Query 004486
Match_columns 749
No_of_seqs 387 out of 2238
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 00:12:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004486.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004486hhsearch_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 8E-28 1.7E-32 278.3 11.4 422 217-687 115-606 (775)
2 COG0326 HtpG Molecular chapero 99.9 7.4E-24 1.6E-28 240.7 13.6 171 232-412 9-209 (623)
3 PTZ00130 heat shock protein 90 99.9 5.2E-23 1.1E-27 240.7 18.6 198 196-411 41-270 (814)
4 PRK05218 heat shock protein 90 99.9 2.7E-21 5.8E-26 224.4 23.7 304 232-620 8-350 (613)
5 PRK14083 HSP90 family protein; 99.9 4.5E-21 9.7E-26 221.4 21.2 302 232-619 5-329 (601)
6 PTZ00272 heat shock protein 83 99.9 4.6E-21 9.9E-26 223.8 20.2 169 232-411 7-205 (701)
7 KOG1845 MORC family ATPases [C 99.8 1E-21 2.2E-26 228.0 4.2 336 287-689 1-357 (775)
8 KOG0019 Molecular chaperone (H 99.8 1.3E-18 2.7E-23 195.4 10.8 161 243-414 51-237 (656)
9 KOG0020 Endoplasmic reticulum 99.8 1.1E-18 2.3E-23 191.0 9.2 159 243-413 89-282 (785)
10 PF13589 HATPase_c_3: Histidin 99.7 1.5E-17 3.2E-22 158.7 2.7 96 250-350 3-99 (137)
11 PF07496 zf-CW: CW-type Zinc F 99.6 2.6E-16 5.6E-21 126.4 1.2 45 639-683 1-49 (50)
12 PRK00095 mutL DNA mismatch rep 99.4 5.9E-12 1.3E-16 147.2 21.7 110 230-348 2-117 (617)
13 TIGR00585 mutl DNA mismatch re 99.3 9.6E-12 2.1E-16 134.1 12.2 140 230-382 2-148 (312)
14 COG0323 MutL DNA mismatch repa 99.3 6.8E-12 1.5E-16 146.9 11.5 139 231-381 4-148 (638)
15 COG1389 DNA topoisomerase VI, 99.1 4.1E-10 8.8E-15 124.5 10.4 135 247-386 34-183 (538)
16 KOG1979 DNA mismatch repair pr 98.9 3.6E-09 7.8E-14 119.5 9.8 140 230-381 7-152 (694)
17 KOG1978 DNA mismatch repair pr 98.9 4E-09 8.8E-14 121.4 8.5 138 232-381 2-145 (672)
18 PRK04184 DNA topoisomerase VI 98.7 1.5E-07 3.2E-12 108.3 14.3 96 250-348 37-142 (535)
19 PRK14868 DNA topoisomerase VI 98.6 1.7E-07 3.8E-12 110.4 11.6 130 249-384 46-189 (795)
20 TIGR01052 top6b DNA topoisomer 98.6 2.2E-07 4.7E-12 105.9 11.5 97 248-349 27-133 (488)
21 PRK05559 DNA topoisomerase IV 98.4 8.2E-07 1.8E-11 104.7 11.0 122 248-383 36-175 (631)
22 TIGR01055 parE_Gneg DNA topois 98.4 1.3E-06 2.9E-11 102.7 10.3 120 250-383 31-168 (625)
23 PRK05644 gyrB DNA gyrase subun 98.2 7.1E-06 1.5E-10 96.9 12.4 120 250-383 38-173 (638)
24 PRK14939 gyrB DNA gyrase subun 98.2 8.8E-06 1.9E-10 97.3 12.4 119 250-383 38-173 (756)
25 smart00433 TOP2c Topoisomerase 98.2 5.5E-06 1.2E-10 97.2 10.4 116 253-383 5-138 (594)
26 PRK14867 DNA topoisomerase VI 98.2 6.8E-06 1.5E-10 96.6 10.5 94 250-348 37-140 (659)
27 TIGR01059 gyrB DNA gyrase, B s 98.2 9.4E-06 2E-10 96.3 11.8 121 250-384 31-167 (654)
28 PF02518 HATPase_c: Histidine 98.1 1.6E-06 3.6E-11 78.3 3.6 87 250-344 6-97 (111)
29 KOG1977 DNA mismatch repair pr 98.0 5.5E-06 1.2E-10 95.7 4.2 138 233-381 4-148 (1142)
30 TIGR01058 parE_Gpos DNA topois 97.4 0.00048 1E-08 81.6 10.1 119 251-384 36-172 (637)
31 COG3290 CitA Signal transducti 97.3 0.00047 1E-08 79.1 6.8 85 248-344 426-518 (537)
32 PLN03237 DNA topoisomerase 2; 97.2 0.0011 2.3E-08 83.8 10.1 86 250-344 78-179 (1465)
33 COG0187 GyrB Type IIA topoisom 97.2 0.0009 1.9E-08 78.0 8.7 121 251-385 38-176 (635)
34 smart00387 HATPase_c Histidine 97.2 0.0008 1.7E-08 58.0 6.1 73 250-330 6-80 (111)
35 cd00075 HATPase_c Histidine ki 97.1 0.00072 1.6E-08 57.4 5.2 85 251-344 2-92 (103)
36 PRK10604 sensor protein RstB; 97.0 0.0016 3.4E-08 73.0 8.0 88 250-344 320-410 (433)
37 PRK09470 cpxA two-component se 96.9 0.0021 4.5E-08 71.2 8.0 88 250-344 354-444 (461)
38 PRK10364 sensor protein ZraS; 96.8 0.0029 6.2E-08 71.0 8.1 83 249-344 348-435 (457)
39 PHA02569 39 DNA topoisomerase 96.8 0.0032 6.9E-08 74.4 8.3 118 252-384 48-185 (602)
40 PRK09467 envZ osmolarity senso 96.8 0.0035 7.6E-08 69.2 8.2 86 250-344 332-420 (435)
41 COG0642 BaeS Signal transducti 96.7 0.0027 5.9E-08 64.9 6.0 60 248-313 227-287 (336)
42 PRK10755 sensor protein BasS/P 96.6 0.004 8.8E-08 67.2 6.9 86 249-345 247-337 (356)
43 TIGR02938 nifL_nitrog nitrogen 96.6 0.0051 1.1E-07 67.9 7.7 85 250-344 388-481 (494)
44 TIGR01386 cztS_silS_copS heavy 96.6 0.0041 8.9E-08 68.6 6.7 74 250-330 354-429 (457)
45 PRK11086 sensory histidine kin 96.5 0.0072 1.6E-07 68.4 8.5 82 250-344 434-522 (542)
46 TIGR02966 phoR_proteo phosphat 96.5 0.0094 2E-07 62.2 8.6 89 250-345 230-323 (333)
47 PRK09303 adaptive-response sen 96.5 0.0087 1.9E-07 66.2 8.5 89 250-346 273-366 (380)
48 PRK11006 phoR phosphate regulo 96.4 0.0088 1.9E-07 66.7 8.2 89 249-344 317-410 (430)
49 PTZ00109 DNA gyrase subunit b; 96.4 0.01 2.2E-07 72.3 9.2 119 252-384 132-307 (903)
50 PRK10549 signal transduction h 96.2 0.01 2.3E-07 66.0 7.5 88 250-344 353-445 (466)
51 PRK15053 dpiB sensor histidine 96.2 0.0071 1.5E-07 69.2 6.3 71 250-330 433-509 (545)
52 PLN03128 DNA topoisomerase 2; 96.2 0.013 2.9E-07 73.5 8.6 122 250-384 53-195 (1135)
53 PRK11100 sensory histidine kin 96.1 0.013 2.8E-07 64.9 7.5 88 249-344 368-460 (475)
54 PTZ00108 DNA topoisomerase 2-l 96.1 0.029 6.2E-07 71.5 11.0 122 250-384 58-203 (1388)
55 TIGR02916 PEP_his_kin putative 96.0 0.012 2.7E-07 70.0 7.3 82 250-344 580-667 (679)
56 PRK10815 sensor protein PhoQ; 95.9 0.018 3.8E-07 66.2 7.4 83 250-343 379-464 (485)
57 PRK11360 sensory histidine kin 95.9 0.019 4.1E-07 64.9 7.6 82 250-344 501-588 (607)
58 COG4191 Signal transduction hi 95.7 0.014 3.1E-07 67.8 5.8 57 249-311 497-558 (603)
59 PRK10337 sensor protein QseC; 95.5 0.029 6.3E-07 62.4 7.2 83 250-344 353-438 (449)
60 PRK15347 two component system 95.4 0.036 7.9E-07 67.4 8.3 86 250-346 514-603 (921)
61 TIGR01925 spIIAB anti-sigma F 95.2 0.053 1.1E-06 51.0 6.9 81 249-343 39-124 (137)
62 PRK11091 aerobic respiration c 95.2 0.045 9.6E-07 66.0 8.0 92 250-346 399-494 (779)
63 TIGR03785 marine_sort_HK prote 95.2 0.048 1E-06 65.7 8.2 89 250-345 598-691 (703)
64 PRK09835 sensor kinase CusS; P 95.1 0.06 1.3E-06 60.2 7.9 89 249-344 375-468 (482)
65 PRK11073 glnL nitrogen regulat 95.0 0.058 1.3E-06 57.8 7.3 88 250-344 238-335 (348)
66 PRK13837 two-component VirA-li 95.0 0.048 1E-06 66.6 7.3 89 250-345 561-663 (828)
67 PRK11466 hybrid sensory histid 94.5 0.087 1.9E-06 64.4 8.0 86 250-346 562-651 (914)
68 TIGR02956 TMAO_torS TMAO reduc 94.4 0.092 2E-06 64.5 7.9 87 250-346 580-672 (968)
69 PRK10490 sensor protein KdpD; 94.2 0.092 2E-06 65.0 7.3 87 250-345 779-870 (895)
70 PRK10841 hybrid sensory kinase 93.9 0.13 2.9E-06 63.9 7.8 89 250-346 563-656 (924)
71 PF13581 HATPase_c_2: Histidin 93.9 0.12 2.5E-06 47.9 5.6 78 249-341 31-113 (125)
72 PRK10547 chemotaxis protein Ch 93.7 0.15 3.2E-06 61.4 7.5 98 232-345 376-511 (670)
73 PRK11107 hybrid sensory histid 93.6 0.17 3.7E-06 61.6 7.9 95 250-347 409-508 (919)
74 KOG0787 Dehydrogenase kinase [ 93.4 0.17 3.7E-06 56.4 6.7 74 250-329 261-349 (414)
75 PRK04069 serine-protein kinase 93.4 0.14 3E-06 50.4 5.6 52 250-307 43-99 (161)
76 COG3850 NarQ Signal transducti 93.3 0.14 3.1E-06 59.2 6.3 75 250-347 482-558 (574)
77 PRK03660 anti-sigma F factor; 93.3 0.26 5.7E-06 46.8 7.1 45 249-299 39-88 (146)
78 TIGR01924 rsbW_low_gc serine-p 93.1 0.14 3.1E-06 50.4 5.2 85 249-343 42-131 (159)
79 PRK13557 histidine kinase; Pro 92.7 0.32 6.9E-06 54.9 7.9 92 250-346 278-383 (540)
80 PRK10618 phosphotransfer inter 92.5 0.35 7.5E-06 60.1 8.4 93 250-347 566-662 (894)
81 PRK09959 hybrid sensory histid 91.8 0.41 8.9E-06 60.6 8.1 93 250-346 829-925 (1197)
82 COG4585 Signal transduction hi 91.7 0.18 3.9E-06 55.6 4.2 48 248-301 278-326 (365)
83 PRK11644 sensory histidine kin 90.7 0.26 5.6E-06 57.0 4.5 45 250-300 411-456 (495)
84 PRK10600 nitrate/nitrite senso 90.1 0.29 6.3E-06 57.0 4.2 47 249-301 469-516 (569)
85 PF07744 SPOC: SPOC domain; I 89.5 0.2 4.3E-06 46.3 1.9 45 65-109 66-119 (119)
86 COG2205 KdpD Osmosensitive K+ 89.5 0.67 1.5E-05 56.3 6.6 57 251-313 777-836 (890)
87 COG3920 Signal transduction hi 89.3 0.41 9E-06 49.9 4.2 46 250-300 123-174 (221)
88 COG0643 CheA Chemotaxis protei 88.4 0.98 2.1E-05 54.9 7.0 100 231-346 422-562 (716)
89 COG2172 RsbW Anti-sigma regula 87.9 1.1 2.4E-05 44.0 5.9 84 248-345 39-128 (146)
90 COG5002 VicK Signal transducti 87.7 0.62 1.3E-05 51.9 4.3 71 251-329 344-417 (459)
91 PRK13560 hypothetical protein; 87.4 0.61 1.3E-05 55.5 4.6 44 252-300 714-762 (807)
92 COG2972 Predicted signal trans 86.7 1.1 2.3E-05 51.4 5.9 54 249-306 350-407 (456)
93 COG5000 NtrY Signal transducti 86.1 0.89 1.9E-05 53.8 4.7 51 251-307 602-661 (712)
94 COG4192 Signal transduction hi 86.0 1.3 2.8E-05 50.9 5.8 60 249-313 564-626 (673)
95 smart00249 PHD PHD zinc finger 80.3 1.5 3.2E-05 33.1 2.4 33 637-669 10-45 (47)
96 PRK13559 hypothetical protein; 78.9 2.1 4.5E-05 46.4 4.0 47 250-300 268-319 (361)
97 PRK10935 nitrate/nitrite senso 78.5 2.5 5.3E-05 48.7 4.6 46 250-300 472-518 (565)
98 COG4251 Bacteriophytochrome (l 75.8 3.9 8.4E-05 48.8 5.2 70 229-307 619-691 (750)
99 COG4564 Signal transduction hi 70.9 5.8 0.00013 44.2 4.7 72 254-348 364-439 (459)
100 COG3852 NtrB Signal transducti 64.3 11 0.00024 41.8 5.2 58 250-307 242-309 (363)
101 COG3851 UhpB Signal transducti 59.8 11 0.00023 42.7 4.2 46 249-300 410-456 (497)
102 PF00628 PHD: PHD-finger; Int 58.7 2.1 4.6E-05 33.9 -1.0 34 636-669 9-46 (51)
103 COG3275 LytS Putative regulato 44.6 19 0.00041 42.1 3.2 45 250-300 457-507 (557)
104 COG2865 Predicted transcriptio 43.4 13 0.00027 43.4 1.7 69 248-330 269-352 (467)
105 KOG0355 DNA topoisomerase type 43.0 45 0.00098 41.2 6.1 46 250-303 54-103 (842)
106 PRK13610 photosystem II reacti 39.0 12 0.00026 35.5 0.5 17 77-93 91-107 (113)
107 TIGR03047 PS_II_psb28 photosys 37.1 15 0.00033 34.7 0.9 17 77-93 84-100 (109)
108 PF03912 Psb28: Psb28 protein; 35.9 14 0.0003 34.9 0.4 16 78-93 85-100 (108)
109 PLN00039 photosystem II reacti 35.0 18 0.00039 34.3 0.9 17 77-93 85-101 (111)
110 PRK13612 photosystem II reacti 33.9 19 0.00041 34.3 0.9 17 77-93 87-103 (113)
111 PRK13611 photosystem II reacti 33.3 20 0.00043 33.7 0.9 17 77-93 80-96 (104)
112 CHL00128 psbW photosystem II p 32.8 20 0.00044 34.1 0.9 17 77-93 87-103 (113)
113 cd00594 KU Ku-core domain; inc 25.0 77 0.0017 33.6 3.8 67 44-111 87-161 (272)
114 smart00559 Ku78 Ku70 and Ku80 23.2 89 0.0019 30.3 3.6 66 45-111 35-109 (140)
115 PF05180 zf-DNL: DNL zinc fing 22.5 39 0.00085 29.3 0.8 23 635-657 23-45 (66)
116 KOG1973 Chromatin remodeling p 21.6 42 0.0009 36.4 1.0 30 639-669 230-263 (274)
117 PF06540 GMAP: Galanin message 20.1 91 0.002 26.7 2.4 34 63-97 11-44 (62)
No 1
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.95 E-value=8e-28 Score=278.32 Aligned_cols=422 Identities=21% Similarity=0.232 Sum_probs=292.4
Q ss_pred CCceeeecCCCCceeeecCHHHHHHhhccccCCHHHHHHHHHhccccc---CCCccEEEEEecccccCCCCccEEEEE--
Q 004486 217 EPRAVKQAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDA---KATKLEISIESIYFKKAGKDIPMLSII-- 291 (749)
Q Consensus 217 ~~~~~~~~~~~~~~~~~v~p~~L~slst~h~~~pf~AIaELIdNS~DA---~At~V~I~I~~~~~~~~~~~~~~L~I~-- 291 (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-KWAKGAIAELLDNALDEITNGATFVRVD--YI-NPVMDIFIRALVVQLK 190 (775)
T ss_pred ccccceeccCCceeEEEEehhhhcCCCccc-ccccChhhhhccccccccccccceEEee--ee-cccccccceeEEeecc
Confidence 344445666666799999999999999999 89999999999999997 46664443 21 11112223445555
Q ss_pred ---eCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceeeeecccccCeEEEEEeeC------CCCceeEEEEEec--C
Q 004486 292 ---DDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTA------DSRSIAFLSQSLN--Q 360 (749)
Q Consensus 292 ---DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~------g~~svg~ls~sf~--~ 360 (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 78999999999999999998875 3468999999999999999999999999943 2568999999994 6
Q ss_pred CCeeEEEec----cccCCCCc-EEEEEecccccchhhhhHH-----hHhhhCCCchh--hHHHh-hh------c----cc
Q 004486 361 GKDNLEIPI----VSYYRKGQ-FMELDTVVQSEATAKYNLK-----SIKEFSPFNKY--LIGEK-AG------L----FQ 417 (749)
Q Consensus 361 g~~~i~VPi----~~~~~~Gt-~I~l~l~~~~e~~~~~~L~-----~I~kySpF~s~--pI~e~-~~------~----~~ 417 (749)
+.++++||+ ...+.... +..+..+.. ..|..++. .+++|+||.+. .+.+. .. . +.
