Query 004299
Match_columns 763
No_of_seqs 344 out of 2083
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 21:02:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004299.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004299hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1845 MORC family ATPases [C 100.0 1.8E-29 3.8E-34 292.5 10.9 420 227-701 120-606 (775)
2 COG0326 HtpG Molecular chapero 99.9 8E-25 1.7E-29 249.0 14.5 169 244-426 21-209 (623)
3 PTZ00130 heat shock protein 90 99.9 3.1E-23 6.6E-28 243.0 17.8 167 244-425 82-270 (814)
4 PTZ00272 heat shock protein 83 99.9 1.7E-21 3.7E-26 227.6 21.5 167 244-425 19-205 (701)
5 PRK05218 heat shock protein 90 99.9 1.1E-20 2.4E-25 219.5 23.5 292 255-634 27-350 (613)
6 PRK14083 HSP90 family protein; 99.8 4.5E-20 9.8E-25 213.4 21.1 293 255-633 24-329 (601)
7 KOG1845 MORC family ATPases [C 99.8 6.7E-22 1.5E-26 229.9 5.7 337 301-704 1-358 (775)
8 KOG0019 Molecular chaperone (H 99.8 1.5E-19 3.2E-24 203.1 10.4 169 243-426 50-235 (656)
9 KOG0020 Endoplasmic reticulum 99.7 3.2E-18 6.8E-23 187.8 10.0 169 242-426 87-281 (785)
10 PF13589 HATPase_c_3: Histidin 99.7 2.7E-17 5.8E-22 157.1 7.7 95 256-364 4-99 (137)
11 PF07496 zf-CW: CW-type Zinc F 99.6 7.6E-16 1.6E-20 124.0 1.3 45 653-697 1-49 (50)
12 COG1389 DNA topoisomerase VI, 99.4 3.5E-12 7.7E-17 140.8 11.7 138 254-400 36-183 (538)
13 PRK00095 mutL DNA mismatch rep 99.2 1.4E-09 3.1E-14 127.6 23.3 136 238-396 5-147 (617)
14 TIGR00585 mutl DNA mismatch re 99.1 4.2E-10 9.1E-15 121.6 12.6 137 238-396 5-148 (312)
15 COG0323 MutL DNA mismatch repa 99.0 5.8E-10 1.2E-14 131.1 9.9 136 239-395 7-148 (638)
16 PRK04184 DNA topoisomerase VI 98.9 4.1E-08 9E-13 113.0 17.6 101 255-362 37-142 (535)
17 PRK14868 DNA topoisomerase VI 98.7 7E-08 1.5E-12 113.8 12.6 135 254-398 46-189 (795)
18 TIGR01052 top6b DNA topoisomer 98.7 1.7E-07 3.6E-12 107.1 13.6 101 254-363 28-133 (488)
19 KOG1979 DNA mismatch repair pr 98.5 2.7E-07 5.8E-12 104.9 7.9 139 237-395 9-152 (694)
20 PRK05559 DNA topoisomerase IV 98.4 7.6E-07 1.7E-11 105.1 10.7 120 255-397 38-175 (631)
21 PRK14867 DNA topoisomerase VI 98.4 2.9E-06 6.3E-11 99.8 13.1 99 255-362 37-140 (659)
22 TIGR01055 parE_Gneg DNA topois 98.4 1.3E-06 2.7E-11 103.1 9.9 119 256-397 32-168 (625)
23 KOG1978 DNA mismatch repair pr 98.3 1.4E-06 3.1E-11 101.0 7.2 121 254-395 20-145 (672)
24 PF02518 HATPase_c: Histidine 98.2 4.3E-06 9.4E-11 75.7 7.7 90 255-359 6-98 (111)
25 PRK14939 gyrB DNA gyrase subun 98.1 9.7E-06 2.1E-10 97.1 11.0 118 255-397 38-173 (756)
26 PRK05644 gyrB DNA gyrase subun 98.1 1.3E-05 2.9E-10 94.8 11.8 120 255-397 38-173 (638)
27 smart00433 TOP2c Topoisomerase 98.1 1E-05 2.2E-10 95.2 10.5 116 258-397 5-138 (594)
28 TIGR01059 gyrB DNA gyrase, B s 98.0 2.5E-05 5.4E-10 92.8 11.4 119 255-397 31-166 (654)
29 PLN03237 DNA topoisomerase 2; 97.5 0.00051 1.1E-08 86.8 11.2 91 255-358 78-179 (1465)
30 COG3290 CitA Signal transducti 97.4 0.00055 1.2E-08 78.8 8.8 89 255-359 428-519 (537)
31 TIGR01058 parE_Gpos DNA topois 97.3 0.00082 1.8E-08 79.8 10.5 121 257-397 37-171 (637)
32 PLN03128 DNA topoisomerase 2; 97.3 0.00067 1.5E-08 84.8 9.8 91 255-358 53-154 (1135)
33 KOG1977 DNA mismatch repair pr 97.3 0.00013 2.8E-09 85.0 3.0 121 255-395 22-148 (1142)
34 cd00075 HATPase_c Histidine ki 97.2 0.0015 3.2E-08 55.5 7.5 89 256-359 2-93 (103)
35 smart00387 HATPase_c Histidine 97.1 0.0012 2.7E-08 56.9 6.5 75 255-344 6-80 (111)
36 COG0187 GyrB Type IIA topoisom 97.1 0.0016 3.4E-08 76.2 8.9 122 258-398 40-175 (635)
37 PRK10604 sensor protein RstB; 97.1 0.0015 3.2E-08 73.3 8.6 90 254-359 319-411 (433)
38 TIGR02938 nifL_nitrog nitrogen 96.9 0.004 8.6E-08 68.8 9.9 92 255-359 388-482 (494)
39 PRK10364 sensor protein ZraS; 96.9 0.0024 5.2E-08 71.7 8.3 86 254-359 348-436 (457)
40 PRK09303 adaptive-response sen 96.9 0.0037 8E-08 69.3 9.5 92 255-361 273-367 (380)
41 PRK09470 cpxA two-component se 96.8 0.0027 5.9E-08 70.3 7.9 90 254-359 353-445 (461)
42 PHA02569 39 DNA topoisomerase 96.8 0.0028 6.2E-08 74.9 8.1 123 258-397 49-184 (602)
43 PRK10755 sensor protein BasS/P 96.8 0.0028 6E-08 68.5 7.2 90 253-360 246-338 (356)
44 PRK11006 phoR phosphate regulo 96.8 0.003 6.6E-08 70.5 7.7 92 254-359 317-411 (430)
45 TIGR01386 cztS_silS_copS heavy 96.8 0.0046 1E-07 68.2 8.8 90 254-357 353-445 (457)
46 PRK10549 signal transduction h 96.7 0.004 8.7E-08 69.4 8.1 91 255-359 353-446 (466)
47 PRK11100 sensory histidine kin 96.7 0.0052 1.1E-07 68.1 8.8 92 253-359 367-461 (475)
48 TIGR02966 phoR_proteo phosphat 96.7 0.0051 1.1E-07 64.2 8.0 92 254-359 229-323 (333)
49 PRK11086 sensory histidine kin 96.6 0.0085 1.8E-07 67.9 10.0 86 255-358 434-522 (542)
50 COG0642 BaeS Signal transducti 96.6 0.0027 5.8E-08 64.9 5.5 86 253-358 227-316 (336)
51 PRK15053 dpiB sensor histidine 96.6 0.0078 1.7E-07 68.9 9.5 91 255-358 433-526 (545)
52 PRK09467 envZ osmolarity senso 96.6 0.0073 1.6E-07 66.8 8.6 88 254-359 331-421 (435)
53 PRK11091 aerobic respiration c 96.5 0.0088 1.9E-07 72.0 9.9 94 255-361 399-495 (779)
54 TIGR02916 PEP_his_kin putative 96.5 0.005 1.1E-07 73.4 7.5 85 255-359 580-668 (679)
55 PRK11360 sensory histidine kin 96.4 0.01 2.3E-07 67.1 8.7 86 255-359 501-589 (607)
56 PRK10337 sensor protein QseC; 96.3 0.011 2.3E-07 65.9 8.1 85 254-359 352-439 (449)
57 PTZ00108 DNA topoisomerase 2-l 96.2 0.027 5.8E-07 71.9 11.9 129 255-397 58-202 (1388)
58 PRK10815 sensor protein PhoQ; 96.1 0.014 3.1E-07 67.0 8.2 85 255-359 379-466 (485)
59 PRK15347 two component system 96.1 0.016 3.4E-07 70.7 8.5 88 254-360 513-603 (921)
60 PTZ00109 DNA gyrase subunit b; 96.0 0.017 3.7E-07 70.5 8.5 122 257-397 132-306 (903)
61 TIGR03785 marine_sort_HK prote 96.0 0.019 4.2E-07 69.1 8.9 93 254-360 597-692 (703)
62 PRK13837 two-component VirA-li 95.9 0.019 4E-07 70.2 8.3 92 255-360 561-664 (828)
63 PRK11073 glnL nitrogen regulat 95.8 0.03 6.6E-07 60.0 8.3 93 254-359 237-336 (348)
64 PRK10618 phosphotransfer inter 95.7 0.041 8.8E-07 68.2 10.2 94 255-361 566-662 (894)
65 PRK09835 sensor kinase CusS; P 95.7 0.024 5.2E-07 63.4 7.5 91 254-358 375-468 (482)
66 PRK11466 hybrid sensory histid 95.5 0.032 7E-07 68.2 8.3 89 254-361 561-652 (914)
67 COG4191 Signal transduction hi 95.5 0.024 5.2E-07 66.2 6.5 62 255-327 498-559 (603)
68 TIGR02956 TMAO_torS TMAO reduc 95.5 0.038 8.2E-07 67.8 8.7 90 254-361 579-673 (968)
69 PRK11107 hybrid sensory histid 95.4 0.038 8.3E-07 67.2 8.1 97 254-361 408-508 (919)
70 PRK10490 sensor protein KdpD; 95.3 0.035 7.6E-07 68.8 7.6 91 254-360 778-871 (895)
71 KOG0787 Dehydrogenase kinase [ 95.0 0.068 1.5E-06 59.6 7.8 83 255-343 261-349 (414)
72 PRK10841 hybrid sensory kinase 94.9 0.064 1.4E-06 66.7 8.3 92 254-360 562-656 (924)
73 TIGR01925 spIIAB anti-sigma F 94.8 0.11 2.5E-06 48.9 7.9 86 255-358 40-125 (137)
74 PRK10547 chemotaxis protein Ch 94.6 0.11 2.5E-06 62.4 9.0 97 256-360 387-512 (670)
75 PRK13557 histidine kinase; Pro 94.6 0.11 2.4E-06 58.5 8.5 94 255-360 278-383 (540)
76 PRK09959 hybrid sensory histid 94.3 0.11 2.3E-06 65.8 8.5 95 254-360 828-925 (1197)
77 COG0643 CheA Chemotaxis protei 94.3 0.11 2.4E-06 62.9 8.0 109 237-361 423-563 (716)
78 PRK04069 serine-protein kinase 94.0 0.086 1.9E-06 52.0 5.2 58 255-322 43-100 (161)
79 COG4585 Signal transduction hi 93.2 0.14 3E-06 56.5 5.8 72 255-359 280-353 (365)
80 PRK03660 anti-sigma F factor; 93.1 0.46 9.9E-06 45.2 8.5 85 255-357 40-124 (146)
81 PRK11644 sensory histidine kin 92.5 0.21 4.6E-06 57.8 6.3 69 255-357 411-482 (495)
82 TIGR01924 rsbW_low_gc serine-p 92.4 0.46 9.9E-06 47.0 7.7 89 255-357 43-131 (159)
83 PRK10600 nitrate/nitrite senso 91.0 0.33 7.2E-06 56.6 5.7 74 254-360 469-545 (569)
84 PF13581 HATPase_c_2: Histidin 90.7 0.72 1.6E-05 42.7 6.7 82 255-355 32-113 (125)
85 COG2972 Predicted signal trans 90.5 0.63 1.4E-05 53.4 7.3 57 255-320 351-407 (456)
86 COG5002 VicK Signal transducti 90.0 0.31 6.6E-06 54.3 4.0 74 256-344 344-418 (459)
87 COG2205 KdpD Osmosensitive K+ 89.8 1 2.2E-05 55.1 8.3 88 256-360 777-868 (890)
88 PF07744 SPOC: SPOC domain; I 89.4 0.2 4.4E-06 46.3 1.9 45 70-114 66-119 (119)
89 PRK13560 hypothetical protein; 87.3 0.71 1.5E-05 55.0 5.0 76 257-358 714-792 (807)
90 COG5000 NtrY Signal transducti 87.2 1.1 2.3E-05 53.2 6.1 60 256-321 602-661 (712)
91 COG3850 NarQ Signal transducti 86.6 1.1 2.4E-05 52.4 5.8 79 248-361 478-558 (574)
92 COG4192 Signal transduction hi 85.2 1.9 4.2E-05 49.7 6.7 63 255-328 565-627 (673)
93 COG3920 Signal transduction hi 84.2 1.4 3.1E-05 46.1 4.8 50 256-314 124-174 (221)
94 PRK10935 nitrate/nitrite senso 81.1 3.9 8.4E-05 47.1 7.3 47 255-314 472-518 (565)
95 COG2172 RsbW Anti-sigma regula 79.8 7.6 0.00016 38.3 7.8 87 255-358 41-127 (146)
96 smart00249 PHD PHD zinc finger 79.3 1.6 3.4E-05 33.0 2.3 33 651-683 10-45 (47)
97 COG4251 Bacteriophytochrome (l 77.6 2.5 5.3E-05 50.5 4.2 108 234-359 619-729 (750)
98 PRK13559 hypothetical protein; 75.0 3.3 7.2E-05 44.8 4.2 52 255-314 268-319 (361)
99 COG2865 Predicted transcriptio 62.0 3.9 8.5E-05 47.5 1.4 78 254-345 270-353 (467)
100 COG3851 UhpB Signal transducti 61.1 11 0.00025 42.6 4.7 45 255-314 411-456 (497)
101 COG3852 NtrB Signal transducti 60.3 15 0.00032 40.9 5.3 81 254-345 241-326 (363)
102 PF00628 PHD: PHD-finger; Int 54.1 3 6.5E-05 33.1 -0.8 34 650-683 9-46 (51)
103 COG3275 LytS Putative regulato 42.2 24 0.00053 41.3 3.6 63 237-314 445-507 (557)
104 TIGR03047 PS_II_psb28 photosys 36.2 16 0.00035 34.6 0.9 17 82-98 84-100 (109)
105 PF03912 Psb28: Psb28 protein; 35.0 14 0.00031 34.9 0.4 15 84-98 86-100 (108)
106 PRK13610 photosystem II reacti 34.9 17 0.00036 34.7 0.7 17 82-98 91-107 (113)
107 PF14501 HATPase_c_5: GHKL dom 34.3 1.3E+02 0.0028 26.9 6.5 46 255-310 6-51 (100)
108 PLN00039 photosystem II reacti 34.2 19 0.0004 34.3 0.9 17 82-98 85-101 (111)
109 PRK13612 photosystem II reacti 33.2 20 0.00043 34.2 0.9 17 82-98 87-103 (113)
110 COG4564 Signal transduction hi 32.6 59 0.0013 36.7 4.5 58 282-362 379-439 (459)
111 PRK13611 photosystem II reacti 32.5 21 0.00045 33.6 0.9 17 82-98 80-96 (104)
112 CHL00128 psbW photosystem II p 32.0 21 0.00046 34.1 0.9 17 82-98 87-103 (113)
113 KOG0355 DNA topoisomerase type 25.9 1.9E+02 0.0042 36.1 7.7 49 255-316 54-102 (842)
114 KOG1973 Chromatin remodeling p 23.7 36 0.00079 36.9 1.1 29 654-683 231-263 (274)
115 cd00594 KU Ku-core domain; inc 21.8 97 0.0021 32.9 3.8 67 49-116 87-161 (272)
116 PF05180 zf-DNL: DNL zinc fing 20.2 50 0.0011 28.8 1.0 23 649-671 23-45 (66)
No 1
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.96 E-value=1.8e-29 Score=292.45 Aligned_cols=420 Identities=20% Similarity=0.233 Sum_probs=288.3
Q ss_pred cccCCCCcceeecChhhHhhhccccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEE--
Q 004299 227 KQAGPLEKNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSI-- 304 (763)
Q Consensus 227 ~~~~~~~~~~v~~~p~fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I-- 304 (763)
...+.++-+|+++||+|||+|+|+| +|.++|++||+|||+|...... . .+.+..+.. .-......++|
T Consensus 120 ~~~~~G~~~~iivhpkflhsnatsh-k~a~~a~aeLldnalDEi~~~~-------t-f~~vd~I~p-~~d~~i~a~~v~~ 189 (775)
T KOG1845|consen 120 IIGKSGGTLHIIVHPKFLHSNATSH-KWAKGAIAELLDNALDEITNGA-------T-FVRVDYINP-VMDIFIRALVVQL 189 (775)
T ss_pred eeccCCceeEEEEehhhhcCCCccc-ccccChhhhhcccccccccccc-------c-eEEeeeecc-cccccceeEEeec
Confidence 4445555699999999999999999 6999999999999999876532 1 122222211 10111233444
Q ss_pred ---EECCCCCCHHHHHHhhhcccCCCCCCCCCccccccccccccccccCCeEEEEEeeCC------CCceeEEEEEec--
Q 004299 305 ---IDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTAD------SRSIAFLSQSLN-- 373 (763)
Q Consensus 305 ---~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~------~~svg~ls~sf~-- 373 (763)
.|||+||.++-+..+|.+|+++|. +....+||||+||+++.|++|.++.|++|..+ .+++|+++++|.
T Consensus 190 ~~~s~~gg~~~~~~i~~~m~l~~~~k~-e~~~tv~q~~~gfktst~rlGa~~i~~~R~~~~~~~kstqsiglls~tfL~~ 268 (775)
T KOG1845|consen 190 KRISDDGGGMKPEVIRKCMSLGYSSKK-EANSTVGQYGNGFKTSTMRLGADAIVFSRCESRRGLKSTQSIGLLSYTFLRK 268 (775)
T ss_pred cceeccccccCHHHHHHHHHhhhhhhh-hhhhhhhhhccccccchhhhccceeEeehhhhhccCCcceeEEEEEEeeecc
Confidence 478999999999999999999876 35689999999999999999999999999432 468999999995
Q ss_pred CCCccEEEcc----cccCCCCc-EEEEEeccchhhhhhhhHHh-----HhhhCCCchh--hHHHhh-------hc----c
Q 004299 374 QGKDNLEIPI----VSYYRKGQ-FMELDTVVQSEATAKYNLKS-----IKEFSPFNKY--LIGEKA-------GL----F 430 (763)
Q Consensus 374 eg~~~i~VPi----~s~~~~Gt-~I~l~lk~~~e~~~~~~L~~-----I~kySpF~s~--pI~e~~-------~~----~ 430 (763)
++.++++||+ ..++.... +..+..+.. ..|..++.+ +++|+||.+. .+.+.. .. +
T Consensus 269 t~~~d~iv~~~~i~~~~e~~~~~~~~i~~~s~--~~~~~n~~i~~~~~~L~w~p~~~~~~~l~q~~v~~~~~~~ef~~~~ 346 (775)
T KOG1845|consen 269 TGKRDFIVPMRLIKMDYEKSDQLWQGILYKSG--VDWAVNLEIEVTERFLKWSPYSHLLDLLGQNSVQYSKDFPEFGHQF 346 (775)
T ss_pred ccCCceeEecchhhhhhhcccccccceeeccc--cccceeeeeHHHHHHhhcCccccHHHHhhhhhhhhccccchhcchh
Confidence 6788999999 44432110 111111211 223334433 9999999984 222200 01 1
Q ss_pred c-CCCCCcEEEEEcccccC---CcceeeccCCCCCCCCCccCcceeecccccCCCCcccccCcccchHHHHHHHhhcC--
Q 004299 431 Q-DKCTGTQIYIWNLDQWG---SNYCLEWDNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLV-- 504 (763)
Q Consensus 431 ~-~~~~GT~IiI~NL~r~~---~~~ELdFd~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLYL~-- 504 (763)
. ...+||.+|+||+++|. +-.++||+.+ .++|. ....++++.|.++||+.
T Consensus 347 ~~~~~~g~~~I~Y~~~~~~~~~g~~e~df~l~--------~~~i~----------------~~~~~~~~s~~sil~~~~~ 402 (775)
T KOG1845|consen 347 NIMNKPGTDVIIYNLRRWKGDEGILELDFDLD--------PHVIP----------------WTYCHSHLSEASILLLTRR 402 (775)
T ss_pred hhccCCCceeeeechhhhcccccceeeccccC--------ccccc----------------ccchhhhhhcccccchhcc
Confidence 1 25799999999997764 3478888764 24442 02445889999999974
Q ss_pred CCeEEEEcCeEecccccccccCcceee--ccccc--c-----eeEEEEEcccccccc-cccceEEEEEeCeEee----ee
Q 004299 505 PRMKIYVQGSLVRSRPLAKSLNKTCVE--TGIIM--G-----KSAHLTLGRCQLEWE-QMNCGIFLYWHGRLIE----AY 570 (763)
Q Consensus 505 Prm~I~LnGkkV~~~~i~~~L~~t~v~--~~~i~--~-----~~V~It~Gf~~~e~~-~~~~Gi~VY~nnRLI~----~~ 570 (763)
++|.+++.|+.+.++.+.....++... .+... + .......|+.+...+ ...+|+.|||.+|||. ++
T Consensus 403 ~~~~~v~~~~~~~h~sv~~~q~~~~~~~~~p~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nV~~~~~lie~~~~~~ 482 (775)
T KOG1845|consen 403 LRFKSVLRGKDVEHHSVINYQVQTEEILYQPQRAPADGKQRLIKLSPKPGFVKDAPRPIDVQQFNVSHGPRLIEHGCRPF 482 (775)
T ss_pred ccchhccccccchhhhHHHHHHHHHHHhcccccccCCccchhhcccCCCCcccccCCCCCccCCccccCCcchhhcccce
Confidence 899999999999999988766554321 11110 0 111224455554322 2356999999999999 99
Q ss_pred eecccccccCCCCceEEEEEecCcccccCCCccccccCccCCcCchHHHHHHHHHHHHHHHHHhhcccccccccc---cC
Q 004299 571 KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVKD---GA 647 (763)
Q Consensus 571 ~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~~---~~ 647 (763)
||.++. ....++++++|+..+ +. +++|++|+|+++-.-.+++.+..++++.||...++.+.+... ..
T Consensus 483 ~k~~n~--~~s~~~~~~~il~~n-~~-------~~a~~~~~v~~~~v~a~~es~~~~~~~~~~~~~~~~i~~~~~q~~~~ 552 (775)
T KOG1845|consen 483 VKIDNA--TGSLGQAVIPILVGN-FV-------ETAPDSQGVEKTIVLASSESRDKQSLNTYEEKKCLRIDEAGRQLQKE 552 (775)
T ss_pred eeecCC--Cccccccccceeccc-cc-------ccCCCccccccccccccchhhhhhcccccccccccccCccchhhhhh
Confidence 999985 457999999999997 33 469999999999988999999999999999999988865421 11
Q ss_pred CCC----C-CCceeecccchhhccCCCCCCCCCCCCCccccCCC---CCCCCCCCcccccCC
Q 004299 648 LYK----P-DQEWVQCNKCRKWRMLDPGFDTKSLPVEWFCYMKP---FEGLCDLPEQKVDAG 701 (763)
Q Consensus 648 ~~~----~-~~~WVQCd~C~KWR~Lp~~~~~~~lp~~W~C~mnp---~~~sC~~pEe~~~~~ 701 (763)
++. . ...=-||- .= ......-...|+|..++ +++.|+-+-...+.+
T Consensus 553 ~~~~~~~~Ke~~~~~~~---~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 606 (775)
T KOG1845|consen 553 RESTTTVVKEEKPENNH---LS-----SSKRTQRRKSTGRAISVAVEKFNLRSGPNGRGQID 606 (775)
T ss_pred hcccceeecccccccch---hc-----chhccccccccccccccchhhhccccccCCcCCcc
Confidence 111 0 01111221 11 11123344689999998 467777665555444
No 2
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=8e-25 Score=248.96 Aligned_cols=169 Identities=24% Similarity=0.330 Sum_probs=138.4
Q ss_pred HhhhccccccCHHHHHHHHHHccHHHhhcccccccc-------cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 244 LQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIY-------FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 244 L~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~-------~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
+||+++.++ .+|||||+||.||..+.++.++. ...+.|.|.. | ++..+|+|.|||+|||++|+
T Consensus 21 ihSlYSnKe----IFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~--D----k~~kTLtI~DNGIGMT~~Ev 90 (623)
T COG0326 21 IHSLYSNKE----IFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISF--D----KDNKTLTISDNGIGMTKDEV 90 (623)
T ss_pred HHhccCCcH----HHHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEE--c----ccCCEEEEEeCCCCCCHHHH
Confidence 577776664 66999999999999999877763 1256676663 3 24689999999999999999
Q ss_pred HHhhh-cccCCCC--------C-CCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEccccc
Q 004299 317 VRMTY-FGHKQPD--------A-DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSY 386 (763)
Q Consensus 317 ~~~l~-fG~S~K~--------~-~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~ 386 (763)
++.++ ++.|... . ++.+.|||||+||+|||| ++++|+|.||+.+..... .|.+ .|.++|+|.....
T Consensus 91 ~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~T~~~~~~~~~-~W~S--~g~g~ytv~~~~~ 166 (623)
T COG0326 91 IENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFM-VADKVTVITRSAGEDEAY-HWES--DGEGEYTVEDIDK 166 (623)
T ss_pred HHHHHHhhhccHHHHHHHhccccccccccccccchhhheee-eeeeEEEEeccCCCCcce-EEEE--cCCCceEEeeccC
Confidence 99885 6555321 1 357899999999999999 999999999999975444 7777 7888999988777
Q ss_pred CCC-CcEEEEEeccch-hhhhhhhHHh-HhhhCCCchhhHHHh
Q 004299 387 YRK-GQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEK 426 (763)
Q Consensus 387 ~~~-Gt~I~l~lk~~~-e~~~~~~L~~-I~kySpF~s~pI~e~ 426 (763)
+.+ ||.|+|+++++. +++..|.|+. |+|||.|+.+||...
