Query psy6980
Match_columns 760
No_of_seqs 468 out of 1263
Neff 3.9
Searched_HMMs 46136
Date Fri Aug 16 23:43:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2747|consensus 100.0 6E-116 1E-120 936.8 24.2 277 267-550 119-396 (396)
2 PLN03238 probable histone acet 100.0 2E-114 5E-119 893.9 28.0 272 273-552 15-289 (290)
3 PTZ00064 histone acetyltransfe 100.0 2E-113 4E-118 931.6 28.7 282 273-559 247-545 (552)
4 PLN03239 histone acetyltransfe 100.0 3E-112 5E-117 897.8 27.0 275 273-552 69-351 (351)
5 PLN00104 MYST -like histone ac 100.0 4E-112 8E-117 921.4 29.0 276 273-555 165-444 (450)
6 COG5027 SAS2 Histone acetyltra 100.0 1E-100 2E-105 802.8 20.2 272 272-549 124-395 (395)
7 PF01853 MOZ_SAS: MOZ/SAS fami 100.0 4.9E-89 1.1E-93 672.9 16.0 187 331-520 1-187 (188)
8 KOG1244|consensus 99.9 1.5E-24 3.2E-29 223.5 3.2 93 81-177 223-332 (336)
9 KOG1512|consensus 99.4 3.9E-14 8.4E-19 147.9 2.1 89 82-177 258-364 (381)
10 PLN00104 MYST -like histone ac 99.2 2.1E-12 4.5E-17 142.9 2.1 47 47-93 161-209 (450)
11 PLN03239 histone acetyltransfe 99.2 5.4E-12 1.2E-16 135.8 0.8 78 16-93 8-117 (351)
12 PTZ00064 histone acetyltransfe 99.1 1.8E-11 4E-16 136.0 0.9 46 48-93 244-291 (552)
13 KOG2747|consensus 99.0 1.7E-10 3.7E-15 126.0 2.2 47 47-93 121-169 (396)
14 PLN03238 probable histone acet 98.9 3.5E-10 7.6E-15 119.4 2.7 48 46-93 10-59 (290)
15 KOG0825|consensus 98.7 4.5E-09 9.8E-14 121.1 1.6 50 125-177 217-267 (1134)
16 KOG4443|consensus 98.5 3.7E-08 8.1E-13 112.6 2.2 75 104-181 34-123 (694)
17 cd04718 BAH_plant_2 BAH, or Br 98.5 1E-07 2.2E-12 92.9 3.7 32 150-181 1-32 (148)
18 PF00628 PHD: PHD-finger; Int 98.2 2.7E-07 5.9E-12 73.2 -0.1 47 126-175 2-50 (51)
19 KOG4299|consensus 98.0 1.6E-06 3.4E-11 99.3 1.6 39 141-179 268-308 (613)
20 smart00249 PHD PHD zinc finger 97.8 1.6E-05 3.6E-10 60.0 3.7 45 126-173 2-47 (47)
21 COG5027 SAS2 Histone acetyltra 97.8 4.9E-06 1.1E-10 90.2 0.7 44 50-93 124-169 (395)
22 KOG0957|consensus 97.5 3.5E-05 7.6E-10 86.7 0.9 41 137-177 555-599 (707)
23 KOG1245|consensus 97.4 3.5E-05 7.7E-10 96.3 -0.8 38 140-177 1122-1159(1404)
24 KOG1973|consensus 96.5 0.00098 2.1E-08 70.8 1.1 37 139-177 230-269 (274)
25 KOG0955|consensus 96.3 0.0023 5E-08 78.3 3.0 52 125-179 221-272 (1051)
26 KOG4323|consensus 96.3 0.0014 3.1E-08 74.1 0.8 51 126-177 171-225 (464)
27 COG5034 TNG2 Chromatin remodel 96.1 0.0022 4.7E-08 67.8 1.4 34 140-175 233-269 (271)
28 KOG0383|consensus 95.8 0.0042 9.1E-08 73.5 1.8 36 141-177 59-94 (696)
29 PF13673 Acetyltransf_10: Acet 95.5 0.016 3.4E-07 51.0 3.9 53 380-440 42-94 (117)
30 KOG0954|consensus 95.4 0.0061 1.3E-07 71.8 1.2 50 124-176 272-321 (893)
31 PF13831 PHD_2: PHD-finger; PD 95.1 0.0039 8.5E-08 47.8 -1.0 33 140-174 3-36 (36)
32 PRK10146 aminoalkylphosphonic 94.7 0.028 6E-07 51.4 3.4 58 382-443 47-109 (144)
33 COG5141 PHD zinc finger-contai 94.2 0.02 4.4E-07 65.2 1.4 52 125-179 195-246 (669)
34 PF00583 Acetyltransf_1: Acety 94.0 0.024 5.3E-07 46.9 1.2 49 395-443 5-58 (83)
35 PRK07757 acetyltransferase; Pr 93.9 0.056 1.2E-06 50.3 3.5 46 396-441 51-96 (152)
36 PF13508 Acetyltransf_7: Acety 93.7 0.062 1.3E-06 45.3 3.2 47 384-435 5-51 (79)
37 PRK09831 putative acyltransfer 92.8 0.083 1.8E-06 49.5 2.9 45 383-436 54-98 (147)
38 PHA01807 hypothetical protein 92.6 0.1 2.3E-06 51.2 3.3 48 396-443 63-114 (153)
39 PRK10514 putative acetyltransf 92.5 0.11 2.4E-06 47.8 3.1 37 396-437 60-96 (145)
40 cd04301 NAT_SF N-Acyltransfera 92.4 0.11 2.4E-06 38.8 2.6 45 396-440 9-55 (65)
41 PRK12308 bifunctional arginino 92.2 0.11 2.4E-06 60.8 3.5 56 383-442 504-559 (614)
42 PF00096 zf-C2H2: Zinc finger, 92.1 0.097 2.1E-06 35.2 1.8 22 307-328 1-22 (23)