T Consensus 270 ~~~d~iv~~~~i~~~~e~~~~~~~~i~~~s~--~~~~~n~~i~~~~~~L~w~p~~~~~~~l~q~~v~~~~~~~ef~~~~~ 347 (775)
T KOG1845|consen 270 GKRDFIVPMRLIKMDYEKSDQLWQGILYKSG--VDWAVNLEIEVTERFLKWSPYSHLLDLLGQNSVQYSKDFPEFGHQFN 347 (775)
T ss_pred cCCceeEecchhhhhhhcccccccceeeccc--cccceeeeeHHHHHHhhcCccccHHHHhhhhhhhhccccchhcchhh
Confidence 788999999 44443111 111112211 22333443 39999999984 22220 00 1 11
Q ss_pred -cCCCCcEEEEEcccCCC---CceeeeccCCCCCCCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhhcC--C
Q 004486 418 -DKCTGTQIYIWNLDQWG---SNYCLEWDNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLV--P 491 (749)
Q Consensus 418 -~~~~GT~IiI~NLrr~~---~~~eLdF~td~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~~~~ySLRaYLSiLYL~--P 491 (749)
...+||.+|+||+++|. +-.++||+.+ +++|. ....++++.|.++||+. +
T Consensus 348 ~~~~~g~~~I~Y~~~~~~~~~g~~e~df~l~--------~~~i~----------------~~~~~~~~s~~sil~~~~~~ 403 (775)
T KOG1845|consen 348 IMNKPGTDVIIYNLRRWKGDEGILELDFDLD--------PHVIP----------------WTYCHSHLSEASILLLTRRL 403 (775)
T ss_pred hccCCCceeeeechhhhcccccceeeccccC--------ccccc----------------ccchhhhhhcccccchhccc
Confidence 25799999999997663 3478888765 34542 13456889999999974 8
Q ss_pred CeEEEEcCeeecccccccccCceeee--cccccc-------eEEEEEEccccccc-ccccceEEEEEcCeeee----eee
Q 004486 492 RMKIYVQGSLVRSRPLAKSLNKTCVE--TGIIMG-------KSAHLTLGRCQLEW-EQMNCGIFLYWHGRLIE----AYK 557 (749)
Q Consensus 492 rm~I~LnGkkV~~~~i~~~L~~~~v~--~~~~~~-------~~V~It~Gf~k~e~-~~~~~Gi~VY~nnRLI~----~~~ 557 (749)
+|.+.+.|+.+.++.+......+... .+.... .......|+.+... ....+|+.|||.+|||. ++|
T Consensus 404 ~~~~v~~~~~~~h~sv~~~q~~~~~~~~~p~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nV~~~~~lie~~~~~~~ 483 (775)
T KOG1845|consen 404 RFKSVLRGKDVEHHSVINYQVQTEEILYQPQRAPADGKQRLIKLSPKPGFVKDAPRPIDVQQFNVSHGPRLIEHGCRPFV 483 (775)
T ss_pred cchhccccccchhhhHHHHHHHHHHHhcccccccCCccchhhcccCCCCcccccCCCCCccCCccccCCcchhhccccee
Confidence 99999999999999988766554321 111100 11122445555432 23456999999999999 999
Q ss_pred eccccccCCCCCceEEEEEecCcccccCCCccccccCccCccCchHHHHHHHHHHHHHHHHHhhcccccccccc---cCC
Q 004486 558 RVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVKD---GAL 634 (749)
Q Consensus 558 kVg~q~~~~~~GrGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~~---~~~ 634 (749)
|.++. ..+.++++++++..++ . +++|++|+|+++-.-.+++.+..++++.||...++.+.+... ..+
T Consensus 484 k~~n~--~~s~~~~~~~il~~n~-~-------~~a~~~~~v~~~~v~a~~es~~~~~~~~~~~~~~~~i~~~~~q~~~~~ 553 (775)
T KOG1845|consen 484 KIDNA--TGSLGQAVIPILVGNF-V-------ETAPDSQGVEKTIVLASSESRDKQSLNTYEEKKCLRIDEAGRQLQKER 553 (775)
T ss_pred eecCC--Cccccccccceecccc-c-------ccCCCccccccccccccchhhhhhcccccccccccccCccchhhhhhh
Confidence 99985 5579999999999973 3 469999999999989999999999999999999998876521 111
Q ss_pred CC-----CCCceeeCccchhhccCCCCCCCCCCCCCceecCCC---CCCCCCCCcccccCC
Q 004486 635 YK-----PDQEWVQCNKCRKWRMLDPGFDTKSLPVEWFCYMKP---FEGLCDLPEQKVDAG 687 (749)
Q Consensus 635 ~~-----~~~~WvQCd~C~KWR~Lp~~~~~~~lp~~W~C~~np---~~~sC~~pEe~~~~~ 687 (749)
+. ....=-||- += ++. ...--..|+|..++ .++.|+-+-...+.+
T Consensus 554 ~~~~~~~Ke~~~~~~~---~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 606 (775)
T KOG1845|consen 554 ESTTTVVKEEKPENNH---LS--SSK---RTQRRKSTGRAISVAVEKFNLRSGPNGRGQID 606 (775)
T ss_pred cccceeecccccccch---hc--chh---ccccccccccccccchhhhccccccCCcCCcc
Confidence 11 011112221 11 111 12334689999998 357777665555444
No 2
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=7.4e-24 Score=240.69 Aligned_cols=171 Identities=25% Similarity=0.338 Sum_probs=138.1
Q ss_pred eecCHH-HHHHhhccccCCHHHHHHHHHhcccccC----------------CCccEEEEEecccccCCCCccEEEEEeCC
Q 004486 232 VRADPS-YLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDG 294 (749)
Q Consensus 232 ~~v~p~-~L~slst~h~~~pf~AIaELIdNS~DA~----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG 294 (749)
|+++-+ .|+.+..+.|++...+|||||+||.||. ...+.|.|.. +.++.+|+|.|||
T Consensus 9 Fq~ev~~ll~lmihSlYSnKeIFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~------Dk~~kTLtI~DNG 82 (623)
T COG0326 9 FQAEVKQLLDLMIHSLYSNKEIFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISF------DKDNKTLTISDNG 82 (623)
T ss_pred hhHHHHHHHHHHHHhccCCcHHHHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEE------cccCCEEEEEeCC
Confidence 444444 5566688889999999999999999993 1356666653 3457899999999
Q ss_pred CCCCHHhHHhhhh-cccCCC--------CC-CCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCee
Q 004486 295 HGMTHQDVVRMTY-FGHKQP--------DA-DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDN 364 (749)
Q Consensus 295 ~GMt~eeL~~~l~-fG~S~k--------~~-~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~ 364 (749)
+|||++|+++.++ .+.|.. .. ++...||||||||||||| ++++|+|+||+.+..... .|.+ .|.++
T Consensus 83 IGMT~~Ev~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~T~~~~~~~~~-~W~S--~g~g~ 158 (623)
T COG0326 83 IGMTKDEVIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFM-VADKVTVITRSAGEDEAY-HWES--DGEGE 158 (623)
T ss_pred CCCCHHHHHHHHHHhhhccHHHHHHHhccccccccccccccchhhheee-eeeeEEEEeccCCCCcce-EEEE--cCCCc
Confidence 9999999999875 333321 11 468899999999999999 999999999999975444 7776 67788
Q ss_pred EEEeccccCCC-CcEEEEEecccc-cchhhhhHHh-HhhhCCCchhhHHHh
Q 004486 365 LEIPIVSYYRK-GQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEK 412 (749)
Q Consensus 365 i~VPi~~~~~~-Gt~I~l~l~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~ 412 (749)
|+|....-+.. ||+|+|+++++. +++.+|.|+. |+|||.|+.+||...
T Consensus 159 ytv~~~~~~~~~GT~I~L~Lk~~e~efl~~~rl~~ivkkYSd~i~~PI~~~ 209 (623)
T COG0326 159 YTVEDIDKEPRRGTEITLHLKEEEDEFLEEWRLREIVKKYSDHIAYPIYIE 209 (623)
T ss_pred eEEeeccCCCCCCcEEEEEECCchHHHhhhhHHHHHHHHHhcccccceEEe
Confidence 99988877775 999999999864 7899999975 999999999999743
No 3
>PTZ00130 heat shock protein 90; Provisional
Probab=99.90 E-value=5.2e-23 Score=240.67 Aligned_cols=198 Identities=23% Similarity=0.321 Sum_probs=150.3
Q ss_pred CCCccccCCCCCcccccCCCCCCceeeecCCCCceeeecCHH-HHHHhhccccCCHHHHHHHHHhcccccCC--------
Q 004486 196 FSPVVGDRLSSESTIETCSRPEPRAVKQAGPLEKNFVRADPS-YLQTLGQAHSGWIFGAIAELVDNSRDAKA-------- 266 (749)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~p~-~L~slst~h~~~pf~AIaELIdNS~DA~A-------- 266 (749)
-.|.|-.|.-|-+.|++....-.. .....|++.-+ .|+-+..+.|+++..||||||+||+||.+
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~-------~e~~~FQaEv~~Lldiii~sLYS~keIFLRELISNAsDAldKlr~~~lt 113 (814)
T PTZ00130 41 EKEEVKKDRDNIPEIEDGEKPTSG-------IEQHQYQTEVTRLMDIIVNSLYTQKEVFLRELISNAADALEKIRFLSLS 113 (814)
T ss_pred CcchhhcccccCcccccCCCCCcc-------cceeehHHHHHHHHHHHhhccCCCCCceeehHhhhHHHHHHHHHHHHcC
Confidence 346667777777767665442211 12234666554 55666888999999999999999999964
Q ss_pred --------CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCC---------CCCCccccccccee
Q 004486 267 --------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPD---------ADDPNRIGRFGVGF 328 (749)
Q Consensus 267 --------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~---------~~d~~~IGqfGvGf 328 (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 466777763 34567999999999999999988764 5554311 12467999999999
Q ss_pred eeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEecccc---CCCCcEEEEEecccc-cchhhhhHHh-HhhhCC
Q 004486 329 KTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSY---YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSP 403 (749)
Q Consensus 329 KsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~---~~~Gt~I~l~l~~~~-e~~~~~~L~~-I~kySp 403 (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 99999 99999999998773 4688887 5566777755432 368999999999865 7888899875 999999
Q ss_pred CchhhHHH
Q 004486 404 FNKYLIGE 411 (749)
Q Consensus 404 F~s~pI~e 411 (749)
|+.+||..
T Consensus 263 fI~~PI~l 270 (814)
T PTZ00130 263 FIQYPIYL 270 (814)
T ss_pred cCCCCEEE
Confidence 99999974
No 4
>PRK05218 heat shock protein 90; Provisional
Probab=99.88 E-value=2.7e-21 Score=224.41 Aligned_cols=304 Identities=21% Similarity=0.229 Sum_probs=193.8
Q ss_pred eecCH-HHHHHhhccccCCHHHHHHHHHhcccccC----------------CCccEEEEEecccccCCCCccEEEEEeCC
Q 004486 232 VRADP-SYLQTLGQAHSGWIFGAIAELVDNSRDAK----------------ATKLEISIESIYFKKAGKDIPMLSIIDDG 294 (749)
Q Consensus 232 ~~v~p-~~L~slst~h~~~pf~AIaELIdNS~DA~----------------At~V~I~I~~~~~~~~~~~~~~L~I~DNG 294 (749)
|+++- +.|..++.+.|+++..+|+|||+||+||. +....|.|.. +.+...|.|.|||
T Consensus 8 Fq~e~~~ll~ll~~~LYs~~~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~------d~~~~~i~I~DnG 81 (613)
T PRK05218 8 FQAEVKQLLHLMIHSLYSNKEIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISF------DKEARTLTISDNG 81 (613)
T ss_pred hhHhHHHHHHHHhhhhcCCchHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEE------cCCCCeEEEEECC
Confidence 44444 45666788889999999999999999993 3445666542 2234579999999
Q ss_pred CCCCHHhHHhhh-hcccCCCC----------CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCe
Q 004486 295 HGMTHQDVVRMT-YFGHKQPD----------ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKD 363 (749)
Q Consensus 295 ~GMt~eeL~~~l-~fG~S~k~----------~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~ 363 (749)
+||+.+++...+ ..|.|.+. ..+...||+||+||+|+++ ++++|+|.||+.+....++.|.+ ++..
T Consensus 82 ~GMt~eel~~~l~~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~-va~~v~V~Sr~~~~~~~~~~w~~--~g~~ 158 (613)
T PRK05218 82 IGMTREEVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFM-VADKVTVITRSAGPAAEAVRWES--DGEG 158 (613)
T ss_pred CCCCHHHHHHHHHhhccccchhHHHHhhcccccccccccccCcCchhhhh-ccCEEEEEEcCCCCCCceEEEEE--eCCc
Confidence 999999999865 46665321 1246899999999998665 99999999999774456888876 4555
Q ss_pred eEEEeccccCCCCcEEEEEecccc-cchhhhhHHh-HhhhCCCchhhHHHhhhccccCCCCcEEEEEcccCCCCceeeec
Q 004486 364 NLEIPIVSYYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEW 441 (749)
Q Consensus 364 ~i~VPi~~~~~~Gt~I~l~l~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~NLrr~~~~~eLdF 441 (749)
.+.+-...-..+||+|+++++.+. ++.+.+.++. |.+||.|..+||...-+.. ....+...+ |
T Consensus 159 ~~~i~~~~~~~~GT~I~l~Lk~~~~e~~e~~~i~~li~kys~~l~~PI~~~~~~~--~~in~~~~~-------------w 223 (613)
T PRK05218 159 EYTIEEIEKEERGTEITLHLKEDEDEFLDEWRIRSIIKKYSDFIPVPIKLEKEEE--ETINSASAL-------------W 223 (613)
T ss_pred eeEEeECCCCCCCcEEEEEECcchhhhcCHHHHHHHHHHHHhcCCCCEEEecccc--eeecCCccc-------------e
Confidence 566554443468999999998765 5677778865 9999999998875210000 001111111 1
Q ss_pred cCCCCCCCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhh---cCCCeEEEEcCeeecccccccccCceeeec
Q 004486 442 DNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIF---LVPRMKIYVQGSLVRSRPLAKSLNKTCVET 518 (749)
Q Consensus 442 ~td~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~~~~ySLRaYLSiLY---L~Prm~I~LnGkkV~~~~i~~~L~~~~v~~ 518 (749)
... ..|+. +.-...|..-++ -+|-+.|.++..-
T Consensus 224 ~~~--------~~~i~-------------------~~~~~~fy~~~~~~~~~pl~~i~~~~e~----------------- 259 (613)
T PRK05218 224 TRS--------KSEIT-------------------DEEYKEFYKHLAHDFDDPLFWIHNNVEG----------------- 259 (613)
T ss_pred ecC--------Ccccc-------------------HHHHHHHhhhhcccccCCcEEEEcccCC-----------------
Confidence 111 01210 001122222222 2354444433211
Q ss_pred ccccceEEEEEEcccccc----c-ccccceEEEEEcCeeeeee-eeccccccCCCCCceEEEEEecCcccccCCCccccc
Q 004486 519 GIIMGKSAHLTLGRCQLE----W-EQMNCGIFLYWHGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVH 592 (749)
Q Consensus 519 ~~~~~~~V~It~Gf~k~e----~-~~~~~Gi~VY~nnRLI~~~-~kVg~q~~~~~~GrGVIGVve~~~l~~p~~~~~~pt 592 (749)
. ..++-.+++-... . .....|+.+|.|+|+|.-. ..+-|. +-+=|-|||+.+.| | |+
T Consensus 260 -~---~~~~gll~iP~~~~~~~~~~~~~~~~~lyvn~v~I~d~~~~lLP~-----wl~Fv~GVVDs~dL--p------ln 322 (613)
T PRK05218 260 -P---FEYTGLLYIPKKAPFDLFNRDRKGGLKLYVKRVFIMDDAEELLPE-----YLRFVKGVIDSEDL--P------LN 322 (613)
T ss_pred -c---eEEEEEEEeCCCCccchhhhcccccEEEEECcEEeeCchhhhchH-----HHhheEEEeecCCC--C------Cc
Confidence 0 0111111111100 0 1246899999999999754 335554 45667889999876 2 36
Q ss_pred cCccCccCchHHHHHHHHHHHHHHHHHh
Q 004486 593 NNKQGFLDCEPYARLEEWLGKVADEYWD 620 (749)
Q Consensus 593 hnKQdFe~t~~y~~L~~~L~e~l~eYW~ 620 (749)
-+...+..+..++++.+.|.+++.++..
T Consensus 323 vSRE~lq~~~~l~~i~~~l~~kv~~~l~ 350 (613)
T PRK05218 323 VSREILQEDRVVKKIRKAITKKVLDELE 350 (613)
T ss_pred cCHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 7788899999899988888887765553
No 5
>PRK14083 HSP90 family protein; Provisional
Probab=99.87 E-value=4.5e-21 Score=221.36 Aligned_cols=302 Identities=15% Similarity=0.166 Sum_probs=196.9
Q ss_pred eecCHH-HHHHhhccccCCHHHHHHHHHhcccccCCC----------ccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 232 VRADPS-YLQTLGQAHSGWIFGAIAELVDNSRDAKAT----------KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 232 ~~v~p~-~L~slst~h~~~pf~AIaELIdNS~DA~At----------~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (749)
|+++.+ .|+.++.+.|+++..||+|||+||+||.+. .|.|.+. +.+...|+|.|||+||+.+
T Consensus 5 Fqae~~~ll~ll~~~LYs~~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-------d~~~~~l~I~DnGiGmt~e 77 (601)
T PRK14083 5 FQVDLRGVIDLLSRHLYSSPRVYVRELLQNAVDAITARRALDPTAPGRIRIELT-------DAGGGTLIVEDNGIGLTEE 77 (601)
T ss_pred chHhHHHHHHHHHHhhcCCcHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-------cCCCcEEEEEeCCCCCCHH
Confidence 444443 566678888999999999999999999764 4555541 1246799999999999999
Q ss_pred hHHhh-hhcccCCCCC-----CCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEecc--cc
Q 004486 301 DVVRM-TYFGHKQPDA-----DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIV--SY 372 (749)
Q Consensus 301 eL~~~-l~fG~S~k~~-----~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~--~~ 372 (749)
++.+. ..+|.|.+.. .+...||+||+||+|++| +|++|.|.||+.+ ...++.|.+..+ ..+.+... .-
T Consensus 78 el~~~l~~ig~S~k~~~~~~~~~~~~IG~FGIGf~S~F~-vad~v~V~Tr~~~-~~~~~~W~~~~~--g~y~i~~~~~~~ 153 (601)
T PRK14083 78 EVHEFLATIGRSSKRDENLGFARNDFLGQFGIGLLSCFL-VADEIVVVSRSAK-DGPAVEWRGKAD--GTYSVRKLETER 153 (601)
T ss_pred HHHHHHhhhccchhhhhhhcccccccccccccceEEEEE-ecCEEEEEeccCC-CCceEEEEECCC--CceEEEeCCCCC
Confidence 99986 4688776643 135789999999998887 9999999999975 256788877433 35555532 33
Q ss_pred CCCCcEEEEEecccc-cchhhhhHHh-HhhhCCCchhhHHHhhhccccCCCCcEEEEEcccCCCCceeeeccCCCCCCCC
Q 004486 373 YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNGGSS 450 (749)
Q Consensus 373 ~~~Gt~I~l~l~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~NLrr~~~~~eLdF~td~~~~~~ 450 (749)
..+||+|+++++++. ++..++.++. |.+||.|..+||... |+...|-.. ..-|..+
T Consensus 154 ~~~GT~I~L~l~~d~~~~~~~~~i~~li~~ys~~i~~pI~l~---------~~~~~iN~~-------~~lW~~~------ 211 (601)
T PRK14083 154 AEPGTTVYLRPRPDAEEWLERETVEELAKKYGSLLPVPIRVE---------GEKGGVNET-------PPPWTRD------ 211 (601)
T ss_pred CCCCCEEEEEecCchhhhccHHHHHHHHHHHhccCCCCcccC---------CceeeecCC-------CCCccCC------
Confidence 458999999998754 5666677764 999999999999731 111111000 0011111
Q ss_pred CCcCcceeecccccCCCCcccccCcchhhHHHHHhhhhc-CCCeEEEEcCeeecccccccccCceeeecccccceEEEEE
Q 004486 451 FHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFL-VPRMKIYVQGSLVRSRPLAKSLNKTCVETGIIMGKSAHLT 529 (749)
Q Consensus 451 ~~~~DI~i~~~~~~~~~~q~~~~~~~~ySLRaYLSiLYL-~Prm~I~LnGkkV~~~~i~~~L~~~~v~~~~~~~~~V~It 529 (749)
+.+|. ..+.-..+|..-+|= +|-+.|.++-.-- .. ..+-..
T Consensus 212 --~~eit-----------------~~~eey~~Fyk~~~~~~Pl~~ih~~~e~~---~~----------------~~~Ly~ 253 (601)
T PRK14083 212 --YPDPE-----------------TRREALLAYGEELLGFTPLDVIPLDVPSG---GL----------------EGVAYV 253 (601)
T ss_pred --ccccC-----------------ccHHHHHHHHHHhcCCCchheeeecccch---hh----------------eEEEEe
Confidence 11220 011123455555553 5656565542210 00 111112
Q ss_pred EcccccccccccceEEEEEcCeeeeee-eeccccccCCCCCceEEEEEecCcccccCCCccccccCccCccCchHHHHHH
Q 004486 530 LGRCQLEWEQMNCGIFLYWHGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLE 608 (749)
Q Consensus 530 ~Gf~k~e~~~~~~Gi~VY~nnRLI~~~-~kVg~q~~~~~~GrGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~ 608 (749)
++-.... ....|+-+|+|+=||.-- .-+-|. .-+=|=|||+.+.| | ++-+...+.+...++++.
T Consensus 254 iP~~~~~--~~~~~v~LY~~rVfI~d~~~~lLP~-----wl~FvrGVVDS~DL--p------LNvSRE~LQ~~~~l~~ir 318 (601)
T PRK14083 254 LPYAVSP--AARRKHRVYLKRMLLSEEAENLLPD-----WAFFVRCVVNTDEL--R------PTASREALYEDDALAAVR 318 (601)
T ss_pred cCCCCCc--cccCceEEEeeeeEeecchhhhhHH-----HHHHheeeeecCCC--C------CccCHHHHccCHHHHHHH
Confidence 2221111 134699999999999643 335553 34667799999876 2 367777788888889998
Q ss_pred HHHHHHHHHHH
Q 004486 609 EWLGKVADEYW 619 (749)
Q Consensus 609 ~~L~e~l~eYW 619 (749)
+.+.+++.++.