T Consensus 167 ~~~~GT~I~L~Lk~~e~efl~~~rl~~ivkkYSd~i~~PI~~~ 209 (623)
T COG0326 167 EPRRGTEITLHLKEEEDEFLEEWRLREIVKKYSDHIAYPIYIE 209 (623)
T ss_pred CCCCCcEEEEEECCchHHHhhhhHHHHHHHHHhcccccceEEe
Confidence 775 999999999765 7889999966 999999999999743
No 3
>PTZ00130 heat shock protein 90; Provisional
Probab=99.90 E-value=3.1e-23 Score=242.97 Aligned_cols=167 Identities=25% Similarity=0.355 Sum_probs=131.5
Q ss_pred HhhhccccccCHHHHHHHHHHccHHHhhcccccccc-------cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 244 LQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIY-------FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 244 L~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~-------~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
.|++++.. ..||+|||+||+||.++.+++++. ...+.|.|.. | .+..+|+|.|||+|||++|+
T Consensus 82 i~sLYS~k----eIFLRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~--D----~~~~tLtI~DnGIGMT~eEl 151 (814)
T PTZ00130 82 VNSLYTQK----EVFLRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISA--N----KEKNILSITDTGIGMTKEDL 151 (814)
T ss_pred hhccCCCC----CceeehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEE--C----CCCCEEEEEECCCCCCHHHH
Confidence 35655444 367999999999999988877763 1356777763 2 23579999999999999999
Q ss_pred HHhhh-cccCCCC---------CCCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccc-
Q 004299 317 VRMTY-FGHKQPD---------ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVS- 385 (763)
Q Consensus 317 ~~~l~-fG~S~K~---------~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s- 385 (763)
.+.++ +++|... ..+...|||||+||+|||| +|++|.|.||+.+ ..++.|.+ +|.+.|.|...+
T Consensus 152 ~~nLgTIA~Sgt~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~Trs~~--~~~~~W~s--~g~g~y~I~e~~~ 226 (814)
T PTZ00130 152 INNLGTIAKSGTSNFLEAISKSGGDMSLIGQFGVGFYSAFL-VADKVIVYTKNNN--DEQYIWES--TADAKFTIYKDPR 226 (814)
T ss_pred HHHhhhhcccccHHHHHHhhccCCCcccccccccchhheee-ecCEEEEEEcCCC--CceEEEEE--CCCCcEEEEECCC
Confidence 99764 7765321 1246799999999999999 9999999999876 45788887 677788775533
Q ss_pred --cCCCCcEEEEEeccch-hhhhhhhHHh-HhhhCCCchhhHHH
Q 004299 386 --YYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGE 425 (763)
Q Consensus 386 --~~~~Gt~I~l~lk~~~-e~~~~~~L~~-I~kySpF~s~pI~e 425 (763)
-..+||.|+||++++. ++...+.++. |.|||.|+.+||+.
T Consensus 227 ~~~~~rGT~I~LhLked~~efl~~~~ik~likkYS~fI~~PI~l 270 (814)
T PTZ00130 227 GSTLKRGTRISLHLKEDATNLMNDKKLVDLISKYSQFIQYPIYL 270 (814)
T ss_pred CCCCCCCcEEEEEECCchhhhccHHHHHHHHHHhhccCCCCEEE
Confidence 2368999999999876 7888899866 99999999999974
No 4
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=99.88 E-value=1.7e-21 Score=227.64 Aligned_cols=167 Identities=25% Similarity=0.303 Sum_probs=129.7
Q ss_pred HhhhccccccCHHHHHHHHHHccHHHhhcccccccc-------cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 244 LQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIY-------FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 244 L~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~-------~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
.||+++.+. .+|||||+||+||+.+++++++. ...+.|.|.. + .+..+|+|.|||+||+.+|+
T Consensus 19 i~slYs~~~----iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~--d----~~~~~L~I~DnGiGMt~edl 88 (701)
T PTZ00272 19 INTFYSNKE----IFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVP--D----KENKTLTVEDNGIGMTKADL 88 (701)
T ss_pred HhcccCCcc----HhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEE--c----CCCCEEEEEECCCCCCHHHH
Confidence 366665553 66999999999999988766653 2345666653 2 23568999999999999999
Q ss_pred HHhhh-cccCCC--------CCCCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccc--
Q 004299 317 VRMTY-FGHKQP--------DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVS-- 385 (763)
Q Consensus 317 ~~~l~-fG~S~K--------~~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s-- 385 (763)
.+.++ +|+|.. ...+...|||||+||+|||| +|++|.|.||+.+. .++.|.+ .|.+.|+|....
T Consensus 89 ~~~LgtIa~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fm-vad~V~V~Srs~~~--~~~~W~s--~~~g~y~i~~~~~~ 163 (701)
T PTZ00272 89 VNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVGFYSAYL-VADRVTVTSKNNSD--ESYVWES--SAGGTFTITSTPES 163 (701)
T ss_pred HHHhhhhhhcchHHHHHHhhccCCccccCCCCcceEEEEE-eccEEEEEEecCCC--ceEEEEE--CCCCcEEEEeCCCC
Confidence 99874 666522 11245799999999999999 99999999998764 5899988 666778774322
Q ss_pred cCCCCcEEEEEeccch-hhhhhhhHHh-HhhhCCCchhhHHH
Q 004299 386 YYRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGE 425 (763)
Q Consensus 386 ~~~~Gt~I~l~lk~~~-e~~~~~~L~~-I~kySpF~s~pI~e 425 (763)
-..+||+|+|+++++. ++...+.++. |.|||.|+.+||+.
T Consensus 164 ~~~~GT~I~L~Lk~d~~ef~~~~~i~~li~kYs~fi~~PI~l 205 (701)
T PTZ00272 164 DMKRGTRITLHLKEDQMEYLEPRRLKELIKKHSEFIGYDIEL 205 (701)
T ss_pred CCCCCCEEEEEECCchHHhccHHHHHHHHHHhccccCcceEE
Confidence 2368999999999876 6888888866 99999999999974
No 5
>PRK05218 heat shock protein 90; Provisional
Probab=99.86 E-value=1.1e-20 Score=219.55 Aligned_cols=292 Identities=21% Similarity=0.242 Sum_probs=185.4
Q ss_pred HHHHHHHHHHccHHHhhcccccccc-------cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhh-hcccCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIY-------FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT-YFGHKQ 326 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~-------~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l-~fG~S~ 326 (763)
+..+|+|||+||+||..++++.++. .....|.|.. ++ +...|+|.|||+||+.+++.+++ ++|.|.
T Consensus 27 ~~v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~--d~----~~~~i~I~DnG~GMt~eel~~~l~~ia~Sg 100 (613)
T PRK05218 27 KEIFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISF--DK----EARTLTISDNGIGMTREEVIENLGTIAKSG 100 (613)
T ss_pred chHHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEE--cC----CCCeEEEEECCCCCCHHHHHHHHHhhcccc
Confidence 4688999999999999887765542 1234555542 11 23579999999999999999876 577763
Q ss_pred CC----------CCCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccCCCCcEEEEE
Q 004299 327 PD----------ADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELD 396 (763)
Q Consensus 327 K~----------~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~~~Gt~I~l~ 396 (763)
+. ..+...||+||+||+|++| +|++|+|.||+.+....|+.|.+ +|...+.|....-..+||.|+++
T Consensus 101 ~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~-va~~v~V~Sr~~~~~~~~~~w~~--~g~~~~~i~~~~~~~~GT~I~l~ 177 (613)
T PRK05218 101 TKEFLEKLKGDQKKDSQLIGQFGVGFYSAFM-VADKVTVITRSAGPAAEAVRWES--DGEGEYTIEEIEKEERGTEITLH 177 (613)
T ss_pred chhHHHHhhcccccccccccccCcCchhhhh-ccCEEEEEEcCCCCCCceEEEEE--eCCceeEEeECCCCCCCcEEEEE
Confidence 21 1246789999999999877 99999999999775556888876 55666766544434689999999
Q ss_pred eccch-hhhhhhhHHh-HhhhCCCchhhHHHhhhcccCC---CCCcEEEEEcccccCCcceeeccCCCCCCCCCccCcce
Q 004299 397 TVVQS-EATAKYNLKS-IKEFSPFNKYLIGEKAGLFQDK---CTGTQIYIWNLDQWGSNYCLEWDNGLNGGSSFHQGDIL 471 (763)
Q Consensus 397 lk~~~-e~~~~~~L~~-I~kySpF~s~pI~e~~~~~~~~---~~GT~IiI~NL~r~~~~~ELdFd~d~~~~~~~~~~DI~ 471 (763)
++.+. ++...+.++. |.+||.|..+||.. ... ...+...+| ... ..|+.
T Consensus 178 Lk~~~~e~~e~~~i~~li~kys~~l~~PI~~-----~~~~~~~in~~~~~w-------------~~~--------~~~i~ 231 (613)
T PRK05218 178 LKEDEDEFLDEWRIRSIIKKYSDFIPVPIKL-----EKEEEETINSASALW-------------TRS--------KSEIT 231 (613)
T ss_pred ECcchhhhcCHHHHHHHHHHHHhcCCCCEEE-----ecccceeecCCccce-------------ecC--------Ccccc
Confidence 98765 5667777765 99999999988752 100 011111111 110 01210
Q ss_pred eecccccCCCCcccccCcccchHHHHHHHhh---cCCCeEEEEcCeEecccccccccCcceeecccccceeEEEEEcccc
Q 004299 472 IRSRRIRSRPGQISQKVPLDYSLRSYLEVIF---LVPRMKIYVQGSLVRSRPLAKSLNKTCVETGIIMGKSAHLTLGRCQ 548 (763)
Q Consensus 472 i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLY---L~Prm~I~LnGkkV~~~~i~~~L~~t~v~~~~i~~~~V~It~Gf~~ 548 (763)
+.-...|..-++ -+|-+.|.++..- ...++-.+++-.
T Consensus 232 -------------------~~~~~~fy~~~~~~~~~pl~~i~~~~e~---------------------~~~~~gll~iP~ 271 (613)
T PRK05218 232 -------------------DEEYKEFYKHLAHDFDDPLFWIHNNVEG---------------------PFEYTGLLYIPK 271 (613)
T ss_pred -------------------HHHHHHHhhhhcccccCCcEEEEcccCC---------------------ceEEEEEEEeCC
Confidence 001122222222 2344444432211 001111111111
Q ss_pred cc----c-ccccceEEEEEeCeEeeee-eecccccccCCCCceEEEEEecCcccccCCCccccccCccCCcCchHHHHHH
Q 004299 549 LE----W-EQMNCGIFLYWHGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLE 622 (763)
Q Consensus 549 ~e----~-~~~~~Gi~VY~nnRLI~~~-~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~ 622 (763)
.. . .....|+.+|.|+|+|.-. ..+-|.| .+=|-|||+.+.| | |+-+...+..+..++++.
T Consensus 272 ~~~~~~~~~~~~~~~~lyvn~v~I~d~~~~lLP~w-----l~Fv~GVVDs~dL--p------lnvSRE~lq~~~~l~~i~ 338 (613)
T PRK05218 272 KAPFDLFNRDRKGGLKLYVKRVFIMDDAEELLPEY-----LRFVKGVIDSEDL--P------LNVSREILQEDRVVKKIR 338 (613)
T ss_pred CCccchhhhcccccEEEEECcEEeeCchhhhchHH-----HhheEEEeecCCC--C------CccCHHHHhcCHHHHHHH
Confidence 00 0 1246899999999999753 3355543 2445689999976 3 367777788898889888
Q ss_pred HHHHHHHHHHHh
Q 004299 623 EWLGKVADEYWD 634 (763)
Q Consensus 623 ~~L~e~l~eYW~ 634 (763)
+.|.+++.++..
T Consensus 339 ~~l~~kv~~~l~ 350 (613)
T PRK05218 339 KAITKKVLDELE 350 (613)
T ss_pred HHHHHHHHHHHH
Confidence 888887766553
No 6
>PRK14083 HSP90 family protein; Provisional
Probab=99.84 E-value=4.5e-20 Score=213.41 Aligned_cols=293 Identities=16% Similarity=0.155 Sum_probs=186.5
Q ss_pred HHHHHHHHHHccHHHhhccccccc-ccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhh-hcccCCCCCC--
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSI-YFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT-YFGHKQPDAD-- 330 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l-~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l-~fG~S~K~~~-- 330 (763)
+..+|+|||+||+||.++++.... ..+.|.|.+. + .+...|+|.|||+||+.+++.+.+ .+|.|.+...
T Consensus 24 ~~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~---d----~~~~~l~I~DnGiGmt~eel~~~l~~ig~S~k~~~~~ 96 (601)
T PRK14083 24 PRVYVRELLQNAVDAITARRALDPTAPGRIRIELT---D----AGGGTLIVEDNGIGLTEEEVHEFLATIGRSSKRDENL 96 (601)
T ss_pred cHHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc---c----CCCcEEEEEeCCCCCCHHHHHHHHhhhccchhhhhhh
Confidence 568899999999999988654321 1224444441 1 135789999999999999999975 6888766431
Q ss_pred ---CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcc--cccCCCCcEEEEEeccch-hhh
Q 004299 331 ---DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI--VSYYRKGQFMELDTVVQS-EAT 404 (763)
Q Consensus 331 ---~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi--~s~~~~Gt~I~l~lk~~~-e~~ 404 (763)
+...||+||+||+|+|| +|+++.|.||+.+ ...++.|.+. +.+.+.|.. ..-..+||+|+++++++. ++.
T Consensus 97 ~~~~~~~IG~FGIGf~S~F~-vad~v~V~Tr~~~-~~~~~~W~~~--~~g~y~i~~~~~~~~~~GT~I~L~l~~d~~~~~ 172 (601)
T PRK14083 97 GFARNDFLGQFGIGLLSCFL-VADEIVVVSRSAK-DGPAVEWRGK--ADGTYSVRKLETERAEPGTTVYLRPRPDAEEWL 172 (601)
T ss_pred cccccccccccccceEEEEE-ecCEEEEEeccCC-CCceEEEEEC--CCCceEEEeCCCCCCCCCCEEEEEecCchhhhc
Confidence 35689999999999999 9999999999975 3568888874 444666653 234468999999998764 566
Q ss_pred hhhhHHh-HhhhCCCchhhHHHhhhcccCCCCCcEEEEEcccccCCcceeeccCCCCCCCCCccCcceeecccccCCCCc
Q 004299 405 AKYNLKS-IKEFSPFNKYLIGEKAGLFQDKCTGTQIYIWNLDQWGSNYCLEWDNGLNGGSSFHQGDILIRSRRIRSRPGQ 483 (763)
Q Consensus 405 ~~~~L~~-I~kySpF~s~pI~e~~~~~~~~~~GT~IiI~NL~r~~~~~ELdFd~d~~~~~~~~~~DI~i~~~~~~~~~~q 483 (763)
.++.++. |.+||.|..+||... |+...|-. ...-|..+ ..+|.
T Consensus 173 ~~~~i~~li~~ys~~i~~pI~l~---------~~~~~iN~-------~~~lW~~~--------~~eit------------ 216 (601)
T PRK14083 173 ERETVEELAKKYGSLLPVPIRVE---------GEKGGVNE-------TPPPWTRD--------YPDPE------------ 216 (601)
T ss_pred cHHHHHHHHHHHhccCCCCcccC---------CceeeecC-------CCCCccCC--------ccccC------------
Confidence 6677755 999999999999731 11111100 00111110 01210
Q ss_pred ccccCcccchHHHHHHHhhc-CCCeEEEEcCeEecccccccccCcceeecccccceeEEEEEcccccccccccceEEEEE
Q 004299 484 ISQKVPLDYSLRSYLEVIFL-VPRMKIYVQGSLVRSRPLAKSLNKTCVETGIIMGKSAHLTLGRCQLEWEQMNCGIFLYW 562 (763)
Q Consensus 484 ~~~~~p~~ySLRaYLSiLYL-~Prm~I~LnGkkV~~~~i~~~L~~t~v~~~~i~~~~V~It~Gf~~~e~~~~~~Gi~VY~ 562 (763)
..+.-..+|..-+|= +|-..|.++-.-- . -..+-..++-.... ....|+-+|+
T Consensus 217 -----~~~eey~~Fyk~~~~~~Pl~~ih~~~e~~----~---------------~~~~Ly~iP~~~~~--~~~~~v~LY~ 270 (601)
T PRK14083 217 -----TRREALLAYGEELLGFTPLDVIPLDVPSG----G---------------LEGVAYVLPYAVSP--AARRKHRVYL 270 (601)
T ss_pred -----ccHHHHHHHHHHhcCCCchheeeecccch----h---------------heEEEEecCCCCCc--cccCceEEEe
Confidence 011123455555553 4555554443210 0 01111112221111 1357999999
Q ss_pred eCeEeeee-eecccccccCCCCceEEEEEecCcccccCCCccccccCccCCcCchHHHHHHHHHHHHHHHHH
Q 004299 563 HGRLIEAY-KRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLVWVHNNKQGFLDCEPYARLEEWLGKVADEYW 633 (763)
Q Consensus 563 nnRLI~~~-~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~~pthnKQdFe~t~~y~~L~~~L~e~l~eYW 633 (763)
|+=||.-- .-+-|.+ -+=|=|||+.+.| | ++-+...+.+...++++++.+.+++.++.
T Consensus 271 ~rVfI~d~~~~lLP~w-----l~FvrGVVDS~DL--p------LNvSRE~LQ~~~~l~~ir~~i~kki~~~L 329 (601)
T PRK14083 271 KRMLLSEEAENLLPDW-----AFFVRCVVNTDEL--R------PTASREALYEDDALAAVREELGEAIRKWL 329 (601)
T ss_pred eeeEeecchhhhhHHH-----HHHheeeeecCCC--C------CccCHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 99999643 3345543 2445599999876 3 35667778888888998888888776554
No 7
>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]
Probab=99.84 E-value=6.7e-22 Score=229.86 Aligned_cols=337 Identities=21% Similarity=0.261 Sum_probs=244.0
Q ss_pred EEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecC--CCcc
Q 004299 301 MLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ--GKDN 378 (763)
Q Consensus 301 ~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~e--g~~~ 378 (763)
+|++.|||.||+++++..+..|+. ....||+||+|+|+++|++|+++.++|+....+++++++++|++ ..+.
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 478999999999999999999843 45789999999999999999999999999999999999999964 5677
Q ss_pred EEEcccccCCCCcEEEEEeccchhhhhhhhHHhHhhhCCCchh--hHHHhhhcccCCCCCcEEEEEcccccC-Ccceeec
Q 004299 379 LEIPIVSYYRKGQFMELDTVVQSEATAKYNLKSIKEFSPFNKY--LIGEKAGLFQDKCTGTQIYIWNLDQWG-SNYCLEW 455 (763)
Q Consensus 379 i~VPi~s~~~~Gt~I~l~lk~~~e~~~~~~L~~I~kySpF~s~--pI~e~~~~~~~~~~GT~IiI~NL~r~~-~~~ELdF 455 (763)
++||+++|..++..+.. .....++++|.+||+|.+. .+.+... +.....||.+||.|+++.- +.++++|
T Consensus 75 vvvP~~t~~~~~~~~~~-------~k~~~~l~~~~c~sfwKag~~~~a~~~~-~~~~~G~~~~iivhpkflhsnatshk~ 146 (775)
T KOG1845|consen 75 VVVPCPTFNPRTREIVT-------EKFAFSLEAIYCRSFWKAGDYLLAELDV-IIGKSGGTLHIIVHPKFLHSNATSHKW 146 (775)
T ss_pred ceecccccccccccccc-------cccccccchhhhcCcccccchhcccccc-eeccCCceeEEEEehhhhcCCCccccc
Confidence 89999999988766543 1245678899999999873 2322221 1222345888888888763 6788888
Q ss_pred cCCCCCCCCCccCcceeecccccCCCCcccccCcccchHHHHHHHhhcCCCeEEEEcCeEecccccccccC--cceeecc
Q 004299 456 DNGLNGGSSFHQGDILIRSRRIRSRPGQISQKVPLDYSLRSYLEVIFLVPRMKIYVQGSLVRSRPLAKSLN--KTCVETG 533 (763)
Q Consensus 456 d~d~~~~~~~~~~DI~i~~~~~~~~~~q~~~~~p~~ySLRaYLSiLYL~Prm~I~LnGkkV~~~~i~~~L~--~t~v~~~ 533 (763)
..| ..||+|+.+ .+.++-. +.|+.++|+.|+|.|++++..|+++.+..+-. .+++.+.
T Consensus 147 a~~--------a~aeLldna---------lDEi~~~---~tf~~vd~I~p~~d~~i~a~~v~~~~~s~~gg~~~~~~i~~ 206 (775)
T KOG1845|consen 147 AKG--------AIAELLDNA---------LDEITNG---ATFVRVDYINPVMDIFIRALVVQLKRISDDGGGMKPEVIRK 206 (775)
T ss_pred ccC--------hhhhhcccc---------ccccccc---cceEEeeeecccccccceeEEeeccceeccccccCHHHHHH
Confidence 765 478887653 1223322 44599999999999999999999887554322 1222211
Q ss_pred ----------cccceeEEEEEcccccccccccceEEEEEeCeEeeeeeecccccccCCCCceEEEEEecCcccccCCCcc
Q 004299 534 ----------IIMGKSAHLTLGRCQLEWEQMNCGIFLYWHGRLIEAYKRVGGMIHNGDTGRGVIGVIDVSDLMDEGNGLV 603 (763)
Q Consensus 534 ----------~i~~~~V~It~Gf~~~e~~~~~~Gi~VY~nnRLI~~~~kVg~q~~~~~~grGVIGVve~~~l~~p~~~~~ 603 (763)
+......+...||... ....|..+|+-+|. +..++.++.+.||++..+||..
T Consensus 207 ~m~l~~~~k~e~~~tv~q~~~gfkts---t~rlGa~~i~~~R~---------~~~~~~kstqsiglls~tfL~~------ 268 (775)
T KOG1845|consen 207 CMSLGYSSKKEANSTVGQYGNGFKTS---TMRLGADAIVFSRC---------ESRRGLKSTQSIGLLSYTFLRK------ 268 (775)
T ss_pred HHHhhhhhhhhhhhhhhhhccccccc---hhhhccceeEeehh---------hhhccCCcceeEEEEEEeeecc------
Confidence 1111233345566553 23388889998887 3334567889999999998743
Q ss_pred ccccCccCCcCchHHHHHHHHHHHHHHHHHhhccccccccc--ccCCCCCCCceeecccchhhccCCCCCCCCCCCCCcc
Q 004299 604 WVHNNKQGFLDCEPYARLEEWLGKVADEYWDNKFDSLNVVK--DGALYKPDQEWVQCNKCRKWRMLDPGFDTKSLPVEWF 681 (763)
Q Consensus 604 ~pthnKQdFe~t~~y~~L~~~L~e~l~eYW~~~~~~~~~~~--~~~~~~~~~~WVQCd~C~KWR~Lp~~~~~~~lp~~W~ 681 (763)
|+ |+||...- +|++...+.-.++|.. +-+.+ +..-..+.... ..|+||+..+...+ -++..|+
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----ILYKSGVDWAVNLEIEVT---ERFLKWSPYSHLLD--LLGQNSV 333 (775)
T ss_pred --cc-CCceeEec---chhhhhhhcccccccc----eeeccccccceeeeeHHH---HHHhhcCccccHHH--Hhhhhhh
Confidence 78 99999777 7888888888888865 21111 11111111111 17999999999875 6888999
Q ss_pred ccCCC--CCCCCCCCcccccCCcee
Q 004299 682 CYMKP--FEGLCDLPEQKVDAGVVT 704 (763)
Q Consensus 682 C~mnp--~~~sC~~pEe~~~~~v~~ 704 (763)
|..++ .+..|.++..+....++-
T Consensus 334 ~~~~~~~ef~~~~~~~~~~g~~~I~ 358 (775)
T KOG1845|consen 334 QYSKDFPEFGHQFNIMNKPGTDVII 358 (775)
T ss_pred hhccccchhcchhhhccCCCceeee
Confidence 99997 479999999888877763
No 8
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=99.79 E-value=1.5e-19 Score=203.15 Aligned_cols=169 Identities=27% Similarity=0.341 Sum_probs=135.0
Q ss_pred hHhhhccccccCHHHHHHHHHHccHHHhhcccccccc-----cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHH
Q 004299 243 YLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIY-----FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV 317 (763)
Q Consensus 243 fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~-----~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~ 317 (763)
+++++++.+ ..+++|||.||.||..+.+++++. ...+.|.|. .| .+..+|+|.|+|+|||.+||.
T Consensus 50 ii~s~YS~k----EvFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~--~n----k~~~tlti~DtGIGMTk~dLv 119 (656)
T KOG0019|consen 50 VAKSLYSHK----EVFLRELISNASDALEKLRYLELKGDEKALPELEIRII--TN----KDKRTITIQDTGIGMTKEDLV 119 (656)
T ss_pred HHHHhhcch----HHHHHhhhccccchHHHHHHHhhcCccccccceeEEec--cC----CCcceEEEEecCCCcCHHHHH
Confidence 445555444 366999999999999999988763 336677665 23 357899999999999999999
Q ss_pred Hhhh-cccCC--------C-CCCCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccC
Q 004299 318 RMTY-FGHKQ--------P-DADDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYY 387 (763)
Q Consensus 318 ~~l~-fG~S~--------K-~~~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~ 387 (763)
++++ +..|. + ..++.+.|||||+||+||++ ++++|.|+||+.+.. ++.|.+ .+.+.++|...+-.
