pred C--CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEe-ccccCCCCcEEEEEec
Q 004492 321 D--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDTV 389 (749)
Q Consensus 321 ~--d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VP-i~~~~~~Gt~I~l~~~ 389 (749)
+ -..+.|..|+|.+ +.-.++..+.|.|++++.. +.++|..|.-.-.++ +..-...||.|++.+.
T Consensus 108 ~~~ykvSgGlhGvG~s-vvNAlS~~l~v~v~r~gk~----~~q~f~~G~~~~~l~~~g~~~~~GT~V~F~PD 174 (756)
T PRK14939 108 QNSYKVSGGLHGVGVS-VVNALSEWLELTIRRDGKI----HEQEFEHGVPVAPLKVVGETDKTGTEVRFWPS 174 (756)
T ss_pred CCcccccCCccCccce-EeehccCeEEEEEEeCCeE----EEEEEecCccccCccccCCcCCCCcEEEEEEC
Confidence 1 2346799999994 4445899999999987752 556664442111111 1222457999987654
No 24
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.26 E-value=3.4e-06 Score=99.13 Aligned_cols=94 Identities=26% Similarity=0.284 Sum_probs=68.2
Q ss_pred HHHHHHHHHHcccccCCC-----ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccc
Q 004492 255 IFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGR 328 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~ 328 (749)
+..++.|||+||+||++. .|.|.+... +.+...|.|.|||.||+++++..+|. |...++........|.
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 458999999999999875 577776531 22335699999999999999999985 4443332222366788
Q ss_pred cccceeeee----ccccCeEEEEEeeCCC
Q 004492 329 FGVGFKTGA----MRLGKDALVLTQTADS 353 (749)
Q Consensus 329 fGiGfKsAs----m~lg~~v~V~Tk~~~~ 353 (749)
.|+|+.++. +..|..+.|.|+..+.
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 999986554 3347788999987544
No 25
>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=5.5e-06 Score=98.29 Aligned_cols=121 Identities=17% Similarity=0.117 Sum_probs=78.0
Q ss_pred HHHHHHHHHHcccc---cC-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHH--------hhhh-cccCCCCC-
Q 004492 255 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV--------RMTY-FGHKQPDA- 320 (749)
Q Consensus 255 p~~AIaELIDNA~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~--------~~~~-fG~s~k~~- 320 (749)
+...|.|||+||+| || |+.|.|.|.. ...|+|.|||.||+.+.-. .+|. +..+.+..
T Consensus 31 l~~vv~Elv~NaiDe~~ag~a~~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~ag~kf~~ 101 (654)
T TIGR01059 31 LHHLVYEVVDNSIDEAMAGYCDTINVTIND---------DGSVTVEDNGRGIPVDIHPEEGISAVEVVLTVLHAGGKFDK 101 (654)
T ss_pred HHhhhHHhhhccccccccCCCCEEEEEEeC---------CCcEEEEEeCCCcCccccCcCCCCchHHheeeecccCccCC
Confidence 56889999999999 99 9999999872 2359999999999976211 1122 11222211
Q ss_pred -CCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEe-ccccCCCCcEEEEEec
Q 004492 321 -DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDTV 389 (749)
Q Consensus 321 -~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VP-i~~~~~~Gt~I~l~~~ 389 (749)
.-....|.-|+|+++. -.++..++|.|++++.. +.++|..|.-.-.+. ...-...||.|+....
T Consensus 102 ~~~k~s~G~~G~gl~~i-nalS~~l~v~~~~~g~~----~~~~~~~G~~~~~l~~~~~~~~~GT~V~F~pd 167 (654)
T TIGR01059 102 DSYKVSGGLHGVGVSVV-NALSEWLEVTVFRDGKI----YRQEFERGIPLGPLEVVGETKKTGTTVRFWPD 167 (654)
T ss_pred CcceecCCccchhHHHH-HHhcCeEEEEEEECCeE----EEEEEeCCCcccCceeccCCCCCCcEEEEEEC
Confidence 1246789999999544 44889999999987652 445554442111000 1122357999986654
No 26
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=98.23 E-value=6.9e-06 Score=97.12 Aligned_cols=120 Identities=18% Similarity=0.183 Sum_probs=77.6
Q ss_pred HHHHHHHHHHcccc---cC-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCCCC
Q 004492 255 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDAD 321 (749)
Q Consensus 255 p~~AIaELIDNA~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~~~ 321 (749)
+...|.|||+||+| || |+.|.|.|.. ...|+|.|||.||+.+.-.. +|. ...+.+..+
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 45789999999999 99 9999999872 23899999999999863221 222 112222211
Q ss_pred --CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEe-ccccCCCCcEEEEEe
Q 004492 322 --DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDT 388 (749)
Q Consensus 322 --d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VP-i~~~~~~Gt~I~l~~ 388 (749)
-....|..|+|+++. -.++..++|.|++.+. .+.++|..|.-.-.++ +..-...||.|+..+
T Consensus 109 ~~yk~s~G~~G~Gls~v-nalS~~~~v~t~r~g~----~~~~~~~~G~~~~~~~~~~~~~~~GT~I~F~P 173 (638)
T PRK05644 109 GGYKVSGGLHGVGVSVV-NALSTWLEVEVKRDGK----IYYQEYERGVPVTPLEVIGETDETGTTVTFKP 173 (638)
T ss_pred CcccccCCccccchhhh-hheeceEEEEEEeCCc----EEEEEEECCeEccCccccCCcCCCCcEEEEEE
Confidence 234789999999544 4488999999998765 2344554442110111 111235799998654
No 27
>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=98.21 E-value=1e-06 Score=79.81 Aligned_cols=88 Identities=20% Similarity=0.320 Sum_probs=64.0
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
+..+|.||++||+++... .|.|.+.. ..+...|.|.|||.||+.+++..++.-..+... +....+.+|+|
T Consensus 6 l~~il~~ll~Na~~~~~~~~~I~i~~~~------~~~~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~--~~~~~~g~GlG 77 (111)
T PF02518_consen 6 LRQILSELLDNAIKHSPEGGKIDITIEE------DDDHLSIEISDNGVGIPPEELEKLFEPFFTSDK--SETSISGHGLG 77 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHTSEEEEEEEE------ETTEEEEEEEESSSSTTHHHHHHHCSTTSHSSS--SSGGSSSSSHH
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEEEE------ecCeEEEEEEeccccccccccccchhhcccccc--cccccCCCChH
Confidence 568999999999999665 78877774 335789999999999999999998853322221 34556679999
Q ss_pred eeeeec---cccCeEEEEEee
Q 004492 333 FKTGAM---RLGKDALVLTQT 350 (749)
Q Consensus 333 fKsAsm---~lg~~v~V~Tk~ 350 (749)
++.+.. .++.++.+.+..
T Consensus 78 L~~~~~~~~~~~g~l~~~~~~ 98 (111)
T PF02518_consen 78 LYIVKQIAERHGGELTIESSE 98 (111)
T ss_dssp HHHHHHHHHHTTEEEEEEEET
T ss_pred HHHHHHHHHHCCCEEEEEEcC
Confidence 875433 355666666654
No 28
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=98.21 E-value=4.7e-06 Score=97.85 Aligned_cols=116 Identities=20% Similarity=0.236 Sum_probs=74.5
Q ss_pred HHHHHHHcccccC----CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCCC--CC
Q 004492 258 AIAELVDNSRDAK----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDA--DD 322 (749)
Q Consensus 258 AIaELIDNA~DA~----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~~--~d 322 (749)
.|.||||||+||+ |+.|+|.|.. ...|+|.|||.||+.+.... +|. +..+.+.. ..
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---------DNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAY 75 (594)
T ss_pred EEeeehhcccchhccCCCCEEEEEEeC---------CCeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCCCc
Confidence 4789999999997 9999999873 13999999999998644321 121 11112211 12
Q ss_pred CCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecC-CCe--eEEEeccccCCCCcEEEEEe
Q 004492 323 PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ-GKD--NLEIPIVSYYRKGQFMELDT 388 (749)
Q Consensus 323 ~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~-g~~--~i~VPi~~~~~~Gt~I~l~~ 388 (749)
....|..|+|++ +.-.++..++|.|++.+.. +.++|.. |.- ...+ ...-...||.|+..+
T Consensus 76 k~s~G~~G~Gls-~vnalS~~l~v~~~~~g~~----~~~~~~~~G~~~~~~~~-~~~~~~~GT~V~F~P 138 (594)
T smart00433 76 KVSGGLHGVGAS-VVNALSTEFEVEVARDGKE----YKQSFSNNGKPLSEPKI-IGDTKKDGTKVTFKP 138 (594)
T ss_pred cccCCcccchHH-HHHHhcCceEEEEEeCCcE----EEEEEeCCCeECcccee-cCCCCCCCcEEEEEE
Confidence 457899999994 4445889999999998653 4455533 321 1111 111235799998654
No 29
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=98.05 E-value=2.7e-06 Score=98.20 Aligned_cols=104 Identities=21% Similarity=0.298 Sum_probs=67.4
Q ss_pred ChHHHHHh-cccccCCHHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhh-hcccC-
Q 004492 240 DPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT-YFGHK- 316 (749)
Q Consensus 240 ~p~~L~~l-st~h~~~p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~-~fG~s- 316 (749)
+..+=+++ |...+.++..++.|||-||+||+|+.|.|.+.. ....+.|.|||.||.++||..+- ++.+|
T Consensus 6 ~~~V~~~lrSg~~~~sla~~VeElv~NSiDA~At~V~v~V~~--------~t~sv~ViDdG~G~~rdDl~~lg~ry~TSK 77 (1142)
T KOG1977|consen 6 SVEVQAKLRSGLAISSLAQCVEELVLNSIDAEATCVAVRVNM--------ETFSVQVIDDGFGMGRDDLEKLGNRYFTSK 77 (1142)
T ss_pred chhHHHHHhccchHHHHHHHHHHHHhhccccCceEEEEEecC--------ceeEEEEEecCCCccHHHHHHHHhhhhhhh
Confidence 33444555 333345788999999999999999999999875 35789999999999999998764 22222
Q ss_pred CCCCCCCCcccccccceeeeec---cccCeEEEEEeeCCC
Q 004492 317 QPDADDPNRIGRFGVGFKTGAM---RLGKDALVLTQTADS 353 (749)
Q Consensus 317 ~k~~~d~~~IG~fGiGfKsAsm---~lg~~v~V~Tk~~~~ 353 (749)
-...++...--.| ||...++ .--..+.|+|++.+.
T Consensus 78 ~h~~ndl~~~~ty--GfRGeALasIsd~s~l~v~skkk~r 115 (1142)
T KOG1977|consen 78 CHSVNDLENPRTY--GFRGEALASISDMSSLVVISKKKNR 115 (1142)
T ss_pred ceecccccccccc--ccchhhhhhhhhhhhhhhhhhhcCC
Confidence 1111233333344 5554332 222455666766553
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=97.55 E-value=0.00031 Score=83.26 Aligned_cols=120 Identities=18% Similarity=0.206 Sum_probs=74.9
Q ss_pred HHHHHHHHHHcccc----cCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCCCC
Q 004492 255 IFGAIAELVDNSRD----AKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDAD 321 (749)
Q Consensus 255 p~~AIaELIDNA~D----A~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~~~ 321 (749)
+...+.|+||||+| ..++.|.|.|.. ...|+|.|||.||+-+--.. .|. +..+.+..+
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 34567899999999 357899998862 35899999999998642111 121 111222111
Q ss_pred --CCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCC-C--eeEEEeccccCCCCcEEEEEec
Q 004492 322 --DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQG-K--DNLEIPIVSYYRKGQFMELDTV 389 (749)
Q Consensus 322 --d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g-~--~~i~VPi~~~~~~Gt~I~l~~~ 389 (749)
-...-|..|+|. ++.-.|...+.|.+++++. .+.++|..| . ....+. ..-..+||.|+..+.
T Consensus 106 ~~ykvSGGlhGvG~-svvNAlS~~~~V~v~r~gk----~~~q~f~~Gg~~~~~l~~~-~~~~~~GT~V~F~PD 172 (637)
T TIGR01058 106 GGYKTAGGLHGVGA-SVVNALSSWLEVTVKRDGQ----IYQQRFENGGKIVQSLKKI-GTTKKTGTLVHFHPD 172 (637)
T ss_pred CcccccCCcccccc-cccceeeceEEEEEEECCE----EEEEEEecCCcCcCCcccc-cCCCCCceEEEEEeC
Confidence 235668999999 4455589999999987764 344566443 2 111111 122357898877654
No 31
>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=97.38 E-value=0.00045 Score=58.72 Aligned_cols=86 Identities=19% Similarity=0.239 Sum_probs=56.6
Q ss_pred HHHHHHHHHcccccCC---CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 256 FGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 256 ~~AIaELIDNA~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
..++.|||+||+++++ ..|.|.+.. ..+...|.|.|+|.||++..+...+...... ......+..|+|
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 445555542 3345789999999999999998876432111 122334567888
Q ss_pred eeeee---ccccCeEEEEEee
Q 004492 333 FKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 333 fKsAs---m~lg~~v~V~Tk~ 350 (749)
++.+. .++|..+.+.+..