T Consensus 319 ~~i~kki~~~L 329 (601)
T PRK14083 319 EELGEAIRKWL 329 (601)
T ss_pred HHHHHHHHHHH
Confidence 88888776544
No 6
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=99.86 E-value=4.6e-21 Score=223.78 Aligned_cols=169 Identities=23% Similarity=0.301 Sum_probs=131.2
Q ss_pred eecCH-HHHHHhhccccCCHHHHHHHHHhcccccCC----------------CccEEEEEecccccCCCCccEEEEEeCC
Q 004486 232 VRADP-SYLQTLGQAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDG 294 (749)
Q Consensus 232 ~~v~p-~~L~slst~h~~~pf~AIaELIdNS~DA~A----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG 294 (749)
|+..- +.|+-+..+.|+++..+|||||+||.||.. ..+.|.|.. +.+...|+|.|||
T Consensus 7 Fqae~~~Ll~lli~slYs~~~iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~------d~~~~~L~I~DnG 80 (701)
T PTZ00272 7 FQAEINQLMSLIINTFYSNKEIFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVP------DKENKTLTVEDNG 80 (701)
T ss_pred cHHHHHHHHHHHHhcccCCccHhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEE------cCCCCEEEEEECC
Confidence 44433 355666888899999999999999999942 245666653 3345789999999
Q ss_pred CCCCHHhHHhhhh-cccCCC--------CCCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeE
Q 004486 295 HGMTHQDVVRMTY-FGHKQP--------DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNL 365 (749)
Q Consensus 295 ~GMt~eeL~~~l~-fG~S~k--------~~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i 365 (749)
+||+.+|+.+.++ ++.|.. ...+...|||||+||+|++| +|++|.|.||+.+. .++.|.+ .+...|
T Consensus 81 iGMt~edl~~~LgtIa~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fm-vad~V~V~Srs~~~--~~~~W~s--~~~g~y 155 (701)
T PTZ00272 81 IGMTKADLVNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVGFYSAYL-VADRVTVTSKNNSD--ESYVWES--SAGGTF 155 (701)
T ss_pred CCCCHHHHHHHhhhhhhcchHHHHHHhhccCCccccCCCCcceEEEEE-eccEEEEEEecCCC--ceEEEEE--CCCCcE
Confidence 9999999988764 555422 12346799999999999998 99999999998764 5889988 555567
Q ss_pred EEeccc-c-CCCCcEEEEEecccc-cchhhhhHHh-HhhhCCCchhhHHH
Q 004486 366 EIPIVS-Y-YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGE 411 (749)
Q Consensus 366 ~VPi~~-~-~~~Gt~I~l~l~~~~-e~~~~~~L~~-I~kySpF~s~pI~e 411 (749)
.|...+ . ..+||+|+|+++++. ++...+.++. |.+||.|+.+||..
T Consensus 156 ~i~~~~~~~~~~GT~I~L~Lk~d~~ef~~~~~i~~li~kYs~fi~~PI~l 205 (701)
T PTZ00272 156 TITSTPESDMKRGTRITLHLKEDQMEYLEPRRLKELIKKHSEFIGYDIEL 205 (701)
T ss_pred EEEeCCCCCCCCCCEEEEEECCchHHhccHHHHHHHHHHhccccCcceEE
Confidence 664432 2 268999999999875 6888889875 99999999999974
No 7
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.83 E-value=1e-21 Score=228.03 Aligned_cols=336 Identities=21% Similarity=0.263 Sum_probs=242.7
Q ss_pred EEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecC--CCee
Q 004486 287 MLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ--GKDN 364 (749)
Q Consensus 287 ~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~--g~~~ 364 (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 478899999999999999998833 46789999999999999999999999999999999999999964 4567
Q ss_pred EEEeccccCCCCcEEEEEecccccchhhhhHHhHhhhCCCchh--hHHHhhhccccCCCCcEEEEEcccCC-CCceeeec
Q 004486 365 LEIPIVSYYRKGQFMELDTVVQSEATAKYNLKSIKEFSPFNKY--LIGEKAGLFQDKCTGTQIYIWNLDQW-GSNYCLEW 441 (749)
Q Consensus 365 i~VPi~~~~~~Gt~I~l~l~~~~e~~~~~~L~~I~kySpF~s~--pI~e~~~~~~~~~~GT~IiI~NLrr~-~~~~eLdF 441 (749)
.+||++.|..++..+.. .-...++++|+.||+|... .+.+.... .....||.++|.|+++. .+.++++|
T Consensus 75 vvvP~~t~~~~~~~~~~-------~k~~~~l~~~~c~sfwKag~~~~a~~~~~-~~~~G~~~~iivhpkflhsnatshk~ 146 (775)
T KOG1845|consen 75 VVVPCPTFNPRTREIVT-------EKFAFSLEAIYCRSFWKAGDYLLAELDVI-IGKSGGTLHIIVHPKFLHSNATSHKW 146 (775)
T ss_pred ceecccccccccccccc-------cccccccchhhhcCcccccchhcccccce-eccCCceeEEEEehhhhcCCCccccc
Confidence 89999999998876643 1234578889999999873 22222211 22234588888888875 46788898
Q ss_pred cCCCCCCCCCCcCcceeecccccCCCCcccccCcchhhHHHHHhhhhcCCCeEEEEcCeeecccccccccC--ceeeecc
Q 004486 442 DNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLVPRMKIYVQGSLVRSRPLAKSLN--KTCVETG 519 (749)
Q Consensus 442 ~td~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~~~~ySLRaYLSiLYL~Prm~I~LnGkkV~~~~i~~~L~--~~~v~~~ 519 (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---------DEITNG---ATFVRVDYINPVMDIFIRALVVQLKRISDDGGGMKPEVIRK 206 (775)
T ss_pred ccC--------hhhhhccccc---------cccccc---cceEEeeeecccccccceeEEeeccceeccccccCHHHHHH
Confidence 776 4788877541 122222 44599999999999999999999887544321 1221111
Q ss_pred ----------cccceEEEEEEcccccccccccceEEEEEcCeeeeeeeeccccccCCCCCceEEEEEecCcccccCCCcc
Q 004486 520 ----------IIMGKSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEAYKRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLV 589 (749)
Q Consensus 520 ----------~~~~~~V~It~Gf~k~e~~~~~~Gi~VY~nnRLI~~~~kVg~q~~~~~~GrGVIGVve~~~l~~p~~~~~ 589 (749)
+...+..+...||.... ...|..+|+-+|. +...+..+.+.||++..+||..
T Consensus 207 ~m~l~~~~k~e~~~tv~q~~~gfktst---~rlGa~~i~~~R~---------~~~~~~kstqsiglls~tfL~~------ 268 (775)
T KOG1845|consen 207 CMSLGYSSKKEANSTVGQYGNGFKTST---MRLGADAIVFSRC---------ESRRGLKSTQSIGLLSYTFLRK------ 268 (775)
T ss_pred HHHhhhhhhhhhhhhhhhhccccccch---hhhccceeEeehh---------hhhccCCcceeEEEEEEeeecc------
Confidence 11112334456666532 2389999999987 3334567899999999998744
Q ss_pred ccccCccCccCchHHHHHHHHHHHHHHHHHhhccccccccc--ccCCCCCCCceeeCccchhhccCCCCCCCCCCCCCce
Q 004486 590 WVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVK--DGALYKPDQEWVQCNKCRKWRMLDPGFDTKSLPVEWF 667 (749)
Q Consensus 590 ~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~--~~~~~~~~~~WvQCd~C~KWR~Lp~~~~~~~lp~~W~ 667 (749)
|+ |+||..+- +|++...+.-.++|.. +-+.+ +..-..+..... .|+||+..+...+ .++..|+
T Consensus 269 --t~-~~d~iv~~---~~i~~~~e~~~~~~~~----i~~~s~~~~~~n~~i~~~~---~~L~w~p~~~~~~--~l~q~~v 333 (775)
T KOG1845|consen 269 --TG-KRDFIVPM---RLIKMDYEKSDQLWQG----ILYKSGVDWAVNLEIEVTE---RFLKWSPYSHLLD--LLGQNSV 333 (775)
T ss_pred --cc-CCceeEec---chhhhhhhcccccccc----eeeccccccceeeeeHHHH---HHhhcCccccHHH--Hhhhhhh
Confidence 78 99999877 8888888888899865 22111 111111111111 7999999999875 7888999
Q ss_pred ecCCC--CCCCCCCCcccccCCce
Q 004486 668 CYMKP--FEGLCDLPEQKVDAGVV 689 (749)
Q Consensus 668 C~~np--~~~sC~~pEe~~~~~~~ 689 (749)
|+.++ .+..|.+++.+....++
T Consensus 334 ~~~~~~~ef~~~~~~~~~~g~~~I 357 (775)
T KOG1845|consen 334 QYSKDFPEFGHQFNIMNKPGTDVI 357 (775)
T ss_pred hhccccchhcchhhhccCCCceee
Confidence 99997 47999999987776654
No 8
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=1.3e-18 Score=195.42 Aligned_cols=161 Identities=27% Similarity=0.361 Sum_probs=128.8
Q ss_pred hccccCCHHHHHHHHHhcccccCC--------------CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-
Q 004486 243 GQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY- 307 (749)
Q Consensus 243 st~h~~~pf~AIaELIdNS~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~- 307 (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 456666653 45678999999999999999999886
Q ss_pred ccc--------CCC-CCCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcE
Q 004486 308 FGH--------KQP-DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQF 378 (749)
Q Consensus 308 fG~--------S~k-~~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~ 378 (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 222 223 34467899999999999999 999999999999875 777776 4455676666555678999
Q ss_pred EEEEecc-cccchhhhhHHh-HhhhCCCchhhHHHhhh
Q 004486 379 MELDTVV-QSEATAKYNLKS-IKEFSPFNKYLIGEKAG 414 (749)
Q Consensus 379 I~l~l~~-~~e~~~~~~L~~-I~kySpF~s~pI~e~~~ 414 (749)
|++++++ +.++.++..++. |+|||.|+++||....+
T Consensus 200 i~l~lKe~~~ey~ee~rikeiVKK~S~Fv~yPI~l~~e 237 (656)
T KOG0019|consen 200 IVIHLKEGDCEFLEEKRIKEVVKKYSNFVSYPIYLNGE 237 (656)
T ss_pred EEeeehhhhhhhccHhHHHHHHhhccccccccchhhhh
Confidence 9999998 458888888876 99999999999985543
No 9
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=1.1e-18 Score=191.01 Aligned_cols=159 Identities=23% Similarity=0.336 Sum_probs=122.3
Q ss_pred hccccCCHHHHHHHHHhcccccCC----------------CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhh
Q 004486 243 GQAHSGWIFGAIAELVDNSRDAKA----------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 306 (749)
Q Consensus 243 st~h~~~pf~AIaELIdNS~DA~A----------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l 306 (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 344566778999999999999942 456666653 4567899999999999999999988
Q ss_pred h-cccCC--------CCCC-----CCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEecccc
Q 004486 307 Y-FGHKQ--------PDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSY 372 (749)
Q Consensus 307 ~-fG~S~--------k~~~-----d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~ 372 (749)
+ +..|. .... ....|||||+|||+|++ ++++|.|+||+++.. .++|.+ ....+.|...+|
T Consensus 163 GTIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfL-VAD~vvVtsKhNdD~--QyiWES---dan~FsvseDpr 236 (785)
T KOG0020|consen 163 GTIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFL-VADRVVVTSKHNDDS--QYIWES---DANSFSVSEDPR 236 (785)
T ss_pred hhhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhh-hcceEEEEeccCCcc--ceeeec---cCcceeeecCCC
Confidence 6 22221 1111 24799999999999988 999999999998853 466765 223677755554
Q ss_pred C---CCCcEEEEEecccc-cchhhhhHHh-HhhhCCCchhhHHHhh
Q 004486 373 Y---RKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKA 413 (749)
Q Consensus 373 ~---~~Gt~I~l~l~~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~ 413 (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 3 58999999999875 7888888875 9999999999998654
No 10
>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=99.67 E-value=1.5e-17 Score=158.66 Aligned_cols=96 Identities=34% Similarity=0.518 Sum_probs=80.6
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCC-CCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDA-DDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~-~d~~~IGqfGvGf 328 (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 478999999999999999999999852 2356899999999999999999999999887641 2367899999999
Q ss_pred eeecccccCeEEEEEeeCCCCc
Q 004486 329 KTGAMRLGKDALVLTQTADSRS 350 (749)
Q Consensus 329 KsAsmrlg~~v~V~Sk~~g~~s 350 (749)
|.|+|.+|+.+.|+|++.+...
T Consensus 78 k~A~~~~~~~~~v~S~~~~~~~ 99 (137)
T PF13589_consen 78 KLAIFSLGDRVEVISKTNGESF 99 (137)
T ss_dssp GGGGGGTEEEEEEEEESTTSSS
T ss_pred HHHHHHhcCEEEEEEEECCCCc
Confidence 9999999999999999998754
No 11
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=99.59 E-value=2.6e-16 Score=126.37 Aligned_cols=45 Identities=44% Similarity=1.005 Sum_probs=31.3
Q ss_pred CceeeCccchhhccCCCCCCC--CCCCCCceecCCCC--CCCCCCCccc
Q 004486 639 QEWVQCNKCRKWRMLDPGFDT--KSLPVEWFCYMKPF--EGLCDLPEQK 683 (749)
Q Consensus 639 ~~WvQCd~C~KWR~Lp~~~~~--~~lp~~W~C~~np~--~~sC~~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 6999999985
No 12
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.44 E-value=5.9e-12 Score=147.22 Aligned_cols=110 Identities=22% Similarity=0.289 Sum_probs=85.2
Q ss_pred eeeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhc
Q 004486 230 NFVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYF 308 (749)
Q Consensus 230 ~~~~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~f 308 (749)
.+..+++..++.+ |...+.+|..+|+|||+||+||||+.|.|.+.. ++...|.|.|||.||+.+++..++..
T Consensus 2 ~I~~L~~~v~~~IaAgevI~~~~svvkElveNsiDAgat~I~v~i~~-------~g~~~i~V~DnG~Gi~~~~~~~~~~~ 74 (617)
T PRK00095 2 PIQLLPPQLANQIAAGEVVERPASVVKELVENALDAGATRIDIEIEE-------GGLKLIRVRDNGCGISKEDLALALAR 74 (617)
T ss_pred CceECCHHHHHHhcCcCcccCHHHHHHHHHHHHHhCCCCEEEEEEEe-------CCeEEEEEEEcCCCCCHHHHHHHhhc
Confidence 3578999999999 556778999999999999999999999999962 45678999999999999999988764
Q ss_pred ccCCCCCC--C---CcccccccceeeeecccccCeEEEEEeeCCC
Q 004486 309 GHKQPDAD--D---PNRIGRFGVGFKTGAMRLGKDALVLTQTADS 348 (749)
Q Consensus 309 G~S~k~~~--d---~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~ 348 (749)
..++|-.. + ....|..|.|+.+.+ .+ .+++|.||+.+.
T Consensus 75 ~~tsKi~~~~dl~~~~t~GfrGeAL~sI~-~v-s~l~i~s~~~~~ 117 (617)
T PRK00095 75 HATSKIASLDDLEAIRTLGFRGEALPSIA-SV-SRLTLTSRTADA 117 (617)
T ss_pred cCCCCCCChhHhhccccCCcchhHHHhhh-hc-eEEEEEEecCCC
Confidence 44444221 2 245677777764333 34 489999998754
No 13
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.31 E-value=9.6e-12 Score=134.06 Aligned_cols=140 Identities=19% Similarity=0.259 Sum_probs=97.4
Q ss_pred eeeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhc
Q 004486 230 NFVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYF 308 (749)
Q Consensus 230 ~~~~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~f 308 (749)
.+.++++...+.+ |...+.++..||.|||+||+||+|+.|.|.+.. .+...|.|.|||.||+.+++..++..
T Consensus 2 ~I~~l~~~~~~~i~s~~~i~~~~~~l~eLi~Na~dA~a~~I~i~~~~-------~~~~~i~V~DnG~Gi~~~~l~~~~~~ 74 (312)
T TIGR00585 2 TIKPLPPELVNKIAAGEVIERPASVVKELVENSLDAGATRIDVEIEE-------GGLKLIEVSDNGSGIDKEDLPLACER 74 (312)
T ss_pred cCeECCHHHHHHHhCcCchhhHHHHHHHHHHHHHHCCCCEEEEEEEe-------CCEEEEEEEecCCCCCHHHHHHHhhC
Confidence 3578999999999 556678999999999999999999999988863 23446999999999999999988754
Q ss_pred ccCCCCC-----CCCcccccccceeeeecccccCeEEEEEee-CCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEE
Q 004486 309 GHKQPDA-----DDPNRIGRFGVGFKTGAMRLGKDALVLTQT-ADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 382 (749)
Q Consensus 309 G~S~k~~-----~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~-~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l~ 382 (749)
+.+.|.. ......|..|.|+.+.+ .++ +++|.||+ .+. ..++.+. . +|. .+.-....-...||+|++.
T Consensus 75 ~~tsk~~~~~~~~~~~~~G~rG~al~si~-~~s-~~~i~S~~~~~~-~~~~~~~-~-~g~-~~~~~~~~~~~~GTtV~v~ 148 (312)
T TIGR00585 75 HATSKIQSFEDLERIETLGFRGEALASIS-SVS-RLTITTKTSAAD-GLAWQAL-L-EGG-MIEEIKPAPRPVGTTVEVR 148 (312)
T ss_pred CCcCCCCChhHhhcccccCccchHHHHHH-hhC-cEEEEEeecCCC-cceEEEE-E-CCC-cCcccccccCCCccEEEEc
Confidence 4433321 13467899999884433 345 89999998 343 3444443 2 222 1111112223579998874
No 14
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.31 E-value=6.8e-12 Score=146.86 Aligned_cols=139 Identities=21% Similarity=0.293 Sum_probs=98.4
Q ss_pred eeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-c
Q 004486 231 FVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-F 308 (749)
Q Consensus 231 ~~~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-f 308 (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 578999999999 55667899999999999999999999999997 56788899999999999999988764 4
Q ss_pred ccCC-CCCCCCcccccccceeeee---cccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEE
Q 004486 309 GHKQ-PDADDPNRIGRFGVGFKTG---AMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 381 (749)
Q Consensus 309 G~S~-k~~~d~~~IGqfGvGfKsA---smrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l 381 (749)
.+|. ....|...|-.| ||..- +++-..+++|.||+.+. . ..|+.+.+|..-.+-..+.-...||+|++
T Consensus 77 aTSKI~~~~DL~~I~Tl--GFRGEAL~SIasVsrlti~Srt~~~-~--~~~~~~~~g~~~~~~~~p~a~~~GTtVeV 148 (638)
T COG0323 77 ATSKIASLEDLFRIRTL--GFRGEALASIASVSRLTITSRTAEA-S--EGTQIYAEGGGMEVTVKPAAHPVGTTVEV 148 (638)
T ss_pred ccccCCchhHHHHhhcc--CccHHHHHHHHhhheeEEEeecCCc-C--ceEEEEecCCcccccccCCCCCCCCEEEe
Confidence 4432 222344455555 89864 44556899999995543 2 23343334332221111222334999876
No 15
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.08 E-value=4.1e-10 Score=124.50 Aligned_cols=135 Identities=21% Similarity=0.239 Sum_probs=100.6
Q ss_pred cCCHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcc
Q 004486 247 SGWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNR 320 (749)
Q Consensus 247 ~~~pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~ 320 (749)
+.++.+.|+|||+||+||.. ..|.|.|+.+ +.+...+.|+|||.|++.+.+-+.|+ +-++++-....+.
T Consensus 34 ~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~-----~~d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~~~Qs 108 (538)
T COG1389 34 IRSLTTTVHELVTNSLDACEEAGILPDIKVEIERI-----GKDHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHRNIQS 108 (538)
T ss_pred hhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEec-----CCceEEEEEecCCCCCChhHhHHHHHHHhccchhhhhhhc
Confidence 45678999999999999953 6888888753 45678899999999999999999875 3333333235788
Q ss_pred cccccceeeeec----ccccCeEEEEEeeCCCCceeEEEEEecCC-CeeEEEeccccC----CCCcEEEEEeccc
Q 004486 321 IGRFGVGFKTGA----MRLGKDALVLTQTADSRSIAFLSQSLNQG-KDNLEIPIVSYY----RKGQFMELDTVVQ 386 (749)
Q Consensus 321 IGqfGvGfKsAs----mrlg~~v~V~Sk~~g~~svg~ls~sf~~g-~~~i~VPi~~~~----~~Gt~I~l~l~~~ 386 (749)
.||+|+|.+.|. |..|+.+.|+|.+.++..+..++...+.. ++..++....++ .+||.|+++++..