43 TIGR01575 rimI ribosomal-prote 92.0 0.18 3.8E-06 44.6 3.8 44 396-440 41-84 (131)
44 TIGR02382 wecD_rffC TDP-D-fuco 91.7 0.16 3.4E-06 50.1 3.5 44 396-439 109-152 (191)
45 PF13527 Acetyltransf_9: Acety 91.4 0.16 3.4E-06 45.7 2.9 49 396-444 51-106 (127)
46 KOG1246|consensus 91.4 0.26 5.7E-06 60.4 5.6 38 140-177 168-205 (904)
47 PRK10975 TDP-fucosamine acetyl 91.4 0.2 4.3E-06 49.3 3.8 45 396-440 112-156 (194)
48 PRK03624 putative acetyltransf 90.8 0.27 5.8E-06 43.9 3.7 55 381-440 44-98 (140)
49 TIGR03827 GNAT_ablB putative b 90.8 0.26 5.6E-06 51.5 4.2 57 380-440 156-213 (266)
50 PLN02706 glucosamine 6-phospha 90.8 0.32 6.8E-06 45.2 4.3 26 416-441 91-116 (150)
51 smart00550 Zalpha Z-DNA-bindin 90.4 1 2.2E-05 38.6 6.7 45 465-510 8-55 (68)
52 KOG3216|consensus 90.4 0.43 9.4E-06 47.9 5.0 73 365-448 42-119 (163)
53 PLN02825 amino-acid N-acetyltr 90.3 0.23 4.9E-06 57.7 3.5 57 383-443 408-465 (515)
54 PRK10140 putative acetyltransf 90.2 0.32 6.8E-06 45.1 3.8 48 382-434 51-102 (162)
55 PRK13688 hypothetical protein; 89.7 0.3 6.6E-06 47.9 3.3 24 411-434 80-103 (156)
56 PF13894 zf-C2H2_4: C2H2-type 89.5 0.29 6.2E-06 32.2 2.1 22 307-328 1-22 (24)
57 PTZ00330 acetyltransferase; Pr 89.3 0.48 1E-05 43.4 4.2 45 396-440 62-112 (147)
58 PRK10562 putative acetyltransf 89.2 0.37 7.9E-06 44.9 3.4 45 383-435 49-93 (145)
59 PRK05279 N-acetylglutamate syn 89.2 0.32 7E-06 54.5 3.5 57 383-443 335-392 (441)
60 PF13420 Acetyltransf_4: Acety 89.1 0.47 1E-05 44.0 4.0 57 379-439 48-105 (155)
61 PF09756 DDRGK: DDRGK domain; 88.9 0.66 1.4E-05 47.6 5.2 71 467-542 103-176 (188)
62 PF08445 FR47: FR47-like prote 88.8 0.28 6.1E-06 43.4 2.2 23 410-432 21-43 (86)
63 PRK07922 N-acetylglutamate syn 88.6 0.41 8.9E-06 46.8 3.4 47 396-442 56-102 (169)
64 PF09339 HTH_IclR: IclR helix- 88.6 0.86 1.9E-05 36.7 4.7 42 467-510 7-51 (52)
65 TIGR03448 mycothiol_MshD mycot 88.2 0.55 1.2E-05 48.7 4.2 53 381-437 45-97 (292)
66 PRK10314 putative acyltransfer 88.1 0.53 1.1E-05 45.5 3.8 44 396-439 58-103 (153)
67 PF08220 HTH_DeoR: DeoR-like h 87.0 2.4 5.2E-05 35.1 6.4 42 466-510 3-47 (57)
68 TIGR01890 N-Ac-Glu-synth amino 86.8 0.55 1.2E-05 52.6 3.5 57 383-443 323-380 (429)
69 TIGR00124 cit_ly_ligase [citra 86.7 0.6 1.3E-05 51.4 3.6 63 369-440 18-80 (332)
70 PF02082 Rrf2: Transcriptional 86.6 2.1 4.6E-05 37.5 6.3 54 466-519 11-67 (83)
71 COG0456 RimI Acetyltransferase 86.1 0.8 1.7E-05 43.2 3.7 46 396-441 72-122 (177)
72 COG0454 WecD Histone acetyltra 85.7 0.31 6.6E-06 38.2 0.6 28 416-443 87-114 (156)
73 TIGR02010 IscR iron-sulfur clu 85.4 2.3 4.9E-05 40.6 6.4 61 464-524 9-72 (135)
74 TIGR00738 rrf2_super rrf2 fami 85.1 2.1 4.5E-05 39.9 5.9 61 464-524 9-72 (132)
75 PF12324 HTH_15: Helix-turn-he 84.1 3.1 6.8E-05 37.5 6.2 46 468-519 29-74 (77)
76 smart00418 HTH_ARSR helix_turn 83.6 5.1 0.00011 31.2 6.7 59 468-531 2-63 (66)
77 PF12802 MarR_2: MarR family; 83.4 4.2 9.1E-05 32.8 6.3 44 467-511 9-55 (62)
78 PF13545 HTH_Crp_2: Crp-like h 83.0 3.2 7E-05 34.9 5.7 46 479-528 27-75 (76)
79 PF08784 RPA_C: Replication pr 82.8 2.2 4.8E-05 38.6 4.9 49 461-509 45-97 (102)
80 PF13912 zf-C2H2_6: C2H2-type 82.4 0.95 2.1E-05 31.5 1.9 22 306-327 1-22 (27)
81 TIGR03103 trio_acet_GNAT GNAT- 81.4 1.4 3E-05 51.4 3.8 61 381-443 122-188 (547)
82 TIGR03448 mycothiol_MshD mycot 81.4 1.5 3.3E-05 45.4 3.8 44 396-439 210-255 (292)
83 COG1959 Predicted transcriptio 81.4 3.1 6.7E-05 40.9 5.6 58 467-524 12-72 (150)
84 PF04760 IF2_N: Translation in 81.4 1.3 2.7E-05 36.1 2.5 31 479-509 2-33 (54)
85 PRK10857 DNA-binding transcrip 80.9 4.1 8.9E-05 40.7 6.4 58 467-524 12-72 (164)
86 KOG1473|consensus 80.1 1 2.2E-05 56.2 2.2 40 137-176 352-391 (1414)