T Consensus 73 l~~~~~~~~~~~g~~~~~~~~ 93 (103)
T cd00075 73 LSIVKKLVELHGGRIEVESEP 93 (103)
T ss_pred HHHHHHHHHHcCCEEEEEeCC
Confidence 86432 2345577776544
No 32
>PLN03128 DNA topoisomerase 2; Provisional
Probab=97.36 E-value=0.00069 Score=84.54 Aligned_cols=86 Identities=21% Similarity=0.268 Sum_probs=58.1
Q ss_pred HHHHHHHHHHcccccC-----CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCCC
Q 004492 255 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDA 320 (749)
Q Consensus 255 p~~AIaELIDNA~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~~ 320 (749)
+.-.+-|+|+||.|-. ++.|.|.|.. +...|+|.|||.||+-+--.+ .|+ +..+.+..
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 4467889999999953 3788888863 246999999999998652211 111 12222221
Q ss_pred C--CCCcccccccceeeeeccccCeEEEEEe
Q 004492 321 D--DPNRIGRFGVGFKTGAMRLGKDALVLTQ 349 (749)
Q Consensus 321 ~--d~~~IG~fGiGfKsAsm~lg~~v~V~Tk 349 (749)
+ -...-|..|+|.+. .-.|...+.|.+.
T Consensus 125 d~~ykvSGGlhGvGasv-vNaLS~~f~Vev~ 154 (1135)
T PLN03128 125 DNEKKTTGGRNGYGAKL-ANIFSTEFTVETA 154 (1135)
T ss_pred CccceeeccccCCCCeE-EEeecCeEEEEEE
Confidence 1 24578999999954 4458899999997
No 33
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.33 E-value=0.00027 Score=81.05 Aligned_cols=85 Identities=21% Similarity=0.301 Sum_probs=66.0
Q ss_pred CCHHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccc
Q 004492 253 GWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 327 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG 327 (749)
.+..+.+.-|||||+||-+ +.|.+.+.. .++.-.|.|.|||+||+++....+|..|.|.+. -+
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 3577999999999999966 567777664 456788999999999999999999999998774 23
Q ss_pred ccccceee---eeccccCeEEEEEe
Q 004492 328 RFGVGFKT---GAMRLGKDALVLTQ 349 (749)
Q Consensus 328 ~fGiGfKs---Asm~lg~~v~V~Tk 349 (749)
.-|+|++. ..=++|..+.|.+.
T Consensus 494 ~rGiGL~Lvkq~V~~~~G~I~~~s~ 518 (537)
T COG3290 494 GRGIGLYLVKQLVERLGGSIEVESE 518 (537)
T ss_pred CCchhHHHHHHHHHHcCceEEEeeC
Confidence 34888763 22366777777775
No 34
>PLN03237 DNA topoisomerase 2; Provisional
Probab=97.33 E-value=0.00079 Score=84.97 Aligned_cols=86 Identities=17% Similarity=0.271 Sum_probs=58.1
Q ss_pred HHHHHHHHHHcccccC-----CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-cccCCCCC
Q 004492 255 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDA 320 (749)
Q Consensus 255 p~~AIaELIDNA~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-fG~s~k~~ 320 (749)
+.-.+-|+|+||.|-. ++.|.|.|.. ....|+|.|||.||+-+--.. +|+ +..+.+..
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 4467899999999953 4788888863 246899999999998652111 111 12222221
Q ss_pred --CCCCcccccccceeeeeccccCeEEEEEe
Q 004492 321 --DDPNRIGRFGVGFKTGAMRLGKDALVLTQ 349 (749)
Q Consensus 321 --~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk 349 (749)
.-...-|+.|+|.+. .-.|...+.|.++
T Consensus 150 d~~yKvSGGlhGVGasv-vNaLS~~f~Vev~ 179 (1465)
T PLN03237 150 DNEKKTTGGRNGYGAKL-TNIFSTEFVIETA 179 (1465)
T ss_pred CCcceeeccccccCccc-cccccCeeEEEEE
Confidence 124578999999954 4458899999997
No 35
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=97.32 E-value=0.00052 Score=79.87 Aligned_cols=158 Identities=17% Similarity=0.173 Sum_probs=93.9
Q ss_pred HHHHHHHHHHccccc----CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHH--------Hhhhh-cccCCCCCC
Q 004492 255 IFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV--------VRMTY-FGHKQPDAD 321 (749)
Q Consensus 255 p~~AIaELIDNA~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL--------~~~~~-fG~s~k~~~ 321 (749)
+.--+.|.||||+|. .|+.|.|.+.. ...|+|.|||-||+-+.= .-.|. +....|-.+
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 345688999999996 37889988862 579999999999987652 22232 222222211
Q ss_pred C--CCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCe--eEE-EeccccCCCCcEEEEEecccchhhh
Q 004492 322 D--PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKD--NLE-IPIVSYYRKGQFMELDTVVQSEATA 396 (749)
Q Consensus 322 d--~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~--~i~-VPi~~~~~~Gt~I~l~~~~~~e~~~ 396 (749)
+ ..+-|..|+|. ++.=.|...+.|.+++++. ...+.|..|.. .+. +-...-...||.|+..+.++....
T Consensus 108 ~~YkvSGGLHGVG~-SVVNALS~~l~v~v~r~gk----~y~q~f~~G~~~~~l~~ig~~~~~~~GT~V~F~PD~~iF~~- 181 (635)
T COG0187 108 DSYKVSGGLHGVGV-SVVNALSTWLEVEVKRDGK----IYRQRFERGVPVTPLEVIGSTDTKKTGTKVRFKPDPEIFGE- 181 (635)
T ss_pred CccEeecCCCccce-EEEecccceEEEEEEECCE----EEEEEEeCCCcCCCceecccCCCCCCccEEEEEcChHhcCC-
Confidence 2 34568889998 6666799999999999875 34456644322 121 111233456999887765432111
Q ss_pred hhhhhhhhhhCCCcchhHHhhhccccCCCCCcEEEEEcccC
Q 004492 397 KYNLKSIKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQ 437 (749)
Q Consensus 397 ~~~L~~I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~nL~r 437 (749)
..|....|...+..+.--..|..|.+.+-+.
T Consensus 182 ----------~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~ 212 (635)
T COG0187 182 ----------TEFDYEILKRRLRELAFLNKGVKITLTDERT 212 (635)
T ss_pred ----------cccCHHHHHHHHHHHhccCCCCEEEEEeccC
Confidence 1222222232222222225788888876644
No 36
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.22 E-value=0.00073 Score=58.37 Aligned_cols=73 Identities=18% Similarity=0.368 Sum_probs=52.9
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
+..++.||++||+++... .|.|.+.. ..+...|.|.|+|.||+.+++...+..+.+... .....++.|+|
T Consensus 6 l~~~~~~l~~n~~~~~~~~~~v~i~~~~------~~~~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~--~~~~~~~~g~g 77 (111)
T smart00387 6 LRQVLSNLLDNAIKYTPEGGRITVTLER------DGDHLEITVEDNGPGIPPEDLEKIFEPFFRTDG--RSRKIGGTGLG 77 (111)
T ss_pred HHHHHHHHHHHHHhcCCCCCeEEEEEEE------cCCEEEEEEEeCCCCCCHHHHHHHhcCeEECCC--CCCCCCccccc
Confidence 568899999999999875 66666653 335678999999999999999888754333221 22344567888
Q ss_pred eee
Q 004492 333 FKT 335 (749)
Q Consensus 333 fKs 335 (749)
++.
T Consensus 78 l~~ 80 (111)
T smart00387 78 LSI 80 (111)
T ss_pred HHH
Confidence 864
No 37
>PRK10604 sensor protein RstB; Provisional
Probab=97.17 E-value=0.00097 Score=74.81 Aligned_cols=88 Identities=18% Similarity=0.294 Sum_probs=62.4
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccce
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVGF 333 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiGf 333 (749)
+..++.+||+||+.++...|.|.+.. .++.-.|.|.|||.||+++++.+.|. |-..... ....-|.+|+|+
T Consensus 320 l~~vl~NLl~NAik~~~~~I~I~~~~------~~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~--~~~~~~g~GLGL 391 (433)
T PRK10604 320 MERVLDNLLNNALRYAHSRVRVSLLL------DGNQACLIVEDDGPGIPPEERERVFEPFVRLDPS--RDRATGGCGLGL 391 (433)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEEEE------ECCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCC--CCCCCCCccchH
Confidence 56789999999999988888888764 23456899999999999999999985 4332211 112235679997
Q ss_pred eee---eccccCeEEEEEee
Q 004492 334 KTG---AMRLGKDALVLTQT 350 (749)
Q Consensus 334 KsA---sm~lg~~v~V~Tk~ 350 (749)
..+ .-+.|.++.|.+..
T Consensus 392 ~ivk~i~~~~gG~i~v~s~~ 411 (433)
T PRK10604 392 AIVHSIALAMGGSVNCDESE 411 (433)
T ss_pred HHHHHHHHHCCCEEEEEecC
Confidence 432 23567777776654
No 38
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=97.04 E-value=0.0016 Score=72.31 Aligned_cols=89 Identities=18% Similarity=0.196 Sum_probs=60.4
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccccee
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGfK 334 (749)
...++.+||+||+.++...|.|.+.. .++.-.|+|.|||.||+++++.+.+.-..+.... .....+.+|+|+.
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 45789999999999988888887764 2345679999999999999999987522221110 1123356789975
Q ss_pred ee---eccccCeEEEEEee
Q 004492 335 TG---AMRLGKDALVLTQT 350 (749)
Q Consensus 335 sA---sm~lg~~v~V~Tk~ 350 (749)
.+ ....|.++.+.|..
T Consensus 427 iv~~~v~~~~G~l~~~s~~ 445 (461)
T PRK09470 427 IVENAIQQHRGWVKAEDSP 445 (461)
T ss_pred HHHHHHHHCCCEEEEEECC
Confidence 32 22456666666643
No 39
>PRK10364 sensor protein ZraS; Provisional
Probab=97.02 E-value=0.0016 Score=73.12 Aligned_cols=84 Identities=14% Similarity=0.139 Sum_probs=58.7
Q ss_pred CHHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccc
Q 004492 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
....++..||+||+++.+ ..|.|.+.. .++.-.|.|.|||.||+++.+.++|.-+.+.+. +..|+
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 356889999999999854 466766653 234578999999999999999999865444332 23588
Q ss_pred ceeeee---ccccCeEEEEEee
Q 004492 332 GFKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 332 GfKsAs---m~lg~~v~V~Tk~ 350 (749)
|+..+. -..|.++.+.+..
T Consensus 415 GL~iv~~~v~~~gG~i~i~s~~ 436 (457)
T PRK10364 415 GLAVVHNIVEQHGGTIQVASQE 436 (457)
T ss_pred cHHHHHHHHHHCCCEEEEEeCC
Confidence 875322 2456777776643
No 40
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=96.98 E-value=0.002 Score=71.27 Aligned_cols=87 Identities=15% Similarity=0.122 Sum_probs=59.2
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccccee
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGfK 334 (749)
...++.+||+||+.++...|.|.+.. .++.-.|+|.|||.||+++++.+++.-...... .+. .+.+|+|+.
T Consensus 332 l~~il~NLl~NA~k~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~--~~~-~~g~GlGL~ 402 (435)
T PRK09467 332 IKRALANLVVNAARYGNGWIKVSSGT------EGKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDS--ARG-SSGTGLGLA 402 (435)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEEEe------cCCEEEEEEEecCCCcCHHHHHHhcCCcccCCC--CCC-CCCeehhHH
Confidence 45789999999999998888887763 234567999999999999999998853332111 111 245788874
Q ss_pred ee---eccccCeEEEEEee
Q 004492 335 TG---AMRLGKDALVLTQT 350 (749)
Q Consensus 335 sA---sm~lg~~v~V~Tk~ 350 (749)
.+ .-..|.++.+.+..