T Consensus 109 RGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~~~~~~~~hGT~Vel~~~~~ 183 (538)
T COG1389 109 RGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGEVENPGGWHGTRVELELKGV 183 (538)
T ss_pred cccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhcccccCCCCCCceEEEEEeccc
Confidence 999999997654 56799999999999877666666555432 333444332222 3799999998755
No 16
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=98.91 E-value=3.6e-09 Score=119.50 Aligned_cols=140 Identities=21% Similarity=0.360 Sum_probs=105.4
Q ss_pred eeeecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhh-hh
Q 004486 230 NFVRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM-TY 307 (749)
Q Consensus 230 ~~~~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~-l~ 307 (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 5688999999999 44567799999999999999999999999886 567888999999999999999764 46
Q ss_pred cccCCC-CCCCCcccccccceeee---ecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEE
Q 004486 308 FGHKQP-DADDPNRIGRFGVGFKT---GAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 381 (749)
Q Consensus 308 fG~S~k-~~~d~~~IGqfGvGfKs---Asmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l 381 (749)
|.+|.- ..+|...|..| ||.. |+++-..+|+|.||.++... | |-.+|.+|.-. .-|.+.--..||.|++
T Consensus 80 ftTSKL~kFEDL~~lsTy--GFRGEALASiShVA~VtV~TK~~~~~c-a-yrasY~DGkm~-~~pKpcAgk~GT~I~v 152 (694)
T KOG1979|consen 80 FTTSKLTKFEDLFSLSTY--GFRGEALASISHVAHVTVTTKTAEGKC-A-YRASYRDGKMI-ATPKPCAGKQGTIITV 152 (694)
T ss_pred hhhhhcchhHHHHhhhhc--CccHHHHhhhhheeEEEEEEeecCcee-e-eEEEeeccccc-cCCCCccCCCceEEEe
Confidence 777642 23466777777 6764 66777899999999988743 2 33444444211 1244444457888876
No 17
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=98.87 E-value=4e-09 Score=121.40 Aligned_cols=138 Identities=17% Similarity=0.208 Sum_probs=90.5
Q ss_pred eecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhh-hhcc
Q 004486 232 VRADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM-TYFG 309 (749)
Q Consensus 232 ~~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~-l~fG 309 (749)
.+++++..|.+ |.+.+.++..|++|||+||+||||+.|.|.++ +.|...|.|.|||+|++..++.-+ +..-
T Consensus 2 k~i~~~tvhrI~S~qvI~sl~sAVKELvENSiDAGAT~I~I~~k-------dyG~d~IEV~DNG~GI~~~n~~~l~lkh~ 74 (672)
T KOG1978|consen 2 KQIPKDTVHRICSSQVITSLVSAVKELVENSIDAGATAIDIKVK-------DYGSDSIEVSDNGSGISATDFEGLALKHT 74 (672)
T ss_pred CCCChhhhhccccCCeeccHHHHHHHHHhcCcccCCceeeEecC-------CCCcceEEEecCCCCCCccchhhhhhhhh
Confidence 35788889999 55666789999999999999999999999987 457889999999999999998764 2222
Q ss_pred cC-CCCCCCCcccccccceeeeecc---cccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEE
Q 004486 310 HK-QPDADDPNRIGRFGVGFKTGAM---RLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 381 (749)
Q Consensus 310 ~S-~k~~~d~~~IGqfGvGfKsAsm---rlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l 381 (749)
.| .....| ...-+..||..-++ .--.+|+|.|++... .+|..+.--+.| .+.--...-...||+|.+
T Consensus 75 TSKi~~f~D--l~~l~T~GFRGEALSsLCa~~dv~I~Trt~~~-~vgt~l~~Dh~G--~I~~k~~~ar~~GTTV~v 145 (672)
T KOG1978|consen 75 TSKIVSFAD--LAVLFTLGFRGEALSSLCALGDVMISTRSHSA-KVGTRLVYDHDG--HIIQKKPVARGRGTTVMV 145 (672)
T ss_pred hhcccchhh--hhhhhhhhhHHHHHHhhhhccceEEEEeeccC-ccceeEEEccCC--ceeeeccccCCCCCEEEH
Confidence 22 112222 33444557875443 223788899988732 334333221122 222111222357888764
No 18
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=98.70 E-value=1.5e-07 Score=108.27 Aligned_cols=96 Identities=25% Similarity=0.393 Sum_probs=67.2
Q ss_pred HHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCccccc
Q 004486 250 IFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGR 323 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGq 323 (749)
+..+|.|||+||+||.+. .|.|.+.... .+.+...|.|.|||.||+++++..++. |..+.+........|.
T Consensus 37 L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~---~~~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~~~~~~s~G~ 113 (535)
T PRK04184 37 LYTTVKELVDNSLDACEEAGILPDIKIEIKRVD---EGKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKFHNLRQSRGQ 113 (535)
T ss_pred HHHHHHHHHHHHHHHhhhcCCCceEEEEEEEcc---CCCcEEEEEEEcCCCCCCHHHHHHHhhhhhccccccccccCCCC
Confidence 578999999999999865 4666665310 022346799999999999999999874 4333332111456799
Q ss_pred ccceeeeecc----cccCeEEEEEeeCCC
Q 004486 324 FGVGFKTGAM----RLGKDALVLTQTADS 348 (749)
Q Consensus 324 fGvGfKsAsm----rlg~~v~V~Sk~~g~ 348 (749)
+|+|+..+.+ ..|..+.|.|+..+.
T Consensus 114 ~GLGLsiv~~isq~~~G~~I~V~S~~~~g 142 (535)
T PRK04184 114 QGIGISAAVLYAQMTTGKPVRVISSTGGS 142 (535)
T ss_pred CCcchHHHHHHHHHhcCCcEEEEEecCCC
Confidence 9999976542 235678999987654
No 19
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=98.62 E-value=1.7e-07 Score=110.35 Aligned_cols=130 Identities=20% Similarity=0.298 Sum_probs=85.6
Q ss_pred CHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcccc
Q 004486 249 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIG 322 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IG 322 (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 4679999999999999865 46666653 22345799999999999999999885 554443222235578
Q ss_pred cccceeeeecc----cccCeEEEEEeeCCCCceeEEEEEecCCCe--eEE-EeccccC-CCCcEEEEEec
Q 004486 323 RFGVGFKTGAM----RLGKDALVLTQTADSRSIAFLSQSLNQGKD--NLE-IPIVSYY-RKGQFMELDTV 384 (749)
Q Consensus 323 qfGvGfKsAsm----rlg~~v~V~Sk~~g~~svg~ls~sf~~g~~--~i~-VPi~~~~-~~Gt~I~l~l~ 384 (749)
+.|+|+.++.. .-|..+.|.|+..+.....++......+.. .+. .....|. .+||.|++.+.
T Consensus 120 ~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~~~~~~~~GT~IeV~Lf 189 (795)
T PRK14868 120 QQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEETTTWDRPHGTRIELEME 189 (795)
T ss_pred CCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceecceecccCCCCceEEEEEEE
Confidence 89999976542 347789999998765432223333333321 221 1122344 47999988763
No 20
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=98.60 E-value=2.2e-07 Score=105.93 Aligned_cols=97 Identities=25% Similarity=0.309 Sum_probs=70.4
Q ss_pred CCHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCccc
Q 004486 248 GWIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRI 321 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~I 321 (749)
..+..++.|||+||+||.+. .|.|.+... ..+...|.|.|||.||+.+++..++. |.++.+........
T Consensus 27 ~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~-----g~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK~~~~~~s~ 101 (488)
T TIGR01052 27 RSLTTVIHELVTNSLDACEEAGILPDIKVEIEKI-----GKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSR 101 (488)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEC-----CCceEEEEEEECCCCCCHHHHHhhhhhccccCccccccccC
Confidence 35679999999999999875 567766531 11234799999999999999999875 44444432235567
Q ss_pred ccccceeeeecc----cccCeEEEEEeeCCCC
Q 004486 322 GRFGVGFKTGAM----RLGKDALVLTQTADSR 349 (749)
Q Consensus 322 GqfGvGfKsAsm----rlg~~v~V~Sk~~g~~ 349 (749)
|.+|+|+.++.+ ..|..+.|.|+..+..
T Consensus 102 G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~ 133 (488)
T TIGR01052 102 GQQGIGISGAVLYSQMTTGKPVKVISSTGGEI 133 (488)
T ss_pred CCccEehhHHHHHHHHcCCceEEEEEecCCce
Confidence 999999975543 3456699999988653
No 21
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=98.44 E-value=8.2e-07 Score=104.66 Aligned_cols=122 Identities=16% Similarity=0.157 Sum_probs=83.6
Q ss_pred CCHHHHHHHHHhccccc----CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhh-cccCCCC
Q 004486 248 GWIFGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPD 314 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S~k~ 314 (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 45778999999999998 78999999873 24899999999999988776 443 2222221
Q ss_pred C--CCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEec-ccc--CCCCcEEEEEe
Q 004486 315 A--DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDT 383 (749)
Q Consensus 315 ~--~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi-~~~--~~~Gt~I~l~l 383 (749)
. .-....|..|+|.++.. .++..+.|.|++.+.. +.++|..|.-.-.++. ... ...||.|++.+
T Consensus 107 ~~~~yk~SgGl~GvGls~vN-alS~~l~V~s~r~g~~----~~~~f~~G~~~~~l~~~~~~~~~~~GT~V~f~P 175 (631)
T PRK05559 107 SNKAYKFSGGLHGVGVSVVN-ALSSRLEVEVKRDGKV----YRQRFEGGDPVGPLEVVGTAGKRKTGTRVRFWP 175 (631)
T ss_pred CCccccccCcccccchhhhh-hheeeEEEEEEeCCeE----EEEEEECCcCccCccccccccCCCCCcEEEEEE
Confidence 1 12367899999995544 4889999999987642 5556644421111111 111 45799998755
No 22
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=98.36 E-value=1.3e-06 Score=102.72 Aligned_cols=120 Identities=18% Similarity=0.161 Sum_probs=81.3
Q ss_pred HHHHHHHHHhcccc---c-CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHh--------HHhhhh-cccCCCC--
Q 004486 250 IFGAIAELVDNSRD---A-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD--------VVRMTY-FGHKQPD-- 314 (749)
Q Consensus 250 pf~AIaELIdNS~D---A-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee--------L~~~l~-fG~S~k~-- 314 (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 45689999999999 9 69999999972 26899999999999988 555553 2222221
Q ss_pred CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEec-ccc--CCCCcEEEEEe
Q 004486 315 ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELDT 383 (749)
Q Consensus 315 ~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi-~~~--~~~Gt~I~l~l 383 (749)
..-....|..|+|.++.. .++..+.|.|++.+.. +.++|..|.-...++. ... ...||+|++.+
T Consensus 102 ~~~~~SgG~~GvGls~vn-alS~~l~v~~~r~g~~----~~~~~~~G~~~~~~~~i~~~~~~~~GT~V~F~P 168 (625)
T TIGR01055 102 KNYHFSGGLHGVGISVVN-ALSKRVKIKVYRQGKL----YSIAFENGAKVTDLISAGTCGKRLTGTSVHFTP 168 (625)
T ss_pred CcceecCCCcchhHHHHH-HhcCeEEEEEEECCeE----EEEEEECCeEccccccccccCCCCCCeEEEEEE
Confidence 112367899999995544 4899999999987753 5566654422111221 122 23799998754
No 23
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=98.23 E-value=7.1e-06 Score=96.93 Aligned_cols=120 Identities=18% Similarity=0.172 Sum_probs=77.4
Q ss_pred HHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhhcc-cCCCC--
Q 004486 250 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYFG-HKQPD-- 314 (749)
Q Consensus 250 pf~AIaELIdNS~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~fG-~S~k~-- 314 (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 44678999999999 99 9999999972 23899999999999863221 22211 11121
Q ss_pred CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEec-cccCCCCcEEEEEe
Q 004486 315 ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSYYRKGQFMELDT 383 (749)
Q Consensus 315 ~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi-~~~~~~Gt~I~l~l 383 (749)
..-....|..|+|.++.. .+++.++|.|++++. .+.++|..|.-.-.++. ..-...||+|++.+
T Consensus 109 ~~yk~s~G~~G~Gls~vn-alS~~~~v~t~r~g~----~~~~~~~~G~~~~~~~~~~~~~~~GT~I~F~P 173 (638)
T PRK05644 109 GGYKVSGGLHGVGVSVVN-ALSTWLEVEVKRDGK----IYYQEYERGVPVTPLEVIGETDETGTTVTFKP 173 (638)
T ss_pred CcccccCCccccchhhhh-heeceEEEEEEeCCc----EEEEEEECCeEccCccccCCcCCCCcEEEEEE
Confidence 112347899999996544 488999999998765 24455544421111111 11235799998643
No 24
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=98.20 E-value=8.8e-06 Score=97.31 Aligned_cols=119 Identities=17% Similarity=0.186 Sum_probs=78.3
Q ss_pred HHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHH----------hHHhhhhcccCCCCC
Q 004486 250 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ----------DVVRMTYFGHKQPDA 315 (749)
Q Consensus 250 pf~AIaELIdNS~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e----------eL~~~l~fG~S~k~~ 315 (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 45689999999999 88 9999999872 2489999999999987 32211 111122211
Q ss_pred --CCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEe-ccccCCCCcEEEEEe
Q 004486 316 --DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELDT 383 (749)
Q Consensus 316 --~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VP-i~~~~~~Gt~I~l~l 383 (749)
.-.-.-|..|+|.++. -.+++.+.|.|++.+.. +.++|..|.-.-.+. +..-...||.|++.+
T Consensus 108 ~~~ykvSgGlhGvG~svv-NAlS~~l~v~v~r~gk~----~~q~f~~G~~~~~l~~~g~~~~~GT~V~F~P 173 (756)
T PRK14939 108 QNSYKVSGGLHGVGVSVV-NALSEWLELTIRRDGKI----HEQEFEHGVPVAPLKVVGETDKTGTEVRFWP 173 (756)
T ss_pred CCcccccCCccCccceEe-ehccCeEEEEEEeCCeE----EEEEEecCccccCccccCCcCCCCcEEEEEE
Confidence 1234679999999544 44899999999987752 556665443111111 111245799988754
No 25
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=98.19 E-value=5.5e-06 Score=97.21 Aligned_cols=116 Identities=20% Similarity=0.240 Sum_probs=74.6
Q ss_pred HHHHHHhcccccC----CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhhcc-cCCCC--CCC
Q 004486 253 AIAELVDNSRDAK----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYFG-HKQPD--ADD 317 (749)
Q Consensus 253 AIaELIdNS~DA~----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~fG-~S~k~--~~d 317 (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-------D--NSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAY 75 (594)
T ss_pred EEeeehhcccchhccCCCCEEEEEEeC-------C--CeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCCCc
Confidence 4789999999997 9999999973 2 3999999999999654321 11111 11121 112
Q ss_pred CcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecC-CCe--eEEEeccccCCCCcEEEEEe
Q 004486 318 PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ-GKD--NLEIPIVSYYRKGQFMELDT 383 (749)
Q Consensus 318 ~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~-g~~--~i~VPi~~~~~~Gt~I~l~l 383 (749)
....|..|+|.++.. .++..++|.|++++.. +.++|.. |.- ...+ ...-...||.|+..+
T Consensus 76 k~s~G~~G~Gls~vn-alS~~l~v~~~~~g~~----~~~~~~~~G~~~~~~~~-~~~~~~~GT~V~F~P 138 (594)
T smart00433 76 KVSGGLHGVGASVVN-ALSTEFEVEVARDGKE----YKQSFSNNGKPLSEPKI-IGDTKKDGTKVTFKP 138 (594)
T ss_pred cccCCcccchHHHHH-HhcCceEEEEEeCCcE----EEEEEeCCCeECcccee-cCCCCCCCcEEEEEE
Confidence 457899999995544 4889999999988653 4455533 321 1111 111235799998643
No 26
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.17 E-value=6.8e-06 Score=96.65 Aligned_cols=94 Identities=26% Similarity=0.284 Sum_probs=66.8
Q ss_pred HHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCccccc
Q 004486 250 IFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGR 323 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGq 323 (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 348899999999999875 577776531 12234699999999999999999875 3333332112356788
Q ss_pred ccceeeeec----ccccCeEEEEEeeCCC
Q 004486 324 FGVGFKTGA----MRLGKDALVLTQTADS 348 (749)
Q Consensus 324 fGvGfKsAs----mrlg~~v~V~Sk~~g~ 348 (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 999996654 2347778999987554
No 27
>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=98.17 E-value=9.4e-06 Score=96.26 Aligned_cols=121 Identities=17% Similarity=0.117 Sum_probs=77.9
Q ss_pred HHHHHHHHHhcccc---cC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHH--------hhhhc-ccCCCC--
Q 004486 250 IFGAIAELVDNSRD---AK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV--------RMTYF-GHKQPD-- 314 (749)
Q Consensus 250 pf~AIaELIdNS~D---A~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~--------~~l~f-G~S~k~-- 314 (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 55789999999999 99 9999999972 2359999999999986311 11221 111221
Q ss_pred CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEec-cccCCCCcEEEEEec
Q 004486 315 ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSYYRKGQFMELDTV 384 (749)
Q Consensus 315 ~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi-~~~~~~Gt~I~l~l~ 384 (749)
.......|..|+|.++.. .+++.++|.|++++.. +.++|..|.-.-.+.. ..-...||+|+....
T Consensus 102 ~~~k~s~G~~G~gl~~in-alS~~l~v~~~~~g~~----~~~~~~~G~~~~~l~~~~~~~~~GT~V~F~pd 167 (654)
T TIGR01059 102 DSYKVSGGLHGVGVSVVN-ALSEWLEVTVFRDGKI----YRQEFERGIPLGPLEVVGETKKTGTTVRFWPD 167 (654)
T ss_pred CcceecCCccchhHHHHH-HhcCeEEEEEEECCeE----EEEEEeCCCcccCceeccCCCCCCcEEEEEEC
Confidence 112467899999996544 4889999999987653 4555644421110001 122357999986543
No 28
>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=98.14 E-value=1.6e-06 Score=78.33 Aligned_cols=87 Identities=21% Similarity=0.324 Sum_probs=63.0
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 567999999999999654 78887774 235688999999999999999998763333222 34566779999
Q ss_pred eeeecc---cccCeEEEEEe
Q 004486 328 FKTGAM---RLGKDALVLTQ 344 (749)
Q Consensus 328 fKsAsm---rlg~~v~V~Sk 344 (749)
|+.+.. .++-++.+.+.
T Consensus 78 L~~~~~~~~~~~g~l~~~~~ 97 (111)
T PF02518_consen 78 LYIVKQIAERHGGELTIESS 97 (111)
T ss_dssp HHHHHHHHHHTTEEEEEEEE
T ss_pred HHHHHHHHHHCCCEEEEEEc
Confidence 975433 23445555554
No 29
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=97.96 E-value=5.5e-06 Score=95.72 Aligned_cols=138 Identities=18% Similarity=0.263 Sum_probs=84.9
Q ss_pred ecCHHHHHHh-hccccCCHHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-ccc
Q 004486 233 RADPSYLQTL-GQAHSGWIFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGH 310 (749)
Q Consensus 233 ~v~p~~L~sl-st~h~~~pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~ 310 (749)
.++..+-+++ |...+.++..++.|||-||+||+|+.|.|.+.. ....+.|.|||.||++++|..+-. +.+
T Consensus 4 ~L~~~V~~~lrSg~~~~sla~~VeElv~NSiDA~At~V~v~V~~--------~t~sv~ViDdG~G~~rdDl~~lg~ry~T 75 (1142)
T KOG1977|consen 4 CLSVEVQAKLRSGLAISSLAQCVEELVLNSIDAEATCVAVRVNM--------ETFSVQVIDDGFGMGRDDLEKLGNRYFT 75 (1142)
T ss_pred ccchhHHHHHhccchHHHHHHHHHHHHhhccccCceEEEEEecC--------ceeEEEEEecCCCccHHHHHHHHhhhhh
Confidence 4555666777 554556788999999999999999999999875 257889999999999999987632 222
Q ss_pred CC-CCCCCCcccccccceeeeec---ccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEecc-ccCCCCcEEEE
Q 004486 311 KQ-PDADDPNRIGRFGVGFKTGA---MRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIV-SYYRKGQFMEL 381 (749)
Q Consensus 311 S~-k~~~d~~~IGqfGvGfKsAs---mrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~-~~~~~Gt~I~l 381 (749)
|. ...++...--.| ||...+ ++--..+.|+|++.+.. .++.-..+..|..-...++. +....||++++
T Consensus 76 SK~h~~ndl~~~~ty--GfRGeALasIsd~s~l~v~skkk~r~-~~~~~kk~~~gs~~~~l~iD~~R~~sGTtVtV 148 (1142)
T KOG1977|consen 76 SKCHSVNDLENPRTY--GFRGEALASISDMSSLVVISKKKNRT-MKTFVKKFQSGSALKALEIDVTRASSGTTVTV 148 (1142)
T ss_pred hhceecccccccccc--ccchhhhhhhhhhhhhhhhhhhcCCc-hhHHHHHHhccccceecccccccccCCcEEEe
Confidence 21 111222333344 565433 33335677888877642 22211122223333333442 23346888876
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=97.45 E-value=0.00048 Score=81.64 Aligned_cols=119 Identities=18% Similarity=0.198 Sum_probs=74.0
Q ss_pred HHHHHHHHhccccc----CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhhc-ccCCCC--C
Q 004486 251 FGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTYF-GHKQPD--A 315 (749)
Q Consensus 251 f~AIaELIdNS~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~f-G~S~k~--~ 315 (749)
...+.|+||||+|. .++.|.|.|.. ...++|.|||.||+.+--.. .|+. ..+.+- .