87 PF13412 HTH_24: Winged helix- 80.0 3.5 7.5E-05 32.4 4.5 39 466-507 6-47 (48)
88 PF01022 HTH_5: Bacterial regu 79.8 5.1 0.00011 31.7 5.4 40 466-509 5-47 (47)
89 PF08221 HTH_9: RNA polymerase 79.7 4.8 0.0001 34.2 5.5 42 466-510 16-60 (62)
90 PF07381 DUF1495: Winged helix 79.6 2.8 6.2E-05 38.6 4.4 43 462-505 8-50 (90)
91 KOG0956|consensus 79.6 0.89 1.9E-05 54.2 1.4 38 138-177 19-58 (900)
92 cd00090 HTH_ARSR Arsenical Res 79.2 9.5 0.00021 30.4 6.9 56 462-522 6-64 (78)
93 KOG2696|consensus 79.0 2.3 5E-05 47.8 4.3 150 355-509 153-322 (403)
94 PF01978 TrmB: Sugar-specific 78.6 3.1 6.7E-05 34.9 4.0 42 467-511 12-56 (68)
95 smart00346 HTH_ICLR helix_turn 77.7 9 0.0002 33.1 6.8 56 467-527 9-67 (91)
96 TIGR02406 ectoine_EctA L-2,4-d 77.6 2.7 5.8E-05 40.5 3.8 44 396-440 50-96 (157)
97 KOG4443|consensus 77.5 0.57 1.2E-05 55.5 -0.9 60 119-179 14-74 (694)
98 PF13302 Acetyltransf_3: Acety 77.4 2.5 5.4E-05 38.2 3.4 49 382-433 56-106 (142)
99 PF12840 HTH_20: Helix-turn-he 77.3 6.4 0.00014 32.5 5.5 44 464-510 11-57 (61)
100 PF02319 E2F_TDP: E2F/DP famil 77.3 5.4 0.00012 34.6 5.2 44 466-510 11-62 (71)
101 PF12171 zf-C2H2_jaz: Zinc-fin 76.2 0.95 2.1E-05 32.1 0.3 21 307-327 2-22 (27)
102 cd02169 Citrate_lyase_ligase C 75.7 2.3 4.9E-05 46.3 3.1 43 396-443 16-58 (297)
103 PRK09491 rimI ribosomal-protei 75.1 3.4 7.5E-05 38.3 3.7 43 396-439 50-92 (146)
104 PF01726 LexA_DNA_bind: LexA D 74.8 6.9 0.00015 33.7 5.2 45 467-511 10-60 (65)
105 PF04703 FaeA: FaeA-like prote 74.6 7.8 0.00017 33.4 5.4 47 465-513 2-51 (62)
106 PF13463 HTH_27: Winged helix 74.3 8.8 0.00019 31.5 5.6 43 467-511 7-52 (68)
107 PF09012 FeoC: FeoC like trans 73.2 6.2 0.00013 33.6 4.5 41 467-510 4-47 (69)
108 PRK09391 fixK transcriptional 72.7 9.3 0.0002 39.0 6.5 47 480-529 179-228 (230)
109 PHA02768 hypothetical protein; 72.1 2.2 4.8E-05 36.1 1.5 23 306-328 5-27 (55)
110 PRK13239 alkylmercury lyase; P 71.6 9.1 0.0002 40.1 6.2 40 468-510 27-66 (206)
111 PF12874 zf-met: Zinc-finger o 71.1 3.6 7.9E-05 28.1 2.2 21 307-327 1-21 (25)
112 PF01047 MarR: MarR family; I 71.1 9.3 0.0002 30.8 4.9 42 467-511 7-51 (59)
113 TIGR00373 conserved hypothetic 70.9 14 0.00031 36.7 7.1 42 467-511 18-62 (158)
114 KOG0954|consensus 70.8 2.6 5.6E-05 50.9 2.2 38 81-124 270-319 (893)
115 PRK06266 transcription initiat 70.4 17 0.00037 37.0 7.7 42 467-511 26-70 (178)
116 TIGR02944 suf_reg_Xantho FeS a 70.2 8.5 0.00018 36.1 5.2 73 461-534 7-84 (130)
117 cd00092 HTH_CRP helix_turn_hel 69.5 18 0.00038 29.4 6.3 33 478-510 23-58 (67)
118 PF02002 TFIIE_alpha: TFIIE al 69.2 9.8 0.00021 34.7 5.2 61 467-530 17-85 (105)
119 PRK11014 transcriptional repre 68.7 14 0.00031 35.4 6.4 55 471-525 16-73 (141)
120 PRK01346 hypothetical protein; 68.7 5.1 0.00011 44.2 3.9 48 396-443 57-112 (411)
121 PRK11920 rirA iron-responsive 68.6 14 0.00031 36.3 6.5 57 467-524 12-71 (153)
122 PRK10402 DNA-binding transcrip 68.5 23 0.00049 36.0 8.2 64 465-532 152-220 (226)
123 smart00419 HTH_CRP helix_turn_ 67.9 11 0.00025 28.6 4.6 31 480-510 8-41 (48)
124 COG1522 Lrp Transcriptional re 67.8 15 0.00034 34.7 6.4 41 467-510 12-55 (154)
125 TIGR01686 FkbH FkbH-like domai 67.5 5.2 0.00011 43.2 3.5 58 385-443 232-290 (320)
126 PRK13918 CRP/FNR family transc 67.1 15 0.00033 35.9 6.4 47 480-530 149-198 (202)
127 PF13601 HTH_34: Winged helix 67.1 37 0.00081 30.1 8.2 66 466-534 3-77 (80)
128 PF13913 zf-C2HC_2: zinc-finge 66.5 3.8 8.1E-05 29.2 1.5 24 306-330 2-25 (25)
129 PF14394 DUF4423: Domain of un 66.2 23 0.0005 35.7 7.6 52 458-510 18-74 (171)
130 KOG2488|consensus 66.2 4.5 9.7E-05 42.1 2.6 50 383-436 92-146 (202)
131 TIGR01889 Staph_reg_Sar staphy 66.1 21 0.00045 32.8 6.7 55 468-523 30-91 (109)