T Consensus 120 nnLGTIAkSGtK~Fmealkea~ad~~~IGQFGvGFYSayl-VAdkV~V~tk~~~~e--~y~Wes--~~~gs~~v~~~~~~ 194 (656)
T KOG0019|consen 120 NNLGTIAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAFM-VADRVVVTTRHPADE--GLQWTS--NGRGSYEIAEASGL 194 (656)
T ss_pred hhhhhhhhcccHHHHHHHHhcccchhhhhhcccchhhhhh-hhheeEEeeccCCCc--ceeeec--CCCCceEEeeccCc
Confidence 9986 44431 2 23467899999999999999 999999999998875 777876 56677877665557
Q ss_pred CCCcEEEEEecc-chhhhhhhhHHh-HhhhCCCchhhHHHh
Q 004299 388 RKGQFMELDTVV-QSEATAKYNLKS-IKEFSPFNKYLIGEK 426 (763)
Q Consensus 388 ~~Gt~I~l~lk~-~~e~~~~~~L~~-I~kySpF~s~pI~e~ 426 (763)
.+||+|+++++. +.++..+.+++. |+|||.|.++||+-.
T Consensus 195 ~rGTki~l~lKe~~~ey~ee~rikeiVKK~S~Fv~yPI~l~ 235 (656)
T KOG0019|consen 195 RTGTKIVIHLKEGDCEFLEEKRIKEVVKKYSNFVSYPIYLN 235 (656)
T ss_pred cccceEEeeehhhhhhhccHhHHHHHHhhccccccccchhh
Confidence 799999999997 458888888866 999999999999843
No 9
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=3.2e-18 Score=187.79 Aligned_cols=169 Identities=23% Similarity=0.334 Sum_probs=128.3
Q ss_pred hhHhhhccccccCHHHHHHHHHHccHHHhhcccccccc-------cccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 242 SYLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIY-------FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 242 ~fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~-------~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
-.+.|++...+ .+++|||+||.||..+.|.++|+ -.+++|.|.. | +.+..|.|.|.|+|||++
T Consensus 87 lIINSLY~NKe----IFLRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~--D----ke~klLhi~DtGiGMT~e 156 (785)
T KOG0020|consen 87 LIINSLYRNKE----IFLRELISNASDALDKIRLLALTDKDVLGETEELEIKIKA--D----KEKKLLHITDTGIGMTRE 156 (785)
T ss_pred HHHHHHhhhhH----HHHHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEee--c----hhhCeeeEecccCCccHH
Confidence 34566665443 55999999999999999998874 2256777763 3 246789999999999999
Q ss_pred HHHHhhh-cccCC------CC---C----CCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEE
Q 004299 315 DVVRMTY-FGHKQ------PD---A----DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLE 380 (763)
Q Consensus 315 eL~~~l~-fG~S~------K~---~----~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~ 380 (763)
+|.++++ +..|. |- . ...+.|||||+||++|++ ++++|.|.||+++.. .++|.+ ....|.
T Consensus 157 dLi~NLGTIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfL-VAD~vvVtsKhNdD~--QyiWES---dan~Fs 230 (785)
T KOG0020|consen 157 DLIKNLGTIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFL-VADRVVVTSKHNDDS--QYIWES---DANSFS 230 (785)
T ss_pred HHHHhhhhhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhh-hcceEEEEeccCCcc--ceeeec---cCccee
Confidence 9999986 33331 10 0 024789999999999999 999999999998753 345554 233677
Q ss_pred Eccccc---CCCCcEEEEEeccch-hhhhhhhHHh-HhhhCCCchhhHHHh
Q 004299 381 IPIVSY---YRKGQFMELDTVVQS-EATAKYNLKS-IKEFSPFNKYLIGEK 426 (763)
Q Consensus 381 VPi~s~---~~~Gt~I~l~lk~~~-e~~~~~~L~~-I~kySpF~s~pI~e~ 426 (763)
|....| ..+||.|.|+++++. +++.+..++. |.|||.|+.+||..+
T Consensus 231 vseDprg~tL~RGt~ItL~LkeEA~dyLE~dtlkeLvkkYSqFINFpI~lW 281 (785)
T KOG0020|consen 231 VSEDPRGNTLGRGTEITLYLKEEAGDYLEEDTLKELVKKYSQFINFPISLW 281 (785)
T ss_pred eecCCCCCcccCccEEEEEehhhhhhhcchhHHHHHHHHHHHhcCCceeee
Confidence 744433 468999999999876 7888888865 999999999999754
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=99.70 E-value=2.7e-17 Score=157.11 Aligned_cols=95 Identities=35% Similarity=0.529 Sum_probs=78.9
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCC-CCCCc
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDA-DDPNR 334 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~-~~~~~ 334 (763)
+.||+|||+||+||.|+ .|.|.|+. + ..+...|+|.|||.||+.++|.+++.+|.+++.. .....
T Consensus 4 ~~al~ElI~Ns~DA~a~---------~I~I~i~~--~---~~~~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~ 69 (137)
T PF13589_consen 4 EDALRELIDNSIDAGAT---------NIKISIDE--D---KKGERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQS 69 (137)
T ss_dssp THHHHHHHHHHHHHHHH---------HEEEEEEE--E---TTTTTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGG
T ss_pred HHHHHHHHHHHHHccCC---------EEEEEEEc--C---CCCCcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhc
Confidence 58999999999999999 77888774 1 1246899999999999999999999999987642 13678
Q ss_pred cccccccccccccccCCeEEEEEeeCCCCc
Q 004299 335 IGRFGVGFKTGAMRLGKDALVLTQTADSRS 364 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V~SK~~~~~s 364 (763)
+|+||+|+|.|++++|+.+.|.|++.+...
T Consensus 70 ~G~~G~G~k~A~~~~~~~~~v~S~~~~~~~ 99 (137)
T PF13589_consen 70 IGRFGIGLKLAIFSLGDRVEVISKTNGESF 99 (137)
T ss_dssp GGGGTSGCGGGGGGTEEEEEEEEESTTSSS
T ss_pred CCCcceEHHHHHHHhcCEEEEEEEECCCCc
Confidence 999999999999999999999999998754
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=99.56 E-value=7.6e-16 Score=123.98 Aligned_cols=45 Identities=44% Similarity=1.005 Sum_probs=31.3
Q ss_pred CceeecccchhhccCCCCCCC--CCCCCCccccCCCC--CCCCCCCccc
Q 004299 653 QEWVQCNKCRKWRMLDPGFDT--KSLPVEWFCYMKPF--EGLCDLPEQK 697 (763)
Q Consensus 653 ~~WVQCd~C~KWR~Lp~~~~~--~~lp~~W~C~mnp~--~~sC~~pEe~ 697 (763)
+.|||||.|+|||+||.+++. ..+|+.|+|+||++ +++|++|||.
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 379999999999999999877 78999999999985 6999999985
No 12
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=99.35 E-value=3.5e-12 Score=140.78 Aligned_cols=138 Identities=22% Similarity=0.243 Sum_probs=109.6
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDP 332 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~ 332 (763)
-+.++|.|||+||+||+..+.+++ .+.|.|+.+ +.+...+.|+|||.|++++++.++|+ +-+++|.....
T Consensus 36 sL~~tv~ElV~NSLDA~eeaGILP----dI~v~I~~~-----~~d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~~~ 106 (538)
T COG1389 36 SLTTTVHELVTNSLDACEEAGILP----DIKVEIERI-----GKDHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHRNI 106 (538)
T ss_pred HHHHHHHHHHhcchhhHHhcCCCC----ceEEEEEec-----CCceEEEEEecCCCCCChhHhHHHHHHHhccchhhhhh
Confidence 367999999999999999988776 788888742 34678999999999999999999996 77777765578
Q ss_pred Ccccccccccccc----ccccCCeEEEEEeeCCCCceeEEEEEecC-CCccEEEcccccC----CCCcEEEEEeccc
Q 004299 333 NRIGRFGVGFKTG----AMRLGKDALVLTQTADSRSIAFLSQSLNQ-GKDNLEIPIVSYY----RKGQFMELDTVVQ 400 (763)
Q Consensus 333 ~~IGqFGiGfKsA----smrLG~~v~V~SK~~~~~svg~ls~sf~e-g~~~i~VPi~s~~----~~Gt~I~l~lk~~ 400 (763)
++.||+|+|.+.| -|..|+.+.|+|++.++..+...+...+. .++..+|.-..+. -+||.|+++++..
T Consensus 107 QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kNEp~Iv~r~~~~~~~~~hGT~Vel~~~~~ 183 (538)
T COG1389 107 QSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKNEPEIVERGEVENPGGWHGTRVELELKGV 183 (538)
T ss_pred hccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCCcchhhhcccccCCCCCCceEEEEEeccc
Confidence 9999999999875 47899999999999998766666655432 3445555443332 3799999998754
No 13
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=99.20 E-value=1.4e-09 Score=127.60 Aligned_cols=136 Identities=21% Similarity=0.270 Sum_probs=92.4
Q ss_pred ecChhhHhhhcc--ccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHH
Q 004299 238 RADPSYLQTLGQ--AHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD 315 (763)
Q Consensus 238 ~~~p~fL~s~~t--sh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~ee 315 (763)
.+++...+.++. .- .-|.++|.|||+||+||+|+ .|.|.|.. ++...|+|.|||.||++++
T Consensus 5 ~L~~~v~~~IaAgevI-~~~~svvkElveNsiDAgat---------~I~v~i~~-------~g~~~i~V~DnG~Gi~~~~ 67 (617)
T PRK00095 5 LLPPQLANQIAAGEVV-ERPASVVKELVENALDAGAT---------RIDIEIEE-------GGLKLIRVRDNGCGISKED 67 (617)
T ss_pred ECCHHHHHHhcCcCcc-cCHHHHHHHHHHHHHhCCCC---------EEEEEEEe-------CCeEEEEEEEcCCCCCHHH
Confidence 455566655552 22 35899999999999999999 77777752 2456899999999999999
Q ss_pred HHHhhhcccCCCCCC-----CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccCCCC
Q 004299 316 VVRMTYFGHKQPDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKG 390 (763)
Q Consensus 316 L~~~l~fG~S~K~~~-----~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~~~G 390 (763)
+..++....++|... ...+.|..|.|+.+.+ .++ +++|.||+.+.. .|+ ...|..|.- +.+. ..-...|
T Consensus 68 ~~~~~~~~~tsKi~~~~dl~~~~t~GfrGeAL~sI~-~vs-~l~i~s~~~~~~-~~~-~~~~~~G~~-~~~~-~~~~~~G 141 (617)
T PRK00095 68 LALALARHATSKIASLDDLEAIRTLGFRGEALPSIA-SVS-RLTLTSRTADAA-EGW-QIVYEGGEI-VEVK-PAAHPVG 141 (617)
T ss_pred HHHHhhccCCCCCCChhHhhccccCCcchhHHHhhh-hce-EEEEEEecCCCC-ceE-EEEecCCcC-ccee-cccCCCC
Confidence 999887667766532 2367899999987544 354 899999997642 233 223444421 1111 1112479
Q ss_pred cEEEEE
Q 004299 391 QFMELD 396 (763)
Q Consensus 391 t~I~l~ 396 (763)
|.|++.
T Consensus 142 T~V~v~ 147 (617)
T PRK00095 142 TTIEVR 147 (617)
T ss_pred CEEEec
Confidence 998764
No 14
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.12 E-value=4.2e-10 Score=121.58 Aligned_cols=137 Identities=20% Similarity=0.270 Sum_probs=90.3
Q ss_pred ecChhhHhhhcccc-ccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 238 RADPSYLQTLGQAH-SGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 238 ~~~p~fL~s~~tsh-~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
.+++.-.+.++... ...+..||.|||+||+||+|+ .+.|.+.. .+...|+|.|||.||+++++
T Consensus 5 ~l~~~~~~~i~s~~~i~~~~~~l~eLi~Na~dA~a~---------~I~i~~~~-------~~~~~i~V~DnG~Gi~~~~l 68 (312)
T TIGR00585 5 PLPPELVNKIAAGEVIERPASVVKELVENSLDAGAT---------RIDVEIEE-------GGLKLIEVSDNGSGIDKEDL 68 (312)
T ss_pred ECCHHHHHHHhCcCchhhHHHHHHHHHHHHHHCCCC---------EEEEEEEe-------CCEEEEEEEecCCCCCHHHH
Confidence 45566665554311 134889999999999999998 66666652 12346999999999999999
Q ss_pred HHhhhcccCCCCCC-----CCCccccccccccccccccCCeEEEEEee-CCCCceeEEEEEecCCCccEEEcccccCCCC
Q 004299 317 VRMTYFGHKQPDAD-----DPNRIGRFGVGFKTGAMRLGKDALVLTQT-ADSRSIAFLSQSLNQGKDNLEIPIVSYYRKG 390 (763)
Q Consensus 317 ~~~l~fG~S~K~~~-----~~~~IGqFGiGfKsAsmrLG~~v~V~SK~-~~~~svg~ls~sf~eg~~~i~VPi~s~~~~G 390 (763)
...+..++++|... .....|..|.|+.+.+. ++ +++|.||+ .+. ..++.+. . +|. .+.-....-...|
T Consensus 69 ~~~~~~~~tsk~~~~~~~~~~~~~G~rG~al~si~~-~s-~~~i~S~~~~~~-~~~~~~~-~-~g~-~~~~~~~~~~~~G 142 (312)
T TIGR00585 69 PLACERHATSKIQSFEDLERIETLGFRGEALASISS-VS-RLTITTKTSAAD-GLAWQAL-L-EGG-MIEEIKPAPRPVG 142 (312)
T ss_pred HHHhhCCCcCCCCChhHhhcccccCccchHHHHHHh-hC-cEEEEEeecCCC-cceEEEE-E-CCC-cCcccccccCCCc
Confidence 99887666555431 34678999999875544 55 89999998 333 3444443 2 222 1111112223579
Q ss_pred cEEEEE
Q 004299 391 QFMELD 396 (763)
Q Consensus 391 t~I~l~ 396 (763)
|.|++.
T Consensus 143 TtV~v~ 148 (312)
T TIGR00585 143 TTVEVR 148 (312)
T ss_pred cEEEEc
Confidence 998874
No 15
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=99.03 E-value=5.8e-10 Score=131.08 Aligned_cols=136 Identities=23% Similarity=0.295 Sum_probs=87.0
Q ss_pred cChhhHhhhcc--ccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 239 ADPSYLQTLGQ--AHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 239 ~~p~fL~s~~t--sh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
+++.-.+.++. -- +-|.++++|||+||+||+|+ .|.|.++ ++|...|.|.|||+||+++|+
T Consensus 7 L~~~l~nqIAAGEVI-erPaSVVKELVENSlDAGAt---------~I~I~ve-------~gG~~~I~V~DNG~Gi~~~Dl 69 (638)
T COG0323 7 LPPDLVNQIAAGEVI-ERPASVVKELVENSLDAGAT---------RIDIEVE-------GGGLKLIRVRDNGSGIDKEDL 69 (638)
T ss_pred CCHHHHHHhccccee-ecHHHHHHHHHhcccccCCC---------EEEEEEc-------cCCccEEEEEECCCCCCHHHH
Confidence 34444444442 22 46999999999999999999 6677665 346788999999999999999
Q ss_pred HHhhhcccCCCCCC--CCCccccccc-cccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccE-EEcccccCCCCcE
Q 004299 317 VRMTYFGHKQPDAD--DPNRIGRFGV-GFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNL-EIPIVSYYRKGQF 392 (763)
Q Consensus 317 ~~~l~fG~S~K~~~--~~~~IGqFGi-GfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i-~VPi~s~~~~Gt~ 392 (763)
.-++.-..++|-.. +...|--||- |=..+++.--.+++|.||+.+. ..|+ +.+.+|..-. .+. +.-...||.
T Consensus 70 ~la~~rHaTSKI~~~~DL~~I~TlGFRGEAL~SIasVsrlti~Srt~~~-~~~~--~~~~~g~~~~~~~~-p~a~~~GTt 145 (638)
T COG0323 70 PLALLRHATSKIASLEDLFRIRTLGFRGEALASIASVSRLTITSRTAEA-SEGT--QIYAEGGGMEVTVK-PAAHPVGTT 145 (638)
T ss_pred HHHHhhhccccCCchhHHHHhhccCccHHHHHHHHhhheeEEEeecCCc-CceE--EEEecCCccccccc-CCCCCCCCE
Confidence 99886555566432 3233444443 3334566667899999995543 3333 3332333222 221 222334999
Q ss_pred EEE
Q 004299 393 MEL 395 (763)
Q Consensus 393 I~l 395 (763)
|++
T Consensus 146 VeV 148 (638)
T COG0323 146 VEV 148 (638)
T ss_pred EEe
Confidence 876
No 16
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=98.89 E-value=4.1e-08 Score=113.00 Aligned_cols=101 Identities=26% Similarity=0.378 Sum_probs=71.3
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPN 333 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~~ 333 (763)
+..+|.|||+||+||.+...... .+.|.+... + .+.+...|.|.|||.||+++++.++|. |.++++......
T Consensus 37 L~qVLkNLIeNAIDa~~~~gilp----~I~I~I~~~-~--~~~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~~~~~~ 109 (535)
T PRK04184 37 LYTTVKELVDNSLDACEEAGILP----DIKIEIKRV-D--EGKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKFHNLRQ 109 (535)
T ss_pred HHHHHHHHHHHHHHHhhhcCCCc----eEEEEEEEc-c--CCCcEEEEEEEcCCCCCCHHHHHHHhhhhhcccccccccc
Confidence 56899999999999998732111 355555421 0 012346799999999999999999885 556555422246
Q ss_pred ccccccccccccc----cccCCeEEEEEeeCCC
Q 004299 334 RIGRFGVGFKTGA----MRLGKDALVLTQTADS 362 (763)
Q Consensus 334 ~IGqFGiGfKsAs----mrLG~~v~V~SK~~~~ 362 (763)
..|++|+|+.++. +..|..+.|.|+..+.
T Consensus 110 s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g 142 (535)
T PRK04184 110 SRGQQGIGISAAVLYAQMTTGKPVRVISSTGGS 142 (535)
T ss_pred CCCCCCcchHHHHHHHHHhcCCcEEEEEecCCC
Confidence 7799999998754 3346779999987654
No 17
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=98.72 E-value=7e-08 Score=113.79 Aligned_cols=135 Identities=20% Similarity=0.292 Sum_probs=89.0
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDP 332 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~ 332 (763)
++..+|.|||+||+||.+...... .+.|.+.. ..+...|.|.|||.||+++++.++|. |.+++|.....
T Consensus 46 ~L~tVLkNLIeNALDAs~~~gilp----~I~V~Ie~------~g~~v~I~VeDNG~GIp~EdLp~IFerf~~tSKf~~~~ 115 (795)
T PRK14868 46 GLVTAVKEAVDNALDATEEAGILP----DIYVEIEE------VGDYYRLVVEDNGPGITKEQIPKVFGKLLYGSRFHARE 115 (795)
T ss_pred HHHHHHHHHHHHHHHhCcccCCCc----eEEEEEEE------CCCEEEEEEEEcCCCCCHHHHHHHhhhhcccccccccc
Confidence 477999999999999987631100 35555542 12235799999999999999999985 77676643334
Q ss_pred Cccccccccccccc----cccCCeEEEEEeeCCCCceeEEEEEecCCC-c-cEE-EcccccC-CCCcEEEEEec
Q 004299 333 NRIGRFGVGFKTGA----MRLGKDALVLTQTADSRSIAFLSQSLNQGK-D-NLE-IPIVSYY-RKGQFMELDTV 398 (763)
Q Consensus 333 ~~IGqFGiGfKsAs----mrLG~~v~V~SK~~~~~svg~ls~sf~eg~-~-~i~-VPi~s~~-~~Gt~I~l~lk 398 (763)
...|+.|+|+.++. +..|..+.|.|+..+......+......+. + .+. .....|. .+||.|++.+.
T Consensus 116 ~srG~rG~GLglai~~sqlt~GgpI~I~S~~~~~~~g~~~~L~Id~gkNep~I~~~~~~~~~~~~GT~IeV~Lf 189 (795)
T PRK14868 116 QSRGQQGIGISAAVLYSQLTSGKPAKITSRTQGSEEAQYFELIIDTDTNEPEISVEETTTWDRPHGTRIELEME 189 (795)
T ss_pred cCCCCCceehHHHHHHHHHcCCCcEEEEeCCCCCCceeEEEEEEecCCCccceecceecccCCCCceEEEEEEE
Confidence 67899999998754 445888999999876543222333333332 2 221 1112333 47999988763
No 18
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=98.68 E-value=1.7e-07 Score=107.08 Aligned_cols=101 Identities=25% Similarity=0.294 Sum_probs=73.3
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDP 332 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~ 332 (763)
.+..++.|||+||+||.+...... .+.|.+.. .+.+...|+|.|||.||+++++.++|. |.+++|.....
T Consensus 28 ~L~~VlkELVeNAIDA~~~~g~~p----~I~V~i~~-----~g~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK~~~~~ 98 (488)
T TIGR01052 28 SLTTVIHELVTNSLDACEEAGILP----DIKVEIEK-----IGKDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRII 98 (488)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCc----eEEEEEEE-----CCCceEEEEEEECCCCCCHHHHHhhhhhccccCcccccc
Confidence 466999999999999988632111 35555542 111234799999999999999999885 66776654345
Q ss_pred Cccccccccccccc----cccCCeEEEEEeeCCCC
Q 004299 333 NRIGRFGVGFKTGA----MRLGKDALVLTQTADSR 363 (763)
Q Consensus 333 ~~IGqFGiGfKsAs----mrLG~~v~V~SK~~~~~ 363 (763)
...|.+|+|+.++. +..|+.+.|.|+..+..
T Consensus 99 ~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~ 133 (488)
T TIGR01052 99 QSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEI 133 (488)
T ss_pred ccCCCccEehhHHHHHHHHcCCceEEEEEecCCce
Confidence 67899999998653 44567799999988653
No 19
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=98.47 E-value=2.7e-07 Score=104.94 Aligned_cols=139 Identities=22% Similarity=0.360 Sum_probs=95.5
Q ss_pred eecChhhHhhhcc--ccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 237 VRADPSYLQTLGQ--AHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 237 v~~~p~fL~s~~t--sh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
-+++......++. .. .-|..||.|||.||+||+++ .|.|.+. .+|...|.|.|||.||-++
T Consensus 9 rrLde~VVNRIAAGEVI-~RP~NAlKEliENSLDA~ST---------~I~V~vk-------~GGLKLlQisDnG~GI~re 71 (694)
T KOG1979|consen 9 RRLDEDVVNRIAAGEVI-QRPVNALKELIENSLDANST---------SIDVLVK-------DGGLKLLQISDNGSGIRRE 71 (694)
T ss_pred hcCcHHHHhHhhccchh-hchHHHHHHHHhccccCCCc---------eEEEEEe-------cCCeEEEEEecCCCccchh
Confidence 4566666666653 22 35899999999999999999 5555554 2467889999999999999
Q ss_pred HHHHhh-hcccCCCCC-CCCCccccccc-cccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccCCCCc
Q 004299 315 DVVRMT-YFGHKQPDA-DDPNRIGRFGV-GFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQ 391 (763)
Q Consensus 315 eL~~~l-~fG~S~K~~-~~~~~IGqFGi-GfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~~~Gt 391 (763)
||.-.. +|-+|.-.+ .+...|.-||. |-..|+++-..+|+|.||+.+..+ |+ -.+|.+|.=. .-|-+.--.+||
T Consensus 72 Dl~ilCeRftTSKL~kFEDL~~lsTyGFRGEALASiShVA~VtV~TK~~~~~c-ay-rasY~DGkm~-~~pKpcAgk~GT 148 (694)
T KOG1979|consen 72 DLPILCERFTTSKLTKFEDLFSLSTYGFRGEALASISHVAHVTVTTKTAEGKC-AY-RASYRDGKMI-ATPKPCAGKQGT 148 (694)
T ss_pred hhHHHHHHhhhhhcchhHHHHhhhhcCccHHHHhhhhheeEEEEEEeecCcee-ee-EEEeeccccc-cCCCCccCCCce
Confidence 997654 566653222 25667778886 667899999999999999988643 22 2233333211 113334445788
Q ss_pred EEEE
Q 004299 392 FMEL 395 (763)
Q Consensus 392 ~I~l 395 (763)
.|++
T Consensus 149 ~I~v 152 (694)
T KOG1979|consen 149 IITV 152 (694)
T ss_pred EEEe
Confidence 7765
No 20
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=98.43 E-value=7.6e-07 Score=105.08 Aligned_cols=120 Identities=17% Similarity=0.186 Sum_probs=82.4
Q ss_pred HHHHHHHHHHccHHH----hhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-
Q 004299 255 IFGAIAELVDNSRDA----KATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY- 321 (763)
Q Consensus 255 ~f~AIaELIDNAiDA----~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~- 321 (763)
+...+.||||||+|+ .++ .|.|.|.. ...|+|.|||.||+.+.... +|+
T Consensus 38 l~~lv~EivdNaiDe~~ag~a~---------~I~V~i~~---------dg~I~V~DnGrGIP~~~~~~~~~~~~E~v~t~ 99 (631)
T PRK05559 38 LHHLVQEVIDNSVDEALAGHGK---------RIEVTLHA---------DGSVSVRDNGRGIPVGIHPEEGKSGVEVILTK 99 (631)
T ss_pred hhhhhhhhhccccchhhcCCCC---------EEEEEEeC---------CCcEEEEEcCCCCCcccccccCCcchheeeee
Confidence 678899999999999 444 66676651 24899999999999998877 554
Q ss_pred cccCCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcc-ccc--CCCCcEEEEE
Q 004299 322 FGHKQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSY--YRKGQFMELD 396 (763)
Q Consensus 322 fG~S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi-~s~--~~~Gt~I~l~ 396 (763)
+..++|..+ -..+.|..|+|+++... ++..++|.|++.+.. +.++|..|.-.-.++. ... ..+||.|++.