T Consensus 403 iv~~i~~~~~g~l~i~~~~ 421 (435)
T PRK09467 403 IVKRIVDQHNGKVELGNSE 421 (435)
T ss_pred HHHHHHHHCCCEEEEEECC
Confidence 32 11346666665543
No 41
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=96.98 E-value=0.002 Score=76.09 Aligned_cols=118 Identities=19% Similarity=0.173 Sum_probs=72.8
Q ss_pred HHHHHHHHccccc------C-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh----------h-hh-cccCC
Q 004492 257 GAIAELVDNSRDA------K-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR----------M-TY-FGHKQ 317 (749)
Q Consensus 257 ~AIaELIDNA~DA------~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~----------~-~~-fG~s~ 317 (749)
-.+.|+||||+|- | ++.|+|.+. ...|+|.|||.||+-+.-.. + |+ +..+.
T Consensus 48 hi~~EIldNavDe~~~~~~g~~~~I~V~i~----------dgsisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGg 117 (602)
T PHA02569 48 KIIDEIIDNSVDEAIRTNFKFANKIDVTIK----------NNQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGS 117 (602)
T ss_pred eeeehhhhhhhhhhhccCCCCCcEEEEEEc----------CCEEEEEECCCcccCCcccccccccccceEEEEEeecccc
Confidence 4567999999994 2 567777764 35799999999998643211 0 11 11122
Q ss_pred CCC-CCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEEeeecCCCeeEEEeccccCCCCcEEEEEec
Q 004492 318 PDA-DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELDTV 389 (749)
Q Consensus 318 k~~-~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l~~~ 389 (749)
+-. .-...-|..|+|. ++.-.|...+.|.++..+. .+.++|..|.....++...-..+||.|+..+.
T Consensus 118 kFd~~ykvSGGlhGVG~-svvNaLS~~~~V~v~~~~~----~~~q~f~~G~~~~~~~~~~~~~~GT~V~F~PD 185 (602)
T PHA02569 118 NFDDTNRVTGGMNGVGS-SLTNFFSVLFIGETCDGKN----EVTVNCSNGAENISWSTKPGKGKGTSVTFIPD 185 (602)
T ss_pred ccCCcceeeCCcCCccc-eeeeccchhhheEEEcCCE----EEEEEecCCcccCCcccCCCCCCccEEEEEEC
Confidence 221 1245679999999 5555589999998865543 24566655532222222233457999877654
No 42
>PRK09303 adaptive-response sensory kinase; Validated
Probab=96.88 E-value=0.0031 Score=69.79 Aligned_cols=89 Identities=17% Similarity=0.215 Sum_probs=58.3
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
...+|..||+||+.+... .|.|.+.. ..++.-.|.|.|||.||+++++.++|.-..+.+. ....+.+|+|
T Consensus 273 l~qvl~NLl~NAik~~~~~~~I~i~~~~-----~~~~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~---~~~~~G~GLG 344 (380)
T PRK09303 273 IRQVLLNLLDNAIKYTPEGGTITLSMLH-----RTTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR---DEGTEGYGIG 344 (380)
T ss_pred HHHHHHHHHHHHHhcCCCCceEEEEEEe-----cCCCEEEEEEEEcCCCCCHHHHHHHccCceeCCC---CCCCCccccc
Confidence 458999999999998764 44444431 0223467999999999999999999852222121 1122457888
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-.+|.++.|.|...
T Consensus 345 L~i~~~iv~~~gG~i~v~s~~~ 366 (380)
T PRK09303 345 LSVCRRIVRVHYGQIWVDSEPG 366 (380)
T ss_pred HHHHHHHHHHcCCEEEEEecCC
Confidence 7532 225677787777654
No 43
>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=96.87 E-value=0.0029 Score=69.80 Aligned_cols=86 Identities=21% Similarity=0.257 Sum_probs=57.0
Q ss_pred HHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGi 331 (749)
+..++.+||+||++++. ..|.|.+.. .++...|+|.|||.||+++.+.++|. |-.+.+.. ...-+..|+
T Consensus 354 l~~~~~nll~Nai~~~~~~~~I~i~~~~------~~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~--~~~~~g~Gl 425 (457)
T TIGR01386 354 FRRAISNLLSNALRHTPDGGTITVRIER------RSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPAR--SNSGEGTGL 425 (457)
T ss_pred HHHHHHHHHHHHHHcCCCCceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhccccccCCccc--CCCCCCccc
Confidence 56789999999999874 456666553 33456899999999999999999875 33222211 112344788
Q ss_pred ceeeee---ccccCeEEEEE
Q 004492 332 GFKTGA---MRLGKDALVLT 348 (749)
Q Consensus 332 GfKsAs---m~lg~~v~V~T 348 (749)
|+..+. -.+|..+.+.+
T Consensus 426 GL~i~~~~~~~~~G~~~~~~ 445 (457)
T TIGR01386 426 GLAIVRSIMEAHGGRASAES 445 (457)
T ss_pred cHHHHHHHHHHCCCEEEEEe
Confidence 875322 23566666665
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=96.81 E-value=0.0028 Score=70.04 Aligned_cols=86 Identities=20% Similarity=0.214 Sum_probs=56.0
Q ss_pred HHHHHHHHHHcccccCCCc------cEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccc
Q 004492 255 IFGAIAELVDNSRDAKATK------LEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~------V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~ 328 (749)
...++.+|+.||+++.+.. |.|.+.. .++.-.|+|.|||.||+++...++|.-..+.+.. ..+.
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 4579999999999985332 4444332 3456789999999999999999998522222211 1233
Q ss_pred cccceeeee---ccccCeEEEEEee
Q 004492 329 FGVGFKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 329 fGiGfKsAs---m~lg~~v~V~Tk~ 350 (749)
-|+|+..+- -.+|..+.|.|..
T Consensus 458 ~GlGL~i~~~iv~~~gG~i~~~s~~ 482 (494)
T TIGR02938 458 IGMGLSVAQEIVADHGGIIDLDDDY 482 (494)
T ss_pred CcccHHHHHHHHHHcCCEEEEEECC
Confidence 578875321 1457777776644
No 45
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.78 E-value=0.0023 Score=69.16 Aligned_cols=87 Identities=14% Similarity=0.225 Sum_probs=60.0
Q ss_pred CHHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccc
Q 004492 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
+...++..||+||+.+.. ..|.|.+.. .++.-.|.|.|||.||+++++.+.+.-...... .-+..|+
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 567776653 334578999999999999999998753322111 1245688
Q ss_pred ceeee---eccccCeEEEEEeeC
Q 004492 332 GFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 332 GfKsA---sm~lg~~v~V~Tk~~ 351 (749)
|++.+ .-.+|..+.+.|...
T Consensus 316 GL~i~~~i~~~~gg~i~i~s~~~ 338 (356)
T PRK10755 316 GLSIVSRITQLHHGQFFLQNRQE 338 (356)
T ss_pred HHHHHHHHHHHCCCEEEEEECCC
Confidence 87532 224577777776543
No 46
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.75 E-value=0.0026 Score=65.10 Aligned_cols=59 Identities=15% Similarity=0.254 Sum_probs=46.3
Q ss_pred CCHHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCC
Q 004492 253 GWIFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQ 317 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~ 317 (749)
.+...+|..||+||++|.. ..|.|.+.. ..+.-.|.|.|||.||+++.+..+|....+.
T Consensus 227 ~~l~~vl~nLi~NAi~~~~~~~i~i~~~~------~~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~ 286 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTPGGEITISVRQ------DDEQVTISVEDTGPGIPEEELERIFEPFFRT 286 (336)
T ss_pred HHHHHHHHHHHHHHhccCCCCeEEEEEEe------cCCeEEEEEEcCCCCCCHHHHHHhccCeecc
Confidence 3566799999999999994 777777763 1224689999999999999988887644433
No 47
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.74 E-value=0.0041 Score=70.47 Aligned_cols=82 Identities=18% Similarity=0.289 Sum_probs=56.0
Q ss_pred HHHHHHHHHHcccccCC----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccc
Q 004492 255 IFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFG 330 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fG 330 (749)
+..++.+|++||++|.. ..|.|.+.. .++.-.|.|.|||.||+++++.+.|.-+.+.+. +..|
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 55789999999999842 356666553 334568999999999999999999864444331 1248
Q ss_pred cceeeee---ccccCeEEEEEe
Q 004492 331 VGFKTGA---MRLGKDALVLTQ 349 (749)
Q Consensus 331 iGfKsAs---m~lg~~v~V~Tk 349 (749)
+|+..+- -..|.++.|.+.
T Consensus 501 lGL~iv~~iv~~~~G~i~v~s~ 522 (542)
T PRK11086 501 VGLYLVKQSVENLGGSIAVESE 522 (542)
T ss_pred CcHHHHHHHHHHcCCEEEEEeC
Confidence 8875321 245666666664
No 48
>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=0.0059 Score=63.81 Aligned_cols=89 Identities=16% Similarity=0.187 Sum_probs=57.5
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
...++.+||.||+++... .|.|.+.. .++...|.|.|||.||+++.+.+++......... .....+..|+|
T Consensus 230 l~~vl~nll~Nai~~~~~~~~i~i~~~~------~~~~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~-~~~~~~g~glG 302 (333)
T TIGR02966 230 LRSAFSNLVSNAIKYTPEGGTITVRWRR------DGGGAEFSVTDTGIGIAPEHLPRLTERFYRVDKS-RSRDTGGTGLG 302 (333)
T ss_pred HHHHHHHHHHHhheeCCCCCeEEEEEEE------cCCEEEEEEEecCCCCCHHHHhhhccCceecCcc-cccCCCCCccc
Confidence 568999999999998654 45555442 2345689999999999999999988533221110 01112335888
Q ss_pred eeeee---ccccCeEEEEEee
Q 004492 333 FKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 333 fKsAs---m~lg~~v~V~Tk~ 350 (749)
+..+- -..|.++.+.|..
T Consensus 303 L~~~~~~~~~~gG~i~~~s~~ 323 (333)
T TIGR02966 303 LAIVKHVLSRHHARLEIESEL 323 (333)
T ss_pred HHHHHHHHHHCCCEEEEEecC
Confidence 75422 2457777777654
No 49
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.57 E-value=0.0059 Score=67.67 Aligned_cols=89 Identities=20% Similarity=0.226 Sum_probs=59.6
Q ss_pred CHHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccc
Q 004492 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
.+..++.+||.||+.+.. ..|.|.+.. .++...|+|.|||.||+++++.+.+.-..+.... ...-+..|+
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 467899999999999864 467776653 3356789999999999999999988633322210 111234588
Q ss_pred ceeeee---ccccCeEEEEEee
Q 004492 332 GFKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 332 GfKsAs---m~lg~~v~V~Tk~ 350 (749)
|++.+- -.+|..+.+.|..
T Consensus 440 GL~i~~~~~~~~~G~i~i~s~~ 461 (475)
T PRK11100 440 GLAFVREVARLHGGEVTLRNRP 461 (475)
T ss_pred hHHHHHHHHHHCCCEEEEEEcC
Confidence 876422 2356667776654
No 50
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.56 E-value=0.0055 Score=68.44 Aligned_cols=89 Identities=17% Similarity=0.237 Sum_probs=58.2
Q ss_pred CHHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccc
Q 004492 254 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFG 330 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fG 330 (749)
....++.+||+||+++... .|.|.+.. .++.-.|+|.|||.||+++++.++|. |....+. .....|..|
T Consensus 317 ~l~~vl~NLl~NAik~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~--~~~~~~G~G 388 (430)
T PRK11006 317 QLRSAISNLVYNAVNHTPEGTHITVRWQR------VPQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKA--RSRQTGGSG 388 (430)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHhccCcccccCC--CCCCCCCCc
Confidence 3568999999999999654 45555442 23456899999999999999999885 4322211 112234568
Q ss_pred cceeeee---ccccCeEEEEEee
Q 004492 331 VGFKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 331 iGfKsAs---m~lg~~v~V~Tk~ 350 (749)
+|+..+. -..|.++.+.|..
T Consensus 389 LGL~ivk~iv~~~gG~i~i~s~~ 411 (430)
T PRK11006 389 LGLAIVKHALSHHDSRLEIESEV 411 (430)
T ss_pred hHHHHHHHHHHHCCCEEEEEecC
Confidence 8875321 2456667666653
No 51
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=96.54 E-value=0.0077 Score=73.27 Aligned_cols=120 Identities=19% Similarity=0.226 Sum_probs=75.4
Q ss_pred HHHHHHHHHccccc----CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--------hhh-------cccC
Q 004492 256 FGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-------FGHK 316 (749)
Q Consensus 256 ~~AIaELIDNA~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--------~~~-------fG~s 316 (749)
...|.|+||||+|- .++.|.|.|.. ...|+|+|||.||+-+.-.+ +|. |...