T Consensus 36 ~hlv~EIvdNavDE~~ag~~~~I~V~i~~---------dgsitV~DnGrGIPv~~h~~~~~~~~E~v~t~LhaGgkfd~~ 106 (637)
T TIGR01058 36 HHLVWEIVDNSVDEVLAGYADNITVTLHK---------DNSITVQDDGRGIPTGIHQDGNISTVETVFTVLHAGGKFDQG 106 (637)
T ss_pred heehhhhhcchhhhhhcCCCcEEEEEEcC---------CCeEEEEECCCcccCcccCcCCCccceeEEEEecccCcCCCC
Confidence 34577999999993 57899998862 35899999999998642211 1111 111121 1
Q ss_pred CCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCC-C--eeEEEeccccCCCCcEEEEEec
Q 004486 316 DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQG-K--DNLEIPIVSYYRKGQFMELDTV 384 (749)
Q Consensus 316 ~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g-~--~~i~VPi~~~~~~Gt~I~l~l~ 384 (749)
.-.-.-|..|+|.+. .=.++..+.|.+++++. .+.++|..| . ....+. ..-...||+|+..+.
T Consensus 107 ~ykvSGGlhGvG~sv-vNAlS~~~~V~v~r~gk----~~~q~f~~Gg~~~~~l~~~-~~~~~~GT~V~F~PD 172 (637)
T TIGR01058 107 GYKTAGGLHGVGASV-VNALSSWLEVTVKRDGQ----IYQQRFENGGKIVQSLKKI-GTTKKTGTLVHFHPD 172 (637)
T ss_pred cccccCCcccccccc-cceeeceEEEEEEECCE----EEEEEEecCCcCcCCcccc-cCCCCCceEEEEEeC
Confidence 123556899999954 44589999999987764 355666543 2 111111 122357898876553
No 31
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.26 E-value=0.00047 Score=79.11 Aligned_cols=85 Identities=21% Similarity=0.301 Sum_probs=65.6
Q ss_pred CCHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccc
Q 004486 248 GWIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 322 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IG 322 (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 3567899999999999966 567777764 456678899999999999999999999999875 23
Q ss_pred cccceeee---ecccccCeEEEEEe
Q 004486 323 RFGVGFKT---GAMRLGKDALVLTQ 344 (749)
Q Consensus 323 qfGvGfKs---Asmrlg~~v~V~Sk 344 (749)
.-|+|++. ..=++|-.+.|.+.
T Consensus 494 ~rGiGL~Lvkq~V~~~~G~I~~~s~ 518 (537)
T COG3290 494 GRGIGLYLVKQLVERLGGSIEVESE 518 (537)
T ss_pred CCchhHHHHHHHHHHcCceEEEeeC
Confidence 44888763 22256677777775
No 32
>PLN03237 DNA topoisomerase 2; Provisional
Probab=97.23 E-value=0.0011 Score=83.83 Aligned_cols=86 Identities=21% Similarity=0.366 Sum_probs=58.4
Q ss_pred HHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--h----hhccc---CCCC-
Q 004486 250 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQPD- 314 (749)
Q Consensus 250 pf~AIaELIdNS~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--~----l~fG~---S~k~- 314 (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 4567899999999953 4788888863 246899999999998753211 0 11222 2221
Q ss_pred -CCCCcccccccceeeeecccccCeEEEEEe
Q 004486 315 -ADDPNRIGRFGVGFKTGAMRLGKDALVLTQ 344 (749)
Q Consensus 315 -~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk 344 (749)
..-...-|+.|+|.+.+ -.++..+.|.++
T Consensus 150 d~~yKvSGGlhGVGasvv-NaLS~~f~Vev~ 179 (1465)
T PLN03237 150 DNEKKTTGGRNGYGAKLT-NIFSTEFVIETA 179 (1465)
T ss_pred CCcceeeccccccCcccc-ccccCeeEEEEE
Confidence 11245789999999544 448999999997
No 33
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=97.23 E-value=0.0009 Score=77.98 Aligned_cols=121 Identities=20% Similarity=0.212 Sum_probs=78.7
Q ss_pred HHHHHHHHhccccc----CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhh-cccCCCCCCC
Q 004486 251 FGAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQPDADD 317 (749)
Q Consensus 251 f~AIaELIdNS~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S~k~~~d 317 (749)
.-.+.|.||||+|. .|+.|.|.+.. ...|+|.|||-||+-+.-.+ +|+ +....|-..+
T Consensus 38 hHlv~EVvDNsiDEalaG~~~~I~V~l~~---------d~sisV~DnGRGIPvdiH~~~~~~~vEvI~T~LHAGGKFd~~ 108 (635)
T COG0187 38 HHLVWEVVDNSIDEALAGYADRIDVTLHE---------DGSISVEDNGRGIPVDIHPKEKVSAVEVIFTVLHAGGKFDND 108 (635)
T ss_pred eeeEeEeeechHhHHhhCcCcEEEEEEcC---------CCeEEEEECCCCCccccCCCCCCCceEEEEEeeccCcccCCC
Confidence 34578999999996 47899998863 57999999999999876222 232 1111121111
Q ss_pred --CcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCe--eEE-EeccccCCCCcEEEEEecc
Q 004486 318 --PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKD--NLE-IPIVSYYRKGQFMELDTVV 385 (749)
Q Consensus 318 --~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~--~i~-VPi~~~~~~Gt~I~l~l~~ 385 (749)
.-.=|..|+|. |+.=.|+..+.|.+++++. .+.+.|..|.. .+. +-.......||+|+....+
T Consensus 109 ~YkvSGGLHGVG~-SVVNALS~~l~v~v~r~gk----~y~q~f~~G~~~~~l~~ig~~~~~~~GT~V~F~PD~ 176 (635)
T COG0187 109 SYKVSGGLHGVGV-SVVNALSTWLEVEVKRDGK----IYRQRFERGVPVTPLEVIGSTDTKKTGTKVRFKPDP 176 (635)
T ss_pred ccEeecCCCccce-EEEecccceEEEEEEECCE----EEEEEEeCCCcCCCceecccCCCCCCccEEEEEcCh
Confidence 34557889998 5556699999999999875 45566754432 221 1112334569998876543
No 34
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.19 E-value=0.0008 Score=58.04 Aligned_cols=73 Identities=18% Similarity=0.368 Sum_probs=52.9
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 567899999999999875 66666653 334578999999999999999887654433221 22344567888
Q ss_pred eee
Q 004486 328 FKT 330 (749)
Q Consensus 328 fKs 330 (749)
++.
T Consensus 78 l~~ 80 (111)
T smart00387 78 LSI 80 (111)
T ss_pred HHH
Confidence 864
No 35
>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=97.14 E-value=0.00072 Score=57.36 Aligned_cols=85 Identities=19% Similarity=0.244 Sum_probs=55.0
Q ss_pred HHHHHHHHhcccccCC---CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 251 FGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 251 f~AIaELIdNS~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 3689999999999987 455555542 2345678999999999999988876432111 112334567888
Q ss_pred eeeecc---cccCeEEEEEe
Q 004486 328 FKTGAM---RLGKDALVLTQ 344 (749)
Q Consensus 328 fKsAsm---rlg~~v~V~Sk 344 (749)
++.+.- +.+..+.+.+.
T Consensus 73 l~~~~~~~~~~~g~~~~~~~ 92 (103)
T cd00075 73 LSIVKKLVELHGGRIEVESE 92 (103)
T ss_pred HHHHHHHHHHcCCEEEEEeC
Confidence 864321 23446666553
No 36
>PRK10604 sensor protein RstB; Provisional
Probab=97.02 E-value=0.0016 Score=73.05 Aligned_cols=88 Identities=16% Similarity=0.214 Sum_probs=60.6
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 329 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfK 329 (749)
+..++..||+||+.++...|.|.+.. .++.-.|.|.|||.||+.+++.+.+.-.+..... ....-|.+|+|+.
T Consensus 320 l~~vl~NLl~NAik~~~~~I~I~~~~------~~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~-~~~~~~g~GLGL~ 392 (433)
T PRK10604 320 MERVLDNLLNNALRYAHSRVRVSLLL------DGNQACLIVEDDGPGIPPEERERVFEPFVRLDPS-RDRATGGCGLGLA 392 (433)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEEEE------ECCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCC-CCCCCCCccchHH
Confidence 55789999999999988888888764 2345679999999999999999987633322111 1122356799985
Q ss_pred ee---cccccCeEEEEEe
Q 004486 330 TG---AMRLGKDALVLTQ 344 (749)
Q Consensus 330 sA---smrlg~~v~V~Sk 344 (749)
-+ .-..|-++.|.+.
T Consensus 393 ivk~i~~~~gG~i~v~s~ 410 (433)
T PRK10604 393 IVHSIALAMGGSVNCDES 410 (433)
T ss_pred HHHHHHHHCCCEEEEEec
Confidence 32 2234556666654
No 37
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=96.94 E-value=0.0021 Score=71.22 Aligned_cols=88 Identities=18% Similarity=0.197 Sum_probs=59.1
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 329 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfK 329 (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 45688999999999988888887764 2345679999999999999999887533322211 1123356788885
Q ss_pred ee---cccccCeEEEEEe
Q 004486 330 TG---AMRLGKDALVLTQ 344 (749)
Q Consensus 330 sA---smrlg~~v~V~Sk 344 (749)
.+ ....+.++.+.|.
T Consensus 427 iv~~~v~~~~G~l~~~s~ 444 (461)
T PRK09470 427 IVENAIQQHRGWVKAEDS 444 (461)
T ss_pred HHHHHHHHCCCEEEEEEC
Confidence 32 1234555555553
No 38
>PRK10364 sensor protein ZraS; Provisional
Probab=96.84 E-value=0.0029 Score=71.05 Aligned_cols=83 Identities=14% Similarity=0.141 Sum_probs=57.5
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 249 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (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 356789999999999844 467776653 234468999999999999999999876655442 12588
Q ss_pred eeeeec---ccccCeEEEEEe
Q 004486 327 GFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsAs---mrlg~~v~V~Sk 344 (749)
|++.+- -..|-++.+.|.
T Consensus 415 GL~iv~~~v~~~gG~i~i~s~ 435 (457)
T PRK10364 415 GLAVVHNIVEQHGGTIQVASQ 435 (457)
T ss_pred cHHHHHHHHHHCCCEEEEEeC
Confidence 875322 134555666554
No 39
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=96.79 E-value=0.0032 Score=74.38 Aligned_cols=118 Identities=19% Similarity=0.188 Sum_probs=72.8
Q ss_pred HHHHHHHhccccc------C-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--h--h-----hccc---CC
Q 004486 252 GAIAELVDNSRDA------K-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M--T-----YFGH---KQ 312 (749)
Q Consensus 252 ~AIaELIdNS~DA------~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--~--l-----~fG~---S~ 312 (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 4567999999995 2 567777764 35899999999998753311 0 1 1221 11
Q ss_pred CC-CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEEEecCCCeeEEEeccccCCCCcEEEEEec
Q 004486 313 PD-ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELDTV 384 (749)
Q Consensus 313 k~-~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~sf~~g~~~i~VPi~~~~~~Gt~I~l~l~ 384 (749)
+- ..-.-.-|..|+|.+ +.-.|+..+.|.++..+. .+.++|..|.....++...-..+||+|+..+.
T Consensus 118 kFd~~ykvSGGlhGVG~s-vvNaLS~~~~V~v~~~~~----~~~q~f~~G~~~~~~~~~~~~~~GT~V~F~PD 185 (602)
T PHA02569 118 NFDDTNRVTGGMNGVGSS-LTNFFSVLFIGETCDGKN----EVTVNCSNGAENISWSTKPGKGKGTSVTFIPD 185 (602)
T ss_pred ccCCcceeeCCcCCccce-eeeccchhhheEEEcCCE----EEEEEecCCcccCCcccCCCCCCccEEEEEEC
Confidence 11 112456789999994 445589999998865443 35677755532222222233357898877653
No 40
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=96.79 E-value=0.0035 Score=69.24 Aligned_cols=86 Identities=15% Similarity=0.122 Sum_probs=57.7
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 329 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfK 329 (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 45789999999999988888888763 234467999999999999999998764332211 111 245788875
Q ss_pred eec---ccccCeEEEEEe
Q 004486 330 TGA---MRLGKDALVLTQ 344 (749)
Q Consensus 330 sAs---mrlg~~v~V~Sk 344 (749)
-+- -..|-++.+.+.
T Consensus 403 iv~~i~~~~~g~l~i~~~ 420 (435)
T PRK09467 403 IVKRIVDQHNGKVELGNS 420 (435)
T ss_pred HHHHHHHHCCCEEEEEEC
Confidence 321 123455555443
No 41
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.70 E-value=0.0027 Score=64.86 Aligned_cols=60 Identities=15% Similarity=0.247 Sum_probs=47.0
Q ss_pred CCHHHHHHHHHhcccccC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCC
Q 004486 248 GWIFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQP 313 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k 313 (749)
.++..+|..||+||++|. ...|.|.+.. ..+.-.|.|.|||.||+++.+..++..+.+.+
T Consensus 227 ~~l~~vl~nLi~NAi~~~~~~~i~i~~~~------~~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~~ 287 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTPGGEITISVRQ------DDEQVTISVEDTGPGIPEEELERIFEPFFRTD 287 (336)
T ss_pred HHHHHHHHHHHHHHhccCCCCeEEEEEEe------cCCeEEEEEEcCCCCCCHHHHHHhccCeeccC
Confidence 356679999999999999 4788887763 12246899999999999999888876555444
No 42
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.60 E-value=0.004 Score=67.21 Aligned_cols=86 Identities=14% Similarity=0.229 Sum_probs=58.6
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 249 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (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 566899999999999853 567777653 334568999999999999999988763332211 1234688
Q ss_pred eeeeec---ccccCeEEEEEee
Q 004486 327 GFKTGA---MRLGKDALVLTQT 345 (749)
Q Consensus 327 GfKsAs---mrlg~~v~V~Sk~ 345 (749)
|++.+- -..|.++.+.|..
T Consensus 316 GL~i~~~i~~~~gg~i~i~s~~ 337 (356)
T PRK10755 316 GLSIVSRITQLHHGQFFLQNRQ 337 (356)
T ss_pred HHHHHHHHHHHCCCEEEEEECC
Confidence 886431 2356666666644
No 43
>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=96.59 E-value=0.0051 Score=67.87 Aligned_cols=85 Identities=19% Similarity=0.216 Sum_probs=54.7
Q ss_pred HHHHHHHHHhcccccCCC------ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccc
Q 004486 250 IFGAIAELVDNSRDAKAT------KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 323 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At------~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGq 323 (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 457899999999998533 24444432 3456689999999999999999988633333321 1233
Q ss_pred ccceeeeec---ccccCeEEEEEe
Q 004486 324 FGVGFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 324 fGvGfKsAs---mrlg~~v~V~Sk 344 (749)
-|+|+..+- -.+|-++.|.|.
T Consensus 458 ~GlGL~i~~~iv~~~gG~i~~~s~ 481 (494)
T TIGR02938 458 IGMGLSVAQEIVADHGGIIDLDDD 481 (494)
T ss_pred CcccHHHHHHHHHHcCCEEEEEEC
Confidence 578875321 134666666553
No 44
>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=96.55 E-value=0.0041 Score=68.56 Aligned_cols=74 Identities=20% Similarity=0.235 Sum_probs=50.5
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (749)
+..++.+||+||++++. ..|.|.+.. .++...|.|.|||.||+++.+.+++.-.++.+.... ..-+..|+|
T Consensus 354 l~~~~~nll~Nai~~~~~~~~I~i~~~~------~~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~-~~~~g~GlG 426 (457)
T TIGR01386 354 FRRAISNLLSNALRHTPDGGTITVRIER------RSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARS-NSGEGTGLG 426 (457)
T ss_pred HHHHHHHHHHHHHHcCCCCceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhccccccCCcccC-CCCCCcccc
Confidence 56789999999999874 456666653 234567999999999999999988753333221111 122346888
Q ss_pred eee
Q 004486 328 FKT 330 (749)
Q Consensus 328 fKs 330 (749)
++.
T Consensus 427 L~i 429 (457)
T TIGR01386 427 LAI 429 (457)
T ss_pred HHH
Confidence 753
No 45
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.52 E-value=0.0072 Score=68.42 Aligned_cols=82 Identities=18% Similarity=0.289 Sum_probs=55.0
Q ss_pred HHHHHHHHHhcccccCC----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccc
Q 004486 250 IFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFG 325 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfG 325 (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 334567899999999999999998875554432 1248
Q ss_pred ceeeeec---ccccCeEEEEEe
Q 004486 326 VGFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 326 vGfKsAs---mrlg~~v~V~Sk 344 (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 124455555553
No 46
>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=96.50 E-value=0.0094 Score=62.18 Aligned_cols=89 Identities=16% Similarity=0.187 Sum_probs=56.4
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 567899999999998654 45555442 2234679999999999999999987643322111 01112335888
Q ss_pred eeeec---ccccCeEEEEEee
Q 004486 328 FKTGA---MRLGKDALVLTQT 345 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk~ 345 (749)
++.+- -..|.++.+.|..
T Consensus 303 L~~~~~~~~~~gG~i~~~s~~ 323 (333)
T TIGR02966 303 LAIVKHVLSRHHARLEIESEL 323 (333)
T ss_pred HHHHHHHHHHCCCEEEEEecC
Confidence 86432 1356666666643
No 47
>PRK09303 adaptive-response sensory kinase; Validated
Probab=96.47 E-value=0.0087 Score=66.22 Aligned_cols=89 Identities=17% Similarity=0.206 Sum_probs=57.2
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 IRQVLLNLLDNAIKYTPEGGTITLSMLHR-----TTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR---DEGTEGYGIG 344 (380)
T ss_pred HHHHHHHHHHHHHhcCCCCceEEEEEEec-----CCCEEEEEEEEcCCCCCHHHHHHHccCceeCCC---CCCCCccccc
Confidence 457899999999998764 444443210 223457899999999999999998863332221 1122447888
Q ss_pred eeeec---ccccCeEEEEEeeC
Q 004486 328 FKTGA---MRLGKDALVLTQTA 346 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk~~ 346 (749)
+..+. -..|-++.|.|...
T Consensus 345 L~i~~~iv~~~gG~i~v~s~~~ 366 (380)
T PRK09303 345 LSVCRRIVRVHYGQIWVDSEPG 366 (380)
T ss_pred HHHHHHHHHHcCCEEEEEecCC
Confidence 85321 23566677766543
No 48
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.41 E-value=0.0088 Score=66.71 Aligned_cols=89 Identities=17% Similarity=0.203 Sum_probs=56.2
Q ss_pred CHHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 249 WIFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (749)
.+..++.+|++||+++... .|.|.+.. ..+...|.|.|||.||+++++.+++.-.+..+.. .....|..|+
T Consensus 317 ~l~~vl~NLl~NAik~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~-~~~~~~G~GL 389 (430)
T PRK11006 317 QLRSAISNLVYNAVNHTPEGTHITVRWQR------VPQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKA-RSRQTGGSGL 389 (430)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHhccCcccccCC-CCCCCCCCch
Confidence 3567899999999999654 45555442 2345679999999999999999987633322211 1122344688
Q ss_pred eeeeec---ccccCeEEEEEe
Q 004486 327 GFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsAs---mrlg~~v~V~Sk 344 (749)
|+..+- -..|-++.|.|.
T Consensus 390 GL~ivk~iv~~~gG~i~i~s~ 410 (430)
T PRK11006 390 GLAIVKHALSHHDSRLEIESE 410 (430)
T ss_pred HHHHHHHHHHHCCCEEEEEec
Confidence 875321 134555555554
No 49
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=96.41 E-value=0.01 Score=72.28 Aligned_cols=119 Identities=19% Similarity=0.225 Sum_probs=75.4
Q ss_pred HHHHHHHhccccc----CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--------hhh-------cccCC
Q 004486 252 GAIAELVDNSRDA----KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-------FGHKQ 312 (749)
Q Consensus 252 ~AIaELIdNS~DA----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-------fG~S~ 312 (749)
-.|-|+||||+|. .++.|.|.|.. ...++|.|||-||+-+.-.+ +|. |+...
T Consensus 132 hLv~EIlDNSVDE~laG~~~~I~V~i~~---------DgsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGKF~~~~ 202 (903)
T PTZ00109 132 QLLFEILDNSVDEYLAGECNKITVVLHK---------DGSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGKFQDTF 202 (903)
T ss_pred EEEEEEeeccchhhccCCCcEEEEEEcC---------CCeEEEEeCCccccccccccCCCcceeEEEEEeccCccccCcc
Confidence 4578999999995 36888888862 36899999999998754321 111 32210
Q ss_pred ------------------C----------------C--CCCCcccccccceeeeecccccCeEEEEEeeCCCCceeEEEE
Q 004486 313 ------------------P----------------D--ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQ 356 (749)
Q Consensus 313 ------------------k----------------~--~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~g~~svg~ls~ 356 (749)
+ . ..=.-.-|..|+|. ++.=.|+..+.|.+++.+. .+.+
T Consensus 203 ~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~-SVVNALS~~l~VeV~RdGK----~y~q 277 (903)
T PTZ00109 203 PKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGL-SVVNALSSFLKVDVFKGGK----IYSI 277 (903)
T ss_pred cccccccccccccccccccccccccccccccccccccCCcceecCcCCCcce-eeeeeccCeEEEEEEECCE----EEEE
Confidence 0 0 00024678999999 5555699999999998875 4667
Q ss_pred EecCCCe--eEEEeccccCCCCcEEEEEec
Q 004486 357 SLNQGKD--NLEIPIVSYYRKGQFMELDTV 384 (749)
Q Consensus 357 sf~~g~~--~i~VPi~~~~~~Gt~I~l~l~ 384 (749)
+|..|.- .+.+--..-...||+|+..+.