T Consensus 100 lhagsKf~~~~yk~SgGl~GvGls~vNa-lS~~l~V~s~r~g~~----~~~~f~~G~~~~~l~~~~~~~~~~~GT~V~f~ 174 (631)
T PRK05559 100 LHAGGKFSNKAYKFSGGLHGVGVSVVNA-LSSRLEVEVKRDGKV----YRQRFEGGDPVGPLEVVGTAGKRKTGTRVRFW 174 (631)
T ss_pred ccccCccCCccccccCcccccchhhhhh-heeeEEEEEEeCCeE----EEEEEECCcCccCccccccccCCCCCcEEEEE
Confidence 344455432 24679999999987666 889999999987642 4455543321111111 111 4579999875
Q ss_pred e
Q 004299 397 T 397 (763)
Q Consensus 397 l 397 (763)
.
T Consensus 175 P 175 (631)
T PRK05559 175 P 175 (631)
T ss_pred E
Confidence 4
No 21
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.36 E-value=2.9e-06 Score=99.85 Aligned_cols=99 Identities=25% Similarity=0.260 Sum_probs=70.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPN 333 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~~ 333 (763)
+..++.|||+||+||.+..... ..+.|.+.. .+.+...|.|.|||.||+++++.++|. |-+++|......
T Consensus 37 L~~VVkELVeNAIDA~~~~g~~----p~I~V~I~~-----~g~~~~~I~V~DNG~GIp~e~l~~iFerF~atSK~~~~~q 107 (659)
T PRK14867 37 MTTIIHELVTNSLDACEEAEIL----PDIKVEIEK-----LGSDHYKVAVEDNGPGIPPEFVPKVFGKMLAGSKMHRLIQ 107 (659)
T ss_pred HHHHHHHHHHHHHHHhhccCCC----ceEEEEEEE-----CCCcEEEEEEEeeCeeCCHHHHhhhhccccccCcccceec
Confidence 4488999999999999863211 145565542 111234699999999999999999986 555565432346
Q ss_pred ccccccccccccc----cccCCeEEEEEeeCCC
Q 004299 334 RIGRFGVGFKTGA----MRLGKDALVLTQTADS 362 (763)
Q Consensus 334 ~IGqFGiGfKsAs----mrLG~~v~V~SK~~~~ 362 (763)
..|+.|+|+.++. +..|..+.|.|+..+.
T Consensus 108 S~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G 140 (659)
T PRK14867 108 SRGQQGIGAAGVLLFSQITTGKPLKITTSTGDG 140 (659)
T ss_pred cCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCC
Confidence 7899999997654 3458889999987554
No 22
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=98.35 E-value=1.3e-06 Score=103.09 Aligned_cols=119 Identities=18% Similarity=0.168 Sum_probs=81.1
Q ss_pred HHHHHHHHHccHH---H-hhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHH--------HHHhhh-c
Q 004299 256 FGAIAELVDNSRD---A-KATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD--------VVRMTY-F 322 (763)
Q Consensus 256 f~AIaELIDNAiD---A-~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~ee--------L~~~l~-f 322 (763)
..+|.||||||+| | .|+ .|.|.|.. ...|+|.|||.||+.++ +.-+|+ .
T Consensus 32 ~~lv~ElvdNsiDE~~ag~a~---------~I~V~i~~---------d~~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~l 93 (625)
T TIGR01055 32 NHLVQEVIDNSVDEALAGFAS---------IIMVILHQ---------DQSIEVFDNGRGMPVDIHPKEGVSAVEVILTTL 93 (625)
T ss_pred ceeehhhhhcccchhhcCCCC---------EEEEEEeC---------CCeEEEEecCCccCcccccccCCcHHHHhhhcc
Confidence 3579999999999 7 566 67777651 26899999999999988 666663 4
Q ss_pred ccCCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcc-cc--cCCCCcEEEEEe
Q 004299 323 GHKQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VS--YYRKGQFMELDT 397 (763)
Q Consensus 323 G~S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi-~s--~~~~Gt~I~l~l 397 (763)
..++|... -..+.|..|+|+++... ++..++|.|++.+.. +.++|..|.-...++. .. -...||.|++..
T Consensus 94 hagsK~~~~~~~~SgG~~GvGls~vna-lS~~l~v~~~r~g~~----~~~~~~~G~~~~~~~~i~~~~~~~~GT~V~F~P 168 (625)
T TIGR01055 94 HAGGKFSNKNYHFSGGLHGVGISVVNA-LSKRVKIKVYRQGKL----YSIAFENGAKVTDLISAGTCGKRLTGTSVHFTP 168 (625)
T ss_pred cccCCCCCCcceecCCCcchhHHHHHH-hcCeEEEEEEECCeE----EEEEEECCeEccccccccccCCCCCCeEEEEEE
Confidence 44445432 24689999999987666 899999999987753 4455543321111121 11 234799998754
No 23
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=98.26 E-value=1.4e-06 Score=101.04 Aligned_cols=121 Identities=17% Similarity=0.179 Sum_probs=74.2
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCC---
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDAD--- 330 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~--- 330 (763)
.+..|++|||+||+||+|+ .+.|.++ ..|...|+|.|||.|++..+..-+-.--+++|-..
T Consensus 20 sl~sAVKELvENSiDAGAT---------~I~I~~k-------dyG~d~IEV~DNG~GI~~~n~~~l~lkh~TSKi~~f~D 83 (672)
T KOG1978|consen 20 SLVSAVKELVENSIDAGAT---------AIDIKVK-------DYGSDSIEVSDNGSGISATDFEGLALKHTTSKIVSFAD 83 (672)
T ss_pred cHHHHHHHHHhcCcccCCc---------eeeEecC-------CCCcceEEEecCCCCCCccchhhhhhhhhhhcccchhh
Confidence 3679999999999999999 6666665 23678999999999999988766322223334221
Q ss_pred --CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccCCCCcEEEE
Q 004299 331 --DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMEL 395 (763)
Q Consensus 331 --~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~~~Gt~I~l 395 (763)
...+.|..|--+ ++.. -=.+++|.|++.. ..+|..+.- +..+.+.--.+.-...||+|.+
T Consensus 84 l~~l~T~GFRGEAL-SsLC-a~~dv~I~Trt~~-~~vgt~l~~--Dh~G~I~~k~~~ar~~GTTV~v 145 (672)
T KOG1978|consen 84 LAVLFTLGFRGEAL-SSLC-ALGDVMISTRSHS-AKVGTRLVY--DHDGHIIQKKPVARGRGTTVMV 145 (672)
T ss_pred hhhhhhhhhHHHHH-Hhhh-hccceEEEEeecc-CccceeEEE--ccCCceeeeccccCCCCCEEEH
Confidence 234566666554 3434 3357788888863 233333321 2223333212222357888864
No 24
>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=98.20 E-value=4.3e-06 Score=75.71 Aligned_cols=90 Identities=19% Similarity=0.272 Sum_probs=65.2
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..+|.||++||+++..... .+.|.+... .+...|+|.|||.||+.+++.+.+.-+.+.+. ....
T Consensus 6 l~~il~~ll~Na~~~~~~~~-------~I~i~~~~~------~~~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~--~~~~ 70 (111)
T PF02518_consen 6 LRQILSELLDNAIKHSPEGG-------KIDITIEED------DDHLSIEISDNGVGIPPEELEKLFEPFFTSDK--SETS 70 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHTS-------EEEEEEEEE------TTEEEEEEEESSSSTTHHHHHHHCSTTSHSSS--SSGG
T ss_pred HHHHHHHHHHHHHHHhcCCC-------EEEEEEEEe------cCeEEEEEEeccccccccccccchhhcccccc--cccc
Confidence 56889999999999988832 666766631 24678999999999999999999875554332 3456
Q ss_pred cccccccccccc---cccCCeEEEEEee
Q 004299 335 IGRFGVGFKTGA---MRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfKsAs---mrLG~~v~V~SK~ 359 (763)
.+.+|+||+.+- -+++-++.+.+..
T Consensus 71 ~~g~GlGL~~~~~~~~~~~g~l~~~~~~ 98 (111)
T PF02518_consen 71 ISGHGLGLYIVKQIAERHGGELTIESSE 98 (111)
T ss_dssp SSSSSHHHHHHHHHHHHTTEEEEEEEET
T ss_pred cCCCChHHHHHHHHHHHCCCEEEEEEcC
Confidence 677999997542 2355556666654
No 25
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=98.13 E-value=9.7e-06 Score=97.12 Aligned_cols=118 Identities=17% Similarity=0.194 Sum_probs=77.3
Q ss_pred HHHHHHHHHHccHH---Hh-hcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH----------HHHHhh
Q 004299 255 IFGAIAELVDNSRD---AK-ATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ----------DVVRMT 320 (763)
Q Consensus 255 ~f~AIaELIDNAiD---A~-A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e----------eL~~~l 320 (763)
+.-.+.||||||+| |+ ++ .|.|.|.. ...|+|.|||.||+.+ |+. |
T Consensus 38 Lhhlv~EivdNaiDE~~AG~a~---------~I~V~i~~---------dgsIsV~DnGrGIPvd~h~~~g~~~~Elv--l 97 (756)
T PRK14939 38 LHHMVYEVVDNAIDEALAGHCD---------DITVTIHA---------DGSVSVSDNGRGIPTDIHPEEGVSAAEVI--M 97 (756)
T ss_pred hhhhhhHhhcccccccccCCCC---------EEEEEEcC---------CCeEEEEEcCCcccCCcccccCCchhhhe--e
Confidence 34679999999999 76 66 66776651 2489999999999987 332 2
Q ss_pred h-cccCCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEc-ccccCCCCcEEEEE
Q 004299 321 Y-FGHKQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIP-IVSYYRKGQFMELD 396 (763)
Q Consensus 321 ~-fG~S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VP-i~s~~~~Gt~I~l~ 396 (763)
+ +..+.|..+ -.-+-|..|+|.++... ++..++|.|++.+.. +.++|..|.-.-.+. +..-...||.|++.
T Consensus 98 t~lhAggKfd~~~ykvSgGlhGvG~svvNA-lS~~l~v~v~r~gk~----~~q~f~~G~~~~~l~~~g~~~~~GT~V~F~ 172 (756)
T PRK14939 98 TVLHAGGKFDQNSYKVSGGLHGVGVSVVNA-LSEWLELTIRRDGKI----HEQEFEHGVPVAPLKVVGETDKTGTEVRFW 172 (756)
T ss_pred eeecccCCCCCCcccccCCccCccceEeeh-ccCeEEEEEEeCCeE----EEEEEecCccccCccccCCcCCCCcEEEEE
Confidence 2 223344322 23478999999986655 899999999987752 455564442111111 11124579999875
Q ss_pred e
Q 004299 397 T 397 (763)
Q Consensus 397 l 397 (763)
.
T Consensus 173 P 173 (756)
T PRK14939 173 P 173 (756)
T ss_pred E
Confidence 4
No 26
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=98.13 E-value=1.3e-05 Score=94.82 Aligned_cols=120 Identities=18% Similarity=0.172 Sum_probs=76.3
Q ss_pred HHHHHHHHHHccHH---Hh-hcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHH--------Hhhh-
Q 004299 255 IFGAIAELVDNSRD---AK-ATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVV--------RMTY- 321 (763)
Q Consensus 255 ~f~AIaELIDNAiD---A~-A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~--------~~l~- 321 (763)
+...+.||||||+| |+ |+ .|.|.|+. ...|+|.|||.||+.+.-. ..|+
T Consensus 38 l~~~v~ElvdNaiDe~~ag~a~---------~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~ 99 (638)
T PRK05644 38 LHHLVYEIVDNSIDEALAGYCD---------HIEVTINE---------DGSITVTDNGRGIPVDIHPKTGKPAVEVVLTV 99 (638)
T ss_pred HHhhhHHhhhcccccccCCCCC---------EEEEEEeC---------CCcEEEEEeCccccCCccCCCCCCchHHheee
Confidence 34578999999999 76 66 67777651 2389999999999986221 1233
Q ss_pred cccCCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcc-cccCCCCcEEEEEe
Q 004299 322 FGHKQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPI-VSYYRKGQFMELDT 397 (763)
Q Consensus 322 fG~S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi-~s~~~~Gt~I~l~l 397 (763)
+..+.|..+ -..+.|..|+|+++... ++..++|.|++.+. .+.++|..|.-.-.++. ..-...||.|+...
T Consensus 100 lhag~kfd~~~yk~s~G~~G~Gls~vna-lS~~~~v~t~r~g~----~~~~~~~~G~~~~~~~~~~~~~~~GT~I~F~P 173 (638)
T PRK05644 100 LHAGGKFGGGGYKVSGGLHGVGVSVVNA-LSTWLEVEVKRDGK----IYYQEYERGVPVTPLEVIGETDETGTTVTFKP 173 (638)
T ss_pred ecccCccCCCcccccCCccccchhhhhh-eeceEEEEEEeCCc----EEEEEEECCeEccCccccCCcCCCCcEEEEEE
Confidence 222333322 23478999999987666 89999999998765 23444533321111111 11235799998643
No 27
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=98.12 E-value=1e-05 Score=95.18 Aligned_cols=116 Identities=21% Similarity=0.258 Sum_probs=74.2
Q ss_pred HHHHHHHccHHHh----hcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-ccc
Q 004299 258 AIAELVDNSRDAK----ATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGH 324 (763)
Q Consensus 258 AIaELIDNAiDA~----A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~ 324 (763)
.+.||||||+||. |+ .|.|.|+. ...|+|.|||.||+.+.... .++ +-.
T Consensus 5 ~v~ElvdNAiD~~~~g~at---------~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lha 66 (594)
T smart00433 5 LVDEIVDNAADEALAGYMD---------TIKVTIDK---------DNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHA 66 (594)
T ss_pred EEeeehhcccchhccCCCC---------EEEEEEeC---------CCeEEEEEeCCceeCCccCcCCCCcHHHhhhhhcc
Confidence 4789999999998 66 67777662 23899999999999654321 122 212
Q ss_pred CCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecC-CC--ccEEEcccccCCCCcEEEEEe
Q 004299 325 KQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQ-GK--DNLEIPIVSYYRKGQFMELDT 397 (763)
Q Consensus 325 S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~e-g~--~~i~VPi~s~~~~Gt~I~l~l 397 (763)
+.|..+ ...+.|..|+|+++... ++..++|.|++.+.. +.++|.. |. ....+ ...-...||.|+...
T Consensus 67 g~kfd~~~~k~s~G~~G~Gls~vna-lS~~l~v~~~~~g~~----~~~~~~~~G~~~~~~~~-~~~~~~~GT~V~F~P 138 (594)
T smart00433 67 GGKFDDDAYKVSGGLHGVGASVVNA-LSTEFEVEVARDGKE----YKQSFSNNGKPLSEPKI-IGDTKKDGTKVTFKP 138 (594)
T ss_pred cCCCCCCCccccCCcccchHHHHHH-hcCceEEEEEeCCcE----EEEEEeCCCeECcccee-cCCCCCCCcEEEEEE
Confidence 233321 24588999999987665 889999999998653 4445533 21 11111 111235799998643
No 28
>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=98.02 E-value=2.5e-05 Score=92.85 Aligned_cols=119 Identities=18% Similarity=0.144 Sum_probs=76.8
Q ss_pred HHHHHHHHHHccHH---Hh-hcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH--------HHhhh-
Q 004299 255 IFGAIAELVDNSRD---AK-ATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV--------VRMTY- 321 (763)
Q Consensus 255 ~f~AIaELIDNAiD---A~-A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL--------~~~l~- 321 (763)
+...+.|||+||+| |+ ++ .|.|.|+. ...|+|.|||.||+.+.- ...++
T Consensus 31 l~~vv~Elv~NaiDe~~ag~a~---------~I~V~i~~---------~g~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~ 92 (654)
T TIGR01059 31 LHHLVYEVVDNSIDEAMAGYCD---------TINVTIND---------DGSVTVEDNGRGIPVDIHPEEGISAVEVVLTV 92 (654)
T ss_pred HHhhhHHhhhccccccccCCCC---------EEEEEEeC---------CCcEEEEEeCCCcCccccCcCCCCchHHheee
Confidence 45679999999999 77 66 67777651 235999999999998621 11222
Q ss_pred cccCCCCCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccE--EEcccccCCCCcEEEEEe
Q 004299 322 FGHKQPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNL--EIPIVSYYRKGQFMELDT 397 (763)
Q Consensus 322 fG~S~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i--~VPi~s~~~~Gt~I~l~l 397 (763)
+..+.|..+ -..+.|..|+|+++... +++.++|.|++.+.. +.++|..|.-.- .+ ...-...||.|+...
T Consensus 93 l~ag~kf~~~~~k~s~G~~G~gl~~ina-lS~~l~v~~~~~g~~----~~~~~~~G~~~~~l~~-~~~~~~~GT~V~F~p 166 (654)
T TIGR01059 93 LHAGGKFDKDSYKVSGGLHGVGVSVVNA-LSEWLEVTVFRDGKI----YRQEFERGIPLGPLEV-VGETKKTGTTVRFWP 166 (654)
T ss_pred ecccCccCCCcceecCCccchhHHHHHH-hcCeEEEEEEECCeE----EEEEEeCCCcccCcee-ccCCCCCCcEEEEEE
Confidence 222333322 24679999999987666 899999999987653 345554442111 11 112235799998654
No 29
>PLN03237 DNA topoisomerase 2; Provisional
Probab=97.47 E-value=0.00051 Score=86.77 Aligned_cols=91 Identities=18% Similarity=0.275 Sum_probs=60.3
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-cccC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHK 325 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S 325 (763)
+.-.+-|+|+||+|...+... ...+.|.|+. ....|+|.|||.||+-+--.+ +|+ +..+
T Consensus 78 L~kifdEIldNAvDe~~r~g~----~~~I~V~I~~--------~~gsIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAG 145 (1465)
T PLN03237 78 LYKIFDEILVNAADNKQRDPK----MDSLRVVIDV--------EQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTS 145 (1465)
T ss_pred hhhhHHHHhhhhHhHHhhcCC----CCEEEEEEEc--------CCCEEEEEecCccccCCCCCCCCCccceEEEEeeecc
Confidence 345689999999998643211 1266666652 146899999999998752111 122 2223
Q ss_pred CCCCC--CCCccccccccccccccccCCeEEEEEe
Q 004299 326 QPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQ 358 (763)
Q Consensus 326 ~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK 358 (763)
.+..+ -.-+-|+.|+|.+.+-. |+..++|.++
T Consensus 146 gkFdd~~yKvSGGlhGVGasvvNa-LS~~f~Vev~ 179 (1465)
T PLN03237 146 SNYDDNEKKTTGGRNGYGAKLTNI-FSTEFVIETA 179 (1465)
T ss_pred ccCCCCcceeeccccccCcccccc-ccCeeEEEEE
Confidence 44432 24678999999986655 8899999997
No 30
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.36 E-value=0.00055 Score=78.79 Aligned_cols=89 Identities=20% Similarity=0.278 Sum_probs=67.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
..+.+.-|||||+||.++.. ....+.+.+.. .++.-.|.|.|||+||+++....++..|+|.|.
T Consensus 428 litIlGNLidNA~eA~~~~~----~~k~I~l~i~~------~~~~lvieV~D~G~GI~~~~~~~iFe~G~Stk~------ 491 (537)
T COG3290 428 LVTILGNLIDNALEALLAPE----ENKEIELSLSD------RGDELVIEVADTGPGIPPEVRDKIFEKGVSTKN------ 491 (537)
T ss_pred HHHHHHHHHHHHHHHhhccC----CCcEEEEEEEe------cCCEEEEEEeCCCCCCChHHHHHHHhcCccccC------
Confidence 67899999999999998410 01256666663 234678999999999999999999999999874
Q ss_pred ccccccccc---ccccccCCeEEEEEee
Q 004299 335 IGRFGVGFK---TGAMRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfK---sAsmrLG~~v~V~SK~ 359 (763)
-+..|+|++ ...=++|..++|.+..
T Consensus 492 ~~~rGiGL~Lvkq~V~~~~G~I~~~s~~ 519 (537)
T COG3290 492 TGGRGIGLYLVKQLVERLGGSIEVESEK 519 (537)
T ss_pred CCCCchhHHHHHHHHHHcCceEEEeeCC
Confidence 356688886 3445677888888763
No 31
>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=97.35 E-value=0.00082 Score=79.85 Aligned_cols=121 Identities=17% Similarity=0.187 Sum_probs=72.1
Q ss_pred HHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-cccCCC
Q 004299 257 GAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHKQP 327 (763)
Q Consensus 257 ~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S~K 327 (763)
-.+.|+||||+|...... ...|.|.|.. ...++|.|||.||+.+--.. .|+ +-.+.|
T Consensus 37 hlv~EIvdNavDE~~ag~-----~~~I~V~i~~---------dgsitV~DnGrGIPv~~h~~~~~~~~E~v~t~LhaGgk 102 (637)
T TIGR01058 37 HLVWEIVDNSVDEVLAGY-----ADNITVTLHK---------DNSITVQDDGRGIPTGIHQDGNISTVETVFTVLHAGGK 102 (637)
T ss_pred eehhhhhcchhhhhhcCC-----CcEEEEEEcC---------CCeEEEEECCCcccCcccCcCCCccceeEEEEecccCc
Confidence 447799999999532210 1156666651 35899999999998642111 122 112233
Q ss_pred CCC--CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCC-C--ccEEEcccccCCCCcEEEEEe
Q 004299 328 DAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQG-K--DNLEIPIVSYYRKGQFMELDT 397 (763)
Q Consensus 328 ~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg-~--~~i~VPi~s~~~~Gt~I~l~l 397 (763)
..+ -.-+-|..|+|.+..-. |+..++|.+++.+. .+.++|..| . ....+. .....+||.|....
T Consensus 103 fd~~~ykvSGGlhGvG~svvNA-lS~~~~V~v~r~gk----~~~q~f~~Gg~~~~~l~~~-~~~~~~GT~V~F~P 171 (637)
T TIGR01058 103 FDQGGYKTAGGLHGVGASVVNA-LSSWLEVTVKRDGQ----IYQQRFENGGKIVQSLKKI-GTTKKTGTLVHFHP 171 (637)
T ss_pred CCCCcccccCCcccccccccce-eeceEEEEEEECCE----EEEEEEecCCcCcCCcccc-cCCCCCceEEEEEe
Confidence 321 24567999999986555 89999999987764 344566543 2 111111 12235799887655
No 32
>PLN03128 DNA topoisomerase 2; Provisional
Probab=97.33 E-value=0.00067 Score=84.80 Aligned_cols=91 Identities=19% Similarity=0.263 Sum_probs=60.0
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-cccC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHK 325 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S 325 (763)
+.-.+-|+||||+|...+... ...+.|.|+. +...|+|.|||.||+-+--.+ +|+ +-.+
T Consensus 53 L~ki~dEIldNAvDe~~~~g~----~~~I~V~i~~--------~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaG 120 (1135)
T PLN03128 53 LYKIFDEILVNAADNKQRDPS----MDSLKVDIDV--------EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTS 120 (1135)
T ss_pred HHHHHHHHHHHHHHHhhhcCC----CcEEEEEEEc--------CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccc
Confidence 345689999999998633211 1266666652 136899999999998752211 111 2223
Q ss_pred CCCCC--CCCccccccccccccccccCCeEEEEEe
Q 004299 326 QPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQ 358 (763)
Q Consensus 326 ~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK 358 (763)
.|..+ -.-+-|+.|+|.+.+-. ++..++|.+.
T Consensus 121 gkFdd~~ykvSGGlhGvGasvvNa-LS~~f~Vev~ 154 (1135)
T PLN03128 121 SNFDDNEKKTTGGRNGYGAKLANI-FSTEFTVETA 154 (1135)
T ss_pred cccCCccceeeccccCCCCeEEEe-ecCeEEEEEE
Confidence 44322 24578999999986555 8899999997
No 33
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=97.31 E-value=0.00013 Score=84.99 Aligned_cols=121 Identities=19% Similarity=0.259 Sum_probs=72.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCC-----C
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPD-----A 329 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~-----~ 329 (763)
+..++.|||-||+||.|+ .+.|.|.+. ...+.|.|||.||+++++...-.--+++|- .
T Consensus 22 la~~VeElv~NSiDA~At---------~V~v~V~~~--------t~sv~ViDdG~G~~rdDl~~lg~ry~TSK~h~~ndl 84 (1142)
T KOG1977|consen 22 LAQCVEELVLNSIDAEAT---------CVAVRVNME--------TFSVQVIDDGFGMGRDDLEKLGNRYFTSKCHSVNDL 84 (1142)
T ss_pred HHHHHHHHHhhccccCce---------EEEEEecCc--------eeEEEEEecCCCccHHHHHHHHhhhhhhhceecccc
Confidence 568999999999999999 667777641 467999999999999999875432222232 1
Q ss_pred CCCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEccc-ccCCCCcEEEE
Q 004299 330 DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIV-SYYRKGQFMEL 395 (763)
Q Consensus 330 ~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~-s~~~~Gt~I~l 395 (763)
......|.-|-.+. ++.=-..+.|.|++.+-.. ++.-..|..|..-..+++. +....||.|++
T Consensus 85 ~~~~tyGfRGeALa--sIsd~s~l~v~skkk~r~~-~~~~kk~~~gs~~~~l~iD~~R~~sGTtVtV 148 (1142)
T KOG1977|consen 85 ENPRTYGFRGEALA--SISDMSSLVVISKKKNRTM-KTFVKKFQSGSALKALEIDVTRASSGTTVTV 148 (1142)
T ss_pred ccccccccchhhhh--hhhhhhhhhhhhhhcCCch-hHHHHHHhccccceecccccccccCCcEEEe
Confidence 23455565555544 3333345677887776321 1110011223333333442 23346888876
No 34
>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=97.17 E-value=0.0015 Score=55.48 Aligned_cols=89 Identities=20% Similarity=0.246 Sum_probs=57.6
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCcc
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRI 335 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~I 335 (763)
..++.|||+||+++.... ...+.|.+.. ..+...|.|.|+|.||++..+.+.+...... ......