T Consensus 131 hhLv~EIlDNSVDE~laG~~~~I~V~i~~---------DgsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGKF~~~ 201 (903)
T PTZ00109 131 HQLLFEILDNSVDEYLAGECNKITVVLHK---------DGSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGKFQDT 201 (903)
T ss_pred eEEEEEEeeccchhhccCCCcEEEEEEcC---------CCeEEEEeCCccccccccccCCCcceeEEEEEeccCccccCc
Confidence 35688999999995 26888888862 35899999999998643221 111 3221
Q ss_pred C-------------------C---------------CC--CCCCcccccccceeeeeccccCeEEEEEeeCCCCceeEEE
Q 004492 317 Q-------------------P---------------DA--DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLS 360 (749)
Q Consensus 317 ~-------------------k---------------~~--~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~~~~s~~~ls 360 (749)
. + .. .=...-|..|+|. ++.=.|...+.|.+++++. .+.
T Consensus 202 ~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~-SVVNALS~~l~VeV~RdGK----~y~ 276 (903)
T PTZ00109 202 FPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGL-SVVNALSSFLKVDVFKGGK----IYS 276 (903)
T ss_pred ccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcce-eeeeeccCeEEEEEEECCE----EEE
Confidence 0 0 00 0024678999999 5666699999999999875 456
Q ss_pred eeecCCCe--eEEEeccccCCCCcEEEEEec
Q 004492 361 QSLNQGKD--NLEIPIVSYYRKGQFMELDTV 389 (749)
Q Consensus 361 ~sf~~g~~--~i~VPi~~~~~~Gt~I~l~~~ 389 (749)
++|..|.- .+.+--.+-...||.|+..+.
T Consensus 277 q~F~rG~~v~pLkvig~~~~~tGT~VtF~PD 307 (903)
T PTZ00109 277 IELSKGKVTKPLSVFSCPLKKRGTTIHFLPD 307 (903)
T ss_pred EEeCCCcccCCccccCCcCCCCceEEEEEeC
Confidence 67755531 111101111347899877654
No 52
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.53 E-value=0.0047 Score=70.75 Aligned_cols=85 Identities=19% Similarity=0.259 Sum_probs=57.4
Q ss_pred HHHHHHHHHHcccccC------CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccc
Q 004492 255 IFGAIAELVDNSRDAK------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (749)
Q Consensus 255 p~~AIaELIDNA~DA~------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~ 328 (749)
....+.+||+||++|. ...|.|.+.. .++.-.|.|.|||.||+++++.+.|.-+.+.+. ...|.
T Consensus 433 l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~----~~~~g 502 (545)
T PRK15053 433 FAAIVGNLLDNAFEASLRSDEGNKIVELFLSD------EGDDVVIEVADQGCGVPESLRDKIFEQGVSTRA----DEPGE 502 (545)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCceEEEEEEE------CCCEEEEEEEeCCCCcCHHHHHHHhCCCCCCCC----CCCCC
Confidence 4568999999999983 3556666653 334567999999999999999999875555432 11234
Q ss_pred cccceeeee---ccccCeEEEEEe
Q 004492 329 FGVGFKTGA---MRLGKDALVLTQ 349 (749)
Q Consensus 329 fGiGfKsAs---m~lg~~v~V~Tk 349 (749)
-|+|+..+- -..|..+.|.|.
T Consensus 503 ~GlGL~ivk~iv~~~~G~i~v~s~ 526 (545)
T PRK15053 503 HGIGLYLIASYVTRCGGVITLEDN 526 (545)
T ss_pred ceeCHHHHHHHHHHcCCEEEEEEC
Confidence 588875322 134556666554
No 53
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.42 E-value=0.0064 Score=67.81 Aligned_cols=88 Identities=16% Similarity=0.234 Sum_probs=58.3
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGi 331 (749)
...++.+||+||+.+... .|.|.+.. .++.-.|.|.|||.||+++++.+++. |-..... .....|..|+
T Consensus 353 l~qvl~nll~NAi~~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~--~~~~~~g~Gl 424 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDSGGSLHISAEQ------RDKTLRLTFADSAPGVSDEQLQKLFERFYRTEGS--RNRASGGSGL 424 (466)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEE------cCCEEEEEEEecCCCcCHHHHHHhccCcccCCCC--cCCCCCCCcH
Confidence 457899999999998654 56666553 33456799999999999999999884 3222111 1223456789
Q ss_pred ceeee---eccccCeEEEEEee
Q 004492 332 GFKTG---AMRLGKDALVLTQT 350 (749)
Q Consensus 332 GfKsA---sm~lg~~v~V~Tk~ 350 (749)
|+..+ .-..|.++.+.+..
T Consensus 425 GL~iv~~i~~~~~G~l~~~s~~ 446 (466)
T PRK10549 425 GLAICLNIVEAHNGRIIAAHSP 446 (466)
T ss_pred HHHHHHHHHHHcCCEEEEEECC
Confidence 97532 22456666666654
No 54
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=96.41 E-value=0.0043 Score=72.02 Aligned_cols=59 Identities=22% Similarity=0.356 Sum_probs=47.6
Q ss_pred CHHHHHHHHHHcccccCC----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCC
Q 004492 254 WIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQP 318 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k 318 (749)
-+...+-.||.||+||-+ .+|.|.... .++.-.|+|.|||+||.++-+.++|. |-++++
T Consensus 497 RLeQVLvNLl~NALDA~~~~~~~~i~i~~~~------~~~~v~l~VrDnGpGi~~e~~~~lFePF~TtK~ 560 (603)
T COG4191 497 RLEQVLVNLLQNALDAMAGQEDRRLSIRAQR------EGGQVVLTVRDNGPGIAPEALPHLFEPFFTTKP 560 (603)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCeeEEEEEe------cCCeEEEEEccCCCCCCHHHHHhhcCCccccCc
Confidence 478999999999999954 567776653 45678899999999999999999986 555543
No 55
>PRK10815 sensor protein PhoQ; Provisional
Probab=96.33 E-value=0.0071 Score=69.44 Aligned_cols=85 Identities=14% Similarity=0.155 Sum_probs=58.2
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccccee
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 334 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGfK 334 (749)
...++..||+||+++....+.|.+.. .++.-.|.|.|||.||+++++.+.|.-+..... ..+..|+|+.
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 45799999999999988888887763 234567999999999999999988753222111 1124688875
Q ss_pred eee---ccccCeEEEEEee
Q 004492 335 TGA---MRLGKDALVLTQT 350 (749)
Q Consensus 335 sAs---m~lg~~v~V~Tk~ 350 (749)
.+. -..|.++.+.+..
T Consensus 448 Ivk~iv~~~gG~i~v~s~~ 466 (485)
T PRK10815 448 VAREITEQYEGKISAGDSP 466 (485)
T ss_pred HHHHHHHHcCCEEEEEECC
Confidence 321 1356666665543
No 56
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=96.31 E-value=0.017 Score=73.58 Aligned_cols=122 Identities=17% Similarity=0.235 Sum_probs=76.4
Q ss_pred HHHHHHHHHHccccc--------CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh--h----hhcc---cCC
Q 004492 255 IFGAIAELVDNSRDA--------KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFG---HKQ 317 (749)
Q Consensus 255 p~~AIaELIDNA~DA--------~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~--~----~~fG---~s~ 317 (749)
+.-.+-|+|+||.|- .++.|+|.|+. +...|+|.|||.||+-+.-.. . +-|| .+.
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 456789999999994 24788888863 236899999999997643211 0 1122 222
Q ss_pred CCC--CCCCcccccccceeeeeccccCeEEEEEeeC--CCCceeEEEeeecCCCeeEEEecc-cc-C-CCCcEEEEEec
Q 004492 318 PDA--DDPNRIGRFGVGFKTGAMRLGKDALVLTQTA--DSRSIAFLSQSLNQGKDNLEIPIV-SY-Y-RKGQFMELDTV 389 (749)
Q Consensus 318 k~~--~d~~~IG~fGiGfKsAsm~lg~~v~V~Tk~~--~~~s~~~ls~sf~~g~~~i~VPi~-~~-~-~~Gt~I~l~~~ 389 (749)
+.. .-...-|+.|+|.+. .-.|...+.|.+... +. .+.++|..|-....-|.. +. . .+||.|+..+.
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 321 124578999999954 445999999999987 53 345566444211111222 22 2 47898877654
No 57
>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=96.27 E-value=0.0067 Score=72.31 Aligned_cols=83 Identities=19% Similarity=0.225 Sum_probs=56.9
Q ss_pred HHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHH-HHhhhhcccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD-VVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~e-L~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
...++.+||+||+++.. ..|.|.+.. .++.-.|.|.|||.||+++. ..+.|....+.+. +..|+
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 45789999999999964 467777663 23567899999999999998 5666653333221 34588
Q ss_pred ceeeee---ccccCeEEEEEee
Q 004492 332 GFKTGA---MRLGKDALVLTQT 350 (749)
Q Consensus 332 GfKsAs---m~lg~~v~V~Tk~ 350 (749)
|+..+- -.+|.++.|.|..
T Consensus 647 GL~i~~~iv~~~gG~i~v~s~~ 668 (679)
T TIGR02916 647 GVYECRQYVEEIGGRIEVESTP 668 (679)
T ss_pred hHHHHHHHHHHcCCEEEEEecC
Confidence 875431 2467777776654
No 58
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=96.20 E-value=0.012 Score=66.75 Aligned_cols=84 Identities=17% Similarity=0.149 Sum_probs=56.1
Q ss_pred HHHHHHHHHHcccccCCCc--cEEEEEeceeccCCCCc-cEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKATK--LEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~--V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
...++.+||.||+.+.... |.|.+.. ..+. -.|.|.|||.||+++++.+.|....+.+. +..|+
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 5688999999999986544 4454432 1223 78999999999999999988764333221 13477
Q ss_pred ceeee---eccccCeEEEEEeeC
Q 004492 332 GFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 332 GfKsA---sm~lg~~v~V~Tk~~ 351 (749)
|+..+ .-.+|.++.+.|...
T Consensus 568 GL~~~~~~~~~~~G~i~~~s~~~ 590 (607)
T PRK11360 568 GLALSQRIINAHGGDIEVESEPG 590 (607)
T ss_pred hHHHHHHHHHHcCCEEEEEEcCC
Confidence 76532 124677777766543
No 59
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.01 E-value=0.017 Score=70.33 Aligned_cols=85 Identities=12% Similarity=0.245 Sum_probs=59.8
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
+..+|..||+||+++.. ..|.|.+.. .++.-.|+|.|||.||+++++.+.|. |-.... ..+..|+|
T Consensus 514 l~~il~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~------~~~g~GLG 581 (921)
T PRK15347 514 LRQILVNLLGNAVKFTETGGIRLRVKR------HEQQLCFTVEDTGCGIDIQQQQQIFTPFYQADT------HSQGTGLG 581 (921)
T ss_pred HHHHHHHHHHHHhhcCCCCCEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhcCcccCCC------CCCCCchH
Confidence 56899999999999853 467777663 23456899999999999999999885 432211 12456888
Q ss_pred eeeee---ccccCeEEEEEeeC
Q 004492 333 FKTGA---MRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsAs---m~lg~~v~V~Tk~~ 351 (749)
+..+. -.+|..+.|.|...
T Consensus 582 L~i~~~~~~~~gG~i~i~s~~~ 603 (921)
T PRK15347 582 LTIASSLAKMMGGELTLFSTPG 603 (921)
T ss_pred HHHHHHHHHHcCCEEEEEecCC
Confidence 75332 24577888877654
No 60
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=95.98 E-value=0.018 Score=69.39 Aligned_cols=91 Identities=14% Similarity=0.260 Sum_probs=61.6
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...++..||+||+++.. ..|.|.+... .++.-.|.|.|||.||+++++.++|. |-.. +........+.-|+|
T Consensus 399 l~qvl~NLl~NAik~~~~g~v~i~~~~~-----~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~-~~~~~~~~~~GtGLG 472 (779)
T PRK11091 399 LRQILWNLISNAVKFTQQGGVTVRVRYE-----EGDMLTFEVEDSGIGIPEDELDKIFAMYYQV-KDSHGGKPATGTGIG 472 (779)
T ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEEc-----cCCEEEEEEEecCCCCCHHHHHHHHHHhhcc-cCCCCCCCCCCcchH
Confidence 45889999999999864 4577766531 13456899999999999999999985 4332 211122234556788
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-..|.++.|.|...