T Consensus 278 ~F~rG~~v~pLkvig~~~~~tGT~VtF~PD 307 (903)
T PTZ00109 278 ELSKGKVTKPLSVFSCPLKKRGTTIHFLPD 307 (903)
T ss_pred EeCCCcccCCccccCCcCCCCceEEEEEeC
Confidence 7765531 111111111347898876553
No 50
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.23 E-value=0.01 Score=66.02 Aligned_cols=88 Identities=15% Similarity=0.185 Sum_probs=56.9
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (749)
+..++.+||+||+.+... .|.|.+.. ..+.-.|.|.|||.||+++++.+++.-.+..+.. .....|..|+|
T Consensus 353 l~qvl~nll~NAi~~~~~~~~I~i~~~~------~~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~-~~~~~~g~GlG 425 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDSGGSLHISAEQ------RDKTLRLTFADSAPGVSDEQLQKLFERFYRTEGS-RNRASGGSGLG 425 (466)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEE------cCCEEEEEEEecCCCcCHHHHHHhccCcccCCCC-cCCCCCCCcHH
Confidence 457899999999998654 56666553 3345678999999999999999887532322211 12234567888
Q ss_pred eeeec---ccccCeEEEEEe
Q 004486 328 FKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk 344 (749)
+..+- -+.|-++.+.+.
T Consensus 426 L~iv~~i~~~~~G~l~~~s~ 445 (466)
T PRK10549 426 LAICLNIVEAHNGRIIAAHS 445 (466)
T ss_pred HHHHHHHHHHcCCEEEEEEC
Confidence 85321 234555655554
No 51
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.22 E-value=0.0071 Score=69.20 Aligned_cols=71 Identities=18% Similarity=0.295 Sum_probs=51.2
Q ss_pred HHHHHHHHHhcccccC------CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccc
Q 004486 250 IFGAIAELVDNSRDAK------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 323 (749)
Q Consensus 250 pf~AIaELIdNS~DA~------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGq 323 (749)
+...+.+|++||++|. ...|.|.+.. ..+.-.|.|.|||.||++++..+++..+++.+.. .-|.
T Consensus 433 l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~----~~~g 502 (545)
T PRK15053 433 FAAIVGNLLDNAFEASLRSDEGNKIVELFLSD------EGDDVVIEVADQGCGVPESLRDKIFEQGVSTRAD----EPGE 502 (545)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCceEEEEEEE------CCCEEEEEEEeCCCCcCHHHHHHHhCCCCCCCCC----CCCC
Confidence 4568999999999983 3556666653 2345678999999999999999998766664421 1234
Q ss_pred ccceeee
Q 004486 324 FGVGFKT 330 (749)
Q Consensus 324 fGvGfKs 330 (749)
.|+|++.
T Consensus 503 ~GlGL~i 509 (545)
T PRK15053 503 HGIGLYL 509 (545)
T ss_pred ceeCHHH
Confidence 5888853
No 52
>PLN03128 DNA topoisomerase 2; Provisional
Probab=96.15 E-value=0.013 Score=73.46 Aligned_cols=122 Identities=18% Similarity=0.246 Sum_probs=75.9
Q ss_pred HHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--h----hhccc---CCCC-
Q 004486 250 IFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQPD- 314 (749)
Q Consensus 250 pf~AIaELIdNS~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--~----l~fG~---S~k~- 314 (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 4467899999999953 3788888863 246999999999998753221 0 11221 2221
Q ss_pred -CCCCcccccccceeeeecccccCeEEEEEe--eCCCCceeEEEEEecCCCeeEEEecc-cc--CCCCcEEEEEec
Q 004486 315 -ADDPNRIGRFGVGFKTGAMRLGKDALVLTQ--TADSRSIAFLSQSLNQGKDNLEIPIV-SY--YRKGQFMELDTV 384 (749)
Q Consensus 315 -~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk--~~g~~svg~ls~sf~~g~~~i~VPi~-~~--~~~Gt~I~l~l~ 384 (749)
..-...-|..|+|.+.+ =.++..+.|.+. +.+. .+.++|..|......|.. .. ..+||+|+..+.
T Consensus 125 d~~ykvSGGlhGvGasvv-NaLS~~f~Vev~d~r~gk----~y~q~f~~G~~~~~~p~i~~~~~~~~GT~ItF~PD 195 (1135)
T PLN03128 125 DNEKKTTGGRNGYGAKLA-NIFSTEFTVETADGNRGK----KYKQVFTNNMSVKSEPKITSCKASENWTKITFKPD 195 (1135)
T ss_pred CccceeeccccCCCCeEE-EeecCeEEEEEEECCCCe----EEEEEeCCCcccCCCceeccCCCCCCceEEEEEEC
Confidence 11245789999999544 448999999998 4442 455677554222122221 22 247898877653
No 53
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.12 E-value=0.013 Score=64.93 Aligned_cols=88 Identities=20% Similarity=0.228 Sum_probs=58.1
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 249 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (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 3456789999999999999999987644332211 111234588
Q ss_pred eeeeec---ccccCeEEEEEe
Q 004486 327 GFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsAs---mrlg~~v~V~Sk 344 (749)
|++.+- ..+|..+.+.|.
T Consensus 440 GL~i~~~~~~~~~G~i~i~s~ 460 (475)
T PRK11100 440 GLAFVREVARLHGGEVTLRNR 460 (475)
T ss_pred hHHHHHHHHHHCCCEEEEEEc
Confidence 876432 124555555553
No 54
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=96.07 E-value=0.029 Score=71.53 Aligned_cols=122 Identities=18% Similarity=0.250 Sum_probs=76.9
Q ss_pred HHHHHHHHHhccccc--------CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHh--h----hhccc---CC
Q 004486 250 IFGAIAELVDNSRDA--------KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--M----TYFGH---KQ 312 (749)
Q Consensus 250 pf~AIaELIdNS~DA--------~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~--~----l~fG~---S~ 312 (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 456789999999995 24788888873 236899999999998753221 1 11322 22
Q ss_pred CC--CCCCcccccccceeeeecccccCeEEEEEeeC--CCCceeEEEEEecCCCeeEEEecc-cc-C-CCCcEEEEEec
Q 004486 313 PD--ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTA--DSRSIAFLSQSLNQGKDNLEIPIV-SY-Y-RKGQFMELDTV 384 (749)
Q Consensus 313 k~--~~d~~~IGqfGvGfKsAsmrlg~~v~V~Sk~~--g~~svg~ls~sf~~g~~~i~VPi~-~~-~-~~Gt~I~l~l~ 384 (749)
+- ......-|+.|+|.+.+ -.++..+.|.+... +. .+.++|..|-....-|.. .. . .+||.|+....
T Consensus 130 kfdd~~yKvSGGlhGVGasvv-NalS~~f~Vev~r~~~gk----~y~q~f~~Gm~~~~~p~i~~~~~~~~GT~VtF~PD 203 (1388)
T PTZ00108 130 NYDDTEKRVTGGRNGFGAKLT-NIFSTKFTVECVDSKSGK----KFKMTWTDNMSKKSEPRITSYDGKKDYTKVTFYPD 203 (1388)
T ss_pred cCCCCceeeecccccCCcccc-ccccceEEEEEEECCCCC----EEEEEecCCCcCCCCCccCCCCCCCCceEEEEEeC
Confidence 21 11245789999999544 44999999999987 43 355666544211112221 22 2 47898877553
No 55
>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=96.03 E-value=0.012 Score=69.98 Aligned_cols=82 Identities=20% Similarity=0.227 Sum_probs=55.3
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHh-HHhhhhcccCCCCCCCCcccccccc
Q 004486 250 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD-VVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee-L~~~l~fG~S~k~~~d~~~IGqfGv 326 (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 44689999999999964 467777663 23456899999999999998 5666654443331 34588
Q ss_pred eeeeec---ccccCeEEEEEe
Q 004486 327 GFKTGA---MRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsAs---mrlg~~v~V~Sk 344 (749)
|++.+- -..|-++.|.|.
T Consensus 647 GL~i~~~iv~~~gG~i~v~s~ 667 (679)
T TIGR02916 647 GVYECRQYVEEIGGRIEVEST 667 (679)
T ss_pred hHHHHHHHHHHcCCEEEEEec
Confidence 876432 135566666554
No 56
>PRK10815 sensor protein PhoQ; Provisional
Probab=95.88 E-value=0.018 Score=66.20 Aligned_cols=83 Identities=14% Similarity=0.157 Sum_probs=56.0
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 329 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfK 329 (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 45799999999999988778887763 234567999999999999999888753332221 1123688885
Q ss_pred eec---ccccCeEEEEE
Q 004486 330 TGA---MRLGKDALVLT 343 (749)
Q Consensus 330 sAs---mrlg~~v~V~S 343 (749)
.+- -..|-++.|.|
T Consensus 448 Ivk~iv~~~gG~i~v~s 464 (485)
T PRK10815 448 VAREITEQYEGKISAGD 464 (485)
T ss_pred HHHHHHHHcCCEEEEEE
Confidence 321 12344454444
No 57
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=95.87 E-value=0.019 Score=64.89 Aligned_cols=82 Identities=17% Similarity=0.150 Sum_probs=54.3
Q ss_pred HHHHHHHHHhcccccCCCc--cEEEEEecccccCCCCc-cEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 250 IFGAIAELVDNSRDAKATK--LEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~--V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (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 5678999999999986544 4554432 1223 78999999999999999888765443331 13477
Q ss_pred eeeee---cccccCeEEEEEe
Q 004486 327 GFKTG---AMRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsA---smrlg~~v~V~Sk 344 (749)
|+..+ .-.+|-++.+.|.
T Consensus 568 GL~~~~~~~~~~~G~i~~~s~ 588 (607)
T PRK11360 568 GLALSQRIINAHGGDIEVESE 588 (607)
T ss_pred hHHHHHHHHHHcCCEEEEEEc
Confidence 77532 1235566666654
No 58
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=95.72 E-value=0.014 Score=67.84 Aligned_cols=57 Identities=21% Similarity=0.316 Sum_probs=45.8
Q ss_pred CHHHHHHHHHhcccccCC----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccC
Q 004486 249 WIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHK 311 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S 311 (749)
-+...+-.||+||+||-+ ..|.|.... .++.-.|+|.|||.|+.++-+.++|. |-++
T Consensus 497 RLeQVLvNLl~NALDA~~~~~~~~i~i~~~~------~~~~v~l~VrDnGpGi~~e~~~~lFePF~Tt 558 (603)
T COG4191 497 RLEQVLVNLLQNALDAMAGQEDRRLSIRAQR------EGGQVVLTVRDNGPGIAPEALPHLFEPFFTT 558 (603)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCeeEEEEEe------cCCeEEEEEccCCCCCCHHHHHhhcCCcccc
Confidence 477899999999999954 566666653 45667899999999999999999987 4443
No 59
>PRK10337 sensor protein QseC; Provisional
Probab=95.51 E-value=0.029 Score=62.37 Aligned_cols=83 Identities=14% Similarity=0.154 Sum_probs=52.9
Q ss_pred HHHHHHHHHhcccccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceee
Q 004486 250 IFGAIAELVDNSRDAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFK 329 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfK 329 (749)
+..++.+||+||+.+....-.|.+... ...|.|.|||.||+++++.+.+.-.+..+. ...+.+|+|+.
T Consensus 353 l~~vl~Nli~NA~k~~~~~~~i~i~~~--------~~~i~i~D~G~Gi~~~~~~~if~~f~~~~~----~~~~g~GlGL~ 420 (449)
T PRK10337 353 LSLLVRNLLDNAIRYSPQGSVVDVTLN--------ARNFTVRDNGPGVTPEALARIGERFYRPPG----QEATGSGLGLS 420 (449)
T ss_pred HHHHHHHHHHHHHhhCCCCCeEEEEEE--------eeEEEEEECCCCCCHHHHHHhcccccCCCC----CCCCccchHHH
Confidence 456899999999998765433444321 237999999999999999988753222211 12244788875
Q ss_pred eec---ccccCeEEEEEe
Q 004486 330 TGA---MRLGKDALVLTQ 344 (749)
Q Consensus 330 sAs---mrlg~~v~V~Sk 344 (749)
-+- -..|-++.+.+.
T Consensus 421 iv~~i~~~~gg~l~~~s~ 438 (449)
T PRK10337 421 IVRRIAKLHGMNVSFGNA 438 (449)
T ss_pred HHHHHHHHcCCEEEEEec
Confidence 321 234555655553
No 60
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=95.45 E-value=0.036 Score=67.45 Aligned_cols=86 Identities=10% Similarity=0.183 Sum_probs=58.8
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
+..+|..||+||+++.. ..|.|.+.. ..+.-.|+|.|||.||+++++.+++.-.+..+. ..|-.|+|+
T Consensus 514 l~~il~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~-----~~~g~GLGL 582 (921)
T PRK15347 514 LRQILVNLLGNAVKFTETGGIRLRVKR------HEQQLCFTVEDTGCGIDIQQQQQIFTPFYQADT-----HSQGTGLGL 582 (921)
T ss_pred HHHHHHHHHHHHhhcCCCCCEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhcCcccCCC-----CCCCCchHH
Confidence 56789999999999853 467777653 234567999999999999999998753222221 124468887
Q ss_pred eeec---ccccCeEEEEEeeC
Q 004486 329 KTGA---MRLGKDALVLTQTA 346 (749)
Q Consensus 329 KsAs---mrlg~~v~V~Sk~~ 346 (749)
..+- -.+|.++.|.|...
T Consensus 583 ~i~~~~~~~~gG~i~i~s~~~ 603 (921)
T PRK15347 583 TIASSLAKMMGGELTLFSTPG 603 (921)
T ss_pred HHHHHHHHHcCCEEEEEecCC
Confidence 5332 13566777776543
No 61
>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=95.23 E-value=0.053 Score=51.04 Aligned_cols=81 Identities=20% Similarity=0.145 Sum_probs=47.7
Q ss_pred CHHHHHHHHHhcccccC-----CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccc
Q 004486 249 WIFGAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 323 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGq 323 (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 35688999999999753 2457776653 234567899999999973 3344332222221 1133
Q ss_pred ccceeeeecccccCeEEEEE
Q 004486 324 FGVGFKTGAMRLGKDALVLT 343 (749)
Q Consensus 324 fGvGfKsAsmrlg~~v~V~S 343 (749)
-|+|+... -++..++.+.+
T Consensus 106 ~GlGL~lv-~~~~~~l~~~~ 124 (137)
T TIGR01925 106 SGMGFTVM-ENFMDDVSVDS 124 (137)
T ss_pred CcccHHHH-HHhCCcEEEEE
Confidence 57777432 22444555544
No 62
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=95.23 E-value=0.045 Score=65.96 Aligned_cols=92 Identities=14% Similarity=0.238 Sum_probs=60.9
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
+..++..||+||+++.. ..|.|.+... .++.-.|.|.|||.||+.+++.++|...+..+........+--|+|+
T Consensus 399 l~qvl~NLl~NAik~~~~g~v~i~~~~~-----~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL 473 (779)
T PRK11091 399 LRQILWNLISNAVKFTQQGGVTVRVRYE-----EGDMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGL 473 (779)
T ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEEc-----cCCEEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHH
Confidence 45789999999999864 4577766531 13346789999999999999999886333332111222345567777
Q ss_pred eee---cccccCeEEEEEeeC
Q 004486 329 KTG---AMRLGKDALVLTQTA 346 (749)
Q Consensus 329 KsA---smrlg~~v~V~Sk~~ 346 (749)
..+ .-..|-++.|.|...
T Consensus 474 ~i~~~iv~~~gG~i~v~s~~g 494 (779)
T PRK11091 474 AVSKRLAQAMGGDITVTSEEG 494 (779)
T ss_pred HHHHHHHHHcCCEEEEEecCC
Confidence 422 124678888877644
No 63
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=95.21 E-value=0.048 Score=65.67 Aligned_cols=89 Identities=15% Similarity=0.162 Sum_probs=57.8
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (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 346665553 2345679999999999999999988644332211 11122347888
Q ss_pred eeeec---ccccCeEEEEEee
Q 004486 328 FKTGA---MRLGKDALVLTQT 345 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk~ 345 (749)
++.+- ...|-++.+.+..
T Consensus 671 L~Ivr~Iv~~~gG~I~v~s~~ 691 (703)
T TIGR03785 671 LYIVRLIADFHQGRIQAENRQ 691 (703)
T ss_pred HHHHHHHHHHcCCEEEEEECC
Confidence 86432 2345666665543
No 64
>PRK09835 sensor kinase CusS; Provisional
Probab=95.07 E-value=0.06 Score=60.17 Aligned_cols=89 Identities=11% Similarity=0.100 Sum_probs=56.5
Q ss_pred CHHHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccc
Q 004486 249 WIFGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGv 326 (749)
.+..++.+||+||+.+.. ..|.|.+.. ..+.-.|.|.|||.||+++++...+.-.+..... ....-+..|+
T Consensus 375 ~l~~vl~nll~Na~~~~~~~~~I~i~~~~------~~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~-~~~~~~g~Gl 447 (482)
T PRK09835 375 MLRRAISNLLSNALRYTPAGEAITVRCQE------VDHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPS-RQRKGEGSGI 447 (482)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEE------eCCEEEEEEEECCCCcCHHHHHHHhCCcccCCCC-CCCCCCCcch
Confidence 356899999999999854 346666653 2334679999999999999999887522221110 1112245788
Q ss_pred eeeee---cccccCeEEEEEe
Q 004486 327 GFKTG---AMRLGKDALVLTQ 344 (749)
Q Consensus 327 GfKsA---smrlg~~v~V~Sk 344 (749)
|+.-+ .-..|.++.+.|.
T Consensus 448 GL~i~~~i~~~~~g~i~~~s~ 468 (482)
T PRK09835 448 GLAIVKSIVVAHKGTVAVTSD 468 (482)
T ss_pred HHHHHHHHHHHCCCEEEEEEC
Confidence 88532 1234556666553
No 65
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=95.01 E-value=0.058 Score=57.79 Aligned_cols=88 Identities=15% Similarity=0.094 Sum_probs=51.7
Q ss_pred HHHHHHHHHhcccccC-CCccEEEEEecccc--cCCC----CccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccc
Q 004486 250 IFGAIAELVDNSRDAK-ATKLEISIESIYFK--KAGK----DIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 322 (749)
Q Consensus 250 pf~AIaELIdNS~DA~-At~V~I~I~~~~~~--~~~~----~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IG 322 (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 5688999999999985 33333433211100 0000 1236899999999999998888753333321 1
Q ss_pred cccceeeee---cccccCeEEEEEe
Q 004486 323 RFGVGFKTG---AMRLGKDALVLTQ 344 (749)
Q Consensus 323 qfGvGfKsA---smrlg~~v~V~Sk 344 (749)
--|+|+..+ .-..|-++.|.|.
T Consensus 311 g~GlGL~i~~~iv~~~gG~i~~~s~ 335 (348)
T PRK11073 311 GTGLGLSIARNLIDQHSGKIEFTSW 335 (348)
T ss_pred CccCCHHHHHHHHHHcCCeEEEEec
Confidence 247777432 2235666666654
No 66
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=94.97 E-value=0.048 Score=66.60 Aligned_cols=89 Identities=16% Similarity=0.179 Sum_probs=58.0
Q ss_pred HHHHHHHHHhcccccCC--CccEEEEEeccccc---------CCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCC
Q 004486 250 IFGAIAELVDNSRDAKA--TKLEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 318 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A--t~V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~ 318 (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 55789999999999843 56777665310000 0133457899999999999999998764333221
Q ss_pred cccccccceeeee---cccccCeEEEEEee
Q 004486 319 NRIGRFGVGFKTG---AMRLGKDALVLTQT 345 (749)
Q Consensus 319 ~~IGqfGvGfKsA---smrlg~~v~V~Sk~ 345 (749)
+..|+|+..+ .-..|-++.|.|..