T Consensus 2 ~~~~~~ll~Na~~~~~~~------~~~v~i~~~~------~~~~~~v~i~d~g~g~~~~~~~~~~~~~~~~---~~~~~~ 66 (103)
T cd00075 2 QQVLLNLLSNAIKHTPEG------GGRITISVER------DGDHLEIRVEDNGPGIPEEDLERIFERFSDG---SRSRKG 66 (103)
T ss_pred HHHHHHHHHHHHHhCcCC------CCeEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHHhhhhhcC---CCCCCC
Confidence 357999999999998740 0145555542 1234679999999999999998876532111 122344
Q ss_pred cccccccccc---ccccCCeEEEEEee
Q 004299 336 GRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 336 GqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
+.+|+|++.+ .-++|..+.+.+..
T Consensus 67 ~~~g~gl~~~~~~~~~~~g~~~~~~~~ 93 (103)
T cd00075 67 GGTGLGLSIVKKLVELHGGRIEVESEP 93 (103)
T ss_pred CccccCHHHHHHHHHHcCCEEEEEeCC
Confidence 6788888753 22356677776644
No 35
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=97.11 E-value=0.0012 Score=56.93 Aligned_cols=75 Identities=20% Similarity=0.391 Sum_probs=53.6
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.||++||+++.... ..+.|.+.. ..+...|.|.|+|.||+.+++.+.+..+++.+. ....
T Consensus 6 l~~~~~~l~~n~~~~~~~~-------~~v~i~~~~------~~~~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~--~~~~ 70 (111)
T smart00387 6 LRQVLSNLLDNAIKYTPEG-------GRITVTLER------DGDHLEITVEDNGPGIPPEDLEKIFEPFFRTDG--RSRK 70 (111)
T ss_pred HHHHHHHHHHHHHhcCCCC-------CeEEEEEEE------cCCEEEEEEEeCCCCCCHHHHHHHhcCeEECCC--CCCC
Confidence 5678999999999987761 155565552 123568999999999999999888765554332 2244
Q ss_pred cccccccccc
Q 004299 335 IGRFGVGFKT 344 (763)
Q Consensus 335 IGqFGiGfKs 344 (763)
.+++|+|++.
T Consensus 71 ~~~~g~gl~~ 80 (111)
T smart00387 71 IGGTGLGLSI 80 (111)
T ss_pred CCcccccHHH
Confidence 5678999875
No 36
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=97.09 E-value=0.0016 Score=76.20 Aligned_cols=122 Identities=20% Similarity=0.196 Sum_probs=75.3
Q ss_pred HHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH--------HHhhh-cccCCCC
Q 004299 258 AIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV--------VRMTY-FGHKQPD 328 (763)
Q Consensus 258 AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL--------~~~l~-fG~S~K~ 328 (763)
-+-|.||||+|..-.- + ...|.|.|.. ...|+|.|||.||+-+-= .-+|+ +....|.
T Consensus 40 lv~EVvDNsiDEalaG-~----~~~I~V~l~~---------d~sisV~DnGRGIPvdiH~~~~~~~vEvI~T~LHAGGKF 105 (635)
T COG0187 40 LVWEVVDNSIDEALAG-Y----ADRIDVTLHE---------DGSISVEDNGRGIPVDIHPKEKVSAVEVIFTVLHAGGKF 105 (635)
T ss_pred eEeEeeechHhHHhhC-c----CcEEEEEEcC---------CCeEEEEECCCCCccccCCCCCCCceEEEEEeeccCccc
Confidence 4789999999974431 1 1156666651 468999999999998752 22233 2222333
Q ss_pred CCC--CCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCc--cEE-EcccccCCCCcEEEEEec
Q 004299 329 ADD--PNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKD--NLE-IPIVSYYRKGQFMELDTV 398 (763)
Q Consensus 329 ~~~--~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~--~i~-VPi~s~~~~Gt~I~l~lk 398 (763)
..+ .-+=|..|+|.+ +.-.|+..+.|.+++.+. ...+.|..|.. +.. +-.+.....||+|.....
T Consensus 106 d~~~YkvSGGLHGVG~S-VVNALS~~l~v~v~r~gk----~y~q~f~~G~~~~~l~~ig~~~~~~~GT~V~F~PD 175 (635)
T COG0187 106 DNDSYKVSGGLHGVGVS-VVNALSTWLEVEVKRDGK----IYRQRFERGVPVTPLEVIGSTDTKKTGTKVRFKPD 175 (635)
T ss_pred CCCccEeecCCCccceE-EEecccceEEEEEEECCE----EEEEEEeCCCcCCCceecccCCCCCCccEEEEEcC
Confidence 221 346688999975 444599999999999875 34455644332 222 111334456999887654
No 37
>PRK10604 sensor protein RstB; Provisional
Probab=97.09 E-value=0.0015 Score=73.34 Aligned_cols=90 Identities=17% Similarity=0.192 Sum_probs=61.8
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..++..||+||+.+... .+.|.+.. + ++.-.|+|.|||.||+++++.+.+..++..... ...
T Consensus 319 ~l~~vl~NLl~NAik~~~~---------~I~I~~~~--~----~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~-~~~ 382 (433)
T PRK10604 319 LMERVLDNLLNNALRYAHS---------RVRVSLLL--D----GNQACLIVEDDGPGIPPEERERVFEPFVRLDPS-RDR 382 (433)
T ss_pred HHHHHHHHHHHHHHHhCCC---------eEEEEEEE--E----CCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCC-CCC
Confidence 4568999999999988654 56666653 1 124579999999999999999998644432211 122
Q ss_pred ccccccccccc---cccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKT---GAMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKs---AsmrLG~~v~V~SK~ 359 (763)
.-|.+|+|+.. ..-+.|.++.|.+..
T Consensus 383 ~~~g~GLGL~ivk~i~~~~gG~i~v~s~~ 411 (433)
T PRK10604 383 ATGGCGLGLAIVHSIALAMGGSVNCDESE 411 (433)
T ss_pred CCCCccchHHHHHHHHHHCCCEEEEEecC
Confidence 34568999853 334567777777654
No 38
>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=96.91 E-value=0.004 Score=68.76 Aligned_cols=92 Identities=18% Similarity=0.162 Sum_probs=59.4
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.+|+.||+++...... ....+.|.+.. ..+.-.|+|.|||.||+++...+.|...++.+.. .
T Consensus 388 l~~vl~Nl~~NAik~~~~~~~---~~~~i~i~~~~------~~~~~~~~V~D~G~Gi~~~~~~~iF~~f~~~~~~----~ 454 (494)
T TIGR02938 388 LRSLFKALVDNAIEAMNIKGW---KRRELSITTAL------NGDLIVVSILDSGPGIPQDLRYKVFEPFFTTKGG----S 454 (494)
T ss_pred HHHHHHHHHHHHHHHhhccCC---CcceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhcCCCcccCCC----C
Confidence 457899999999999765210 00124443331 2235689999999999999999999755544421 1
Q ss_pred ccccccccccc---ccccCCeEEEEEee
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
.+.-|+|+..+ .-.+|..+.|.|..
T Consensus 455 ~~G~GlGL~i~~~iv~~~gG~i~~~s~~ 482 (494)
T TIGR02938 455 RKHIGMGLSVAQEIVADHGGIIDLDDDY 482 (494)
T ss_pred CCCCcccHHHHHHHHHHcCCEEEEEECC
Confidence 44567888632 22467777776643
No 39
>PRK10364 sensor protein ZraS; Provisional
Probab=96.91 E-value=0.0024 Score=71.74 Aligned_cols=86 Identities=15% Similarity=0.158 Sum_probs=60.9
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..++..||+||+++.+.. +.+.|.+.. + .+.-.|.|.|||.||+++.+.+.|..+++.+.
T Consensus 348 ~l~~il~NLl~NA~k~~~~~-------~~I~i~~~~--~----~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~k~----- 409 (457)
T PRK10364 348 RLTQVLLNLYLNAIQAIGQH-------GVISVTASE--S----GAGVKISVTDSGKGIAADQLEAIFTPYFTTKA----- 409 (457)
T ss_pred HHHHHHHHHHHHHHHhcCCC-------CeEEEEEEE--e----CCeEEEEEEECCCCCCHHHHHHHhCccccCCC-----
Confidence 46688999999999996552 256666652 1 23468999999999999999999986666542
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
+..|+|+..+ .-.+|.++.|.+..
T Consensus 410 --~g~GlGL~iv~~~v~~~gG~i~i~s~~ 436 (457)
T PRK10364 410 --EGTGLGLAVVHNIVEQHGGTIQVASQE 436 (457)
T ss_pred --CCCcccHHHHHHHHHHCCCEEEEEeCC
Confidence 2358888632 33467777776653
No 40
>PRK09303 adaptive-response sensory kinase; Validated
Probab=96.90 E-value=0.0037 Score=69.26 Aligned_cols=92 Identities=17% Similarity=0.230 Sum_probs=61.7
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..+|..||+||+.+.... +.+.|.+.. ...+.-.|+|.|||.||+++++.++|...++.+. ...
T Consensus 273 l~qvl~NLl~NAik~~~~~-------~~I~i~~~~-----~~~~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~---~~~ 337 (380)
T PRK09303 273 IRQVLLNLLDNAIKYTPEG-------GTITLSMLH-----RTTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR---DEG 337 (380)
T ss_pred HHHHHHHHHHHHHhcCCCC-------ceEEEEEEe-----cCCCEEEEEEEEcCCCCCHHHHHHHccCceeCCC---CCC
Confidence 5689999999999987651 244554431 1123457999999999999999999874443332 123
Q ss_pred ccccccccccc---ccccCCeEEEEEeeCC
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQTAD 361 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK~~~ 361 (763)
-+.+|+|+..+ .-.+|.++.|.|...+
T Consensus 338 ~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~ 367 (380)
T PRK09303 338 TEGYGIGLSVCRRIVRVHYGQIWVDSEPGQ 367 (380)
T ss_pred CCcccccHHHHHHHHHHcCCEEEEEecCCC
Confidence 35689998643 3357788888776543
No 41
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=96.84 E-value=0.0027 Score=70.34 Aligned_cols=90 Identities=17% Similarity=0.161 Sum_probs=60.1
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..+|.+||+||+.+... .+.|.+.. + .+.-.|+|.|||.||+++++.+.+.-+++.... ...
T Consensus 353 ~l~~~l~nli~NA~~~~~~---------~i~i~~~~--~----~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~-~~~ 416 (461)
T PRK09470 353 ALASALENIVRNALRYSHT---------KIEVAFSV--D----KDGLTITVDDDGPGVPEEEREQIFRPFYRVDEA-RDR 416 (461)
T ss_pred HHHHHHHHHHHHHHHhCCC---------cEEEEEEE--E----CCEEEEEEEECCCCCCHHHHHHhcCCCccCCcc-cCC
Confidence 4557899999999988654 56666653 1 124579999999999999999988644432211 122
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
.-+.+|+|+..+ ....|.++.+.|..
T Consensus 417 ~~~g~GlGL~iv~~~v~~~~G~l~~~s~~ 445 (461)
T PRK09470 417 ESGGTGLGLAIVENAIQQHRGWVKAEDSP 445 (461)
T ss_pred CCCCcchhHHHHHHHHHHCCCEEEEEECC
Confidence 345779998642 33466677776643
No 42
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=96.81 E-value=0.0028 Score=74.94 Aligned_cols=123 Identities=17% Similarity=0.192 Sum_probs=71.6
Q ss_pred HHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH-----------hhh-cccC
Q 004299 258 AIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR-----------MTY-FGHK 325 (763)
Q Consensus 258 AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~-----------~l~-fG~S 325 (763)
.+-|+||||+|....... . ....|.|.|+ ...++|.|||.||+-+.-.+ +|+ +-..
T Consensus 49 i~~EIldNavDe~~~~~~-g-~~~~I~V~i~----------dgsisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaG 116 (602)
T PHA02569 49 IIDEIIDNSVDEAIRTNF-K-FANKIDVTIK----------NNQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAG 116 (602)
T ss_pred eeehhhhhhhhhhhccCC-C-CCcEEEEEEc----------CCEEEEEECCCcccCCcccccccccccceEEEEEeeccc
Confidence 377999999997433000 0 0114555443 25799999999998653211 012 1122
Q ss_pred CCCCC-CCCccccccccccccccccCCeEEEEEeeCCCCceeEEEEEecCCCccEEEcccccCCCCcEEEEEe
Q 004299 326 QPDAD-DPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSIAFLSQSLNQGKDNLEIPIVSYYRKGQFMELDT 397 (763)
Q Consensus 326 ~K~~~-~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~svg~ls~sf~eg~~~i~VPi~s~~~~Gt~I~l~l 397 (763)
.|..+ -.-+-|..|+|.+.+-. |+..++|.++..+. .+.++|..|.....++...-..+||.|....
T Consensus 117 gkFd~~ykvSGGlhGVG~svvNa-LS~~~~V~v~~~~~----~~~q~f~~G~~~~~~~~~~~~~~GT~V~F~P 184 (602)
T PHA02569 117 SNFDDTNRVTGGMNGVGSSLTNF-FSVLFIGETCDGKN----EVTVNCSNGAENISWSTKPGKGKGTSVTFIP 184 (602)
T ss_pred cccCCcceeeCCcCCccceeeec-cchhhheEEEcCCE----EEEEEecCCcccCCcccCCCCCCccEEEEEE
Confidence 33321 24578999999875544 89999998865543 2456665443222223223345799887655
No 43
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=96.78 E-value=0.0028 Score=68.55 Aligned_cols=90 Identities=13% Similarity=0.204 Sum_probs=62.0
Q ss_pred cCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCC
Q 004299 253 GWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 332 (763)
Q Consensus 253 ~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~ 332 (763)
.|+..++..||+||+.+.... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.+..++....
T Consensus 246 ~~l~~il~nLi~NA~k~~~~~-------~~I~I~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~---- 308 (356)
T PRK10755 246 TLLRLLLRNLVENAHRYSPEG-------STITIKLSQ------EDGGAVLAVEDEGPGIDESKCGELSKAFVRMDS---- 308 (356)
T ss_pred HHHHHHHHHHHHHHHhhCCCC-------CcEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHhCCCeEeCCC----
Confidence 467789999999999886441 256666642 123468999999999999999998864443211
Q ss_pred Ccccccccccccc---ccccCCeEEEEEeeC
Q 004299 333 NRIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 333 ~~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
.-+.+|+|++.+ .-.+|..+.+.|...
T Consensus 309 -~~~g~GlGL~i~~~i~~~~gg~i~i~s~~~ 338 (356)
T PRK10755 309 -RYGGIGLGLSIVSRITQLHHGQFFLQNRQE 338 (356)
T ss_pred -CCCCcCHHHHHHHHHHHHCCCEEEEEECCC
Confidence 124578888643 334677777777653
No 44
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=96.78 E-value=0.003 Score=70.47 Aligned_cols=92 Identities=16% Similarity=0.186 Sum_probs=60.5
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..++..||+||+++.... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.+...++.+.. ...
T Consensus 317 ~l~~vl~NLl~NAik~~~~~-------~~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~-~~~ 382 (430)
T PRK11006 317 QLRSAISNLVYNAVNHTPEG-------THITVRWQR------VPQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKA-RSR 382 (430)
T ss_pred HHHHHHHHHHHHHHhcCCCC-------CeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHhccCcccccCC-CCC
Confidence 46689999999999996541 145555442 1234579999999999999999988644432211 122
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
..|..|+|+..+ .-..|..+.|.|..
T Consensus 383 ~~~G~GLGL~ivk~iv~~~gG~i~i~s~~ 411 (430)
T PRK11006 383 QTGGSGLGLAIVKHALSHHDSRLEIESEV 411 (430)
T ss_pred CCCCCchHHHHHHHHHHHCCCEEEEEecC
Confidence 335678888643 33466777776653
No 45
>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=96.75 E-value=0.0046 Score=68.20 Aligned_cols=90 Identities=20% Similarity=0.197 Sum_probs=59.6
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..++.+||+||+.+.... +.+.|.+.. .++.-.|+|.|||.||+++.+.+.+.-+++.+... ..
T Consensus 353 ~l~~~~~nll~Nai~~~~~~-------~~I~i~~~~------~~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~-~~ 418 (457)
T TIGR01386 353 MFRRAISNLLSNALRHTPDG-------GTITVRIER------RSDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPAR-SN 418 (457)
T ss_pred HHHHHHHHHHHHHHHcCCCC-------ceEEEEEEe------cCCEEEEEEEeCCCCCCHHHHHHhccccccCCccc-CC
Confidence 45688999999999987541 256666552 12345799999999999999999886445433211 12
Q ss_pred cccccccccccc---ccccCCeEEEEE
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLT 357 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~S 357 (763)
.-+..|+|++.+ .-++|..+.+.+
T Consensus 419 ~~~g~GlGL~i~~~~~~~~~G~~~~~~ 445 (457)
T TIGR01386 419 SGEGTGLGLAIVRSIMEAHGGRASAES 445 (457)
T ss_pred CCCCccccHHHHHHHHHHCCCEEEEEe
Confidence 234578888643 234566666665
No 46
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=96.73 E-value=0.004 Score=69.38 Aligned_cols=91 Identities=15% Similarity=0.203 Sum_probs=60.6
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++..||+||+.+.... +.+.|.+.. ..+.-.|.|.|||.||+++++.+.+.-.+..+.. ....
T Consensus 353 l~qvl~nll~NAi~~~~~~-------~~I~i~~~~------~~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~-~~~~ 418 (466)
T PRK10549 353 LMQLFNNLLENSLRYTDSG-------GSLHISAEQ------RDKTLRLTFADSAPGVSDEQLQKLFERFYRTEGS-RNRA 418 (466)
T ss_pred HHHHHHHHHHHHHHhCCCC-------CEEEEEEEE------cCCEEEEEEEecCCCcCHHHHHHhccCcccCCCC-cCCC
Confidence 5678999999999986541 256666652 1234578999999999999999988644432211 1234
Q ss_pred ccccccccccc---ccccCCeEEEEEee
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
.|..|+|+..+ .-+.|.++.+.+..
T Consensus 419 ~~g~GlGL~iv~~i~~~~~G~l~~~s~~ 446 (466)
T PRK10549 419 SGGSGLGLAICLNIVEAHNGRIIAAHSP 446 (466)
T ss_pred CCCCcHHHHHHHHHHHHcCCEEEEEECC
Confidence 46679998632 33466677776654
No 47
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=96.71 E-value=0.0052 Score=68.06 Aligned_cols=92 Identities=22% Similarity=0.233 Sum_probs=61.8
Q ss_pred cCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCC
Q 004299 253 GWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDP 332 (763)
Q Consensus 253 ~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~ 332 (763)
.++..++.+||.||+.+.... +.+.|.+.. .++...|+|.|||.||+++++.+.+.-+++.+.. .
T Consensus 367 ~~l~~vl~nli~Na~~~~~~~-------~~i~i~~~~------~~~~~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~--~ 431 (475)
T PRK11100 367 FLLRQALGNLLDNAIDFSPEG-------GTITLSAEV------DGEQVALSVEDQGPGIPDYALPRIFERFYSLPRP--A 431 (475)
T ss_pred HHHHHHHHHHHHHHHHhCCCC-------CEEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHHHHHccCCCC--C
Confidence 357789999999999986541 256666653 1235679999999999999999988755543321 1
Q ss_pred Ccccccccccccc---ccccCCeEEEEEee
Q 004299 333 NRIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 333 ~~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
..-+..|+|++.+ ...+|..+.+.|..
T Consensus 432 ~~~~~~GlGL~i~~~~~~~~~G~i~i~s~~ 461 (475)
T PRK11100 432 NGRKSTGLGLAFVREVARLHGGEVTLRNRP 461 (475)
T ss_pred CCCCCcchhHHHHHHHHHHCCCEEEEEEcC
Confidence 1224568888643 23466677776654
No 48
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=96.67 E-value=0.0051 Score=64.19 Aligned_cols=92 Identities=16% Similarity=0.181 Sum_probs=60.0
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..++.+||.||+++.... +.+.|.+.. ..+.-.|.|.|||.||+++.+.+++...+..... ...
T Consensus 229 ~l~~vl~nll~Nai~~~~~~-------~~i~i~~~~------~~~~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~-~~~ 294 (333)
T TIGR02966 229 ELRSAFSNLVSNAIKYTPEG-------GTITVRWRR------DGGGAEFSVTDTGIGIAPEHLPRLTERFYRVDKS-RSR 294 (333)
T ss_pred HHHHHHHHHHHHhheeCCCC-------CeEEEEEEE------cCCEEEEEEEecCCCCCHHHHhhhccCceecCcc-ccc
Confidence 36689999999999886542 245555542 1124679999999999999999988744432211 112
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
..+..|+|++.+ .-..|.++.+.|..
T Consensus 295 ~~~g~glGL~~~~~~~~~~gG~i~~~s~~ 323 (333)
T TIGR02966 295 DTGGTGLGLAIVKHVLSRHHARLEIESEL 323 (333)
T ss_pred CCCCCcccHHHHHHHHHHCCCEEEEEecC
Confidence 233458888643 22367777777654
No 49
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.63 E-value=0.0085 Score=67.92 Aligned_cols=86 Identities=19% Similarity=0.274 Sum_probs=58.3
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.+|++||++|..... .+.+.|.+.. .++.-.|+|.|||.||+++++.+.|.-+++.+.
T Consensus 434 l~~vl~nLl~NAi~~~~~~~-----~~~I~i~~~~------~~~~~~i~V~D~G~gi~~~~~~~iF~~~~~~~~------ 496 (542)
T PRK11086 434 LITILGNLIENALEAVGGEE-----GGEISVSLHY------RNGWLHCEVSDDGPGIAPDEIDAIFDKGYSTKG------ 496 (542)
T ss_pred HHHHHHHHHHHHHHHhhcCC-----CcEEEEEEEE------cCCEEEEEEEECCCCCCHHHHHHHHhCCCccCC------
Confidence 55789999999999965311 1245555542 123457999999999999999999976666542
Q ss_pred ccccccccccc---ccccCCeEEEEEe
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK 358 (763)
+..|+|+..+ .-..|..+.|.|.
T Consensus 497 -~g~GlGL~iv~~iv~~~~G~i~v~s~ 522 (542)
T PRK11086 497 -SNRGVGLYLVKQSVENLGGSIAVESE 522 (542)
T ss_pred -CCCcCcHHHHHHHHHHcCCEEEEEeC
Confidence 1358888532 2345666766664
No 50
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=96.63 E-value=0.0027 Score=64.92 Aligned_cols=86 Identities=15% Similarity=0.199 Sum_probs=57.6
Q ss_pred cCHHHHHHHHHHccHHHhh-cccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCC
Q 004299 253 GWIFGAIAELVDNSRDAKA-TKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADD 331 (763)
Q Consensus 253 ~w~f~AIaELIDNAiDA~A-~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~ 331 (763)
.|+..+|..||+||++|.. . .+.|.+... .+.-.|.|.|||.||+++.+...+..+++.+..
T Consensus 227 ~~l~~vl~nLi~NAi~~~~~~---------~i~i~~~~~------~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~-- 289 (336)
T COG0642 227 ERLRQVLVNLLSNAIKYTPGG---------EITISVRQD------DEQVTISVEDTGPGIPEEELERIFEPFFRTDKS-- 289 (336)
T ss_pred HHHHHHHHHHHHHHhccCCCC---------eEEEEEEec------CCeEEEEEEcCCCCCCHHHHHHhccCeeccCCC--
Confidence 4677899999999999985 4 666766531 114689999999999999988888766665432
Q ss_pred CCcccccccccccc---ccccCCeEEEEEe
Q 004299 332 PNRIGRFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 332 ~~~IGqFGiGfKsA---smrLG~~v~V~SK 358 (763)
.. -.|+|+..+ .-..|..+.+.|.
T Consensus 290 ~~---g~GlGL~i~~~~~~~~~g~i~~~~~ 316 (336)
T COG0642 290 RS---GTGLGLAIVKRIVELHGGTISVESE 316 (336)
T ss_pred CC---CCCccHHHHHHHHHHcCCEEEEEec
Confidence 11 456666422 2233444555554
No 51
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.60 E-value=0.0078 Score=68.90 Aligned_cols=91 Identities=16% Similarity=0.165 Sum_probs=59.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+...+.+||+||+++...... ..+.+.|.+.. ..+.-.|.|.|||.||+++++.+.|..|++.+.. .
T Consensus 433 l~~vl~nLl~NAi~~~~~~~~---~~~~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~----~ 499 (545)
T PRK15053 433 FAAIVGNLLDNAFEASLRSDE---GNKIVELFLSD------EGDDVVIEVADQGCGVPESLRDKIFEQGVSTRAD----E 499 (545)
T ss_pred HHHHHHHHHHHHHHHHhhCCC---CCceEEEEEEE------CCCEEEEEEEeCCCCcCHHHHHHHhCCCCCCCCC----C
Confidence 557899999999999643110 01145555442 1234579999999999999999999877775532 2
Q ss_pred ccccccccccc---ccccCCeEEEEEe
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK 358 (763)
-|..|+|+..+ .-..|..+.|.|.
T Consensus 500 ~~g~GlGL~ivk~iv~~~~G~i~v~s~ 526 (545)
T PRK15053 500 PGEHGIGLYLIASYVTRCGGVITLEDN 526 (545)
T ss_pred CCCceeCHHHHHHHHHHcCCEEEEEEC
Confidence 24468888643 2235666666664
No 52
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=96.56 E-value=0.0073 Score=66.81 Aligned_cols=88 Identities=15% Similarity=0.109 Sum_probs=58.4
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..++..||+||+.+... .+.|.+.. ..+.-.|+|.|||.||+++++.+.+.-++.... ..