132 PF01418 HTH_6: Helix-turn-hel 65.6 7.3 0.00016 33.9 3.5 44 466-509 19-63 (77)
133 smart00355 ZnF_C2H2 zinc finge 65.4 4.1 8.9E-05 26.7 1.5 21 307-327 1-21 (26)
134 PF11793 FANCL_C: FANCL C-term 65.4 0.93 2E-05 39.3 -2.1 38 139-176 18-64 (70)
135 KOG3054|consensus 65.3 24 0.00051 38.3 7.7 71 467-542 204-277 (299)
136 PRK11161 fumarate/nitrate redu 65.2 17 0.00037 36.6 6.5 46 480-529 184-232 (235)
137 PRK10151 ribosomal-protein-L7/ 65.1 7.9 0.00017 37.2 4.0 45 384-432 69-114 (179)
138 TIGR03826 YvyF flagellar opero 64.9 10 0.00022 37.4 4.7 44 466-510 33-76 (137)
139 PRK10163 DNA-binding transcrip 64.5 20 0.00043 38.0 7.1 42 467-510 29-73 (271)
140 PF13523 Acetyltransf_8: Acety 64.5 8.2 0.00018 36.0 3.8 50 381-434 47-102 (152)
141 TIGR03697 NtcA_cyano global ni 64.0 15 0.00033 35.5 5.7 46 479-528 142-190 (193)
142 KOG1473|consensus 63.5 1.4 3.1E-05 54.9 -1.7 39 141-179 440-482 (1414)
143 TIGR02337 HpaR homoprotocatech 63.0 25 0.00054 32.3 6.6 53 468-523 33-90 (118)
144 smart00451 ZnF_U1 U1-like zinc 62.5 6.3 0.00014 28.8 2.1 22 306-327 3-24 (35)
145 PRK11569 transcriptional repre 62.5 22 0.00047 37.7 6.9 42 467-510 32-76 (274)
146 KOG0957|consensus 62.5 3.3 7.2E-05 48.1 1.0 27 84-116 121-147 (707)
147 PRK00135 scpB segregation and 61.7 13 0.00028 38.3 4.9 41 467-510 94-134 (188)
148 smart00344 HTH_ASNC helix_turn 61.5 24 0.00052 31.7 6.1 41 466-509 6-49 (108)
149 PRK11179 DNA-binding transcrip 60.3 25 0.00054 34.2 6.4 42 466-510 12-56 (153)
150 PRK11169 leucine-responsive tr 59.8 24 0.00052 34.7 6.3 42 466-510 17-61 (164)
151 PRK00215 LexA repressor; Valid 59.2 25 0.00054 35.4 6.4 46 466-511 7-58 (205)
152 PF08279 HTH_11: HTH domain; 59.2 20 0.00043 28.6 4.7 37 466-504 3-39 (55)
153 PRK15090 DNA-binding transcrip 59.1 25 0.00055 36.7 6.7 41 467-510 18-61 (257)
154 PF12728 HTH_17: Helix-turn-he 58.9 32 0.00069 27.2 5.7 48 481-532 2-49 (51)
155 PRK10870 transcriptional repre 57.6 33 0.00071 34.4 6.9 91 422-523 24-119 (176)
156 PF15446 zf-PHD-like: PHD/FYVE 57.4 9.6 0.00021 39.0 3.1 44 137-180 13-64 (175)
157 PF15446 zf-PHD-like: PHD/FYVE 57.1 9.1 0.0002 39.2 2.9 20 141-160 123-143 (175)
158 PHA02943 hypothetical protein; 56.6 45 0.00097 34.0 7.5 55 465-524 13-70 (165)
159 PRK11512 DNA-binding transcrip 56.4 34 0.00073 32.6 6.5 53 468-523 45-102 (144)
160 COG2388 Predicted acetyltransf 56.4 7.2 0.00016 36.5 1.9 65 383-451 16-80 (99)
161 COG1414 IclR Transcriptional r 56.2 33 0.0007 36.2 6.9 42 467-510 8-52 (246)
162 PF13404 HTH_AsnC-type: AsnC-t 55.9 22 0.00048 28.1 4.3 35 467-504 7-41 (42)
163 PRK10141 DNA-binding transcrip 55.8 43 0.00094 32.1 7.0 55 466-524 19-76 (117)
164 TIGR01764 excise DNA binding d 55.0 41 0.00089 25.4 5.6 47 481-531 2-48 (49)
165 PF09904 HTH_43: Winged helix- 54.6 33 0.00071 32.0 5.7 69 462-533 6-86 (90)
166 PRK09834 DNA-binding transcrip 54.1 37 0.0008 35.7 6.9 42 467-510 15-59 (263)
167 smart00347 HTH_MARR helix_turn 54.0 46 0.001 28.5 6.4 42 467-511 14-58 (101)
168 PRK13777 transcriptional regul 53.8 51 0.0011 33.8 7.6 53 468-523 50-107 (185)
169 PF05301 Mec-17: Touch recepto 53.7 13 0.00028 36.2 3.1 51 384-434 6-70 (120)
170 COG1510 Predicted transcriptio 53.6 8.4 0.00018 39.5 2.0 34 478-511 39-75 (177)
171 PF07227 DUF1423: Protein of u 53.5 15 0.00032 42.5 4.1 58 119-177 125-193 (446)
172 PF09681 Phage_rep_org_N: N-te 53.3 35 0.00075 33.0 6.0 65 458-525 24-98 (121)
173 smart00345 HTH_GNTR helix_turn 53.0 61 0.0013 25.3 6.5 33 478-510 17-53 (60)
174 TIGR02431 pcaR_pcaU beta-ketoa 51.1 23 0.00051 36.7 4.8 42 467-510 13-57 (248)
175 PF01710 HTH_Tnp_IS630: Transp 50.9 26 0.00057 32.9 4.7 42 466-510 60-101 (119)