T Consensus 473 L~i~~~iv~~~gG~i~v~s~~g 494 (779)
T PRK11091 473 LAVSKRLAQAMGGDITVTSEEG 494 (779)
T ss_pred HHHHHHHHHHcCCEEEEEecCC
Confidence 7422 124688888887654
No 61
>PRK10337 sensor protein QseC; Provisional
Probab=95.92 E-value=0.015 Score=64.67 Aligned_cols=83 Identities=16% Similarity=0.173 Sum_probs=54.5
Q ss_pred HHHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccce
Q 004492 255 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVGF 333 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiGf 333 (749)
+..++.+||+||+.+....-.|.+... ...|.|.|||.||+++++.+.+. |-.... ...+.+|+|+
T Consensus 353 l~~vl~Nli~NA~k~~~~~~~i~i~~~--------~~~i~i~D~G~Gi~~~~~~~if~~f~~~~~-----~~~~g~GlGL 419 (449)
T PRK10337 353 LSLLVRNLLDNAIRYSPQGSVVDVTLN--------ARNFTVRDNGPGVTPEALARIGERFYRPPG-----QEATGSGLGL 419 (449)
T ss_pred HHHHHHHHHHHHHhhCCCCCeEEEEEE--------eeEEEEEECCCCCCHHHHHHhcccccCCCC-----CCCCccchHH
Confidence 457899999999998765434444321 23799999999999999999875 332111 1224578887
Q ss_pred eee---eccccCeEEEEEee
Q 004492 334 KTG---AMRLGKDALVLTQT 350 (749)
Q Consensus 334 KsA---sm~lg~~v~V~Tk~ 350 (749)
..+ .-..|.++.+.+..
T Consensus 420 ~iv~~i~~~~gg~l~~~s~~ 439 (449)
T PRK10337 420 SIVRRIAKLHGMNVSFGNAP 439 (449)
T ss_pred HHHHHHHHHcCCEEEEEecC
Confidence 532 12456666666543
No 62
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=95.73 E-value=0.022 Score=69.65 Aligned_cols=90 Identities=16% Similarity=0.179 Sum_probs=59.2
Q ss_pred HHHHHHHHHHcccccCC--CccEEEEEeceecc---------CCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCC
Q 004492 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 323 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~ 323 (749)
...++.+||+||+++.. ..|.|.+....... ..++.-.|.|.|||.||+++++.++|.-..+.+.
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 56899999999999843 56777665310000 0133457999999999999999998853222221
Q ss_pred Ccccccccceeee---eccccCeEEEEEeeC
Q 004492 324 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 324 ~~IG~fGiGfKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..|+|+..+ .-..|.++.|.|...
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 225678888877643
No 63
>PRK09835 sensor kinase CusS; Provisional
Probab=95.72 E-value=0.027 Score=63.03 Aligned_cols=88 Identities=14% Similarity=0.178 Sum_probs=58.3
Q ss_pred CHHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccc
Q 004492 254 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFG 330 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fG 330 (749)
.+..+|.+||+||+.+.. ..|.|.+.. ..+.-.|.|.|||.||+++++...+. |-..... ....-+..|
T Consensus 375 ~l~~vl~nll~Na~~~~~~~~~I~i~~~~------~~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~--~~~~~~g~G 446 (482)
T PRK09835 375 MLRRAISNLLSNALRYTPAGEAITVRCQE------VDHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPS--RQRKGEGSG 446 (482)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------eCCEEEEEEEECCCCcCHHHHHHHhCCcccCCCC--CCCCCCCcc
Confidence 366899999999999864 346666653 23456799999999999999998874 3332211 111224578
Q ss_pred cceeee---eccccCeEEEEEe
Q 004492 331 VGFKTG---AMRLGKDALVLTQ 349 (749)
Q Consensus 331 iGfKsA---sm~lg~~v~V~Tk 349 (749)
+|+..+ .-..|.++.+.|.
T Consensus 447 lGL~i~~~i~~~~~g~i~~~s~ 468 (482)
T PRK09835 447 IGLAIVKSIVVAHKGTVAVTSD 468 (482)
T ss_pred hHHHHHHHHHHHCCCEEEEEEC
Confidence 888432 2245667777664
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=95.46 E-value=0.039 Score=51.97 Aligned_cols=82 Identities=20% Similarity=0.150 Sum_probs=48.5
Q ss_pred CHHHHHHHHHHcccccC-----CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccc
Q 004492 254 WIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~ 328 (749)
.+..++.||+.||+..+ ...|.|.+.. .++...|.|.|+|.||+. +.+.+.-..+.+. ..+.
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 35689999999999753 2457776653 234568999999999973 3344431111111 1234
Q ss_pred cccceeeeeccccCeEEEEEe
Q 004492 329 FGVGFKTGAMRLGKDALVLTQ 349 (749)
Q Consensus 329 fGiGfKsAsm~lg~~v~V~Tk 349 (749)
-|+|+... -+++.++.+.+.
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
>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=66.72 Aligned_cols=90 Identities=16% Similarity=0.170 Sum_probs=59.0
Q ss_pred HHHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
...+|..||+||+++.. ..|.|.+.. .++.-.|.|.|||.||+++++.++|.-..+.+.. .....+..|+|
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 45789999999999854 346665543 3345679999999999999999998533222211 11122347888
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-..|.++.+.+...
T Consensus 671 L~Ivr~Iv~~~gG~I~v~s~~~ 692 (703)
T TIGR03785 671 LYIVRLIADFHQGRIQAENRQQ 692 (703)
T ss_pred HHHHHHHHHHcCCEEEEEECCC
Confidence 8643 224567777766543
No 66
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=95.40 E-value=0.038 Score=59.33 Aligned_cols=90 Identities=13% Similarity=0.137 Sum_probs=53.7
Q ss_pred HHHHHHHHHHcccccC-CC--ccEEEEEeceeccCCC----CccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccc
Q 004492 255 IFGAIAELVDNSRDAK-AT--KLEISIESIYFKKAGK----DIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 327 (749)
Q Consensus 255 p~~AIaELIDNA~DA~-At--~V~I~I~~~~~~~~~~----~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG 327 (749)
...++..||+||+.+. .. .|.|.+.........+ ....|.|.|||.||+++.+.+.|.-+.+.+. +
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 5688999999999975 33 4444432100000000 1236899999999999999888753322221 2
Q ss_pred ccccceeee---eccccCeEEEEEeeC
Q 004492 328 RFGVGFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 328 ~fGiGfKsA---sm~lg~~v~V~Tk~~ 351 (749)
.-|+|+..+ .-..|.++.|.|...
T Consensus 311 g~GlGL~i~~~iv~~~gG~i~~~s~~~ 337 (348)
T PRK11073 311 GTGLGLSIARNLIDQHSGKIEFTSWPG 337 (348)
T ss_pred CccCCHHHHHHHHHHcCCeEEEEecCC
Confidence 247776422 224677777776543
No 67
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=95.39 E-value=0.039 Score=67.44 Aligned_cols=85 Identities=15% Similarity=0.266 Sum_probs=59.4
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...++..||+||+.+.. ..|.|.+.. .++.-.|.|.|||.||+++++.+.|. |-.. . ...|..|+|
T Consensus 562 l~qil~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~-~-----~~~~g~GLG 629 (914)
T PRK11466 562 IRQVITNLLSNALRFTDEGSIVLRSRT------DGEQWLVEVEDSGCGIDPAKLAEIFQPFVQV-S-----GKRGGTGLG 629 (914)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHhchhhcC-C-----CCCCCCccc
Confidence 45789999999999853 456666653 23456799999999999999999885 3321 1 112456888
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-.+|.++.|.|...
T Consensus 630 L~i~~~l~~~~gG~i~v~s~~~ 651 (914)
T PRK11466 630 LTISSRLAQAMGGELSATSTPE 651 (914)
T ss_pred HHHHHHHHHHcCCEEEEEecCC
Confidence 7432 225788888887654
No 68
>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=95.32 E-value=0.042 Score=67.45 Aligned_cols=87 Identities=16% Similarity=0.265 Sum_probs=61.0
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCc-cEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGi 331 (749)
...+|..||+||+.+.. ..|.|.+.. ..+. -.|.|.|+|.||+++++.++|. |..... ....|..|+
T Consensus 580 l~~il~nLi~NAik~~~~g~i~i~~~~------~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~----~~~~~g~GL 649 (968)
T TIGR02956 580 IRQVLINLVGNAIKFTDRGSVVLRVSL------NDDSSLLFEVEDTGCGIAEEEQATLFDAFTQADG----RRRSGGTGL 649 (968)
T ss_pred HHHHHHHHHHHHHhhCCCCeEEEEEEE------cCCCeEEEEEEeCCCCCCHHHHHHHHhhhhccCC----CCCCCCccH
Confidence 46889999999999854 457777664 1233 6799999999999999999885 444321 122355688
Q ss_pred ceeee---eccccCeEEEEEeeC
Q 004492 332 GFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 332 GfKsA---sm~lg~~v~V~Tk~~ 351 (749)
|+..+ .-.+|.++.|.|...
T Consensus 650 GL~i~~~l~~~~gG~i~~~s~~~ 672 (968)
T TIGR02956 650 GLAISQRLVEAMDGELGVESELG 672 (968)
T ss_pred HHHHHHHHHHHcCCEEEEEecCC
Confidence 87532 225678888887654
No 69
>PRK10490 sensor protein KdpD; Provisional
Probab=94.94 E-value=0.046 Score=67.72 Aligned_cols=87 Identities=14% Similarity=0.199 Sum_probs=58.1
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGi 331 (749)
...++.+||+||+.+... .|.|.+.. .++.-.|.|.|||.||+++++.++|. |-..... ...+..|+
T Consensus 779 L~qVL~NLL~NAik~s~~g~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~~----~~~~G~GL 848 (895)
T PRK10490 779 FERVLINLLENAVKYAGAQAEIGIDAHV------EGERLQLDVWDNGPGIPPGQEQLIFDKFARGNKE----SAIPGVGL 848 (895)
T ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEE------eCCEEEEEEEECCCCCCHHHHHHhcCCCccCCCC----CCCCCccH
Confidence 568999999999998643 46665543 23456899999999999999999885 4332211 12234678
Q ss_pred ceeeee---ccccCeEEEEEeeC
Q 004492 332 GFKTGA---MRLGKDALVLTQTA 351 (749)
Q Consensus 332 GfKsAs---m~lg~~v~V~Tk~~ 351 (749)
|+..+- -..|.++.+.|...
T Consensus 849 GL~Ivk~ive~hGG~I~v~s~~~ 871 (895)
T PRK10490 849 GLAICRAIVEVHGGTIWAENRPE 871 (895)
T ss_pred HHHHHHHHHHHcCCEEEEEECCC
Confidence 875321 24577777776543
No 70
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=94.89 E-value=0.075 Score=64.77 Aligned_cols=94 Identities=20% Similarity=0.248 Sum_probs=59.7
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...+|..||+||+.+.. ..|.|.+.... .......-.|.|.|||.||+++++.+.|. |-..... .....|..|+|
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 LQQIITNLVGNAIKFTESGNIDILVELRA-LSNTKVQLEVQIRDTGIGISERQQSQLFQAFRQADAS--ISRRHGGTGLG 485 (919)
T ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEEEe-cCCCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCC--CCCCCCCcchh
Confidence 45789999999999854 34555554311 00011134689999999999999999885 4332211 11233567888
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-.+|.++.|.|...
T Consensus 486 L~i~~~i~~~~gG~i~v~s~~~ 507 (919)
T PRK11107 486 LVITQKLVNEMGGDISFHSQPN 507 (919)
T ss_pred HHHHHHHHHHhCCEEEEEecCC
Confidence 7532 224788888888754
No 71
>PRK10547 chemotaxis protein CheA; Provisional
Probab=94.77 E-value=0.076 Score=63.76 Aligned_cols=87 Identities=20% Similarity=0.329 Sum_probs=54.9
Q ss_pred HHHHHHHHcccccCC--------------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHh-------------
Q 004492 257 GAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR------------- 309 (749)
Q Consensus 257 ~AIaELIDNA~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~------------- 309 (749)
..|..||.||+|+|- ..|.|.... .++.-.|.|.|||.||+++.+.+
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 33456799999999999987753
Q ss_pred --------hhhcccCCCCCCCCCcccccccceee---eeccccCeEEEEEeeC
Q 004492 310 --------MTYFGHKQPDADDPNRIGRFGVGFKT---GAMRLGKDALVLTQTA 351 (749)
Q Consensus 310 --------~~~fG~s~k~~~d~~~IG~fGiGfKs---Asm~lg~~v~V~Tk~~ 351 (749)
.|.-|.+.+. .....+..|+|+.. ..-.+|..+.|.|...