T Consensus 331 ~l~~il~NLl~NA~k~~~~---------~i~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~--~~- 392 (435)
T PRK09467 331 AIKRALANLVVNAARYGNG---------WIKVSSGT------EGKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDS--AR- 392 (435)
T ss_pred HHHHHHHHHHHHHHHhCCC---------eEEEEEEe------cCCEEEEEEEecCCCcCHHHHHHhcCCcccCCC--CC-
Confidence 4567899999999988644 56666652 123457999999999999999998875443211 11
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
.-+.+|+|+.-+ .-..|.++.+.+..
T Consensus 393 ~~~g~GlGL~iv~~i~~~~~g~l~i~~~~ 421 (435)
T PRK09467 393 GSSGTGLGLAIVKRIVDQHNGKVELGNSE 421 (435)
T ss_pred CCCCeehhHHHHHHHHHHCCCEEEEEECC
Confidence 125688888632 22356666666543
No 53
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=96.55 E-value=0.0088 Score=72.00 Aligned_cols=94 Identities=15% Similarity=0.241 Sum_probs=64.7
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..+|..||+||+++... +.+.|.+.. . .++.-.|+|.|||.||+++++.+.|...++.+.......
T Consensus 399 l~qvl~NLl~NAik~~~~--------g~v~i~~~~--~---~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~ 465 (779)
T PRK11091 399 LRQILWNLISNAVKFTQQ--------GGVTVRVRY--E---EGDMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKP 465 (779)
T ss_pred HHHHHHHHHHHHHHhCCC--------CcEEEEEEE--c---cCCEEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCC
Confidence 568999999999998743 256666653 1 123467999999999999999999974444332222233
Q ss_pred cccccccccc---cccccCCeEEEEEeeCC
Q 004299 335 IGRFGVGFKT---GAMRLGKDALVLTQTAD 361 (763)
Q Consensus 335 IGqFGiGfKs---AsmrLG~~v~V~SK~~~ 361 (763)
.+.-|+|+.. -.-..|..+.|.|....
T Consensus 466 ~~GtGLGL~i~~~iv~~~gG~i~v~s~~g~ 495 (779)
T PRK11091 466 ATGTGIGLAVSKRLAQAMGGDITVTSEEGK 495 (779)
T ss_pred CCCcchHHHHHHHHHHHcCCEEEEEecCCC
Confidence 5667888753 23457889999887543
No 54
>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=96.52 E-value=0.005 Score=73.42 Aligned_cols=85 Identities=21% Similarity=0.261 Sum_probs=58.8
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHH-HHHhhhcccCCCCCCCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQD-VVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~ee-L~~~l~fG~S~K~~~~~~ 333 (763)
+..++.+||+||+++.... +.+.|.+.. .++.-.|+|.|||.||+++. ..+.+...++.+.
T Consensus 580 l~~vl~nLl~NAik~~~~~-------~~I~I~~~~------~~~~~~i~V~D~G~Gi~~~~i~~~lF~pf~~~~~----- 641 (679)
T TIGR02916 580 LERVLGHLVQNALEATPGE-------GRVAIRVER------ECGAARIEIEDSGCGMSPAFIRERLFKPFDTTKG----- 641 (679)
T ss_pred HHHHHHHHHHHHHHhCCCC-------CcEEEEEEE------cCCEEEEEEEEcCCCcChHHHHHhcCCCCCCCCC-----
Confidence 4578999999999997542 256666653 12356799999999999999 5666765554432
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
+..|+|+..+ .-.+|.++.|.|..
T Consensus 642 --~G~GLGL~i~~~iv~~~gG~i~v~s~~ 668 (679)
T TIGR02916 642 --AGMGIGVYECRQYVEEIGGRIEVESTP 668 (679)
T ss_pred --CCcchhHHHHHHHHHHcCCEEEEEecC
Confidence 4568888643 23467777777654
No 55
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=96.38 E-value=0.01 Score=67.06 Aligned_cols=86 Identities=16% Similarity=0.191 Sum_probs=58.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.+||+||+.+.... +.+.|.+.. + .++.-.|.|.|||.||+++++.+.+..+++.+.
T Consensus 501 l~~~~~nli~na~~~~~~~-------~~i~v~~~~--~---~~~~~~i~v~D~G~G~~~~~~~~~f~~~~~~~~------ 562 (607)
T PRK11360 501 LKQVLLNILINAVQAISAR-------GKIRIRTWQ--Y---SDGQVAVSIEDNGCGIDPELLKKIFDPFFTTKA------ 562 (607)
T ss_pred HHHHHHHHHHHHHHHhcCC-------CeEEEEEEE--c---CCCEEEEEEEeCCCCCCHHHHhhhcCCceeCCC------
Confidence 5688999999999986551 255565542 1 111278999999999999999988876554432
Q ss_pred cccccccccc---cccccCCeEEEEEee
Q 004299 335 IGRFGVGFKT---GAMRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfKs---AsmrLG~~v~V~SK~ 359 (763)
+..|+|+.. -.-.+|.++.|.|..
T Consensus 563 -~g~glGL~~~~~~~~~~~G~i~~~s~~ 589 (607)
T PRK11360 563 -KGTGLGLALSQRIINAHGGDIEVESEP 589 (607)
T ss_pred -CCCchhHHHHHHHHHHcCCEEEEEEcC
Confidence 235777753 223477777777754
No 56
>PRK10337 sensor protein QseC; Provisional
Probab=96.30 E-value=0.011 Score=65.90 Aligned_cols=85 Identities=15% Similarity=0.212 Sum_probs=57.1
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..++..||+||+.+.... +.+.|.+. ...|+|.|||.||+++++.+.+.-++..+. .
T Consensus 352 ~l~~vl~Nli~NA~k~~~~~-------~~i~i~~~----------~~~i~i~D~G~Gi~~~~~~~if~~f~~~~~----~ 410 (449)
T PRK10337 352 LLSLLVRNLLDNAIRYSPQG-------SVVDVTLN----------ARNFTVRDNGPGVTPEALARIGERFYRPPG----Q 410 (449)
T ss_pred HHHHHHHHHHHHHHhhCCCC-------CeEEEEEE----------eeEEEEEECCCCCCHHHHHHhcccccCCCC----C
Confidence 35578999999999986552 14444443 136999999999999999998864443221 1
Q ss_pred cccccccccccc---ccccCCeEEEEEee
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
..+.+|+|+..+ .-+.|.++.+.+..
T Consensus 411 ~~~g~GlGL~iv~~i~~~~gg~l~~~s~~ 439 (449)
T PRK10337 411 EATGSGLGLSIVRRIAKLHGMNVSFGNAP 439 (449)
T ss_pred CCCccchHHHHHHHHHHHcCCEEEEEecC
Confidence 234589998642 33466777776643
No 57
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=96.24 E-value=0.027 Score=71.93 Aligned_cols=129 Identities=16% Similarity=0.174 Sum_probs=78.1
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-cccC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY-FGHK 325 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~-fG~S 325 (763)
+.-.+-|+||||+|...+.. ..-....|.|.|+. +...|+|.|||.||+-+.-.+ +|+ +..+
T Consensus 58 L~ki~dEIldNAvDe~~r~~-~~g~~~~I~V~i~~--------d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aG 128 (1388)
T PTZ00108 58 LYKIFDEILVNAADNKARDK-GGHRMTYIKVTIDE--------ENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTS 128 (1388)
T ss_pred hhhhHHHHhhhhhhhhcccC-CCCCccEEEEEEec--------cCCeEEEEecCCcccCCCCCCCCCccceEEEEEeecc
Confidence 34568999999999866310 00012266676652 236899999999998753211 122 2223
Q ss_pred CCCCC--CCCccccccccccccccccCCeEEEEEeeC--CCCceeEEEEEecCCCccEEEccc-cc-C-CCCcEEEEEe
Q 004299 326 QPDAD--DPNRIGRFGVGFKTGAMRLGKDALVLTQTA--DSRSIAFLSQSLNQGKDNLEIPIV-SY-Y-RKGQFMELDT 397 (763)
Q Consensus 326 ~K~~~--~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~--~~~svg~ls~sf~eg~~~i~VPi~-s~-~-~~Gt~I~l~l 397 (763)
.+..+ -.-+-|+.|+|.+.+-. ++..++|.+... +. .+.++|..|-....-|.. +. . .+||.|....
T Consensus 129 gkfdd~~yKvSGGlhGVGasvvNa-lS~~f~Vev~r~~~gk----~y~q~f~~Gm~~~~~p~i~~~~~~~~GT~VtF~P 202 (1388)
T PTZ00108 129 SNYDDTEKRVTGGRNGFGAKLTNI-FSTKFTVECVDSKSGK----KFKMTWTDNMSKKSEPRITSYDGKKDYTKVTFYP 202 (1388)
T ss_pred ccCCCCceeeecccccCCcccccc-ccceEEEEEEECCCCC----EEEEEecCCCcCCCCCccCCCCCCCCceEEEEEe
Confidence 44422 24578999999986655 999999999988 43 344556444211111221 22 2 5799887755
No 58
>PRK10815 sensor protein PhoQ; Provisional
Probab=96.14 E-value=0.014 Score=67.03 Aligned_cols=85 Identities=14% Similarity=0.160 Sum_probs=57.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++..||+||+++... .+.|.+.. ..+.-.|+|.|||.||+++++.+.+.-++.... .
T Consensus 379 l~~vl~NLi~NAik~~~~---------~i~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~-----~ 438 (485)
T PRK10815 379 FMEVMGNVLDNACKYCLE---------FVEISARQ------TDEHLHIVVEDDGPGIPESKRELIFDRGQRADT-----L 438 (485)
T ss_pred HHHHHHHHHHHHHHhcCC---------cEEEEEEE------eCCEEEEEEEECCCCcCHHHHHHHhCCcccCCC-----C
Confidence 457999999999998765 45565542 123457999999999999999998864443221 1
Q ss_pred ccccccccccc---ccccCCeEEEEEee
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
-+..|+|+..+ .-..|.++.|.|..
T Consensus 439 ~~G~GLGL~Ivk~iv~~~gG~i~v~s~~ 466 (485)
T PRK10815 439 RPGQGLGLSVAREITEQYEGKISAGDSP 466 (485)
T ss_pred CCCcchhHHHHHHHHHHcCCEEEEEECC
Confidence 13468998643 23456666666543
No 59
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=96.06 E-value=0.016 Score=70.66 Aligned_cols=88 Identities=14% Similarity=0.218 Sum_probs=61.4
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..+|..||+||+.+... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.+...+..+ .
T Consensus 513 ~l~~il~NLl~NAik~~~~--------g~I~i~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-----~ 573 (921)
T PRK15347 513 RLRQILVNLLGNAVKFTET--------GGIRLRVKR------HEQQLCFTVEDTGCGIDIQQQQQIFTPFYQAD-----T 573 (921)
T ss_pred HHHHHHHHHHHHHhhcCCC--------CCEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhcCcccCC-----C
Confidence 4668999999999988644 256666653 12346799999999999999999886444322 1
Q ss_pred cccccccccccc---ccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
..|..|+|+..+ .-.+|.++.|.|...
T Consensus 574 ~~~g~GLGL~i~~~~~~~~gG~i~i~s~~~ 603 (921)
T PRK15347 574 HSQGTGLGLTIASSLAKMMGGELTLFSTPG 603 (921)
T ss_pred CCCCCchHHHHHHHHHHHcCCEEEEEecCC
Confidence 235678888643 234677888877654
No 60
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=96.04 E-value=0.017 Score=70.53 Aligned_cols=122 Identities=18% Similarity=0.201 Sum_probs=72.7
Q ss_pred HHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH--------hhh-------
Q 004299 257 GAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR--------MTY------- 321 (763)
Q Consensus 257 ~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~--------~l~------- 321 (763)
-.+-|+||||+|....-. ...|.|.|.. ...++|.|||.||+-+.-.+ +|+
T Consensus 132 hLv~EIlDNSVDE~laG~-----~~~I~V~i~~---------DgsItV~DnGRGIPvd~h~k~g~s~~E~VlT~LhAGGK 197 (903)
T PTZ00109 132 QLLFEILDNSVDEYLAGE-----CNKITVVLHK---------DGSVEISDNGRGIPCDVSEKTGKSGLETVLTVLHSGGK 197 (903)
T ss_pred EEEEEEeeccchhhccCC-----CcEEEEEEcC---------CCeEEEEeCCccccccccccCCCcceeEEEEEeccCcc
Confidence 347899999999754311 1256666641 35899999999998753221 111
Q ss_pred cccCC-------------------C-------------CC----CCCCccccccccccccccccCCeEEEEEeeCCCCce
Q 004299 322 FGHKQ-------------------P-------------DA----DDPNRIGRFGVGFKTGAMRLGKDALVLTQTADSRSI 365 (763)
Q Consensus 322 fG~S~-------------------K-------------~~----~~~~~IGqFGiGfKsAsmrLG~~v~V~SK~~~~~sv 365 (763)
|+... | .. .=.-+-|..|+|.+.+= .|+..+.|.+++.+.
T Consensus 198 F~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGGLHGVG~SVVN-ALS~~l~VeV~RdGK--- 273 (903)
T PTZ00109 198 FQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSGLHGVGLSVVN-ALSSFLKVDVFKGGK--- 273 (903)
T ss_pred ccCcccccccccccccccccccccccccccccccccccccccCCcceecCcCCCcceeeee-eccCeEEEEEEECCE---
Confidence 32210 0 00 00247899999987444 499999999999875
Q ss_pred eEEEEEecCCCc--cEEEcccccCCCCcEEEEEe
Q 004299 366 AFLSQSLNQGKD--NLEIPIVSYYRKGQFMELDT 397 (763)
Q Consensus 366 g~ls~sf~eg~~--~i~VPi~s~~~~Gt~I~l~l 397 (763)
.+.++|..|.- .+.+--.+-..+||.|....
T Consensus 274 -~y~q~F~rG~~v~pLkvig~~~~~tGT~VtF~P 306 (903)
T PTZ00109 274 -IYSIELSKGKVTKPLSVFSCPLKKRGTTIHFLP 306 (903)
T ss_pred -EEEEEeCCCcccCCccccCCcCCCCceEEEEEe
Confidence 45566754431 11111111134799987654
No 61
>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=96.03 E-value=0.019 Score=69.14 Aligned_cols=93 Identities=16% Similarity=0.191 Sum_probs=62.3
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..+|..||+||+.+.... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.+.-+++.+.. ...
T Consensus 597 ~L~~il~NLI~NAik~s~~~-------~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~-~~~ 662 (703)
T TIGR03785 597 LIAQMLDKLVDNAREFSPED-------GLIEVGLSQ------NKSHALLTVSNEGPPLPEDMGEQLFDSMVSVRDQ-GAQ 662 (703)
T ss_pred HHHHHHHHHHHHHHHHCCCC-------CeEEEEEEE------cCCEEEEEEEEcCCCCCHHHHHHHhCCCeecCCC-CCC
Confidence 45688999999999987542 245555542 1234679999999999999999998755543321 112
Q ss_pred cccccccccccc---ccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
.-+..|+|++.+ ....|.++.+.+...
T Consensus 663 ~~~g~GLGL~Ivr~Iv~~~gG~I~v~s~~~ 692 (703)
T TIGR03785 663 DQPHLGLGLYIVRLIADFHQGRIQAENRQQ 692 (703)
T ss_pred CCCCccHHHHHHHHHHHHcCCEEEEEECCC
Confidence 223578998643 344677777776543
No 62
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=95.93 E-value=0.019 Score=70.22 Aligned_cols=92 Identities=17% Similarity=0.205 Sum_probs=61.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEeccccc---------CCCCCCEEEEEECCCCCCHHHHHHhhhcccC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKK---------AGKDIPMLSIIDDGHGMTHQDVVRMTYFGHK 325 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~---------~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S 325 (763)
+..+|..||+||+.+.... +.+.|.+....... ..++.-.|.|.|||.||+++++.+.|...++
T Consensus 561 L~qvl~NLl~NAik~~~~~-------g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~ 633 (828)
T PRK13837 561 LQQVLMNLCSNAAQAMDGA-------GRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFT 633 (828)
T ss_pred HHHHHHHHHHHHHHHcccC-------CeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHHHHhhCCccc
Confidence 5689999999999986542 25566554310000 0122357999999999999999999875554
Q ss_pred CCCCCCCCcccccccccccc---ccccCCeEEEEEeeC
Q 004299 326 QPDADDPNRIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 326 ~K~~~~~~~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
.+. +..|+|+..+ .-.+|.++.|.|...
T Consensus 634 ~~~-------~G~GLGL~i~~~iv~~~gG~i~v~s~~g 664 (828)
T PRK13837 634 TRA-------GGTGLGLATVHGIVSAHAGYIDVQSTVG 664 (828)
T ss_pred CCC-------CCCcchHHHHHHHHHHCCCEEEEEecCC
Confidence 331 5678888632 345788888887643
No 63
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=95.78 E-value=0.03 Score=60.02 Aligned_cols=93 Identities=15% Similarity=0.152 Sum_probs=56.9
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEeccccc-CCC---CCCEEEEEECCCCCCHHHHHHhhhcccCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKK-AGK---DIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDA 329 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~-~~~---~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~ 329 (763)
.+..++..||+||+.+.... .+.+.|.+....... .+. ....|.|.|||.||+++.+.+.|.-+++.+.
T Consensus 237 ~l~~vl~nLl~NA~~~~~~~------~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~iF~~~~~~~~- 309 (348)
T PRK11073 237 QIEQVLLNIVRNALQALGPE------GGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGRE- 309 (348)
T ss_pred HHHHHHHHHHHHHHHHhccC------CCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHHhhccCCcccCCC-
Confidence 35689999999999997421 124444432110000 000 0136899999999999999888865554332
Q ss_pred CCCCccccccccccc---cccccCCeEEEEEee
Q 004299 330 DDPNRIGRFGVGFKT---GAMRLGKDALVLTQT 359 (763)
Q Consensus 330 ~~~~~IGqFGiGfKs---AsmrLG~~v~V~SK~ 359 (763)
+.-|+|+.. ..-..|..+.|.|..
T Consensus 310 ------~g~GlGL~i~~~iv~~~gG~i~~~s~~ 336 (348)
T PRK11073 310 ------GGTGLGLSIARNLIDQHSGKIEFTSWP 336 (348)
T ss_pred ------CCccCCHHHHHHHHHHcCCeEEEEecC
Confidence 235788753 334567778777653
No 64
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=95.74 E-value=0.041 Score=68.24 Aligned_cols=94 Identities=14% Similarity=0.215 Sum_probs=62.1
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..+|..||+||+.+... +.+.|.+... . ...+.-.|+|.|||.||+++++.+.|...++.+.. ...
T Consensus 566 L~QVL~NLL~NAik~t~~--------G~I~I~v~~~--~-~~~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~--~~~ 632 (894)
T PRK10618 566 LRKILLLLLNYAITTTAY--------GKITLEVDQD--E-SSPDRLTIRILDTGAGVSIKELDNLHFPFLNQTQG--DRY 632 (894)
T ss_pred HHHHHHHHHHHHHHhCCC--------CeEEEEEEEc--c-CCCcEEEEEEEECCCCCCHHHHHHhcCccccCCCC--CCC
Confidence 558899999999988654 3566666531 1 11134579999999999999999988633333221 112
Q ss_pred ccccccccccc---ccccCCeEEEEEeeCC
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLTQTAD 361 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~SK~~~ 361 (763)
-+.-|+|+..+ .-.+|.++.|.|...+
T Consensus 633 ~~GtGLGLaI~k~Lve~~GG~I~v~S~~g~ 662 (894)
T PRK10618 633 GKASGLTFFLCNQLCRKLGGHLTIKSREGL 662 (894)
T ss_pred CCCcChhHHHHHHHHHHcCCEEEEEECCCC
Confidence 23467887432 3347999999987643
No 65
>PRK09835 sensor kinase CusS; Provisional
Probab=95.71 E-value=0.024 Score=63.40 Aligned_cols=91 Identities=11% Similarity=0.105 Sum_probs=59.1
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..+|..||+||+.+.... +.+.|.+.. + .+.-.|.|.|||.||+++++...+.-.+..... ...
T Consensus 375 ~l~~vl~nll~Na~~~~~~~-------~~I~i~~~~--~----~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~-~~~ 440 (482)
T PRK09835 375 MLRRAISNLLSNALRYTPAG-------EAITVRCQE--V----DHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPS-RQR 440 (482)
T ss_pred HHHHHHHHHHHHHHhcCCCC-------CeEEEEEEE--e----CCEEEEEEEECCCCcCHHHHHHHhCCcccCCCC-CCC
Confidence 46689999999999986541 145666552 1 124579999999999999999888633322111 112
Q ss_pred cccccccccccc---ccccCCeEEEEEe
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK 358 (763)
.-+..|+|+..+ .-..|.++.|.|.
T Consensus 441 ~~~g~GlGL~i~~~i~~~~~g~i~~~s~ 468 (482)
T PRK09835 441 KGEGSGIGLAIVKSIVVAHKGTVAVTSD 468 (482)
T ss_pred CCCCcchHHHHHHHHHHHCCCEEEEEEC
Confidence 224579998532 3346777777664
No 66
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=95.54 E-value=0.032 Score=68.18 Aligned_cols=89 Identities=15% Similarity=0.194 Sum_probs=62.1
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..++..||+||+.+... +.+.|.+.. + .+.-.|.|.|||.||+++++.+.|...+... .
T Consensus 561 ~l~qil~NLl~NAik~~~~--------g~I~i~~~~--~----~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-----~ 621 (914)
T PRK11466 561 RIRQVITNLLSNALRFTDE--------GSIVLRSRT--D----GEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS-----G 621 (914)
T ss_pred HHHHHHHHHHHHHHHhCCC--------CeEEEEEEE--c----CCEEEEEEEECCCCCCHHHHHHHhchhhcCC-----C
Confidence 4568899999999998644 255665542 1 2245799999999999999999886444322 1
Q ss_pred cccccccccccc---ccccCCeEEEEEeeCC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTAD 361 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~~ 361 (763)
..|..|+|+..+ .-.+|.++.|.|...+
T Consensus 622 ~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~ 652 (914)
T PRK11466 622 KRGGTGLGLTISSRLAQAMGGELSATSTPEV 652 (914)
T ss_pred CCCCCcccHHHHHHHHHHcCCEEEEEecCCC
Confidence 235678888643 3457888988886543
No 67
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=95.49 E-value=0.024 Score=66.21 Aligned_cols=62 Identities=19% Similarity=0.208 Sum_probs=46.8
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQP 327 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K 327 (763)
+...+--||.||+||.+... ...+.|.... .++.-.|+|.|||.|+.++-+.+.|...++.|
T Consensus 498 LeQVLvNLl~NALDA~~~~~-----~~~i~i~~~~------~~~~v~l~VrDnGpGi~~e~~~~lFePF~TtK 559 (603)
T COG4191 498 LEQVLVNLLQNALDAMAGQE-----DRRLSIRAQR------EGGQVVLTVRDNGPGIAPEALPHLFEPFFTTK 559 (603)
T ss_pred HHHHHHHHHHHHHHHhcCCC-----CCeeEEEEEe------cCCeEEEEEccCCCCCCHHHHHhhcCCccccC
Confidence 66889999999999988632 1245554442 23457899999999999999999998555555
No 68
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=95.48 E-value=0.038 Score=67.83 Aligned_cols=90 Identities=17% Similarity=0.260 Sum_probs=63.1
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCC-CEEEEEECCCCCCHHHHHHhhh-cccCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDI-PMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADD 331 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~-~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~ 331 (763)
++..+|..||+||+.+... +.+.|.+... .+. -.|.|.|||.||+++++.+.|. |.... .
T Consensus 579 ~l~~il~nLi~NAik~~~~--------g~i~i~~~~~------~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-~--- 640 (968)
T TIGR02956 579 RIRQVLINLVGNAIKFTDR--------GSVVLRVSLN------DDSSLLFEVEDTGCGIAEEEQATLFDAFTQAD-G--- 640 (968)
T ss_pred HHHHHHHHHHHHHHhhCCC--------CeEEEEEEEc------CCCeEEEEEEeCCCCCCHHHHHHHHhhhhccC-C---
Confidence 4568999999999998654 2566666531 123 6799999999999999999886 44332 1
Q ss_pred CCcccccccccccc---ccccCCeEEEEEeeCC
Q 004299 332 PNRIGRFGVGFKTG---AMRLGKDALVLTQTAD 361 (763)
Q Consensus 332 ~~~IGqFGiGfKsA---smrLG~~v~V~SK~~~ 361 (763)
....|..|+|+..+ .-.+|.++.|.|...+
T Consensus 641 ~~~~~g~GLGL~i~~~l~~~~gG~i~~~s~~~~ 673 (968)
T TIGR02956 641 RRRSGGTGLGLAISQRLVEAMDGELGVESELGV 673 (968)
T ss_pred CCCCCCccHHHHHHHHHHHHcCCEEEEEecCCC
Confidence 22335678888633 3457888888886543
No 69
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=95.37 E-value=0.038 Score=67.21 Aligned_cols=97 Identities=21% Similarity=0.267 Sum_probs=62.2
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDP 332 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~ 332 (763)
++..+|..||+||+.+... +.+.|.+..... ......-.|.|.|||.||+++++.+.+. |-...+. ..