176 PF12861 zf-Apc11: Anaphase-pr 50.4 6.1 0.00013 36.2 0.4 38 139-177 44-81 (85)
177 PHA00673 acetyltransferase dom 50.4 25 0.00055 35.3 4.7 60 396-455 65-135 (154)
178 PHA00738 putative HTH transcri 50.0 49 0.0011 31.8 6.3 44 465-511 14-60 (108)
179 COG1349 GlpR Transcriptional r 50.0 35 0.00075 36.2 6.0 44 465-511 7-53 (253)
180 PF13718 GNAT_acetyltr_2: GNAT 49.9 5.5 0.00012 41.3 0.1 23 413-435 93-115 (196)
181 PRK10434 srlR DNA-bindng trans 49.8 35 0.00076 36.1 6.0 44 465-511 7-53 (256)
182 PRK03573 transcriptional regul 49.6 55 0.0012 31.0 6.7 54 468-523 36-94 (144)
183 TIGR03585 PseH pseudaminic aci 49.1 21 0.00046 33.0 3.8 45 383-433 52-98 (156)
184 smart00420 HTH_DEOR helix_turn 49.1 34 0.00075 26.1 4.4 41 467-510 4-47 (53)
185 TIGR00498 lexA SOS regulatory 49.0 29 0.00064 34.7 5.0 46 466-511 9-60 (199)
186 PF13730 HTH_36: Helix-turn-he 48.4 34 0.00074 27.3 4.4 25 480-504 25-49 (55)
187 PRK10906 DNA-binding transcrip 48.2 39 0.00084 35.8 6.0 44 465-511 7-53 (252)
188 PF10771 DUF2582: Protein of u 48.0 27 0.00058 30.6 3.9 35 466-503 11-45 (65)
189 TIGR02147 Fsuc_second hypothet 46.4 66 0.0014 34.9 7.5 63 446-510 105-172 (271)
190 cd07377 WHTH_GntR Winged helix 46.4 94 0.002 24.8 6.7 30 481-510 26-58 (66)
191 KOG0383|consensus 45.9 15 0.00032 44.6 2.8 34 146-179 1-34 (696)
192 PRK15130 spermidine N1-acetylt 45.6 24 0.00052 34.2 3.7 36 396-432 67-104 (186)
193 PF10007 DUF2250: Uncharacteri 45.0 48 0.001 30.8 5.3 41 467-510 11-54 (92)
194 PRK09802 DNA-binding transcrip 44.8 45 0.00099 35.6 5.9 43 466-511 20-65 (269)
195 PF08444 Gly_acyl_tr_C: Aralky 44.5 5.4 0.00012 36.8 -0.8 15 418-432 27-41 (89)
196 PRK07921 RNA polymerase sigma 44.1 47 0.001 36.7 6.1 49 457-505 139-214 (324)
197 PRK11753 DNA-binding transcrip 44.0 53 0.0012 32.3 5.9 39 480-522 168-209 (211)
198 TIGR02844 spore_III_D sporulat 43.4 36 0.00079 30.8 4.2 32 466-501 9-40 (80)
199 COG4190 Predicted transcriptio 43.3 52 0.0011 32.9 5.5 42 467-511 68-112 (144)
200 PRK13509 transcriptional repre 42.9 49 0.0011 34.9 5.8 44 465-511 7-53 (251)
201 KOG1512|consensus 42.7 8.8 0.00019 42.2 0.2 42 138-179 276-320 (381)
202 PF02892 zf-BED: BED zinc fing 41.1 15 0.00033 28.4 1.3 34 292-329 6-44 (45)
203 PRK00135 scpB segregation and 40.4 1.3E+02 0.0029 31.1 8.2 37 467-504 7-44 (188)
204 COG1378 Predicted transcriptio 40.3 70 0.0015 34.2 6.4 64 452-523 9-75 (247)
205 PF13909 zf-H2C2_5: C2H2-type 39.7 24 0.00051 24.1 1.9 21 307-328 1-21 (24)
206 PF08280 HTH_Mga: M protein tr 39.7 40 0.00086 28.1 3.6 38 466-506 8-45 (59)
207 PRK03902 manganese transport t 39.4 99 0.0021 29.6 6.8 41 467-510 12-55 (142)
208 PF14542 Acetyltransf_CG: GCN5 39.2 11 0.00023 33.2 0.2 36 410-445 22-57 (78)
209 PRK07122 RNA polymerase sigma 38.9 64 0.0014 34.3 5.9 46 458-503 94-166 (264)
210 PF04182 B-block_TFIIIC: B-blo 38.8 72 0.0016 27.8 5.2 45 466-511 5-52 (75)
211 TIGR01884 cas_HTH CRISPR locus 38.7 92 0.002 31.7 6.8 41 467-510 147-190 (203)
212 TIGR03338 phnR_burk phosphonat 38.5 1.4E+02 0.0029 30.0 7.9 54 476-530 30-86 (212)
213 TIGR01610 phage_O_Nterm phage 38.4 87 0.0019 28.5 5.9 43 478-523 45-90 (95)
214 PRK11302 DNA-binding transcrip 37.6 32 0.00069 35.9 3.4 43 466-508 19-62 (284)
215 PF06163 DUF977: Bacterial pro 37.0 1.2E+02 0.0025 30.1 6.8 73 465-550 14-89 (127)
216 PHA00616 hypothetical protein 36.7 17 0.00036 29.7 0.9 22 307-328 2-23 (44)
217 TIGR01714 phage_rep_org_N phag 36.5 98 0.0021 30.0 6.2 65 457-524 23-95 (119)
218 cd04762 HTH_MerR-trunc Helix-T 36.4 99 0.0022 23.0 5.1 47 481-530 1-47 (49)
219 KOG3138|consensus 35.4 10 0.00022 39.2 -0.7 20 416-435 95-114 (187)
220 smart00576 BTP Bromodomain tra 34.8 29 0.00063 30.4 2.2 40 467-507 35-74 (77)