T Consensus 637 ---~G~GLGL~i~~~iv~~~gG~i~v~s~~ 663 (828)
T PRK13837 637 ---GGTGLGLATVHGIVSAHAGYIDVQSTV 663 (828)
T ss_pred ---CCCcchHHHHHHHHHHCCCEEEEEecC
Confidence 4568887532 12457777777754
No 67
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=94.52 E-value=0.087 Score=64.40 Aligned_cols=86 Identities=14% Similarity=0.208 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
+..++..||+||+.+.. ..|.|.+.. ..+...|.|.|||.||+++++.+++...+... ...|..|+|+
T Consensus 562 l~qil~NLl~NAik~~~~g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-----~~~~g~GLGL 630 (914)
T PRK11466 562 IRQVITNLLSNALRFTDEGSIVLRSRT------DGEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS-----GKRGGTGLGL 630 (914)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHhchhhcCC-----CCCCCCcccH
Confidence 45788999999999853 456666653 23456799999999999999999875322211 1124568887
Q ss_pred eee---cccccCeEEEEEeeC
Q 004486 329 KTG---AMRLGKDALVLTQTA 346 (749)
Q Consensus 329 KsA---smrlg~~v~V~Sk~~ 346 (749)
..+ .-.+|-++.|.|...
T Consensus 631 ~i~~~l~~~~gG~i~v~s~~~ 651 (914)
T PRK11466 631 TISSRLAQAMGGELSATSTPE 651 (914)
T ss_pred HHHHHHHHHcCCEEEEEecCC
Confidence 532 124677888877654
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=94.40 E-value=0.092 Score=64.47 Aligned_cols=87 Identities=16% Similarity=0.265 Sum_probs=59.5
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCc-cEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcccccccc
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGV 326 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~-~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGqfGv 326 (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 45789999999999854 457777654 2233 6799999999999999999875 433221 122355688
Q ss_pred eeeee---cccccCeEEEEEeeC
Q 004486 327 GFKTG---AMRLGKDALVLTQTA 346 (749)
Q Consensus 327 GfKsA---smrlg~~v~V~Sk~~ 346 (749)
|+..+ .-.+|-++.|.|...
T Consensus 650 GL~i~~~l~~~~gG~i~~~s~~~ 672 (968)
T TIGR02956 650 GLAISQRLVEAMDGELGVESELG 672 (968)
T ss_pred HHHHHHHHHHHcCCEEEEEecCC
Confidence 88532 124577788877644
No 69
>PRK10490 sensor protein KdpD; Provisional
Probab=94.22 E-value=0.092 Score=65.05 Aligned_cols=87 Identities=13% Similarity=0.129 Sum_probs=56.4
Q ss_pred HHHHHHHHHhcccccCCC--ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKAT--KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At--~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvG 327 (749)
+..++..||+||+.+... .|.|.+.. ..+.-.|.|.|||.||+++++.+++.-.++.+. ....+-.|+|
T Consensus 779 L~qVL~NLL~NAik~s~~g~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~---~~~~~G~GLG 849 (895)
T PRK10490 779 FERVLINLLENAVKYAGAQAEIGIDAHV------EGERLQLDVWDNGPGIPPGQEQLIFDKFARGNK---ESAIPGVGLG 849 (895)
T ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEE------eCCEEEEEEEECCCCCCHHHHHHhcCCCccCCC---CCCCCCccHH
Confidence 567899999999998643 46665543 234567999999999999999988763332221 1122346788
Q ss_pred eeeec---ccccCeEEEEEee
Q 004486 328 FKTGA---MRLGKDALVLTQT 345 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk~ 345 (749)
+..+- -..|-++.+.|..
T Consensus 850 L~Ivk~ive~hGG~I~v~s~~ 870 (895)
T PRK10490 850 LAICRAIVEVHGGTIWAENRP 870 (895)
T ss_pred HHHHHHHHHHcCCEEEEEECC
Confidence 75321 1346666666643
No 70
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=93.85 E-value=0.13 Score=63.88 Aligned_cols=89 Identities=17% Similarity=0.222 Sum_probs=58.3
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGqfGvG 327 (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 45789999999999854 356666553 23456789999999999999999875 3221111 11122346888
Q ss_pred eeeec---ccccCeEEEEEeeC
Q 004486 328 FKTGA---MRLGKDALVLTQTA 346 (749)
Q Consensus 328 fKsAs---mrlg~~v~V~Sk~~ 346 (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 23677888877643
No 71
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=93.85 E-value=0.12 Score=47.86 Aligned_cols=78 Identities=15% Similarity=0.161 Sum_probs=50.3
Q ss_pred CHHHHHHHHHhcccccCCC-----ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccc
Q 004486 249 WIFGAIAELVDNSRDAKAT-----KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 323 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~At-----~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGq 323 (749)
....|+.|++.||+..+.. .|.|.+.. ..+.-.|.|.|+|.|+++..+.....-.. .....
T Consensus 31 ~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~------~~~~l~i~v~D~G~~~d~~~~~~~~~~~~--------~~~~~ 96 (125)
T PF13581_consen 31 DLELAVSEALTNAVEHGYPGDPDGPVDVRLEV------DPDRLRISVRDNGPGFDPEQLPQPDPWEP--------DSLRE 96 (125)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEE------cCCEEEEEEEECCCCCChhhccCcccccC--------CCCCC
Confidence 3568999999999998653 46666553 34567899999999999887544321110 11222
Q ss_pred ccceeeeecccccCeEEE
Q 004486 324 FGVGFKTGAMRLGKDALV 341 (749)
Q Consensus 324 fGvGfKsAsmrlg~~v~V 341 (749)
-|.|+... -++++++.+
T Consensus 97 ~G~Gl~li-~~l~D~~~~ 113 (125)
T PF13581_consen 97 GGRGLFLI-RSLMDEVDY 113 (125)
T ss_pred CCcCHHHH-HHHHcEEEE
Confidence 36666432 236788877
No 72
>PRK10547 chemotaxis protein CheA; Provisional
Probab=93.70 E-value=0.15 Score=61.35 Aligned_cols=98 Identities=19% Similarity=0.333 Sum_probs=59.3
Q ss_pred eecCHHHHHHhhccccCCHHHHHHHHHhcccccCC--------------CccEEEEEecccccCCCCccEEEEEeCCCCC
Q 004486 232 VRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHGM 297 (749)
Q Consensus 232 ~~v~p~~L~slst~h~~~pf~AIaELIdNS~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GM 297 (749)
..++...+..+ ...|..||.||+|++- ..|.|.... .++.-.|.|.|||.||
T Consensus 376 ~~lD~~~l~~l--------~dpL~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~------~~~~v~I~V~DdG~GI 441 (670)
T PRK10547 376 TELDKSLIERI--------IDPLTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEH------QGGNICIEVTDDGAGL 441 (670)
T ss_pred eecCHHHHHHH--------HHHHHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEE------cCCEEEEEEEeCCCCC
Confidence 34555555433 3457799999999862 246665543 2345678999999999
Q ss_pred CHHhHHh---------------------hhhcccCCCCCCCCcccccccceeee---ecccccCeEEEEEee
Q 004486 298 THQDVVR---------------------MTYFGHKQPDADDPNRIGRFGVGFKT---GAMRLGKDALVLTQT 345 (749)
Q Consensus 298 t~eeL~~---------------------~l~fG~S~k~~~d~~~IGqfGvGfKs---Asmrlg~~v~V~Sk~ 345 (749)
+++.+.+ .|.-|++.+.. ...+.-.|+|+.- ..-.++-.+.|.|..
T Consensus 442 d~e~i~~~a~~~Gl~~~~~ls~~e~~~lIF~pgfst~~~--~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~~ 511 (670)
T PRK10547 442 NRERILAKAASQGLAVSENMSDEEVGMLIFAPGFSTAEQ--VTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQ 511 (670)
T ss_pred CHHHHHHHHHHcCCCccccCCHHHHHHHhhcCCcccccc--cccCCCCchhHHHHHHHHHHcCCEEEEEecC
Confidence 9987653 22334444321 1223445888742 223467777777754
No 73
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=93.57 E-value=0.17 Score=61.60 Aligned_cols=95 Identities=20% Similarity=0.259 Sum_probs=58.8
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcccccccce
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGqfGvG 327 (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 LQQIITNLVGNAIKFTESGNIDILVELRALS-NTKVQLEVQIRDTGIGISERQQSQLFQAFRQADAS--ISRRHGGTGLG 485 (919)
T ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEEEecC-CCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCC--CCCCCCCcchh
Confidence 45789999999999854 3455555421100 011124689999999999999998875 4322111 11234567888
Q ss_pred eeee---cccccCeEEEEEeeCC
Q 004486 328 FKTG---AMRLGKDALVLTQTAD 347 (749)
Q Consensus 328 fKsA---smrlg~~v~V~Sk~~g 347 (749)
+.-+ .-.+|-++.|.|...+
T Consensus 486 L~i~~~i~~~~gG~i~v~s~~~~ 508 (919)
T PRK11107 486 LVITQKLVNEMGGDISFHSQPNR 508 (919)
T ss_pred HHHHHHHHHHhCCEEEEEecCCC
Confidence 7532 1236778888876543
No 74
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=93.38 E-value=0.17 Score=56.41 Aligned_cols=74 Identities=23% Similarity=0.456 Sum_probs=54.4
Q ss_pred HHHHHHHHHhcccccC----------CCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCC--C
Q 004486 250 IFGAIAELVDNSRDAK----------ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDAD--D 317 (749)
Q Consensus 250 pf~AIaELIdNS~DA~----------At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~--d 317 (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 4568899999999992 2447777753 45678899999999999999999999998865321 1
Q ss_pred ---Ccccccccceee
Q 004486 318 ---PNRIGRFGVGFK 329 (749)
Q Consensus 318 ---~~~IGqfGvGfK 329 (749)
....--||-|+-
T Consensus 335 ~~~~~plaGfG~GLP 349 (414)
T KOG0787|consen 335 NNRTAPLAGFGFGLP 349 (414)
T ss_pred CCCcCcccccccCCc
Confidence 234445666653
No 75
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=93.38 E-value=0.14 Score=50.40 Aligned_cols=52 Identities=15% Similarity=0.127 Sum_probs=39.5
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh
Q 004486 250 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 307 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~ 307 (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 45799999999998863 246666553 34567899999999999888766554
No 76
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=93.34 E-value=0.14 Score=59.21 Aligned_cols=75 Identities=19% Similarity=0.408 Sum_probs=54.2
Q ss_pred HHHHHHHHHhcccc-cCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRD-AKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~D-A~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
....++|-+.||+. |.|++|+|.+.. ..+...+.|+|||+|++.. ....|.||+-.
T Consensus 482 lLqIvREAlsNa~KHa~As~i~V~~~~------~~g~~~~~VeDnG~Gi~~~-----------------~e~~gHyGL~I 538 (574)
T COG3850 482 LLQIVREALSNAIKHAQASEIKVTVSQ------NDGQVTLTVEDNGVGIDEA-----------------AEPSGHYGLNI 538 (574)
T ss_pred HHHHHHHHHHHHHHhcccCeEEEEEEe------cCCeEEEEEeeCCcCCCCc-----------------cCCCCCcchHH
Confidence 55789999999997 589999999874 3478899999999998764 24567887764
Q ss_pred ee-ecccccCeEEEEEeeCC
Q 004486 329 KT-GAMRLGKDALVLTQTAD 347 (749)
Q Consensus 329 Ks-Asmrlg~~v~V~Sk~~g 347 (749)
-. =+-+++..+.|..+..+
T Consensus 539 M~ERA~~L~~~L~i~~~~~g 558 (574)
T COG3850 539 MRERAQRLGGQLRIRRREGG 558 (574)
T ss_pred HHHHHHHhcCeEEEeecCCC
Confidence 11 01246666666665444
No 77
>PRK03660 anti-sigma F factor; Provisional
Probab=93.28 E-value=0.26 Score=46.77 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=32.7
Q ss_pred CHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCH
Q 004486 249 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTH 299 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ 299 (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 356889999999997542 346666543 234567899999999975
No 78
>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=93.10 E-value=0.14 Score=50.37 Aligned_cols=85 Identities=18% Similarity=0.080 Sum_probs=53.3
Q ss_pred CHHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccc
Q 004486 249 WIFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGR 323 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGq 323 (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 456899999999998752 356776653 345678899999999998877654332111111 0111223
Q ss_pred ccceeeeecccccCeEEEEE
Q 004486 324 FGVGFKTGAMRLGKDALVLT 343 (749)
Q Consensus 324 fGvGfKsAsmrlg~~v~V~S 343 (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 77875432 4677777654
No 79
>PRK13557 histidine kinase; Provisional
Probab=92.70 E-value=0.32 Score=54.88 Aligned_cols=92 Identities=16% Similarity=0.191 Sum_probs=55.8
Q ss_pred HHHHHHHHHhcccccCCCc--cEEEEEeccccc---------CCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCC
Q 004486 250 IFGAIAELVDNSRDAKATK--LEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 318 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At~--V~I~I~~~~~~~---------~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~ 318 (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 4578999999999985433 444332110000 0122346899999999999999988764443332
Q ss_pred cccccccceeeee---cccccCeEEEEEeeC
Q 004486 319 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 346 (749)
Q Consensus 319 ~~IGqfGvGfKsA---smrlg~~v~V~Sk~~ 346 (749)
..+-.|+|+..+ .-.+|-.+.|.|...
T Consensus 354 -~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~ 383 (540)
T PRK13557 354 -EGKGTGLGLSMVYGFAKQSGGAVRIYSEVG 383 (540)
T ss_pred -CCCCCCccHHHHHHHHHHCCCEEEEEecCC
Confidence 123457777432 224677777777543
No 80
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=92.46 E-value=0.35 Score=60.13 Aligned_cols=93 Identities=14% Similarity=0.184 Sum_probs=58.3
Q ss_pred HHHHHHHHHhcccccCC-CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKA-TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
+..++..||+||+.+.+ ..|.|.+.... ...+.-.|.|.|+|.||+++++.+++.--.+.+.. ...-+-.|+|+
T Consensus 566 L~QVL~NLL~NAik~t~~G~I~I~v~~~~---~~~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~--~~~~~GtGLGL 640 (894)
T PRK10618 566 LRKILLLLLNYAITTTAYGKITLEVDQDE---SSPDRLTIRILDTGAGVSIKELDNLHFPFLNQTQG--DRYGKASGLTF 640 (894)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEEEEcc---CCCcEEEEEEEECCCCCCHHHHHHhcCccccCCCC--CCCCCCcChhH
Confidence 45789999999999854 35666665310 01234578999999999999999987522222211 11112357776
Q ss_pred eee---cccccCeEEEEEeeCC
Q 004486 329 KTG---AMRLGKDALVLTQTAD 347 (749)
Q Consensus 329 KsA---smrlg~~v~V~Sk~~g 347 (749)
..+ .-.+|-++.|.|...+
T Consensus 641 aI~k~Lve~~GG~I~v~S~~g~ 662 (894)
T PRK10618 641 FLCNQLCRKLGGHLTIKSREGL 662 (894)
T ss_pred HHHHHHHHHcCCEEEEEECCCC
Confidence 422 1246888888886543
No 81
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=91.78 E-value=0.41 Score=60.56 Aligned_cols=93 Identities=11% Similarity=0.165 Sum_probs=56.6
Q ss_pred HHHHHHHHHhcccccCCC-ccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccccccccee
Q 004486 250 IFGAIAELVDNSRDAKAT-KLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGF 328 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At-~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGf 328 (749)
+..+|..||+||+++... .+.|.+.... .......-.|.|.|||.||+++++.+++...+..+. ....+..|+|+
T Consensus 829 l~qvl~NLl~NAik~~~~g~i~i~~~~~~-~~~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~---~~~~~G~GLGL 904 (1197)
T PRK09959 829 FKQVLSNLLSNALKFTTEGAVKITTSLGH-IDDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSA---GRQQTGSGLGL 904 (1197)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEee-ecCCceEEEEEEEEcCCCCCHHHHHHhhcccccccc---CCCCCCcCchH
Confidence 557899999999998643 4555443210 000111245799999999999999998763332221 11223468887
Q ss_pred eeec---ccccCeEEEEEeeC
Q 004486 329 KTGA---MRLGKDALVLTQTA 346 (749)
Q Consensus 329 KsAs---mrlg~~v~V~Sk~~ 346 (749)
..+- -..|-++.|.|...
T Consensus 905 ~i~~~iv~~~gG~i~v~s~~~ 925 (1197)
T PRK09959 905 MICKELIKNMQGDLSLESHPG 925 (1197)
T ss_pred HHHHHHHHHcCCEEEEEeCCC
Confidence 5331 23577777777543
No 82
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=91.68 E-value=0.18 Score=55.55 Aligned_cols=48 Identities=25% Similarity=0.434 Sum_probs=40.3
Q ss_pred CCHHHHHHHHHhccccc-CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHh
Q 004486 248 GWIFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD 301 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee 301 (749)
..++-++.|.|.|++.. +|+++.|.+.. .++.-.|.|.|||.|.+.+.
T Consensus 278 ~~l~rivQEaltN~~rHa~A~~v~V~l~~------~~~~l~l~V~DnG~Gf~~~~ 326 (365)
T COG4585 278 DALFRIVQEALTNAIRHAQATEVRVTLER------TDDELRLEVIDNGVGFDPDK 326 (365)
T ss_pred HHHHHHHHHHHHHHHhccCCceEEEEEEE------cCCEEEEEEEECCcCCCccc
Confidence 35789999999999985 78999999985 34568999999999987755
No 83
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=90.71 E-value=0.26 Score=57.03 Aligned_cols=45 Identities=24% Similarity=0.291 Sum_probs=34.8
Q ss_pred HHHHHHHHHhcccccC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 250 IFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 250 pf~AIaELIdNS~DA~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (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 3345679999999999865
No 84
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=90.09 E-value=0.29 Score=57.04 Aligned_cols=47 Identities=17% Similarity=0.356 Sum_probs=36.5
Q ss_pred CHHHHHHHHHhccccc-CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHh
Q 004486 249 WIFGAIAELVDNSRDA-KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD 301 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA-~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~ee 301 (749)
++...+.|+|+||+.+ .++.|.|.+.. .++.-.|.|.|||.||+++.
T Consensus 469 ~l~~il~ell~NA~kha~a~~i~V~~~~------~~~~~~l~V~D~G~Gi~~~~ 516 (569)
T PRK10600 469 HLLQIAREALSNALKHAQASEVVVTVAQ------NQNQVKLSVQDNGCGVPENA 516 (569)
T ss_pred HHHHHHHHHHHHHHHhCCCCeEEEEEEE------cCCEEEEEEEECCCCCCccc
Confidence 4668899999999986 45677777753 33456799999999998753
No 85
>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=89.55 E-value=0.2 Score=46.30 Aligned_cols=45 Identities=16% Similarity=0.538 Sum_probs=35.5
Q ss_pred Ccccccc-CC--CCCchhhhHHHHHHHhhcCCeEEEEEece------eEEEEeC
Q 004486 65 SHCFLSP-AP--ECSRDHNEWRRFLIYLQGRDMVAIAKFKF------WEFYILP 109 (749)
Q Consensus 65 ~~~~~~p-~~--~~~~~~~ew~~f~~~l~~~~~~~~~~~~~------~~~~~~~ 109 (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 86
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=89.46 E-value=0.67 Score=56.32 Aligned_cols=57 Identities=18% Similarity=0.316 Sum_probs=43.2
Q ss_pred HHHHHHHHhcccccCCCc--cEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCC
Q 004486 251 FGAIAELVDNSRDAKATK--LEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQP 313 (749)
Q Consensus 251 f~AIaELIdNS~DA~At~--V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k 313 (749)
..+|-.|||||.....+. |.|.... ..+.-.+.|.|+|.|++.+++.+.|. |-...+
T Consensus 777 eQVLiNLleNA~Kyap~~s~I~I~~~~------~~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~ 836 (890)
T COG2205 777 EQVLINLLENALKYAPPGSEIRINAGV------ERENVVFSVIDEGPGIPEGELERIFDKFYRGNK 836 (890)
T ss_pred HHHHHHHHHHHHhhCCCCCeEEEEEEE------ecceEEEEEEeCCCCCChhHHHHhhhhhhcCCC
Confidence 478999999999986544 5554442 34567899999999999999999985 544333
No 87
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=89.30 E-value=0.41 Score=49.94 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=34.2
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCC-ccEEEEEeCCCCCCHH
Q 004486 250 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKD-IPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~-~~~L~I~DNG~GMt~e 300 (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 44789999999999865 4677777642 122 3689999999998654
No 88
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=88.37 E-value=0.98 Score=54.90 Aligned_cols=100 Identities=23% Similarity=0.337 Sum_probs=65.7
Q ss_pred eeecCHHHHHHhhccccCCHHHHHHHHHhcccccCC--------------CccEEEEEecccccCCCCccEEEEEeCCCC
Q 004486 231 FVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA--------------TKLEISIESIYFKKAGKDIPMLSIIDDGHG 296 (749)
Q Consensus 231 ~~~v~p~~L~slst~h~~~pf~AIaELIdNS~DA~A--------------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~G 296 (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 3567888887664 346789999999972 345555442 455677899999999
Q ss_pred CCHHhHHh-hhh-----------------------cccCCCCCCCCccccccccee---eeecccccCeEEEEEeeC
Q 004486 297 MTHQDVVR-MTY-----------------------FGHKQPDADDPNRIGRFGVGF---KTGAMRLGKDALVLTQTA 346 (749)
Q Consensus 297 Mt~eeL~~-~l~-----------------------fG~S~k~~~d~~~IGqfGvGf---KsAsmrlg~~v~V~Sk~~ 346 (749)
|+++.+.+ ++. -|+|.+. ....+.--|+|+ |+..-++|-.+.|.|+..