T Consensus 408 ~l~~vl~NLl~NAik~~~~--------g~v~i~v~~~~~-~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~--~~ 476 (919)
T PRK11107 408 RLQQIITNLVGNAIKFTES--------GNIDILVELRAL-SNTKVQLEVQIRDTGIGISERQQSQLFQAFRQADAS--IS 476 (919)
T ss_pred HHHHHHHHHHHHHhhcCCC--------CcEEEEEEEEec-CCCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCC--CC
Confidence 3568899999999988644 245555543111 0111124689999999999999999885 4332221 12
Q ss_pred Cccccccccccc---cccccCCeEEEEEeeCC
Q 004299 333 NRIGRFGVGFKT---GAMRLGKDALVLTQTAD 361 (763)
Q Consensus 333 ~~IGqFGiGfKs---AsmrLG~~v~V~SK~~~ 361 (763)
...|..|+|+.. -.-.+|.++.|.|...+
T Consensus 477 ~~~~g~GLGL~i~~~i~~~~gG~i~v~s~~~~ 508 (919)
T PRK11107 477 RRHGGTGLGLVITQKLVNEMGGDISFHSQPNR 508 (919)
T ss_pred CCCCCcchhHHHHHHHHHHhCCEEEEEecCCC
Confidence 234677888853 23457888999887643
No 70
>PRK10490 sensor protein KdpD; Provisional
Probab=95.31 E-value=0.035 Score=68.76 Aligned_cols=91 Identities=12% Similarity=0.128 Sum_probs=60.6
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
++..++..||+||+.+.... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.|...++.+. ..
T Consensus 778 ~L~qVL~NLL~NAik~s~~g-------~~I~I~~~~------~~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~---~~ 841 (895)
T PRK10490 778 LFERVLINLLENAVKYAGAQ-------AEIGIDAHV------EGERLQLDVWDNGPGIPPGQEQLIFDKFARGNK---ES 841 (895)
T ss_pred HHHHHHHHHHHHHHHhCCCC-------CeEEEEEEE------eCCEEEEEEEECCCCCCHHHHHHhcCCCccCCC---CC
Confidence 46689999999999986541 145555542 123467999999999999999998864443321 12
Q ss_pred cccccccccccc---ccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
..+..|+|+..+ .-..|.++.+.|...
T Consensus 842 ~~~G~GLGL~Ivk~ive~hGG~I~v~s~~~ 871 (895)
T PRK10490 842 AIPGVGLGLAICRAIVEVHGGTIWAENRPE 871 (895)
T ss_pred CCCCccHHHHHHHHHHHHcCCEEEEEECCC
Confidence 234578888632 234677787777543
No 71
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=95.01 E-value=0.068 Score=59.60 Aligned_cols=83 Identities=19% Similarity=0.326 Sum_probs=59.2
Q ss_pred HHHHHHHHHHccHHHhhcccccccc-cccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCC---
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIY-FGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDAD--- 330 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~-~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~--- 330 (763)
+.-.+-||..||..|....-..... ...|.|.|.. +++...|.|.|-|+|++++++...|++++|.....
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 5677999999999997654222111 2356776652 33467899999999999999999999999854321
Q ss_pred --CCCcccccccccc
Q 004299 331 --DPNRIGRFGVGFK 343 (763)
Q Consensus 331 --~~~~IGqFGiGfK 343 (763)
....+--||-|+-
T Consensus 335 ~~~~~plaGfG~GLP 349 (414)
T KOG0787|consen 335 NNRTAPLAGFGFGLP 349 (414)
T ss_pred CCCcCcccccccCCc
Confidence 1455667777775
No 72
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.92 E-value=0.064 Score=66.68 Aligned_cols=92 Identities=17% Similarity=0.207 Sum_probs=61.8
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..+|..||+||+.+... +.+.|.+.. ..+.-.|+|.|||.||+++++.+.|...+..... ...
T Consensus 562 ~L~qvl~NLl~NAik~t~~--------G~I~I~v~~------~~~~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~-~~~ 626 (924)
T PRK10841 562 RLQQVISNLLSNAIKFTDT--------GCIVLHVRV------DGDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTG-VQR 626 (924)
T ss_pred HHHHHHHHHHHHHHhhCCC--------CcEEEEEEE------eCCEEEEEEEEcCcCCCHHHHHHHhcccccCCCC-CCC
Confidence 3568999999999998544 255565552 1234579999999999999999988633321111 112
Q ss_pred cccccccccccc---ccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
..+..|+|+..+ .-.+|.++.|.|...
T Consensus 627 ~~~GtGLGL~I~k~lv~~~gG~I~v~S~~g 656 (924)
T PRK10841 627 NFQGTGLGLAICEKLINMMDGDISVDSEPG 656 (924)
T ss_pred CCCCeehhHHHHHHHHHHCCCEEEEEEcCC
Confidence 334578888643 335788899888654
No 73
>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=94.81 E-value=0.11 Score=48.88 Aligned_cols=86 Identities=20% Similarity=0.167 Sum_probs=48.2
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.||+.||+...-... ..+.+.|.+.. ..+.-.|+|.|||.||+. +.+.+...++.+. .
T Consensus 40 l~~~l~eli~Nai~h~~~~~----~~~~I~v~~~~------~~~~~~i~I~D~G~gi~~--~~~~~~~~~~~~~-----~ 102 (137)
T TIGR01925 40 IKTAVSEAVTNAIIHGYEEN----CEGVVYISATI------EDHEVYITVRDEGIGIEN--LEEAREPLYTSKP-----E 102 (137)
T ss_pred HHHHHHHHHHHHHHhccCCC----CCcEEEEEEEE------eCCEEEEEEEEcCCCcCc--hhHhhCCCcccCC-----C
Confidence 45889999999997531100 01245665553 123467999999999983 4444443333221 1
Q ss_pred cccccccccccccccCCeEEEEEe
Q 004299 335 IGRFGVGFKTGAMRLGKDALVLTQ 358 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V~SK 358 (763)
.+..|+|+...- +++.++.+.+.
T Consensus 103 ~~~~GlGL~lv~-~~~~~l~~~~~ 125 (137)
T TIGR01925 103 LERSGMGFTVME-NFMDDVSVDSE 125 (137)
T ss_pred CCCCcccHHHHH-HhCCcEEEEEC
Confidence 234677775332 24455555443
No 74
>PRK10547 chemotaxis protein CheA; Provisional
Probab=94.62 E-value=0.11 Score=62.44 Aligned_cols=97 Identities=19% Similarity=0.270 Sum_probs=59.8
Q ss_pred HHHHHHHHHccHHHhhcccccc-----cccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHH------------
Q 004299 256 FGAIAELVDNSRDAKATKLLLS-----IYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVR------------ 318 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~-----l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~------------ 318 (763)
...|..||.||+|++....-.. ...+.+.|.... .++.-.|+|.|||.||+++.+.+
T Consensus 387 ~dpL~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~------~~~~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~ 460 (670)
T PRK10547 387 IDPLTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEH------QGGNICIEVTDDGAGLNRERILAKAASQGLAVSEN 460 (670)
T ss_pred HHHHHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEE------cCCEEEEEEEeCCCCCCHHHHHHHHHHcCCCcccc
Confidence 4557899999999974311000 012345565542 12345799999999999987753
Q ss_pred ---------hhhcccCCCCCCCCCcccccccccc---ccccccCCeEEEEEeeC
Q 004299 319 ---------MTYFGHKQPDADDPNRIGRFGVGFK---TGAMRLGKDALVLTQTA 360 (763)
Q Consensus 319 ---------~l~fG~S~K~~~~~~~IGqFGiGfK---sAsmrLG~~v~V~SK~~ 360 (763)
.|.-|++.+.. ...+...|+||. ...-.+|..+.|.|...
T Consensus 461 ls~~e~~~lIF~pgfst~~~--~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~~g 512 (670)
T PRK10547 461 MSDEEVGMLIFAPGFSTAEQ--VTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQG 512 (670)
T ss_pred CCHHHHHHHhhcCCcccccc--cccCCCCchhHHHHHHHHHHcCCEEEEEecCC
Confidence 34445554431 233456799984 34456888888888653
No 75
>PRK13557 histidine kinase; Provisional
Probab=94.58 E-value=0.11 Score=58.54 Aligned_cols=94 Identities=17% Similarity=0.172 Sum_probs=60.0
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccc---------cCCCCCCEEEEEECCCCCCHHHHHHhhhcccC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFK---------KAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHK 325 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~---------~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S 325 (763)
+..++..|+.||+++..... .+.|........ ...++.-.|+|.|||.||++++..+.|...++
T Consensus 278 l~~vl~nll~NA~~~~~~~~-------~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~ 350 (540)
T PRK13557 278 AEVALLNVLINARDAMPEGG-------RVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPFFT 350 (540)
T ss_pred HHHHHHHHHHHHHHhcccCC-------eEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHhccCCCcc
Confidence 55789999999999865521 333333211000 00112346999999999999999998875555
Q ss_pred CCCCCCCCccccccccccc---cccccCCeEEEEEeeC
Q 004299 326 QPDADDPNRIGRFGVGFKT---GAMRLGKDALVLTQTA 360 (763)
Q Consensus 326 ~K~~~~~~~IGqFGiGfKs---AsmrLG~~v~V~SK~~ 360 (763)
.+. ..+..|+|+.. ..-.+|..+.|.|...
T Consensus 351 ~~~-----~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~ 383 (540)
T PRK13557 351 TKE-----EGKGTGLGLSMVYGFAKQSGGAVRIYSEVG 383 (540)
T ss_pred cCC-----CCCCCCccHHHHHHHHHHCCCEEEEEecCC
Confidence 432 22456888753 3445788888887653
No 76
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=94.34 E-value=0.11 Score=65.77 Aligned_cols=95 Identities=11% Similarity=0.154 Sum_probs=60.7
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
.+..+|..||+||+++.... .+.|.+..... ......-.|+|.|||.||+++++.+.|...++.+. ..
T Consensus 828 ~l~qvl~NLl~NAik~~~~g--------~i~i~~~~~~~-~~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~---~~ 895 (1197)
T PRK09959 828 AFKQVLSNLLSNALKFTTEG--------AVKITTSLGHI-DDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSA---GR 895 (1197)
T ss_pred HHHHHHHHHHHHHHHhCCCC--------CEEEEEEEeee-cCCceEEEEEEEEcCCCCCHHHHHHhhcccccccc---CC
Confidence 35689999999999997642 34444432100 01111245899999999999999999864443321 11
Q ss_pred cccccccccccc---ccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFKTG---AMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfKsA---smrLG~~v~V~SK~~ 360 (763)
.-+..|+|+..+ .-.+|.++.|.|...
T Consensus 896 ~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~ 925 (1197)
T PRK09959 896 QQTGSGLGLMICKELIKNMQGDLSLESHPG 925 (1197)
T ss_pred CCCCcCchHHHHHHHHHHcCCEEEEEeCCC
Confidence 234578888643 334788888888654
No 77
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=94.28 E-value=0.11 Score=62.92 Aligned_cols=109 Identities=22% Similarity=0.295 Sum_probs=73.4
Q ss_pred eecChhhHhhhccccccCHHHHHHHHHHccHHHhhccccccc-----ccccEEEEEEecccccCCCCCCEEEEEECCCCC
Q 004299 237 VRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSI-----YFGRLEISIESIYFKKAGKDIPMLSIIDDGHGM 311 (763)
Q Consensus 237 v~~~p~fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l-----~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GM 311 (763)
.-+|.+.|..++ .-|..||-||+|.+-...-... ..|.+.+.... .++.-.|.|.|||.||
T Consensus 423 telDksIlE~l~--------dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~------~gn~ivIev~DDG~Gi 488 (716)
T COG0643 423 TELDKSILERLG--------DPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYH------EGNNIVIEVSDDGAGI 488 (716)
T ss_pred eeehHHHHHHhc--------ccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEc------CCCeEEEEEeeCCCCC
Confidence 456777776554 4578899999999764211111 13455555442 2356789999999999
Q ss_pred CHHHHHH-hhh-----------------------cccCCCCCCCCCccccccccc---cccccccCCeEEEEEeeCC
Q 004299 312 THQDVVR-MTY-----------------------FGHKQPDADDPNRIGRFGVGF---KTGAMRLGKDALVLTQTAD 361 (763)
Q Consensus 312 t~eeL~~-~l~-----------------------fG~S~K~~~~~~~IGqFGiGf---KsAsmrLG~~v~V~SK~~~ 361 (763)
+++.+.+ ++. .|+|.+. .-..+.--|+|| |+..-+||..+.|.|+...
T Consensus 489 d~ekI~~KAiErGli~~~~a~~lSd~Ei~~LIF~PGFSTa~--~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~ 563 (716)
T COG0643 489 DREKIREKAIERGLITEEEAETLSDEEILNLIFAPGFSTAE--QVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGK 563 (716)
T ss_pred CHHHHHHHHHHcCCCChHHhccCCHHHHHHHHhcCCCCcch--hhhcccCCccCHHHHHHHHHHcCCEEEEEecCCC
Confidence 9998855 443 3333332 245677779999 7888889999999997654
No 78
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=93.96 E-value=0.086 Score=51.98 Aligned_cols=58 Identities=16% Similarity=0.102 Sum_probs=40.8
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYF 322 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~f 322 (763)
+..|+.|++.||+..+-... ..+.+.|.+.. ..+.-.+.|.|+|.||+++.+...+..
T Consensus 43 l~lav~Ea~~Nai~Hg~~~~----~~~~I~I~~~~------~~~~l~i~V~D~G~g~d~~~~~~~~~p 100 (161)
T PRK04069 43 MKIAVSEACTNAVQHAYKED----EVGEIHIRFEI------YEDRLEIVVADNGVSFDYETLKSKLGP 100 (161)
T ss_pred HHHHHHHHHHHHHHhccCCC----CCCeEEEEEEE------ECCEEEEEEEECCcCCChHHhccccCC
Confidence 34799999999998875421 01245665553 124678999999999999887766553
No 79
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=93.20 E-value=0.14 Score=56.51 Aligned_cols=72 Identities=25% Similarity=0.448 Sum_probs=53.9
Q ss_pred HHHHHHHHHHccHHHh-hcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 255 IFGAIAELVDNSRDAK-ATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~-A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
+|-++.|.|.|++-.. |+ ++.|.+... ++.-.|+|.|||.|.+.+..
T Consensus 280 l~rivQEaltN~~rHa~A~---------~v~V~l~~~------~~~l~l~V~DnG~Gf~~~~~----------------- 327 (365)
T COG4585 280 LFRIVQEALTNAIRHAQAT---------EVRVTLERT------DDELRLEVIDNGVGFDPDKE----------------- 327 (365)
T ss_pred HHHHHHHHHHHHHhccCCc---------eEEEEEEEc------CCEEEEEEEECCcCCCcccc-----------------
Confidence 7899999999999764 45 677777641 23578999999999997642
Q ss_pred ccccccc-cccccccccCCeEEEEEee
Q 004299 334 RIGRFGV-GFKTGAMRLGKDALVLTQT 359 (763)
Q Consensus 334 ~IGqFGi-GfKsAsmrLG~~v~V~SK~ 359 (763)
. |.||+ |++-=...+|..+.|.|..
T Consensus 328 ~-~~~GL~~mreRv~~lgG~l~i~S~~ 353 (365)
T COG4585 328 G-GGFGLLGMRERVEALGGTLTIDSAP 353 (365)
T ss_pred C-CCcchhhHHHHHHHcCCEEEEEecC
Confidence 1 56676 6664445589999999877
No 80
>PRK03660 anti-sigma F factor; Provisional
Probab=93.10 E-value=0.46 Score=45.19 Aligned_cols=85 Identities=19% Similarity=0.178 Sum_probs=47.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.||+.||+..+.... ..+.+.|.+.. ..+.-.|+|.|+|.||+. +...+...++.+..
T Consensus 40 l~~~l~eli~Nai~h~~~~~----~~~~i~i~~~~------~~~~l~i~I~D~G~g~~~--~~~~~~~~~~~~~~----- 102 (146)
T PRK03660 40 IKTAVSEAVTNAIIHGYENN----PDGVVYIEVEI------EEEELEITVRDEGKGIED--IEEAMQPLYTTKPE----- 102 (146)
T ss_pred HHHHHHHHHHHHHHHhcCCC----CCCEEEEEEEE------CCCEEEEEEEEccCCCCh--HHHhhCCCcccCCC-----
Confidence 44889999999997643211 01245565542 123457999999999986 33444333322211
Q ss_pred cccccccccccccccCCeEEEEE
Q 004299 335 IGRFGVGFKTGAMRLGKDALVLT 357 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V~S 357 (763)
-+.-|+|+..+- ++++.+.+.+
T Consensus 103 ~~~~GlGL~i~~-~~~~~i~~~~ 124 (146)
T PRK03660 103 LERSGMGFTVME-SFMDEVEVES 124 (146)
T ss_pred CCCccccHHHHH-HhCCeEEEEe
Confidence 123578886432 2455554443
No 81
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=92.51 E-value=0.21 Score=57.82 Aligned_cols=69 Identities=22% Similarity=0.298 Sum_probs=45.8
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..++.|+++||+.+... +.+.|.+.. .++.-.|+|.|||.||++++
T Consensus 411 L~ril~nlL~NAiKha~~--------~~I~I~l~~------~~~~i~l~V~DnG~Gi~~~~------------------- 457 (495)
T PRK11644 411 LFRVCQEGLNNIVKHADA--------SAVTLQGWQ------QDERLMLVIEDDGSGLPPGS------------------- 457 (495)
T ss_pred HHHHHHHHHHHHHHhCCC--------CEEEEEEEE------cCCEEEEEEEECCCCCCcCC-------------------
Confidence 457899999999987543 155666552 12346799999999998652
Q ss_pred ccccccccccc---ccccCCeEEEEE
Q 004299 335 IGRFGVGFKTG---AMRLGKDALVLT 357 (763)
Q Consensus 335 IGqFGiGfKsA---smrLG~~v~V~S 357 (763)
+..|+|+..+ .-.+|.++.+.|
T Consensus 458 -~~~GLGL~ivr~iv~~~GG~i~v~S 482 (495)
T PRK11644 458 -GQQGFGLRGMRERVTALGGTLTISC 482 (495)
T ss_pred -CCCCCcHHHHHHHHHHcCCEEEEEc
Confidence 1237777532 234677777766
No 82
>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=92.43 E-value=0.46 Score=46.97 Aligned_cols=89 Identities=15% Similarity=0.053 Sum_probs=53.1
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+--|+.|++.||+..+-... ..+.+.|.+.. ..+.-.+.|.|+|.|++++.+...+........ ...
T Consensus 43 l~lav~Ea~~Nai~ha~~~~----~~~~I~I~~~~------~~~~l~i~V~D~G~gfd~~~~~~~~~~~~~~~~---~~~ 109 (159)
T TIGR01924 43 LKIAVSEACTNAVKHAYKEG----ENGEIGISFHI------YEDRLEIIVSDQGDSFDMDTFKQSLGPYDGSEP---IDD 109 (159)
T ss_pred HHHHHHHHHHHHHHhccCCC----CCCeEEEEEEE------eCCEEEEEEEEcccccCchhhccccCCCCCCCC---ccc
Confidence 45799999999998764310 01256666553 123567889999999998877654432211111 111
Q ss_pred cccccccccccccccCCeEEEEE
Q 004299 335 IGRFGVGFKTGAMRLGKDALVLT 357 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V~S 357 (763)
...-|.|+...- +|.+++.+.+
T Consensus 110 ~~~~G~GL~Li~-~L~D~v~~~~ 131 (159)
T TIGR01924 110 LREGGLGLFLIE-TLMDEVEVYE 131 (159)
T ss_pred CCCCccCHHHHH-HhccEEEEEe
Confidence 122377776443 3667777765
No 83
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=90.96 E-value=0.33 Score=56.61 Aligned_cols=74 Identities=16% Similarity=0.230 Sum_probs=48.5
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPN 333 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~ 333 (763)
+++..+.|+|+||+.+... +.+.|.+.. .++.-.|+|.|||.||+++.- +
T Consensus 469 ~l~~il~ell~NA~kha~a--------~~i~V~~~~------~~~~~~l~V~D~G~Gi~~~~~----------~------ 518 (569)
T PRK10600 469 HLLQIAREALSNALKHAQA--------SEVVVTVAQ------NQNQVKLSVQDNGCGVPENAE----------R------ 518 (569)
T ss_pred HHHHHHHHHHHHHHHhCCC--------CeEEEEEEE------cCCEEEEEEEECCCCCCcccc----------C------
Confidence 3678899999999987532 155666542 123467999999999997531 0
Q ss_pred cccccccccc---ccccccCCeEEEEEeeC
Q 004299 334 RIGRFGVGFK---TGAMRLGKDALVLTQTA 360 (763)
Q Consensus 334 ~IGqFGiGfK---sAsmrLG~~v~V~SK~~ 360 (763)
.-|+|+. .-.-++|.++.|.|...
T Consensus 519 ---~~glGL~i~~~~~~~lgG~l~i~s~~~ 545 (569)
T PRK10600 519 ---SNHYGLIIMRDRAQSLRGDCRVRRRES 545 (569)
T ss_pred ---CCCccHHHHHHHHHHcCCEEEEEECCC
Confidence 1255553 22345888888877643
No 84
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=90.73 E-value=0.72 Score=42.67 Aligned_cols=82 Identities=16% Similarity=0.132 Sum_probs=49.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+..|+.|++.||+..+..... ...+.|.+.. + .+.-.|.|.|+|.|+++..+.....-+. ..
T Consensus 32 ~~lav~E~~~Nav~H~~~~~~----~~~v~v~~~~--~----~~~l~i~v~D~G~~~d~~~~~~~~~~~~--------~~ 93 (125)
T PF13581_consen 32 LELAVSEALTNAVEHGYPGDP----DGPVDVRLEV--D----PDRLRISVRDNGPGFDPEQLPQPDPWEP--------DS 93 (125)
T ss_pred HHHHHHHHHHHHHHHcCCCCC----CcEEEEEEEE--c----CCEEEEEEEECCCCCChhhccCcccccC--------CC
Confidence 458999999999998776311 0145555443 1 2357899999999999986533221111 22
Q ss_pred cccccccccccccccCCeEEE
Q 004299 335 IGRFGVGFKTGAMRLGKDALV 355 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V 355 (763)
...-|.|+...-. +.+++.+
T Consensus 94 ~~~~G~Gl~li~~-l~D~~~~ 113 (125)
T PF13581_consen 94 LREGGRGLFLIRS-LMDEVDY 113 (125)
T ss_pred CCCCCcCHHHHHH-HHcEEEE
Confidence 3334555543322 5677766
No 85
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=90.47 E-value=0.63 Score=53.37 Aligned_cols=57 Identities=21% Similarity=0.267 Sum_probs=39.3
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhh
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMT 320 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l 320 (763)
|--.|-=|||||+-|+...+- ..+.+.|.+.. ..+.-.++|.|||.||+++......
T Consensus 351 p~l~lqpLvENAi~hgi~~~~---~~~~I~i~~~~------~~~~i~i~i~Dng~g~~~~~~~~~~ 407 (456)
T COG2972 351 PKLVLQPLVENAIEHGIEPKR---PGGSIAISAKK------QDDVIQISISDNGPGIDEEKLEGLS 407 (456)
T ss_pred chHHHhHHHHHHHHHhcccCC---CCCEEEEEEEE------cCCEEEEEEeeCCCCCChhHHHHHH
Confidence 567788999999999865321 11234444432 1346789999999999998876654
No 86
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=90.02 E-value=0.31 Score=54.34 Aligned_cols=74 Identities=19% Similarity=0.371 Sum_probs=51.6
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCCCc
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNR 334 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~~~ 334 (763)
...|--+|.||+...-. .+.+.|.+.. ....-.++|.|.|.|++++++.+.|. |-+-.|. ....
T Consensus 344 tQVldNii~NA~KYsP~-------Gg~Itv~~~~------~~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkA--RsR~ 408 (459)
T COG5002 344 TQVLDNIISNALKYSPD-------GGRITVSVKQ------RETWVEISISDQGLGIPKEDLEKIFDRFYRVDKA--RSRK 408 (459)
T ss_pred HHHHHHHHHHHhhcCCC-------CCeEEEEEee------eCcEEEEEEccCCCCCCchhHHHHHHHHhhhhhh--hhhc
Confidence 45666677777755443 3467777663 12246799999999999999999985 6555443 3457
Q ss_pred cccccccccc
Q 004299 335 IGRFGVGFKT 344 (763)
Q Consensus 335 IGqFGiGfKs 344 (763)
.|--|+|+.-
T Consensus 409 ~gGTGLGLaI 418 (459)
T COG5002 409 MGGTGLGLAI 418 (459)
T ss_pred CCCCchhHHH
Confidence 7888898863
No 87
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=89.79 E-value=1 Score=55.06 Aligned_cols=88 Identities=15% Similarity=0.240 Sum_probs=56.8
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh-cccCCCCCCCCCc
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY-FGHKQPDADDPNR 334 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~-fG~S~K~~~~~~~ 334 (763)
..+|.-|||||+-..-.. .++.|.+.. + .+.-.|.|.|||.|++.+++.+.|. |-+..+.. .
T Consensus 777 eQVLiNLleNA~Kyap~~-------s~I~I~~~~--~----~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~---~- 839 (890)
T COG2205 777 EQVLINLLENALKYAPPG-------SEIRINAGV--E----RENVVFSVIDEGPGIPEGELERIFDKFYRGNKES---A- 839 (890)
T ss_pred HHHHHHHHHHHHhhCCCC-------CeEEEEEEE--e----cceEEEEEEeCCCCCChhHHHHhhhhhhcCCCCC---C-
Confidence 489999999999776551 145555442 1 2467899999999999999999995 55544421 1
Q ss_pred ccccccccccc--c-cccCCeEEEEEeeC
Q 004299 335 IGRFGVGFKTG--A-MRLGKDALVLTQTA 360 (763)
Q Consensus 335 IGqFGiGfKsA--s-mrLG~~v~V~SK~~ 360 (763)
..--|+|+.-+ + -..|..+.+..+..