T Consensus 462 s~~e~~~lIF~pgfst~~--~~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~~g 512 (670)
T PRK10547 462 SDEEVGMLIFAPGFSTAE--QVTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQG 512 (670)
T ss_pred CHHHHHHHhhcCCccccc--ccccCCCCchhHHHHHHHHHHcCCEEEEEecCC
Confidence 2322333321 11223445888742 2235788888887643
No 72
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.60 E-value=0.068 Score=66.45 Aligned_cols=89 Identities=17% Similarity=0.222 Sum_probs=59.8
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...+|..||+||+.+.. ..|.|.+.. .++.-.|.|.|||.||+++++.++|. |-..... .....+..|+|
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 45899999999999853 456666653 23456799999999999999999885 4322111 11222446888
Q ss_pred eeeee---ccccCeEEEEEeeC
Q 004492 333 FKTGA---MRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsAs---m~lg~~v~V~Tk~~ 351 (749)
+..+. -.+|.++.|.|...
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 24688888888654
No 73
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=94.49 E-value=0.087 Score=58.60 Aligned_cols=88 Identities=20% Similarity=0.406 Sum_probs=61.2
Q ss_pred HHHHHHHHHHcccccC----------CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCC---
Q 004492 255 IFGAIAELVDNSRDAK----------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDAD--- 321 (749)
Q Consensus 255 p~~AIaELIDNA~DA~----------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~--- 321 (749)
+.-.+-||..||+.|- -.-|+|.+-. +++...|.|.|-|+|++++++..+|.|+.|.....
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 5577899999999992 2447777653 45678899999999999999999999988754321
Q ss_pred --CCCcccccccceeeeec---cccCeEEEEE
Q 004492 322 --DPNRIGRFGVGFKTGAM---RLGKDALVLT 348 (749)
Q Consensus 322 --d~~~IG~fGiGfKsAsm---~lg~~v~V~T 348 (749)
......-||-|+-.+-+ .+|.++.+.|
T Consensus 335 ~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~S 366 (414)
T KOG0787|consen 335 NNRTAPLAGFGFGLPISRLYARYFGGDLKLQS 366 (414)
T ss_pred CCCcCcccccccCCcHHHHHHHHhCCCeeEEe
Confidence 13455667777653322 2455555544
No 74
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=94.29 E-value=0.061 Score=62.18 Aligned_cols=45 Identities=24% Similarity=0.291 Sum_probs=34.8
Q ss_pred HHHHHHHHHHcccccC-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 255 IFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 255 p~~AIaELIDNA~DA~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
...++.|+++||+.+. +..|.|.+.. .++.-.|.|.|||.||+++
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 5578999999999864 4667777653 2345679999999999864
No 75
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=94.24 E-value=0.13 Score=63.74 Aligned_cols=91 Identities=14% Similarity=0.262 Sum_probs=59.4
Q ss_pred HHHHHHHHHHcccccCC-CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...++..||.||+.+.. ..|.|.+... . ..++.-.|.|.|+|.||+++++.++|. |-.. +. ....-+..|+|
T Consensus 566 L~QVL~NLL~NAik~t~~G~I~I~v~~~--~-~~~~~l~I~V~DtG~GI~~e~l~~IFePF~t~-~~--~~~~~~GtGLG 639 (894)
T PRK10618 566 LRKILLLLLNYAITTTAYGKITLEVDQD--E-SSPDRLTIRILDTGAGVSIKELDNLHFPFLNQ-TQ--GDRYGKASGLT 639 (894)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEEc--c-CCCcEEEEEEEECCCCCCHHHHHHhcCccccC-CC--CCCCCCCcChh
Confidence 45889999999999854 3566666531 0 112346799999999999999999885 4332 21 11112235777
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-.+|.++.|.|...
T Consensus 640 LaI~k~Lve~~GG~I~v~S~~g 661 (894)
T PRK10618 640 FFLCNQLCRKLGGHLTIKSREG 661 (894)
T ss_pred HHHHHHHHHHcCCEEEEEECCC
Confidence 6321 124788999988754
No 76
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=94.05 E-value=0.078 Score=52.22 Aligned_cols=52 Identities=15% Similarity=0.127 Sum_probs=40.0
Q ss_pred HHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh
Q 004492 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~ 312 (749)
...|+.|++.||+..+- ..|.|.+.. .++.-.|.|.|+|.||+++.+...+.
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 45899999999998864 246666553 34578899999999999888776654
No 77
>PRK03660 anti-sigma F factor; Provisional
Probab=93.75 E-value=0.17 Score=48.15 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=33.1
Q ss_pred CHHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCH
Q 004492 254 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTH 304 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ 304 (749)
.+..++.|++.||+..+. ..|.|.+.. ..+...|.|.|+|.||+.
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 356899999999997542 346666543 234567999999999985
No 78
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=93.49 E-value=0.14 Score=59.39 Aligned_cols=75 Identities=19% Similarity=0.405 Sum_probs=55.6
Q ss_pred HHHHHHHHHHcccc-cCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccce
Q 004492 255 IFGAIAELVDNSRD-AKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 333 (749)
Q Consensus 255 p~~AIaELIDNA~D-A~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiGf 333 (749)
...-++|-+.||+. |.|++|+|.+.. ..+...+.|+|||+|++..+ ...|.||+-.
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 56789999999997 589999999874 33788999999999997642 3457887764
Q ss_pred ee-eeccccCeEEEEEeeCC
Q 004492 334 KT-GAMRLGKDALVLTQTAD 352 (749)
Q Consensus 334 Ks-Asm~lg~~v~V~Tk~~~ 352 (749)
-. =+-+++..+.|..+..+
T Consensus 539 M~ERA~~L~~~L~i~~~~~g 558 (574)
T COG3850 539 MRERAQRLGGQLRIRRREGG 558 (574)
T ss_pred HHHHHHHhcCeEEEeecCCC
Confidence 11 12257778877776654
No 79
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=93.48 E-value=0.14 Score=47.41 Aligned_cols=78 Identities=19% Similarity=0.226 Sum_probs=50.9
Q ss_pred CHHHHHHHHHHcccccCCC-----ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccc
Q 004492 254 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~ 328 (749)
...-|+.|++.||+..+.. .|.|.+.. ..+.-.|.|.|+|.|+++..+.....-.. .....|
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~------~~~~l~i~v~D~G~~~d~~~~~~~~~~~~------~~~~~~- 97 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEV------DPDRLRISVRDNGPGFDPEQLPQPDPWEP------DSLREG- 97 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEE------cCCEEEEEEEECCCCCChhhccCcccccC------CCCCCC-
Confidence 3568999999999998653 56666553 34568899999999999887554321110 112223
Q ss_pred cccceeeeeccccCeEEE
Q 004492 329 FGVGFKTGAMRLGKDALV 346 (749)
Q Consensus 329 fGiGfKsAsm~lg~~v~V 346 (749)
|.|+.. .-.+++++.+
T Consensus 98 -G~Gl~l-i~~l~D~~~~ 113 (125)
T PF13581_consen 98 -GRGLFL-IRSLMDEVDY 113 (125)
T ss_pred -CcCHHH-HHHHHcEEEE
Confidence 666632 2346788877
No 80
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=93.36 E-value=0.22 Score=62.98 Aligned_cols=92 Identities=11% Similarity=0.213 Sum_probs=57.5
Q ss_pred HHHHHHHHHHcccccCCC-ccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 255 IFGAIAELVDNSRDAKAT-KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At-~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...+|..||+||+++... .+.|.+.... .......-.|.|.|||.||+++++.++|. |-.... ....+..|+|
T Consensus 829 l~qvl~NLl~NAik~~~~g~i~i~~~~~~-~~~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~----~~~~~G~GLG 903 (1197)
T PRK09959 829 FKQVLSNLLSNALKFTTEGAVKITTSLGH-IDDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSA----GRQQTGSGLG 903 (1197)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEee-ecCCceEEEEEEEEcCCCCCHHHHHHhhcccccccc----CCCCCCcCch
Confidence 568999999999998653 4555443210 00011224589999999999999999885 433211 1122346888
Q ss_pred eeee---eccccCeEEEEEeeC
Q 004492 333 FKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 333 fKsA---sm~lg~~v~V~Tk~~ 351 (749)
+..+ .-..|.++.|.|...
T Consensus 904 L~i~~~iv~~~gG~i~v~s~~~ 925 (1197)
T PRK09959 904 LMICKELIKNMQGDLSLESHPG 925 (1197)
T ss_pred HHHHHHHHHHcCCEEEEEeCCC
Confidence 7532 124678888877653
No 81
>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=93.23 E-value=0.14 Score=50.46 Aligned_cols=85 Identities=18% Similarity=0.080 Sum_probs=53.7
Q ss_pred CHHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccc
Q 004492 254 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 328 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~ 328 (749)
...-|+.|++.||+..+- ..|.|.+.. .++...|.|.|+|.|++++.+...+........ .+....|
T Consensus 42 ~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~------~~~~l~i~V~D~G~gfd~~~~~~~~~~~~~~~~-~~~~~~~- 113 (159)
T TIGR01924 42 DLKIAVSEACTNAVKHAYKEGENGEIGISFHI------YEDRLEIIVSDQGDSFDMDTFKQSLGPYDGSEP-IDDLREG- 113 (159)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEEEE------eCCEEEEEEEEcccccCchhhccccCCCCCCCC-cccCCCC-
Confidence 456899999999998852 356776653 335678999999999998887654432111111 0111223
Q ss_pred cccceeeeeccccCeEEEEE
Q 004492 329 FGVGFKTGAMRLGKDALVLT 348 (749)
Q Consensus 329 fGiGfKsAsm~lg~~v~V~T 348 (749)
|.|+...- .+.+++.+.+
T Consensus 114 -G~GL~Li~-~L~D~v~~~~ 131 (159)
T TIGR01924 114 -GLGLFLIE-TLMDEVEVYE 131 (159)
T ss_pred -ccCHHHHH-HhccEEEEEe
Confidence 77874332 4677777654
No 82
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=92.81 E-value=0.15 Score=56.25 Aligned_cols=71 Identities=24% Similarity=0.376 Sum_probs=53.2
Q ss_pred CHHHHHHHHHHccccc-CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcccccccc
Q 004492 254 WIFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGiG 332 (749)
..+-++.|.|.|++-. +|+++.|.+.. .++.-.|.|.|||.|.+.+... | |.|
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 4789999999999975 78999999985 3456899999999998765421 2 334
Q ss_pred eee---eeccccCeEEEEEee
Q 004492 333 FKT---GAMRLGKDALVLTQT 350 (749)
Q Consensus 333 fKs---Asm~lg~~v~V~Tk~ 350 (749)
+++ =...+|..+.|.|..
T Consensus 333 L~~mreRv~~lgG~l~i~S~~ 353 (365)
T COG4585 333 LLGMRERVEALGGTLTIDSAP 353 (365)
T ss_pred hhhHHHHHHHcCCEEEEEecC
Confidence 432 123578888888877
No 83
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=92.75 E-value=0.34 Score=58.75 Aligned_cols=87 Identities=17% Similarity=0.264 Sum_probs=55.6
Q ss_pred HHHHHHHHHcccccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCccccccccee
Q 004492 256 FGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVGFK 334 (749)
Q Consensus 256 ~~AIaELIDNA~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiGfK 334 (749)
..+|..|||||.....+..+|.|.... ..+.-.+.|+|+|.||+.+++.+.|. |-...+.. + ..--|+|+.
T Consensus 777 eQVLiNLleNA~Kyap~~s~I~I~~~~----~~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~-~---~~G~GLGLs 848 (890)
T COG2205 777 EQVLINLLENALKYAPPGSEIRINAGV----ERENVVFSVIDEGPGIPEGELERIFDKFYRGNKES-A---TRGVGLGLA 848 (890)
T ss_pred HHHHHHHHHHHHhhCCCCCeEEEEEEE----ecceEEEEEEeCCCCCChhHHHHhhhhhhcCCCCC-C---CCCccccHH
Confidence 488999999999986654444443211 34677899999999999999999984 65544421 1 222355553
Q ss_pred ee--ec-cccCeEEEEEee
Q 004492 335 TG--AM-RLGKDALVLTQT 350 (749)
Q Consensus 335 sA--sm-~lg~~v~V~Tk~ 350 (749)
-+ +. ..|..+.+..+.