221 COG1846 MarR Transcriptional r 33.6 1.3E+02 0.0029 26.3 6.2 54 467-523 26-84 (126)
222 PF10075 PCI_Csn8: COP9 signal 33.1 1E+02 0.0022 29.5 5.8 43 478-524 95-137 (143)
223 PRK10809 ribosomal-protein-S5- 32.8 46 0.001 32.5 3.5 36 396-432 87-125 (194)
224 COG1386 scpB Chromosome segreg 32.7 1.2E+02 0.0027 31.2 6.6 49 479-527 105-156 (184)
225 TIGR01211 ELP3 histone acetylt 32.7 40 0.00086 39.8 3.5 26 419-444 466-491 (522)
226 PF04539 Sigma70_r3: Sigma-70 32.5 77 0.0017 27.0 4.4 30 478-507 18-47 (78)
227 TIGR02702 SufR_cyano iron-sulf 32.1 65 0.0014 32.7 4.5 43 465-510 3-48 (203)
228 PF05732 RepL: Firmicute plasm 31.3 1.6E+02 0.0036 29.7 7.1 57 466-526 58-120 (165)
229 PF05191 ADK_lid: Adenylate ki 31.1 31 0.00068 26.8 1.6 29 142-176 2-30 (36)
230 PF07524 Bromo_TP: Bromodomain 30.5 38 0.00083 29.4 2.2 25 482-506 49-73 (77)
231 PF00392 GntR: Bacterial regul 30.5 1.9E+02 0.0042 23.9 6.3 35 476-510 19-57 (64)
232 PRK11511 DNA-binding transcrip 30.4 85 0.0018 29.7 4.7 42 464-506 10-52 (127)
233 PRK04214 rbn ribonuclease BN/u 30.3 1E+02 0.0023 34.8 6.2 44 467-510 296-343 (412)
234 COG2345 Predicted transcriptio 29.6 73 0.0016 33.9 4.4 43 465-510 13-58 (218)
235 PRK11534 DNA-binding transcrip 29.5 1.8E+02 0.0038 29.6 7.1 54 476-530 26-82 (224)
236 PRK07405 RNA polymerase sigma 29.3 99 0.0022 33.9 5.6 28 478-505 182-209 (317)
237 PF05584 Sulfolobus_pRN: Sulfo 29.0 96 0.0021 27.9 4.4 40 466-509 8-50 (72)
238 PRK11337 DNA-binding transcrip 28.7 54 0.0012 34.7 3.4 42 466-507 31-73 (292)
239 PF12756 zf-C2H2_2: C2H2 type 28.4 42 0.00092 28.9 2.2 24 306-329 50-73 (100)
240 PF03374 ANT: Phage antirepres 27.9 1.2E+02 0.0026 27.7 5.1 33 478-510 22-54 (111)
241 PF03444 HrcA_DNA-bdg: Winged 27.7 1.5E+02 0.0033 27.0 5.5 40 478-517 21-63 (78)
242 PRK09392 ftrB transcriptional 27.1 2E+02 0.0043 29.1 6.9 44 481-529 174-220 (236)
243 PHA02701 ORF020 dsRNA-binding 26.8 1.4E+02 0.0031 31.1 5.8 44 465-510 6-52 (183)
244 PRK14165 winged helix-turn-hel 26.8 3.1E+02 0.0067 29.1 8.4 73 478-555 19-97 (217)
245 TIGR02787 codY_Gpos GTP-sensin 26.7 1.5E+02 0.0032 32.3 6.1 71 455-527 174-249 (251)
246 TIGR00595 priA primosomal prot 26.4 69 0.0015 37.4 4.0 25 140-177 239-263 (505)
247 PRK11557 putative DNA-binding 26.1 66 0.0014 33.7 3.5 42 466-507 15-57 (278)
248 PRK15482 transcriptional regul 26.1 67 0.0015 34.0 3.5 42 466-507 19-61 (285)
249 cd07153 Fur_like Ferric uptake 26.1 2.4E+02 0.0051 25.7 6.7 45 465-511 3-55 (116)
250 smart00753 PAM PCI/PINT associ 26.0 1.2E+02 0.0026 26.3 4.5 44 479-523 23-69 (88)
251 smart00088 PINT motif in prote 26.0 1.2E+02 0.0026 26.3 4.5 44 479-523 23-69 (88)
252 PF08887 GAD-like: GAD-like do 25.7 2.3E+02 0.0049 27.1 6.5 53 478-534 17-69 (109)
253 PRK10411 DNA-binding transcrip 24.9 1.9E+02 0.004 30.5 6.5 42 466-510 7-51 (240)
254 PF01325 Fe_dep_repress: Iron 24.2 1.2E+02 0.0027 25.6 4.1 34 477-510 19-55 (60)
255 COG1246 ArgA N-acetylglutamate 23.9 31 0.00067 34.8 0.5 25 411-435 66-90 (153)
256 PRK14873 primosome assembly pr 23.8 70 0.0015 38.8 3.5 50 105-177 383-432 (665)
257 COG1321 TroR Mn-dependent tran 23.2 3.3E+02 0.0072 27.2 7.5 33 478-510 22-57 (154)
258 KOG0956|consensus 23.1 37 0.0008 41.4 1.0 27 602-628 716-742 (900)
259 PF06969 HemN_C: HemN C-termin 22.9 3.1E+02 0.0068 22.6 6.3 43 465-510 8-54 (66)
260 PF04492 Phage_rep_O: Bacterio 22.7 1.8E+02 0.0039 27.3 5.2 33 478-510 52-87 (100)
261 PRK14559 putative protein seri 22.4 70 0.0015 38.8 3.1 15 163-177 37-51 (645)
262 KOG4399|consensus 22.3 22 0.00048 38.8 -0.9 97 57-184 194-291 (325)
263 PF04079 DUF387: Putative tran 22.3 1.1E+02 0.0023 30.9 3.9 37 468-506 2-38 (159)