T Consensus 840 ~~G~GLGLsIc~~iv~ahgG~I~a~~~~~ 868 (890)
T COG2205 840 TRGVGLGLAICRGIVEAHGGTISAENNPG 868 (890)
T ss_pred CCCccccHHHHHHHHHHcCCeEEEEEcCC
Confidence 33345555422 1 23566666666433
No 88
>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=89.44 E-value=0.2 Score=46.33 Aligned_cols=45 Identities=16% Similarity=0.538 Sum_probs=35.6
Q ss_pred Ccccccc-CC--CCCchhhhHHHHHHHhhcCCeEEEEEece------eEEEEeC
Q 004299 70 SHCFLSP-AP--ECSRDHNEWRRFLIYLQGRDMVAIAKFKF------WEFYILP 114 (763)
Q Consensus 70 ~~~~~~p-~~--~~~~~~~ew~~f~~~l~~~~~~~~~~~~~------~~~~~~~ 114 (763)
-.+++.+ .| .++.+...+.+|..||...+|+|||.++. ..|||+|
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 89
>PRK13560 hypothetical protein; Provisional
Probab=87.25 E-value=0.71 Score=54.98 Aligned_cols=76 Identities=20% Similarity=0.259 Sum_probs=45.9
Q ss_pred HHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCccc
Q 004299 257 GAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIG 336 (763)
Q Consensus 257 ~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~IG 336 (763)
..|.+||.||+++..... ..+.+.|.+.. .+.+.-.|+|.|||+||+++.. +. +
T Consensus 714 ~il~NLl~NAik~~~~~~----~~~~i~i~~~~-----~~~~~v~i~V~D~G~GI~~~~~-----~~---~--------- 767 (807)
T PRK13560 714 LIISELLSNALKHAFPDG----AAGNIKVEIRE-----QGDGMVNLCVADDGIGLPAGFD-----FR---A--------- 767 (807)
T ss_pred HHHHHHHHHHHHhhccCC----CCceEEEEEEE-----cCCCEEEEEEEeCCCcCCcccc-----cc---c---------
Confidence 468899999999754311 01245555542 1123467999999999998621 00 0
Q ss_pred ccccccccc---ccccCCeEEEEEe
Q 004299 337 RFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 337 qFGiGfKsA---smrLG~~v~V~SK 358 (763)
.-|+|+..+ .-..|..+.|.|.
T Consensus 768 ~~gLGLai~~~iv~~~gG~I~v~S~ 792 (807)
T PRK13560 768 AETLGLQLVCALVKQLDGEIALDSR 792 (807)
T ss_pred cCCccHHHHHHHHHHcCCEEEEEcC
Confidence 115777532 3357888888774
No 90
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=87.15 E-value=1.1 Score=53.25 Aligned_cols=60 Identities=15% Similarity=0.134 Sum_probs=42.0
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhh
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTY 321 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~ 321 (763)
-.|+--||.||.+|.+.......... .|.+.. + ..++.-.+.|.|||.|.+.+..++++-
T Consensus 602 ~Qvf~NliKNA~EAi~~~~~~e~~~~--~i~~~~--~--~~~g~i~v~V~DNGkG~p~e~r~r~~E 661 (712)
T COG5000 602 GQVFGNLLKNAAEAIEAVEAEERRTA--LIRVSL--D--DADGRIVVDVIDNGKGFPRENRHRALE 661 (712)
T ss_pred HHHHHHHHHhHHHHhhhcccccCCcc--eEEEEE--e--cCCCeEEEEEecCCCCCChHHhhhhcc
Confidence 37899999999999876432221111 344432 1 124567899999999999999999885
No 91
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=86.64 E-value=1.1 Score=52.40 Aligned_cols=79 Identities=19% Similarity=0.403 Sum_probs=54.9
Q ss_pred ccccccCHHHHHHHHHHccHHH-hhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCC
Q 004299 248 GQAHSGWIFGAIAELVDNSRDA-KATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQ 326 (763)
Q Consensus 248 ~tsh~~w~f~AIaELIDNAiDA-~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~ 326 (763)
-.-| ...-++|-+.||+.. .|+ +++|.+.. ..|...++|+|||+|++..
T Consensus 478 qqvH---lLqIvREAlsNa~KHa~As---------~i~V~~~~------~~g~~~~~VeDnG~Gi~~~------------ 527 (574)
T COG3850 478 QQVH---LLQIVREALSNAIKHAQAS---------EIKVTVSQ------NDGQVTLTVEDNGVGIDEA------------ 527 (574)
T ss_pred HHHH---HHHHHHHHHHHHHHhcccC---------eEEEEEEe------cCCeEEEEEeeCCcCCCCc------------
Confidence 3456 567899999999965 455 67777662 2257899999999999975
Q ss_pred CCCCCCCccccccccccc-cccccCCeEEEEEeeCC
Q 004299 327 PDADDPNRIGRFGVGFKT-GAMRLGKDALVLTQTAD 361 (763)
Q Consensus 327 K~~~~~~~IGqFGiGfKs-AsmrLG~~v~V~SK~~~ 361 (763)
....|.||+-.-. =.-+|+..+.|..+..+
T Consensus 528 -----~e~~gHyGL~IM~ERA~~L~~~L~i~~~~~g 558 (574)
T COG3850 528 -----AEPSGHYGLNIMRERAQRLGGQLRIRRREGG 558 (574)
T ss_pred -----cCCCCCcchHHHHHHHHHhcCeEEEeecCCC
Confidence 2566799985421 12247777777776544
No 92
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=85.24 E-value=1.9 Score=49.71 Aligned_cols=63 Identities=21% Similarity=0.253 Sum_probs=47.8
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPD 328 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~ 328 (763)
+...+.-|+-||+||.... ..+|.+.. .. ...+..+|.|.|||.|-+.+-+.+.+....++|.
T Consensus 565 ieQVlvNl~~NaldA~~h~--------~p~i~~~~--~~-~~~e~l~i~i~DnGqGwp~~l~dkLl~PFttsK~ 627 (673)
T COG4192 565 IEQVLVNLIVNALDASTHF--------APWIKLIA--LG-TEQEMLRIAIIDNGQGWPHELVDKLLTPFTTSKE 627 (673)
T ss_pred HHHHHHHHHHHHHhhhccC--------CceEEEEe--ec-CcccceEEEEecCCCCCchhHHHHhcCCcccccc
Confidence 4578899999999999873 34566553 11 2345678999999999999999999986666664
No 93
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=84.20 E-value=1.4 Score=46.09 Aligned_cols=50 Identities=22% Similarity=0.228 Sum_probs=36.2
Q ss_pred HHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCC-CCEEEEEECCCCCCHH
Q 004299 256 FGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKD-IPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 256 f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~-~~~L~I~DNG~GMt~e 314 (763)
--++-||+.||+..++.-. ..+.+.|.+... ..+ ...++|.|||.|++.+
T Consensus 124 gliv~EL~tNa~Khaf~~~----~~G~I~I~~~~~-----~~~~~~~l~v~deg~G~~~~ 174 (221)
T COG3920 124 GLIVHELVTNALKHAFLSR----PGGEIRITLSRE-----GDGGRFLLTVWDEGGGPPVE 174 (221)
T ss_pred HHHHHHHHHHHHHhcCCCC----CCCEEEEEEEEc-----CCCCeEEEEEEECCCCCCCC
Confidence 4789999999999887631 124677777641 112 3689999999999864
No 94
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=81.06 E-value=3.9 Score=47.12 Aligned_cols=47 Identities=21% Similarity=0.249 Sum_probs=32.2
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
....+.+|+.||+.+... +.+.|.+.. ...+.-.|.|.|||.||+++
T Consensus 472 l~qv~~nll~NA~k~~~~--------~~i~i~~~~-----~~~~~~~i~V~D~G~Gi~~~ 518 (565)
T PRK10935 472 LLQIIREATLNAIKHANA--------SEIAVSCVT-----NPDGEHTVSIRDDGIGIGEL 518 (565)
T ss_pred HHHHHHHHHHHHHhcCCC--------CeEEEEEEE-----cCCCEEEEEEEECCcCcCCC
Confidence 446899999999986433 145555542 11234579999999999863
No 95
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=79.79 E-value=7.6 Score=38.29 Aligned_cols=87 Identities=17% Similarity=0.134 Sum_probs=48.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCc
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNR 334 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~ 334 (763)
+-.|+.|++.|++.+.-+.- ...+.+.|.+.. + .+.-.++|.|.|.|+ +++...+.-++... ..-.
T Consensus 41 l~~av~E~~~N~v~Ha~~~~---~~~g~I~i~~~~--~----~~~~~i~i~D~G~~~--~~~~~~~~~~~~~~---~~~~ 106 (146)
T COG2172 41 LAIAVSEALTNAVKHAYKLD---PSEGEIRIEVSL--D----DGKLEIRIWDQGPGI--EDLEESLGPGDTTA---EGLQ 106 (146)
T ss_pred HHHHHHHHHHHHHHHHhhcC---CCCceEEEEEEE--c----CCeEEEEEEeCCCCC--CCHHHhcCCCCCCC---cccc
Confidence 45899999999998865521 011244554442 1 245789999999554 45566666553322 1223
Q ss_pred cccccccccccccccCCeEEEEEe
Q 004299 335 IGRFGVGFKTGAMRLGKDALVLTQ 358 (763)
Q Consensus 335 IGqFGiGfKsAsmrLG~~v~V~SK 358 (763)
.|-+|+++. .++-+++.+...
T Consensus 107 ~~G~Gl~l~---~~~~D~~~~~~~ 127 (146)
T COG2172 107 EGGLGLFLA---KRLMDEFSYERS 127 (146)
T ss_pred cccccHHHH---hhhheeEEEEec
Confidence 343444322 234566666543
No 96
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=77.62 E-value=2.5 Score=50.50 Aligned_cols=108 Identities=19% Similarity=0.211 Sum_probs=63.4
Q ss_pred cceeecChhhHhhhccccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCH
Q 004299 234 KNFVRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTH 313 (763)
Q Consensus 234 ~~~v~~~p~fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~ 313 (763)
.-.+++.| |+.....-+ -.-....-||.||+-.+.... ..+.|..+. ..+..++.|.|||.|+++
T Consensus 619 gaei~i~~--lp~v~~d~~-~l~qv~~NLi~Naik~~~~e~------~~i~I~~~r------~ed~~t~sV~dng~Gi~~ 683 (750)
T COG4251 619 GAEIRIAP--LPVVAADAT-QLGQVFQNLIANAIKFGGPEN------PDIEISAER------QEDEWTFSVRDNGIGIDP 683 (750)
T ss_pred cceEEecc--cceeecCHH-HHHHHHHHHHhhheecCCCCC------CceEEeeec------cCCceEEEecCCCCCcCH
Confidence 34566666 665554442 234567788889887765520 145665542 235789999999999999
Q ss_pred HHHHHhhhcccCCCCCCCCCcccccccccccc---ccccCCeEEEEEee
Q 004299 314 QDVVRMTYFGHKQPDADDPNRIGRFGVGFKTG---AMRLGKDALVLTQT 359 (763)
Q Consensus 314 eeL~~~l~fG~S~K~~~~~~~IGqFGiGfKsA---smrLG~~v~V~SK~ 359 (763)
+-+.+.|.+...-.. ...-.| -|+|+.-+ .-+-+..+-|.|+.
T Consensus 684 a~~~riF~iFqRl~s--~~~y~g-tG~GL~I~kkI~e~H~G~i~vEs~~ 729 (750)
T COG4251 684 AYFERIFVIFQRLHS--RDEYLG-TGLGLAICKKIAERHQGRIWVESTP 729 (750)
T ss_pred HHHHHHHHHHHhcCc--hhhhcC-CCccHHHHHHHHHHhCceEEEeecC
Confidence 999998763322110 112223 67777522 12334555566653
No 98
>PRK13559 hypothetical protein; Provisional
Probab=74.98 E-value=3.3 Score=44.83 Aligned_cols=52 Identities=17% Similarity=0.061 Sum_probs=33.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
+..++.|||.||+.+++... ..+.+.|.+... ...+...|.+.|||.||+++
T Consensus 268 l~~vl~nLi~NA~k~~~~~~----~~g~i~v~~~~~----~~~~~~~i~v~d~G~~~~~~ 319 (361)
T PRK13559 268 LGLVLHELAVNAIKHGALSA----DQGRISISWKPS----PEGAGFRIDWQEQGGPTPPK 319 (361)
T ss_pred HHHHHHHHHHhHHHhccccC----CCcEEEEEEEec----CCCCeEEEEEECCCCCCCCC
Confidence 45789999999999854210 123566665311 12345688899999998764
No 99
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=61.99 E-value=3.9 Score=47.54 Aligned_cols=78 Identities=21% Similarity=0.190 Sum_probs=48.9
Q ss_pred CHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCC---CCCHHHHHHhhhcccCCCCC-
Q 004299 254 WIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGH---GMTHQDVVRMTYFGHKQPDA- 329 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~---GMt~eeL~~~l~fG~S~K~~- 329 (763)
+|..|++|+|-||+=...=. .....++|.|- ...|.|.-.|. ||+++++.+.-++-+...-.
T Consensus 270 yP~~alREai~NAv~HRDYs----~~~~~v~I~iy----------dDRieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~ 335 (467)
T COG2865 270 YPLEALREAIINAVIHRDYS----IRGRNVHIEIY----------DDRIEITNPGGLPPGITPEDLLKGRSKSRNPVLAK 335 (467)
T ss_pred CCHHHHHHHHHHHHHhhccc----cCCCceEEEEE----------CCeEEEECCCCCCCCCChhHcccCCCcccCHHHHH
Confidence 58899999999999442210 00125666654 25799999886 89988876542222211100
Q ss_pred --CCCCcccccccccccc
Q 004299 330 --DDPNRIGRFGVGFKTG 345 (763)
Q Consensus 330 --~~~~~IGqFGiGfKsA 345 (763)
.+.+.|-++|.|+...
T Consensus 336 ~l~~~~liE~~GSGi~rm 353 (467)
T COG2865 336 VLRDMGLIEERGSGIRRM 353 (467)
T ss_pred HHHHhhhHHHhCccHHHH
Confidence 1457788999999643
No 100
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=61.13 E-value=11 Score=42.56 Aligned_cols=45 Identities=29% Similarity=0.428 Sum_probs=32.7
Q ss_pred HHHHHHHHHHccHH-HhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 255 IFGAIAELVDNSRD-AKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 255 ~f~AIaELIDNAiD-A~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
++-..-|++-|=.. |.|+ +++|.+-. +++.-+++|+|||.|+++.
T Consensus 411 LyRl~QE~LNNI~KHA~AS---------~V~i~l~~------~~e~l~Lei~DdG~Gl~~~ 456 (497)
T COG3851 411 LYRLCQELLNNICKHADAS---------AVTIQLWQ------QDERLMLEIEDDGSGLPPG 456 (497)
T ss_pred HHHHHHHHHHHHHhccccc---------eEEEEEee------CCcEEEEEEecCCcCCCCC
Confidence 57778899988764 4556 67776652 2234789999999999864
No 101
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=60.34 E-value=15 Score=40.92 Aligned_cols=81 Identities=17% Similarity=0.246 Sum_probs=46.6
Q ss_pred CHHHHHHHHHHccHHHhhcccc----ccc-ccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCC
Q 004299 254 WIFGAIAELVDNSRDAKATKLL----LSI-YFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPD 328 (763)
Q Consensus 254 w~f~AIaELIDNAiDA~A~~~~----~~l-~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~ 328 (763)
.+..|+--||.||..|.+.+.. +.+ +-..+.+.|....+ .=.-.|.|.|||.|++++-....|...=|.|.
T Consensus 241 qliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~----rl~l~leViDNGPGVP~~L~~~lF~P~Vs~r~ 316 (363)
T COG3852 241 QLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRY----RLALPLEVIDNGPGVPPDLQDHLFYPMVSGRE 316 (363)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCcee----EeeeeeEEecCCCCCChHHhhhccccccccCC
Confidence 3679999999999999885210 000 00012222221000 11345889999999999887777764333332
Q ss_pred CCCCCcccccccccccc
Q 004299 329 ADDPNRIGRFGVGFKTG 345 (763)
Q Consensus 329 ~~~~~~IGqFGiGfKsA 345 (763)
|--|+|+..|
T Consensus 317 -------~GsGLGLala 326 (363)
T COG3852 317 -------GGTGLGLALA 326 (363)
T ss_pred -------CCccccHHHH
Confidence 2336776543
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=54.14 E-value=3 Score=33.10 Aligned_cols=34 Identities=24% Similarity=0.735 Sum_probs=22.8
Q ss_pred CCCCceeecccchhhccCCC-CCCC---CCCCCCcccc
Q 004299 650 KPDQEWVQCNKCRKWRMLDP-GFDT---KSLPVEWFCY 683 (763)
Q Consensus 650 ~~~~~WVQCd~C~KWR~Lp~-~~~~---~~lp~~W~C~ 683 (763)
.....|||||.|..|-...= +... ......|+|.
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 2211 2233489985
No 103
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=42.17 E-value=24 Score=41.31 Aligned_cols=63 Identities=21% Similarity=0.195 Sum_probs=41.7
Q ss_pred eecChhhHhhhccccccCHHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHH
Q 004299 237 VRADPSYLQTLGQAHSGWIFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQ 314 (763)
Q Consensus 237 v~~~p~fL~s~~tsh~~w~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~e 314 (763)
+.+|+++..- +. |---|-=||.||+-.+-+... .-+.+.|.++.. +..-.+.|+|||.|+.++
T Consensus 445 i~id~~l~~~----~i--P~filQPLVENAIKHG~~~~~---~~g~V~I~V~~~------d~~l~i~VeDng~li~p~ 507 (557)
T COG3275 445 IDIDEELRQV----QI--PSFILQPLVENAIKHGISQLK---DTGRVTISVEKE------DADLRIEVEDNGGLIQPD 507 (557)
T ss_pred EecCHHHhhc----cC--chhhhhHHHHHHHHhcccchh---cCCceEEEEEEe------CCeEEEEEecCCCCcCCC
Confidence 4555555432 22 344588899999988766431 123677777641 124789999999999996
No 104
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=36.20 E-value=16 Score=34.62 Aligned_cols=17 Identities=24% Similarity=0.821 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 84 ~s~~~WdRFMRFmeRYA 100 (109)
T TIGR03047 84 KSEDEWDRFMRFMERYA 100 (109)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 105
>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=35.03 E-value=14 Score=34.91 Aligned_cols=15 Identities=27% Similarity=0.831 Sum_probs=12.8
Q ss_pred hhhHHHHHHHhhcCC
Q 004299 84 HNEWRRFLIYLQGRD 98 (763)
Q Consensus 84 ~~ew~~f~~~l~~~~ 98 (763)
..+|++||||+.+++
T Consensus 86 ~~~WdRFMRFMeRYA 100 (108)
T PF03912_consen 86 EEEWDRFMRFMERYA 100 (108)
T ss_dssp SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 469999999998764
No 106
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=34.86 E-value=17 Score=34.66 Aligned_cols=17 Identities=12% Similarity=0.378 Sum_probs=13.9
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 91 ~s~~~WdRFMRFMeRYA 107 (113)
T PRK13610 91 NSEEAFERFMRFASRYA 107 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998775
No 107
>PF14501 HATPase_c_5: GHKL domain
Probab=34.29 E-value=1.3e+02 Score=26.93 Aligned_cols=46 Identities=17% Similarity=0.143 Sum_probs=26.9
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCC
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHG 310 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~G 310 (763)
+...+.-|+|||++|.....- ...+.|.+.. ..+...|.|.-...+
T Consensus 6 l~~il~nlldNAiea~~~~~~----~~~I~i~~~~------~~~~~~i~i~N~~~~ 51 (100)
T PF14501_consen 6 LCRILGNLLDNAIEACKKYED----KRFISISIRE------ENGFLVIIIENSCEK 51 (100)
T ss_pred HHHHHHHHHHHHHHHHHhcCC----CcEEEEEEEe------cCCEEEEEEEECCCC
Confidence 457789999999999776320 1134444442 123455666655444
No 108
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=34.17 E-value=19 Score=34.33 Aligned_cols=17 Identities=29% Similarity=0.794 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 85 ~s~~~WdRFMRFMeRYA 101 (111)
T PLN00039 85 RSPREWDRFMRFMERYA 101 (111)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 109
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=33.16 E-value=20 Score=34.25 Aligned_cols=17 Identities=24% Similarity=0.792 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T PRK13612 87 KSEQEWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 110
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=32.63 E-value=59 Score=36.74 Aligned_cols=58 Identities=21% Similarity=0.422 Sum_probs=37.5
Q ss_pred cEEEEEEecccccCCCCCCEEEEEECCCCCCHHHHHHhhhcccCCCCCCCCCcccccccccccc---ccccCCeEEEEEe
Q 004299 282 RLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDVVRMTYFGHKQPDADDPNRIGRFGVGFKTG---AMRLGKDALVLTQ 358 (763)
Q Consensus 282 ~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL~~~l~fG~S~K~~~~~~~IGqFGiGfKsA---smrLG~~v~V~SK 358 (763)
++.|.+.. ..+.-.+.|.|||.|.+..++.+- +.|+|+..- .-.+|..++|.|-
T Consensus 379 rv~ill~~------~~d~vql~vrDnG~GF~~~~~~~~-----------------~~GiGLRNMrERma~~GG~~~v~s~ 435 (459)
T COG4564 379 RVTILLQQ------MGDMVQLMVRDNGVGFSVKEALQK-----------------RHGIGLRNMRERMAHFGGELEVESS 435 (459)
T ss_pred EEEEEecc------CCcceEEEEecCCCCccchhhccC-----------------ccccccccHHHHHHHhCceEEEEec
Confidence 55665542 234678999999999998876321 157777421 1126888888886
Q ss_pred eCCC
Q 004299 359 TADS 362 (763)
Q Consensus 359 ~~~~ 362 (763)
..|+
T Consensus 436 p~GT 439 (459)
T COG4564 436 PQGT 439 (459)
T ss_pred CCCc
Confidence 6654
No 111
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=32.50 E-value=21 Score=33.64 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 80 ~s~~~wdRFMRFmeRYA 96 (104)
T PRK13611 80 ETEAEWDRFLRFMERFS 96 (104)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 35679999999998775
No 112
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=31.98 E-value=21 Score=34.05 Aligned_cols=17 Identities=18% Similarity=0.729 Sum_probs=14.0
Q ss_pred chhhhHHHHHHHhhcCC
Q 004299 82 RDHNEWRRFLIYLQGRD 98 (763)
Q Consensus 82 ~~~~ew~~f~~~l~~~~ 98 (763)
+...+|++||||..+++
T Consensus 87 ~s~~~WdRFMRFMeRYA 103 (113)
T CHL00128 87 KNPEAWDRFMRFMERYA 103 (113)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34579999999998875
No 113
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=25.91 E-value=1.9e+02 Score=36.12 Aligned_cols=49 Identities=16% Similarity=0.377 Sum_probs=33.5
Q ss_pred HHHHHHHHHHccHHHhhcccccccccccEEEEEEecccccCCCCCCEEEEEECCCCCCHHHH
Q 004299 255 IFGAIAELVDNSRDAKATKLLLSIYFGRLEISIESIYFKKAGKDIPMLSIIDDGHGMTHQDV 316 (763)
Q Consensus 255 ~f~AIaELIDNAiDA~A~~~~~~l~~~~i~I~I~~~~d~~~~~~~~~L~I~DNG~GMt~eeL 316 (763)
++-..-|++.||.| ..+-.. ...+.+.|+. ....++|.+||.|++-+..
T Consensus 54 l~ki~dEilvNaad-k~rd~~----m~~i~v~i~~--------e~~~isv~nnGkGIPv~~H 102 (842)
T KOG0355|consen 54 LYKIFDEILVNAAD-KQRDPK----MNTIKVTIDK--------EKNEISVYNNGKGIPVTIH 102 (842)
T ss_pred HHHHHHHHhhcccc-cccCCC----cceeEEEEcc--------CCCEEEEEeCCCcceeeec
Confidence 45678899999999 443110 1145555552 2578999999999987654
No 114
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=23.66 E-value=36 Score=36.94 Aligned_cols=29 Identities=21% Similarity=0.795 Sum_probs=22.3
Q ss_pred ceeeccc--ch-hhccCCC-CCCCCCCCCCcccc
Q 004299 654 EWVQCNK--CR-KWRMLDP-GFDTKSLPVEWFCY 683 (763)
Q Consensus 654 ~WVQCd~--C~-KWR~Lp~-~~~~~~lp~~W~C~ 683 (763)
.-|.||. |. .|=+++= |+. ..-.++|||.
T Consensus 231 ~Mi~CDn~~C~~eWFH~~CVGL~-~~PkgkWyC~ 263 (274)
T KOG1973|consen 231 KMIGCDNPGCPIEWFHFTCVGLK-TKPKGKWYCP 263 (274)
T ss_pred cccccCCCCCCcceEEEeccccc-cCCCCcccch
Confidence 7799996 99 9999983 443 3455789996
No 115
>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=21.82 E-value=97 Score=32.89 Aligned_cols=67 Identities=22% Similarity=0.325 Sum_probs=50.5
Q ss_pred CCccccccccccccee-e--ccCCCccccccCCCCCchhhhHHHHHHHhhcCCeEEEEEeceeE-----EEEeCCC
Q 004299 49 LPHHWNVNDIVPTSKI-I--LDGMSHCFLSPAPECSRDHNEWRRFLIYLQGRDMVAIAKFKFWE-----FYILPPD 116 (763)
Q Consensus 49 ~p~~~~~~~~~~~~~~-~--~~~~~~~~~~p~~~~~~~~~ew~~f~~~l~~~~~~~~~~~~~~~-----~~~~~~~ 116 (763)
-+..+.|.+|+|.+-+ . ..+.++++. |.........--.-+.+=|...++|||+++-.-. +..|-|.
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 3 355566666 7775556666778888999999999999986543 6666565
No 116
>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=20.24 E-value=50 Score=28.77 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=14.5
Q ss_pred CCCCCceeecccchhhccCCCCC
Q 004299 649 YKPDQEWVQCNKCRKWRMLDPGF 671 (763)
Q Consensus 649 ~~~~~~WVQCd~C~KWR~Lp~~~ 671 (763)
|..-..+|||+.|..|..+.+.+
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
Done!