T Consensus 849 Ic~~iv~ahgG~I~a~~~~ 867 (890)
T COG2205 849 ICRGIVEAHGGTISAENNP 867 (890)
T ss_pred HHHHHHHHcCCeEEEEEcC
Confidence 11 11 345666666633
No 84
>PRK13557 histidine kinase; Provisional
Probab=91.45 E-value=0.45 Score=53.76 Aligned_cols=92 Identities=16% Similarity=0.204 Sum_probs=56.3
Q ss_pred HHHHHHHHHHcccccCCC--ccEEEEEeceecc---------CCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCC
Q 004492 255 IFGAIAELVDNSRDAKAT--KLEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 323 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At--~V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~ 323 (749)
+..++..|+.||+++... .+.|......... ..++.-.|.|.|||.||+++...++|...++.+.
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 457899999999998543 3444332110000 0122346999999999999999988863333221
Q ss_pred Ccccccccceeee---eccccCeEEEEEeeC
Q 004492 324 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 351 (749)
Q Consensus 324 ~~IG~fGiGfKsA---sm~lg~~v~V~Tk~~ 351 (749)
..+..|+|+..+ .-.+|..+.|.+...
T Consensus 354 -~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~ 383 (540)
T PRK13557 354 -EGKGTGLGLSMVYGFAKQSGGAVRIYSEVG 383 (540)
T ss_pred -CCCCCCccHHHHHHHHHHCCCEEEEEecCC
Confidence 123457776422 235678888877643
No 85
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=90.56 E-value=0.25 Score=57.60 Aligned_cols=46 Identities=17% Similarity=0.366 Sum_probs=36.3
Q ss_pred CHHHHHHHHHHccccc-CCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 254 WIFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
+....+.|+|.||+.+ .++.|.|.+.. .++.-.|.|.|||.||+++
T Consensus 469 ~l~~il~ell~NA~kha~a~~i~V~~~~------~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 469 HLLQIAREALSNALKHAQASEVVVTVAQ------NQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred HHHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCcc
Confidence 3678899999999986 45678777753 3345689999999999875
No 86
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.53 E-value=0.28 Score=51.23 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=34.4
Q ss_pred HHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCC-ccEEEEEeCCCCCCHH
Q 004492 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKD-IPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~-~~~L~I~DNG~GMt~~ 305 (749)
+--+|-||+.||+..++ ..|.|.+... .++ ...+.|+|||.|++.+
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 44789999999999876 4677777641 122 3799999999998653
No 87
>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=89.61 E-value=0.2 Score=46.37 Aligned_cols=45 Identities=16% Similarity=0.538 Sum_probs=35.5
Q ss_pred Ccccccc-CC--CCCchhhhHHHHHHHhhcCCeEEEEEece------eEEEEeC
Q 004492 70 SHCFLSP-AP--ECSRDHNEWRRFLIYLQGRDMVAIAKFKF------WEFYILP 114 (749)
Q Consensus 70 ~~~~~~p-~~--~~~~~~~ew~~f~~~l~~~~~~~~~~~~~------~~~~~~~ 114 (749)
-.+++.+ .| .++.+...+.+|..||...+|+|||.++. ..|||+|
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 88
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=89.50 E-value=0.63 Score=53.29 Aligned_cols=55 Identities=20% Similarity=0.208 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHcccccCC----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhh
Q 004492 253 GWIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 311 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~ 311 (749)
-.|--.|-=|||||+-||. ....|.+.... .++.-.+.|.|||.||++.......
T Consensus 349 ~~p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~----~~~~i~i~i~Dng~g~~~~~~~~~~ 407 (456)
T COG2972 349 IDPKLVLQPLVENAIEHGIEPKRPGGSIAISAKK----QDDVIQISISDNGPGIDEEKLEGLS 407 (456)
T ss_pred cCchHHHhHHHHHHHHHhcccCCCCCEEEEEEEE----cCCEEEEEEeeCCCCCChhHHHHHH
Confidence 3688899999999999974 33444444311 2456789999999999998876654
No 89
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=89.20 E-value=0.63 Score=53.30 Aligned_cols=58 Identities=22% Similarity=0.345 Sum_probs=45.2
Q ss_pred CHHHHHHHHHHcccccCC---CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccC
Q 004492 254 WIFGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHK 316 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s 316 (749)
.....+-.|+-||+||.. ..|+|.... ...+..+|.|.|||.|-+.+-+.+.+. |.+|
T Consensus 564 ~ieQVlvNl~~NaldA~~h~~p~i~~~~~~-----~~~e~l~i~i~DnGqGwp~~l~dkLl~PFtts 625 (673)
T COG4192 564 SIEQVLVNLIVNALDASTHFAPWIKLIALG-----TEQEMLRIAIIDNGQGWPHELVDKLLTPFTTS 625 (673)
T ss_pred hHHHHHHHHHHHHHhhhccCCceEEEEeec-----CcccceEEEEecCCCCCchhHHHHhcCCcccc
Confidence 467899999999999964 556665542 144678999999999999999889886 5444
No 90
>PRK13560 hypothetical protein; Provisional
Probab=88.04 E-value=0.46 Score=56.60 Aligned_cols=44 Identities=25% Similarity=0.414 Sum_probs=31.7
Q ss_pred HHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 257 GAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 257 ~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
..|.+||.||+++.. ..|.|.+.. .+++.-.|.|.|||+||+++
T Consensus 714 ~il~NLl~NAik~~~~~~~~~~i~i~~~~-----~~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 714 LIISELLSNALKHAFPDGAAGNIKVEIRE-----QGDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred HHHHHHHHHHHHhhccCCCCceEEEEEEE-----cCCCEEEEEEEeCCCcCCcc
Confidence 478899999999732 355655542 12345679999999999875
No 91
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=87.16 E-value=0.78 Score=51.09 Aligned_cols=71 Identities=17% Similarity=0.368 Sum_probs=51.9
Q ss_pred HHHHHHHHHcccccCC--CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh-cccCCCCCCCCCcccccccc
Q 004492 256 FGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 332 (749)
Q Consensus 256 ~~AIaELIDNA~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~-fG~s~k~~~d~~~IG~fGiG 332 (749)
...|-.+|.||+..+. .+|.|.+.. .+..-.|+|.|.|.||+++++.+.|. |-.-.+. .....|--|+|
T Consensus 344 tQVldNii~NA~KYsP~Gg~Itv~~~~------~~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkA--RsR~~gGTGLG 415 (459)
T COG5002 344 TQVLDNIISNALKYSPDGGRITVSVKQ------RETWVEISISDQGLGIPKEDLEKIFDRFYRVDKA--RSRKMGGTGLG 415 (459)
T ss_pred HHHHHHHHHHHhhcCCCCCeEEEEEee------eCcEEEEEEccCCCCCCchhHHHHHHHHhhhhhh--hhhcCCCCchh
Confidence 4778889999998754 677777663 23456899999999999999999984 5544332 33456766788
Q ss_pred ee
Q 004492 333 FK 334 (749)
Q Consensus 333 fK 334 (749)
+.
T Consensus 416 La 417 (459)
T COG5002 416 LA 417 (459)
T ss_pred HH
Confidence 74
No 92
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=86.58 E-value=1.3 Score=43.41 Aligned_cols=85 Identities=19% Similarity=0.184 Sum_probs=51.7
Q ss_pred CCHHHHHHHHHHcccccCC------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCcc
Q 004492 253 GWIFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRI 326 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA~A------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~I 326 (749)
.....|+.|++.|++.++- ..|.|.+.. ..+...++|+|.|.|+. ++...+.-+.... ..-..
T Consensus 39 ~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~------~~~~~~i~i~D~G~~~~--~~~~~~~~~~~~~---~~~~~ 107 (146)
T COG2172 39 ADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSL------DDGKLEIRIWDQGPGIE--DLEESLGPGDTTA---EGLQE 107 (146)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEE------cCCeEEEEEEeCCCCCC--CHHHhcCCCCCCC---ccccc
Confidence 3567999999999998742 345555543 34568899999997664 4445554332211 12233
Q ss_pred cccccceeeeeccccCeEEEEEeeC
Q 004492 327 GRFGVGFKTGAMRLGKDALVLTQTA 351 (749)
Q Consensus 327 G~fGiGfKsAsm~lg~~v~V~Tk~~ 351 (749)
| |+|| ....++.+++.+.....
T Consensus 108 ~--G~Gl-~l~~~~~D~~~~~~~~~ 129 (146)
T COG2172 108 G--GLGL-FLAKRLMDEFSYERSED 129 (146)
T ss_pred c--cccH-HHHhhhheeEEEEeccC
Confidence 3 6666 44455677777764433
No 93
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=86.10 E-value=0.91 Score=53.64 Aligned_cols=51 Identities=18% Similarity=0.347 Sum_probs=39.3
Q ss_pred HHHHHHHHHcccccCC---------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh
Q 004492 256 FGAIAELVDNSRDAKA---------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (749)
Q Consensus 256 ~~AIaELIDNA~DA~A---------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~ 312 (749)
-.|+-.||.||.+|.. ..|.+..+. .++.-.+.|.|||.|.+.+..++++.
T Consensus 602 ~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~------~~g~i~v~V~DNGkG~p~e~r~r~~E 661 (712)
T COG5000 602 GQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDD------ADGRIVVDVIDNGKGFPRENRHRALE 661 (712)
T ss_pred HHHHHHHHHhHHHHhhhcccccCCcceEEEEEec------CCCeEEEEEecCCCCCChHHhhhhcc
Confidence 4789999999999842 124444432 44678899999999999999999985
No 94
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=84.39 E-value=2.1 Score=52.21 Aligned_cols=101 Identities=22% Similarity=0.326 Sum_probs=66.7
Q ss_pred eeecChHHHHHhcccccCCHHHHHHHHHHcccccCC--------------CccEEEEEeceeccCCCCccEEEEEeCCCC
Q 004492 236 FVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHG 301 (749)
Q Consensus 236 ~~~~~p~~L~~lst~h~~~p~~AIaELIDNA~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~G 301 (749)
...++..+|..|+ .-|-.||-||+|.|- .+|.+.... .++.-.|.|.|||.|
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 4567777877663 336689999999973 355555542 456778999999999
Q ss_pred CCHHHHHh-hhh-----------------------cccCCCCCCCCCccccccccee---eeeccccCeEEEEEeeCC
Q 004492 302 MTHQDVVR-MTY-----------------------FGHKQPDADDPNRIGRFGVGFK---TGAMRLGKDALVLTQTAD 352 (749)
Q Consensus 302 Mt~~eL~~-~~~-----------------------fG~s~k~~~d~~~IG~fGiGfK---sAsm~lg~~v~V~Tk~~~ 352 (749)
|+++.+.+ ++. -|+|.+. .-..+.-=|+||- +..-.||..+.|.|+...
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 99998865 332 1333221 1233344488863 455578888888887653
No 95
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=82.52 E-value=1.8 Score=51.48 Aligned_cols=51 Identities=24% Similarity=0.251 Sum_probs=41.7
Q ss_pred HHHHHHHHHcccccCC---CccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhh
Q 004492 256 FGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (749)
Q Consensus 256 ~~AIaELIDNA~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~ 312 (749)
-.....||.||+-.+. +.|.|..+. .++.-++.|.|||.|+++.-+.+.|.
T Consensus 638 ~qv~~NLi~Naik~~~~e~~~i~I~~~r------~ed~~t~sV~dng~Gi~~a~~~riF~ 691 (750)
T COG4251 638 GQVFQNLIANAIKFGGPENPDIEISAER------QEDEWTFSVRDNGIGIDPAYFERIFV 691 (750)
T ss_pred HHHHHHHHhhheecCCCCCCceEEeeec------cCCceEEEecCCCCCcCHHHHHHHHH
Confidence 4677899999998864 557777654 45678999999999999999999875
No 96
>PRK13559 hypothetical protein; Provisional
Probab=80.72 E-value=1.6 Score=47.28 Aligned_cols=47 Identities=15% Similarity=0.053 Sum_probs=33.5
Q ss_pred HHHHHHHHHHcccccCC-----CccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 255 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
+..++.|||.||+.+++ ..|.|.+... ..++...|.|.|||.|++++
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 13456789999999997653
No 97
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=80.66 E-value=1.8 Score=49.76 Aligned_cols=46 Identities=24% Similarity=0.265 Sum_probs=33.5
Q ss_pred HHHHHHHHHHcccccC-CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 255 IFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 255 p~~AIaELIDNA~DA~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
....+.+|+.||+.+. +..|.|.+... ..+.-.|.|.|||.||+++
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 4578999999999864 34566666531 2345679999999999863
No 98
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=79.63 E-value=3.2 Score=45.74 Aligned_cols=58 Identities=21% Similarity=0.181 Sum_probs=36.6
Q ss_pred HHHHHHHHHHcccccCCC----ccEEEEEecee------ccCCCCccEEEEEeCCCCCCHHHHHhhhh
Q 004492 255 IFGAIAELVDNSRDAKAT----KLEISIESIYF------KKAGKDIPMLSIIDDGHGMTHQDVVRMTY 312 (749)
Q Consensus 255 p~~AIaELIDNA~DA~At----~V~I~I~~~~~------~~~~~~~~~L~I~DNG~GMt~~eL~~~~~ 312 (749)
+..|+-.||.||..|.+. .=.|.+..-.. ..-..-.-.|.|.|||.|++.+-....|.