264 PRK09978 DNA-binding transcrip 21.7 1.3E+02 0.0027 32.9 4.6 44 462-506 141-184 (274)
265 PF00888 Cullin: Cullin family 21.5 88 0.0019 36.0 3.6 80 416-504 467-558 (588)
266 PRK09685 DNA-binding transcrip 21.2 1.5E+02 0.0032 31.1 4.9 40 467-506 201-240 (302)
267 smart00614 ZnF_BED BED zinc fi 21.1 61 0.0013 26.1 1.6 27 305-331 17-49 (50)
268 PRK11050 manganese transport r 21.0 2.1E+02 0.0046 28.0 5.7 41 467-510 41-84 (152)
269 PHA00732 hypothetical protein 21.0 58 0.0013 29.2 1.6 21 307-327 2-22 (79)
270 COG2512 Predicted membrane-ass 20.9 2.2E+02 0.0048 30.9 6.2 57 446-513 187-246 (258)
271 PRK10219 DNA-binding transcrip 20.6 1.8E+02 0.0039 26.2 4.7 38 466-504 8-45 (107)
272 KOG4299|consensus 20.6 84 0.0018 37.9 3.2 36 141-176 59-95 (613)
273 PF14297 DUF4373: Domain of un 20.4 2.1E+02 0.0045 25.5 5.0 54 454-510 20-76 (87)
No 1
>KOG2747|consensus
Probab=100.00 E-value=5.7e-116 Score=936.77 Aligned_cols=277 Identities=57% Similarity=1.029 Sum_probs=264.5
Q ss_pred CCCCCCCCCCCCCEEEeCCeeEecccCCCChhhhcCCCcEeeecccccccCCHHHHHHHHhhCCCCCCCCceeeecCCeE
Q psy6980 267 LLPLAVPEQINPAAIEFGQYEVKTWYSSPFPQEYARLPKLFLCEFCLKYTKSKAVLERHRDKCAWRHPPATEIYRKENLS 346 (760)
Q Consensus 267 ~~~~~~~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~~~~LyiCE~ClkY~~s~~~l~rH~~kC~~r~PPG~eIYR~~~is 346 (760)
......+.+|||..|+||+|+|+|||+||||+||+++++||||||||+||+++..|+||+.+|.++||||+||||+++||
T Consensus 119 ~~~~~~~~~r~i~~i~~G~yei~~WY~SPyP~e~~~~~~lYiCEfCLkY~~s~~~l~rH~~kC~~rhPPG~EIYR~~~iS 198 (396)
T KOG2747|consen 119 QEHEEVEKVRNIEKIEFGRYEIKTWYFSPYPEEYAKLDKLYICEFCLKYMKSRTSLQRHLKKCKLRHPPGNEIYRKGNIS 198 (396)
T ss_pred ccccccceecccceEEEcceeeeeeecCCCchhhccCCeEEEehHHHhHhchHHHHHHHHHhcCCCCCCcceeeecCCEE
Confidence 34445678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccc
Q psy6980 347 VFEVDGNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKG 426 (760)
Q Consensus 347 vfEVDG~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkG 426 (760)
||||||+++++|||||||||||||||||||||||||||||||+.|+.|| ||||||||.|.++||||||||||||||+|
T Consensus 199 vfEVDG~~~k~YCQnLCLlaKLFLdhKTLYyDvdpFlFYVlte~d~~G~--VGYFSKEK~s~~~yNlaCILtLPpyQRkG 276 (396)
T KOG2747|consen 199 VFEVDGRKQKLYCQNLCLLAKLFLDHKTLYYDVDPFLFYVLTECDSYGC--VGYFSKEKESSENYNLACILTLPPYQRKG 276 (396)
T ss_pred EEEecCcchhHHHHHHHHHHHHHhcCceeEEeccceEEEEEEecCCcce--eeeeccccccccccceeeeeecChhhhcc
Confidence 9999999999999999999999999999999999999999999999996 99999999999999999999999999999
Q ss_pred cCccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 427 YGRFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 427 yG~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
||+|||||||+|||+||++|||||||||||++|||+||+.+|+++|.++. +..|||++||++|||+++|||+|||+|||
T Consensus 277 YGklLIdFSYeLSr~E~~~GsPEKPLSDLGllsYrsYW~~~ll~~L~~~~-~~~isI~~iS~~Tgi~~~DIisTL~~L~m 355 (396)
T KOG2747|consen 277 YGKLLIDFSYELSRREGKIGSPEKPLSDLGLLSYRSYWRCVLLELLRKHR-GEHISIKEISKETGIRPDDIISTLQSLNM 355 (396)
T ss_pred cchhhhhhhhhhhcccCcCCCCCCCcchhhHHHHHHHHHHHHHHHHHhcC-CCcccHHHHHHhhCCCHHHHHHHHHhhCC
Confidence 99999999999999999999999999999999999999999999999988 44599999999999999999999999999
Q ss_pred eeeecCCCCCcEEEee-HHHHHHHHHHHHhCCCcceecCCCCeEe
Q psy6980 507 LRTKHGDSSEPCIVIN-WAIVDAHMKRLEQSKTRIKIDPECLRWT 550 (760)
Q Consensus 507 l~~~~~~~~~~~i~i~-~~~i~~~~~~~~~~~~~~~idp~~L~W~ 550 (760)
++++ ++++++++ +..|+.+...+...++...+||++|.|+
T Consensus 356 ~~y~----k~~~~~~~~~~~i~~~~~~~~~~k~~~~~~~~~l~W~ 396 (396)
T KOG2747|consen 356 IKYY----KGYIISICSDDKLEDHKRNWAKFKKPRLLDPDCLLWT 396 (396)
T ss_pred cccc----CCeeEEEechHHHHHHHHHhhccCCccccCchhcccC
Confidence 9999 33788888 6888888888777678889999999996
No 2