T Consensus 488 id~ekI~~KAiErGli~~~~a~~lSd~Ei~~LIF~PGFSTa~--~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G 562 (716)
T COG0643 488 IDREKIREKAIERGLITEEEAETLSDEEILNLIFAPGFSTAE--QVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPG 562 (716)
T ss_pred CCHHHHHHHHHHcCCCChHHhccCCHHHHHHHHhcCCCCcch--hhhcccCCccCHHHHHHHHHHcCCEEEEEecCC
Confidence 99998764 332 2445442 123334448887 455556778888877654
No 89
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=87.90 E-value=1.1 Score=44.00 Aligned_cols=84 Identities=19% Similarity=0.195 Sum_probs=51.3
Q ss_pred CCHHHHHHHHHhcccccCC------CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCccc
Q 004486 248 GWIFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRI 321 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA~A------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~I 321 (749)
...-.|+.|++.|++.++- ..|.|.+.. ..+...++|+|.|.|+ +++...+.-+.... .....
T Consensus 39 ~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~------~~~~~~i~i~D~G~~~--~~~~~~~~~~~~~~---~~~~~ 107 (146)
T COG2172 39 ADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSL------DDGKLEIRIWDQGPGI--EDLEESLGPGDTTA---EGLQE 107 (146)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEE------cCCeEEEEEEeCCCCC--CCHHHhcCCCCCCC---ccccc
Confidence 3567999999999998742 345555443 3456889999999555 44555554442222 12233
Q ss_pred ccccceeeeecccccCeEEEEEee
Q 004486 322 GRFGVGFKTGAMRLGKDALVLTQT 345 (749)
Q Consensus 322 GqfGvGfKsAsmrlg~~v~V~Sk~ 345 (749)
| |.|| ....++.+++.+....
T Consensus 108 ~--G~Gl-~l~~~~~D~~~~~~~~ 128 (146)
T COG2172 108 G--GLGL-FLAKRLMDEFSYERSE 128 (146)
T ss_pred c--cccH-HHHhhhheeEEEEecc
Confidence 3 6676 3334566777776433
No 90
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=87.66 E-value=0.62 Score=51.89 Aligned_cols=71 Identities=17% Similarity=0.368 Sum_probs=50.0
Q ss_pred HHHHHHHHhcccccCC--CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh-cccCCCCCCCCcccccccce
Q 004486 251 FGAIAELVDNSRDAKA--TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNRIGRFGVG 327 (749)
Q Consensus 251 f~AIaELIdNS~DA~A--t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~k~~~d~~~IGqfGvG 327 (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 4677889999998753 567776653 23346789999999999999999885 4333321 23456766777
Q ss_pred ee
Q 004486 328 FK 329 (749)
Q Consensus 328 fK 329 (749)
+.
T Consensus 416 La 417 (459)
T COG5002 416 LA 417 (459)
T ss_pred HH
Confidence 74
No 91
>PRK13560 hypothetical protein; Provisional
Probab=87.45 E-value=0.61 Score=55.48 Aligned_cols=44 Identities=27% Similarity=0.437 Sum_probs=31.6
Q ss_pred HHHHHHHhcccccC-----CCccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 252 GAIAELVDNSRDAK-----ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 252 ~AIaELIdNS~DA~-----At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (749)
..|.+|+.||+.+. +..|.|.+... .++.-.|.|.|||+||+++
T Consensus 714 ~il~NLl~NAik~~~~~~~~~~i~i~~~~~-----~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 714 LIISELLSNALKHAFPDGAAGNIKVEIREQ-----GDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred HHHHHHHHHHHHhhccCCCCceEEEEEEEc-----CCCEEEEEEEeCCCcCCcc
Confidence 47889999999973 23556555431 2345678999999999986
No 92
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=86.69 E-value=1.1 Score=51.40 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=39.3
Q ss_pred CHHHHHHHHHhcccccCC----CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhh
Q 004486 249 WIFGAIAELVDNSRDAKA----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 306 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l 306 (749)
.|.-.|-=||+||+-||- ....|.+.... ..+.-.+.|.|||.||+++......
T Consensus 350 ~p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~----~~~~i~i~i~Dng~g~~~~~~~~~~ 407 (456)
T COG2972 350 DPKLVLQPLVENAIEHGIEPKRPGGSIAISAKK----QDDVIQISISDNGPGIDEEKLEGLS 407 (456)
T ss_pred CchHHHhHHHHHHHHHhcccCCCCCEEEEEEEE----cCCEEEEEEeeCCCCCChhHHHHHH
Confidence 577889999999999973 33444444211 2456778999999999998877654
No 93
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=86.12 E-value=0.89 Score=53.77 Aligned_cols=51 Identities=18% Similarity=0.347 Sum_probs=38.4
Q ss_pred HHHHHHHHhcccccCC---------CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhh
Q 004486 251 FGAIAELVDNSRDAKA---------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 307 (749)
Q Consensus 251 f~AIaELIdNS~DA~A---------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~ 307 (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 3688889999998842 124444442 45678899999999999999999875
No 94
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=85.97 E-value=1.3 Score=50.90 Aligned_cols=60 Identities=20% Similarity=0.249 Sum_probs=45.7
Q ss_pred CHHHHHHHHHhcccccCC---CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCC
Q 004486 249 WIFGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQP 313 (749)
Q Consensus 249 ~pf~AIaELIdNS~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k 313 (749)
.+...+..|+-||+||.. ..|+|.... ...+..+|.|.|||.|-+.+-+.+.+..-+++|
T Consensus 564 ~ieQVlvNl~~NaldA~~h~~p~i~~~~~~-----~~~e~l~i~i~DnGqGwp~~l~dkLl~PFttsK 626 (673)
T COG4192 564 SIEQVLVNLIVNALDASTHFAPWIKLIALG-----TEQEMLRIAIIDNGQGWPHELVDKLLTPFTTSK 626 (673)
T ss_pred hHHHHHHHHHHHHHhhhccCCceEEEEeec-----CcccceEEEEecCCCCCchhHHHHhcCCccccc
Confidence 467889999999999964 556665542 145678899999999999998888887444444
No 95
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PRK13559 hypothetical protein; Provisional
Probab=78.92 E-value=2.1 Score=46.37 Aligned_cols=47 Identities=15% Similarity=0.053 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcccccCC-----CccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 250 IFGAIAELVDNSRDAKA-----TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A-----t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (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 45789999999999853 3566665211 13445688999999997654
No 97
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=78.47 E-value=2.5 Score=48.67 Aligned_cols=46 Identities=24% Similarity=0.265 Sum_probs=33.3
Q ss_pred HHHHHHHHHhcccccC-CCccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 250 IFGAIAELVDNSRDAK-ATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 250 pf~AIaELIdNS~DA~-At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (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 4568999999999864 34566666531 1345678999999999864
No 98
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=75.81 E-value=3.9 Score=48.79 Aligned_cols=70 Identities=21% Similarity=0.257 Sum_probs=49.3
Q ss_pred ceeeecCHHHHHHhhccccCCHHHHHHHHHhcccccCC---CccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhh
Q 004486 229 KNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKA---TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRM 305 (749)
Q Consensus 229 ~~~~~v~p~~L~slst~h~~~pf~AIaELIdNS~DA~A---t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~ 305 (749)
...+++.| |..+...-+ -.-..+..||.||+..+. +.|+|..+. ....-++.|.|||.|++++-+.+.
T Consensus 619 gaei~i~~--lp~v~~d~~-~l~qv~~NLi~Naik~~~~e~~~i~I~~~r------~ed~~t~sV~dng~Gi~~a~~~ri 689 (750)
T COG4251 619 GAEIRIAP--LPVVAADAT-QLGQVFQNLIANAIKFGGPENPDIEISAER------QEDEWTFSVRDNGIGIDPAYFERI 689 (750)
T ss_pred cceEEecc--cceeecCHH-HHHHHHHHHHhhheecCCCCCCceEEeeec------cCCceEEEecCCCCCcCHHHHHHH
Confidence 34455555 444433221 244677899999998764 567777664 345678999999999999999998
Q ss_pred hh
Q 004486 306 TY 307 (749)
Q Consensus 306 l~ 307 (749)
|.
T Consensus 690 F~ 691 (750)
T COG4251 690 FV 691 (750)
T ss_pred HH
Confidence 75
No 99
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=70.87 E-value=5.8 Score=44.18 Aligned_cols=72 Identities=24% Similarity=0.429 Sum_probs=46.6
Q ss_pred HHHHHhccc-ccCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHHhhhhcccCCCCCCCCcccccccceeeee-
Q 004486 254 IAELVDNSR-DAKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTG- 331 (749)
Q Consensus 254 IaELIdNS~-DA~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~k~~~d~~~IGqfGvGfKsA- 331 (749)
+-|-+.|-= -|+|++|.|.+.. ..+.-.+.|.|||.|++..+...- ..|+|+.--
T Consensus 364 ~QEaltNIErHa~Atrv~ill~~------~~d~vql~vrDnG~GF~~~~~~~~-----------------~~GiGLRNMr 420 (459)
T COG4564 364 VQEALTNIERHAGATRVTILLQQ------MGDMVQLMVRDNGVGFSVKEALQK-----------------RHGIGLRNMR 420 (459)
T ss_pred HHHHHHHHHhhcCCeEEEEEecc------CCcceEEEEecCCCCccchhhccC-----------------ccccccccHH
Confidence 334444432 3589999998873 566788999999999988775432 147887521
Q ss_pred -cc-cccCeEEEEEeeCCC
Q 004486 332 -AM-RLGKDALVLTQTADS 348 (749)
Q Consensus 332 -sm-rlg~~v~V~Sk~~g~ 348 (749)
-| .+|-.+.|.|-..|+
T Consensus 421 ERma~~GG~~~v~s~p~GT 439 (459)
T COG4564 421 ERMAHFGGELEVESSPQGT 439 (459)
T ss_pred HHHHHhCceEEEEecCCCc
Confidence 11 257777777755543
No 100
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=64.30 E-value=11 Score=41.78 Aligned_cols=58 Identities=21% Similarity=0.181 Sum_probs=36.3
Q ss_pred HHHHHHHHHhcccccCCC----ccEEEEEeccc------ccCCCCccEEEEEeCCCCCCHHhHHhhhh
Q 004486 250 IFGAIAELVDNSRDAKAT----KLEISIESIYF------KKAGKDIPMLSIIDDGHGMTHQDVVRMTY 307 (749)
Q Consensus 250 pf~AIaELIdNS~DA~At----~V~I~I~~~~~------~~~~~~~~~L~I~DNG~GMt~eeL~~~l~ 307 (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 568999999999999762 11222221000 00011124578999999999887777765
No 101
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=59.78 E-value=11 Score=42.67 Aligned_cols=46 Identities=28% Similarity=0.395 Sum_probs=36.9
Q ss_pred CHHHHHHHHHhcccc-cCCCccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 249 WIFGAIAELVDNSRD-AKATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 249 ~pf~AIaELIdNS~D-A~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (749)
.++-..-|++.|=.. |.|+.|+|.+-. +++.-.+.|+|||.|++..
T Consensus 410 TLyRl~QE~LNNI~KHA~AS~V~i~l~~------~~e~l~Lei~DdG~Gl~~~ 456 (497)
T COG3851 410 TLYRLCQELLNNICKHADASAVTIQLWQ------QDERLMLEIEDDGSGLPPG 456 (497)
T ss_pred eHHHHHHHHHHHHHhccccceEEEEEee------CCcEEEEEEecCCcCCCCC
Confidence 477888999999775 689999998863 3445789999999998653
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=58.74 E-value=2.1 Score=33.88 Aligned_cols=34 Identities=24% Similarity=0.735 Sum_probs=22.9
Q ss_pred CCCCceeeCccchhhccCCC-CCC---CCCCCCCceec
Q 004486 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 221 12233489985
No 103
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=44.63 E-value=19 Score=42.07 Aligned_cols=45 Identities=18% Similarity=0.168 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcccccCC------CccEEEEEecccccCCCCccEEEEEeCCCCCCHH
Q 004486 250 IFGAIAELVDNSRDAKA------TKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 300 (749)
Q Consensus 250 pf~AIaELIdNS~DA~A------t~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~e 300 (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 44567789999998863 457777764 3345789999999999986
No 104
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=43.41 E-value=13 Score=43.37 Aligned_cols=69 Identities=20% Similarity=0.305 Sum_probs=48.2
Q ss_pred CCHHHHHHHHHhccccc-----CCCccEEEEEecccccCCCCccEEEEEeCCC---CCCHHhHHhhhhcccCCCC-----
Q 004486 248 GWIFGAIAELVDNSRDA-----KATKLEISIESIYFKKAGKDIPMLSIIDDGH---GMTHQDVVRMTYFGHKQPD----- 314 (749)
Q Consensus 248 ~~pf~AIaELIdNS~DA-----~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~---GMt~eeL~~~l~fG~S~k~----- 314 (749)
..|..|++|+|-||+=. ....|+|.+. ...|.|.-.|. ||+++++.+. .|..+
T Consensus 269 dyP~~alREai~NAv~HRDYs~~~~~v~I~iy----------dDRieI~NPGgl~~gi~~~~l~~~----~s~~RNp~LA 334 (467)
T COG2865 269 DYPLEALREAIINAVIHRDYSIRGRNVHIEIY----------DDRIEITNPGGLPPGITPEDLLKG----RSKSRNPVLA 334 (467)
T ss_pred cCCHHHHHHHHHHHHHhhccccCCCceEEEEE----------CCeEEEECCCCCCCCCChhHcccC----CCcccCHHHH
Confidence 45889999999999954 2347888775 36899998776 8888776653 22111
Q ss_pred --CCCCcccccccceeee
Q 004486 315 --ADDPNRIGRFGVGFKT 330 (749)
Q Consensus 315 --~~d~~~IGqfGvGfKs 330 (749)
..+...|-++|.|+..
T Consensus 335 ~~l~~~~liE~~GSGi~r 352 (467)
T COG2865 335 KVLRDMGLIEERGSGIRR 352 (467)
T ss_pred HHHHHhhhHHHhCccHHH
Confidence 0135677899999863
No 105
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=43.00 E-value=45 Score=41.23 Aligned_cols=46 Identities=20% Similarity=0.427 Sum_probs=34.5
Q ss_pred HHHHHHHHHhcccc-c---CCCccEEEEEecccccCCCCccEEEEEeCCCCCCHHhHH
Q 004486 250 IFGAIAELVDNSRD-A---KATKLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV 303 (749)
Q Consensus 250 pf~AIaELIdNS~D-A---~At~V~I~I~~~~~~~~~~~~~~L~I~DNG~GMt~eeL~ 303 (749)
++..+-|.+.||.| . +-..+.+.|+ .+...+.|.+||.|++-+...
T Consensus 54 l~ki~dEilvNaadk~rd~~m~~i~v~i~--------~e~~~isv~nnGkGIPv~~H~ 103 (842)
T KOG0355|consen 54 LYKIFDEILVNAADKQRDPKMNTIKVTID--------KEKNEISVYNNGKGIPVTIHK 103 (842)
T ss_pred HHHHHHHHhhcccccccCCCcceeEEEEc--------cCCCEEEEEeCCCcceeeecc
Confidence 56778999999999 1 2245666665 356899999999999876643
No 106
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=39.01 E-value=12 Score=35.45 Aligned_cols=17 Identities=12% Similarity=0.378 Sum_probs=13.9
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (749)
+...+|++||||..+++
T Consensus 91 ~s~~~WdRFMRFMeRYA 107 (113)
T PRK13610 91 NSEEAFERFMRFASRYA 107 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998775
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=37.13 E-value=15 Score=34.66 Aligned_cols=17 Identities=24% Similarity=0.821 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (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=35.94 E-value=14 Score=34.94 Aligned_cols=16 Identities=25% Similarity=0.789 Sum_probs=13.1
Q ss_pred hhhhHHHHHHHhhcCC
Q 004486 78 DHNEWRRFLIYLQGRD 93 (749)
Q Consensus 78 ~~~ew~~f~~~l~~~~ 93 (749)
...+|++||||+.+++
T Consensus 85 s~~~WdRFMRFMeRYA 100 (108)
T PF03912_consen 85 SEEEWDRFMRFMERYA 100 (108)
T ss_dssp SSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHH
Confidence 3469999999998765
No 109
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=34.97 E-value=18 Score=34.35 Aligned_cols=17 Identities=29% Similarity=0.794 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (749)
+...+|++||||..+++
T Consensus 85 ~s~~~WdRFMRFMeRYA 101 (111)
T PLN00039 85 RSPREWDRFMRFMERYA 101 (111)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 110
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=33.95 E-value=19 Score=34.27 Aligned_cols=17 Identities=24% Similarity=0.792 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (749)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T PRK13612 87 KSEQEWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 111
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=33.30 E-value=20 Score=33.66 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=14.1
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (749)
+...+|++||||..+++
T Consensus 80 ~s~~~wdRFMRFmeRYA 96 (104)
T PRK13611 80 ETEAEWDRFLRFMERFS 96 (104)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 35679999999998875
No 112
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=32.75 E-value=20 Score=34.07 Aligned_cols=17 Identities=18% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004486 77 RDHNEWRRFLIYLQGRD 93 (749)
Q Consensus 77 ~~~~ew~~f~~~l~~~~ 93 (749)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T CHL00128 87 KNPEAWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 113
>cd00594 KU Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen recognized by the sera of patients with an autoimmunity disease. In eukaryotes, the Ku heterodimer contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by non-homologous end-joining. The bacterial Ku homologs does not contain the conserved N-terminal extension that is present in the eukaryotic Ku protein.
Probab=24.97 E-value=77 Score=33.58 Aligned_cols=67 Identities=22% Similarity=0.335 Sum_probs=50.5
Q ss_pred CCccccccccccccee---eccCCCccccccCCCCCchhhhHHHHHHHhhcCCeEEEEEeceeE-----EEEeCCC
Q 004486 44 LPHHWNVNDIVPTSKI---ILDGMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAIAKFKFWE-----FYILPPD 111 (749)
Q Consensus 44 ~p~~~~~~~~~~~~~~---~~~~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~~~~~~~~-----~~~~~~~ 111 (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 3455566666 7775556666778888999999999999986543 6666565
No 114
>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=23.23 E-value=89 Score=30.25 Aligned_cols=66 Identities=17% Similarity=0.201 Sum_probs=46.5
Q ss_pred Cccccccccccccee-e--ccCCCccccccCCCC-CchhhhHHHHHHHhhcCCeEEEEEece-----eEEEEeCCC
Q 004486 45 PHHWNVNDIVPTSKI-I--LDGMSHCFLSPAPEC-SRDHNEWRRFLIYLQGRDMVAIAKFKF-----WEFYILPPD 111 (749)
Q Consensus 45 p~~~~~~~~~~~~~~-~--~~~~~~~~~~p~~~~-~~~~~ew~~f~~~l~~~~~~~~~~~~~-----~~~~~~~~~ 111 (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 3 445556566 77753 224445556777789999999999932 456666665
No 115
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=22.45 E-value=39 Score=29.30 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=14.3
Q ss_pred CCCCCceeeCccchhhccCCCCC
Q 004486 635 YKPDQEWVQCNKCRKWRMLDPGF 657 (749)
Q Consensus 635 ~~~~~~WvQCd~C~KWR~Lp~~~ 657 (749)
|..-..+|||+.|..|..+.+.+
T Consensus 23 Y~~GvViv~C~gC~~~HlIaDnL 45 (66)
T PF05180_consen 23 YHKGVVIVQCPGCKNRHLIADNL 45 (66)
T ss_dssp HHTSEEEEE-TTS--EEES--SS
T ss_pred HhCCeEEEECCCCcceeeehhhh
Confidence 44455899999999999999875
No 116
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=21.63 E-value=42 Score=36.40 Aligned_cols=30 Identities=20% Similarity=0.772 Sum_probs=22.8
Q ss_pred CceeeCcc--ch-hhccCC-CCCCCCCCCCCceec
Q 004486 639 QEWVQCNK--CR-KWRMLD-PGFDTKSLPVEWFCY 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 999998 3443 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=20.06 E-value=91 Score=26.72 Aligned_cols=34 Identities=18% Similarity=0.128 Sum_probs=24.9
Q ss_pred CCCccccccCCCCCchhhhHHHHHHHhhcCCeEEE
Q 004486 63 GMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAI 97 (749)
Q Consensus 63 ~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~ 97 (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!