T Consensus 242 liQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L~~~lF~ 309 (363)
T COG3852 242 LIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDLQDHLFY 309 (363)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHHhhhccc
Confidence 569999999999999762 11122211000 00001134578999999999988888875
No 99
>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 COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=76.70 E-value=4.9 Score=44.70 Aligned_cols=74 Identities=22% Similarity=0.390 Sum_probs=49.8
Q ss_pred HHHHHHHHccc-----ccCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHHHhhhhcccCCCCCCCCCccccccc
Q 004492 257 GAIAELVDNSR-----DAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 331 (749)
Q Consensus 257 ~AIaELIDNA~-----DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL~~~~~fG~s~k~~~d~~~IG~fGi 331 (749)
+|+--.++-|+ -|||++|.|.+.. ..+.-.+.|.|||.|.+-.+...-+ .|+
T Consensus 358 talyRv~QEaltNIErHa~Atrv~ill~~------~~d~vql~vrDnG~GF~~~~~~~~~-----------------~Gi 414 (459)
T COG4564 358 TALYRVVQEALTNIERHAGATRVTILLQQ------MGDMVQLMVRDNGVGFSVKEALQKR-----------------HGI 414 (459)
T ss_pred HHHHHHHHHHHHHHHhhcCCeEEEEEecc------CCcceEEEEecCCCCccchhhccCc-----------------ccc
Confidence 44444444444 3589999998873 4567789999999999877653321 488
Q ss_pred ceeee--ec-cccCeEEEEEeeCCC
Q 004492 332 GFKTG--AM-RLGKDALVLTQTADS 353 (749)
Q Consensus 332 GfKsA--sm-~lg~~v~V~Tk~~~~ 353 (749)
|+..- -| .+|..+.|.|-..|+
T Consensus 415 GLRNMrERma~~GG~~~v~s~p~GT 439 (459)
T COG4564 415 GLRNMRERMAHFGGELEVESSPQGT 439 (459)
T ss_pred ccccHHHHHHHhCceEEEEecCCCc
Confidence 87631 11 368888888877665
No 101
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=60.03 E-value=11 Score=42.55 Aligned_cols=45 Identities=29% Similarity=0.411 Sum_probs=36.6
Q ss_pred CHHHHHHHHHHcccc-cCCCccEEEEEeceeccCCCCccEEEEEeCCCCCCH
Q 004492 254 WIFGAIAELVDNSRD-AKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTH 304 (749)
Q Consensus 254 ~p~~AIaELIDNA~D-A~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ 304 (749)
..+-...|++.|=.. |.|+.|+|.+-. +++.-.+.|.|||.|++.
T Consensus 410 TLyRl~QE~LNNI~KHA~AS~V~i~l~~------~~e~l~Lei~DdG~Gl~~ 455 (497)
T COG3851 410 TLYRLCQELLNNICKHADASAVTIQLWQ------QDERLMLEIEDDGSGLPP 455 (497)
T ss_pred eHHHHHHHHHHHHHhccccceEEEEEee------CCcEEEEEEecCCcCCCC
Confidence 377888999999774 689999998863 445578999999999865
No 102
>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=57.49 E-value=2.3 Score=33.68 Aligned_cols=34 Identities=24% Similarity=0.735 Sum_probs=22.8
Q ss_pred CCCCceeeCccchhhccCCC-CCC---CCCCCCCceec
Q 004492 636 KPDQEWVQCNKCRKWRMLDP-GFD---TKSLPVEWFCY 669 (749)
Q Consensus 636 ~~~~~WvQCd~C~KWR~lp~-~~~---~~~lp~~W~C~ 669 (749)
.....|||||.|.+|-...= +.. .......|+|.
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 34679999999999988762 211 12233489985
No 103
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=48.47 E-value=17 Score=42.37 Aligned_cols=45 Identities=18% Similarity=0.168 Sum_probs=35.0
Q ss_pred HHHHHHHHHHcccccCC------CccEEEEEeceeccCCCCccEEEEEeCCCCCCHH
Q 004492 255 IFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 305 (749)
Q Consensus 255 p~~AIaELIDNA~DA~A------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~ 305 (749)
|---|.=||+||+-.|- ..|.|.+.. .+..-.+.|+|||.|+.++
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 55678889999998863 467777764 2345789999999999886
No 104
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=41.70 E-value=85 Score=38.95 Aligned_cols=45 Identities=16% Similarity=0.406 Sum_probs=34.0
Q ss_pred HHHHHHHHHHcccc-c-C--CCccEEEEEeceeccCCCCccEEEEEeCCCCCCHHHH
Q 004492 255 IFGAIAELVDNSRD-A-K--ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 307 (749)
Q Consensus 255 p~~AIaELIDNA~D-A-~--At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~~eL 307 (749)
++..+-|++.||.| . + -..|.+.|.. +...|.|.+||.||+-+..
T Consensus 54 l~ki~dEilvNaadk~rd~~m~~i~v~i~~--------e~~~isv~nnGkGIPv~~H 102 (842)
T KOG0355|consen 54 LYKIFDEILVNAADKQRDPKMNTIKVTIDK--------EKNEISVYNNGKGIPVTIH 102 (842)
T ss_pred HHHHHHHHhhcccccccCCCcceeEEEEcc--------CCCEEEEEeCCCcceeeec
Confidence 56778899999999 1 2 2456666652 5689999999999987654
No 105
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=41.03 E-value=15 Score=42.77 Aligned_cols=73 Identities=19% Similarity=0.235 Sum_probs=48.5
Q ss_pred CCHHHHHHHHHHcccccC-----CCccEEEEEeceeccCCCCccEEEEEeCCC---CCCHHHHHhhhhcccCCCC---CC
Q 004492 253 GWIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGH---GMTHQDVVRMTYFGHKQPD---AD 321 (749)
Q Consensus 253 ~~p~~AIaELIDNA~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~---GMt~~eL~~~~~fG~s~k~---~~ 321 (749)
..|..|++|+|-||+=.. +..|+|.+. ...|.|.-.|. ||+++++.+--++-....- ..
T Consensus 269 dyP~~alREai~NAv~HRDYs~~~~~v~I~iy----------dDRieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~~l~ 338 (467)
T COG2865 269 DYPLEALREAIINAVIHRDYSIRGRNVHIEIY----------DDRIEITNPGGLPPGITPEDLLKGRSKSRNPVLAKVLR 338 (467)
T ss_pred cCCHHHHHHHHHHHHHhhccccCCCceEEEEE----------CCeEEEECCCCCCCCCChhHcccCCCcccCHHHHHHHH
Confidence 358899999999999542 347888776 36899998786 8888887663111111000 01
Q ss_pred CCCcccccccceee
Q 004492 322 DPNRIGRFGVGFKT 335 (749)
Q Consensus 322 d~~~IG~fGiGfKs 335 (749)
+...+-++|-|+..
T Consensus 339 ~~~liE~~GSGi~r 352 (467)
T COG2865 339 DMGLIEERGSGIRR 352 (467)
T ss_pred HhhhHHHhCccHHH
Confidence 45677889999763
No 106
>PF14501 HATPase_c_5: GHKL domain
Probab=37.62 E-value=57 Score=29.21 Aligned_cols=42 Identities=19% Similarity=0.217 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHcccccC-----CCccEEEEEeceeccCCCCccEEEEEeCCCC
Q 004492 254 WIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHG 301 (749)
Q Consensus 254 ~p~~AIaELIDNA~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~G 301 (749)
+.-..+.-|+|||++|. ...|.|.+.. .++...|.|.-...+
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 35678999999999983 3456666653 334556666665444
No 107
>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=37.38 E-value=15 Score=34.66 Aligned_cols=17 Identities=24% Similarity=0.821 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 84 ~s~~~WdRFMRFmeRYA 100 (109)
T TIGR03047 84 KSEDEWDRFMRFMERYA 100 (109)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 108
>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=36.19 E-value=14 Score=34.94 Aligned_cols=15 Identities=27% Similarity=0.831 Sum_probs=12.8
Q ss_pred hhhHHHHHHHhhcCC
Q 004492 84 HNEWRRFLIYLQGRD 98 (749)
Q Consensus 84 ~~ew~~f~~~l~~~~ 98 (749)
..+|++||||+.+++
T Consensus 86 ~~~WdRFMRFMeRYA 100 (108)
T PF03912_consen 86 EEEWDRFMRFMERYA 100 (108)
T ss_dssp SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 469999999998764
No 109
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=35.91 E-value=16 Score=34.67 Aligned_cols=17 Identities=12% Similarity=0.378 Sum_probs=13.9
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 91 ~s~~~WdRFMRFMeRYA 107 (113)
T PRK13610 91 NSEEAFERFMRFASRYA 107 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998775
No 110
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=35.21 E-value=18 Score=34.34 Aligned_cols=17 Identities=29% Similarity=0.794 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 85 ~s~~~WdRFMRFMeRYA 101 (111)
T PLN00039 85 RSPREWDRFMRFMERYA 101 (111)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 111
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=34.17 E-value=19 Score=34.26 Aligned_cols=17 Identities=24% Similarity=0.792 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T PRK13612 87 KSEQEWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 112
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=33.50 E-value=20 Score=33.65 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 80 ~s~~~wdRFMRFmeRYA 96 (104)
T PRK13611 80 ETEAEWDRFLRFMERFS 96 (104)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 35679999999998775
No 113
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=32.97 E-value=20 Score=34.07 Aligned_cols=17 Identities=18% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004492 82 RDHNEWRRFLIYLQGRD 98 (749)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (749)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T CHL00128 87 KNPEAWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
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=25.41 E-value=75 Score=33.70 Aligned_cols=67 Identities=22% Similarity=0.335 Sum_probs=50.5
Q ss_pred CCccccccccccccee---eccCCCccccccCCCCCchhhhHHHHHHHhhcCCeEEEEEecee-----EEEEeCCC
Q 004492 49 LPHHWNVNDIVPTSKI---ILDGMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAIAKFKFW-----EFYILPPD 116 (749)
Q Consensus 49 ~p~~~~~~~~~~~~~~---~~~~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~~~~~~~-----~~~~~~~~ 116 (749)
-+..+.|.+|+|.+-+ -+.+.++++. |.+.......--.-+.+=|...++|||+++-.- .+..|-|.
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 777555666677888899999999999998654 36666565
No 115
>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=23.87 E-value=85 Score=30.39 Aligned_cols=66 Identities=17% Similarity=0.201 Sum_probs=46.6
Q ss_pred Cccccccccccccee-e--ccCCCccccccCCCC-CchhhhHHHHHHHhhcCCeEEEEEece-----eEEEEeCCC
Q 004492 50 PHHWNVNDIVPTSKI-I--LDGMSHCFLSPAPEC-SRDHNEWRRFLIYLQGRDMVAIAKFKF-----WEFYILPPD 116 (749)
Q Consensus 50 p~~~~~~~~~~~~~~-~--~~~~~~~~~~p~~~~-~~~~~ew~~f~~~l~~~~~~~~~~~~~-----~~~~~~~~~ 116 (749)
+..+.|.+|+|.+-+ . +.++++.+. |.+.. .....--.-+.+=|...++||||++-. -.+-.|-|.
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 116
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=21.74 E-value=41 Score=36.45 Aligned_cols=30 Identities=20% Similarity=0.758 Sum_probs=22.7
Q ss_pred CceeeCcc--ch-hhccCCC-CCCCCCCCCCceec
Q 004492 639 QEWVQCNK--CR-KWRMLDP-GFDTKSLPVEWFCY 669 (749)
Q Consensus 639 ~~WvQCd~--C~-KWR~lp~-~~~~~~lp~~W~C~ 669 (749)
..-|.||. |. .|=+++= ++. ..-.++|||.
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 37899995 99 9999983 443 3455789996
No 117
>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=20.51 E-value=88 Score=26.76 Aligned_cols=34 Identities=18% Similarity=0.128 Sum_probs=24.9
Q ss_pred CCCccccccCCCCCchhhhHHHHHHHhhcCCeEEE
Q 004492 68 GMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAI 102 (749)
Q Consensus 68 ~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~ 102 (749)
+.+=++-+|.| +++-++-=.+||+||+=...=|.
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!