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=100.00 E-value=2.5e-114 Score=893.91 Aligned_cols=272 Identities=52% Similarity=1.003 Sum_probs=262.6
Q ss_pred CCCCCCCEEEeCCeeEecccCCCChhhhcCCCcEeeecccccccCCHHHHHHHHhhCCCCCCCCceeee---cCCeEEEE
Q psy6980 273 PEQINPAAIEFGQYEVKTWYSSPFPQEYARLPKLFLCEFCLKYTKSKAVLERHRDKCAWRHPPATEIYR---KENLSVFE 349 (760)
Q Consensus 273 ~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~~~~LyiCE~ClkY~~s~~~l~rH~~kC~~r~PPG~eIYR---~~~isvfE 349 (760)
+.+|||+.|+||+|+|+|||+||||+||...++||||||||+||+++..|.+|+.+|.++||||+|||| +|++||||
T Consensus 15 t~~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eIYr~~~~~~~sifE 94 (290)
T PLN03238 15 TKVKNIEMIELGKYEMDTWYYSPYPEPYASCTKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGIYGAVTEGPLSVFE 94 (290)
T ss_pred hcCCCcCEEEECCeeeecCccCCCChHHcCCCeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEeEecCCCCcEEEEE
Confidence 589999999999999999999999999999999999999999999999999999999999999999999 78999999
Q ss_pred EeCCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCc
Q psy6980 350 VDGNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGR 429 (760)
Q Consensus 350 VDG~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~ 429 (760)
|||+++++|||||||||||||||||||||||||+|||||+.|+.|+||||||||||.|+++||||||||||||||||||+
T Consensus 95 VDG~~~~~yCqnLcLlaKLFLdhKtlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~nNLaCIltLPpyQrkGyG~ 174 (290)
T PLN03238 95 VDGKKAKVYCQNLCLLAKLFLDHKTLYYDVDPFLFYVMTEVDDHGSHIVGYFSKEKVSAEDYNLACILTLPPYQRKGYGK 174 (290)
T ss_pred EeCCcchhHHHHHHHHHHHhhcCccccccccceEEEEEEEecCCCcEEEEEeceeccccCCCcEEEEEecChhhhccHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceee
Q psy6980 430 FLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRT 509 (760)
Q Consensus 430 ~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~ 509 (760)
|||+|||+|||+||++|||||||||||+++|++||+.+|+++|.+. ...|||++||++|||.++||++||++||||++
T Consensus 175 ~LI~fSYeLSr~Eg~~G~PEkPLSdlG~~sY~~YW~~~il~~L~~~--~~~isi~~is~~T~i~~~Dii~tL~~l~~l~~ 252 (290)
T PLN03238 175 FLISFAYELSKREGKVGTPERPLSDLGKVSFRSYWTRVLLEQLRDV--KGDVSIKDLSLATGIRGEDIVSTLQSLNLIKY 252 (290)
T ss_pred hHHHHHhHHhhccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhc--CCCccHHHHHHHhCCCHHHHHHHHHHCCcEEE
Confidence 9999999999999999999999999999999999999999999764 36899999999999999999999999999999
Q ss_pred ecCCCCCcEEEeeHHHHHHHHHHHHhCCCcceecCCCCeEecC
Q psy6980 510 KHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKIDPECLRWTPL 552 (760)
Q Consensus 510 ~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~idp~~L~W~P~ 552 (760)
+ +|+++|+++++.|++++++.+ +++.|||++|+|+|.
T Consensus 253 ~---~g~~~i~~~~~~~~~~~~~~~---~~~~id~~~L~W~p~ 289 (290)
T PLN03238 253 W---KGQHVIHVDQRVLDEHWAKFA---HQRVIEVDCLHWQPL 289 (290)
T ss_pred E---CCcEEEEeCHHHHHHHHHhcC---CCccccchhceecCC
Confidence 9 588899999999999988732 468899999999996
No 3
>PTZ00064 histone acetyltransferase; Provisional
Probab=100.00 E-value=1.7e-113 Score=931.60 Aligned_cols=282 Identities=45% Similarity=0.835 Sum_probs=268.2
Q ss_pred CCCCCCCEEEeCCeeEecccCCCChhhhcCCCcEeeecccccccCCHHHHHHHHhhCCCCCCCCceeeecCCeEEEEEeC
Q psy6980 273 PEQINPAAIEFGQYEVKTWYSSPFPQEYARLPKLFLCEFCLKYTKSKAVLERHRDKCAWRHPPATEIYRKENLSVFEVDG 352 (760)
Q Consensus 273 ~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~~~~LyiCE~ClkY~~s~~~l~rH~~kC~~r~PPG~eIYR~~~isvfEVDG 352 (760)
+.+|||+.|+||+|+|+|||+||||+||.++++||||||||+||+++..|.+|+.+|.++||||+||||+++||||||||
T Consensus 247 tkvkNI~~I~~G~yei~TWYfSPYP~Ey~~~d~LYICEfCLkY~~s~~~l~rH~~~C~~rhPPG~EIYR~~~iSifEVDG 326 (552)
T PTZ00064 247 TRLRTIGRVRIGKFILDTWYFSPLPDEYQNVDTLHFCEYCLDFFCFEDELIRHLSRCQLRHPPGNEIYRKDNISVFEIDG 326 (552)
T ss_pred hcCCCcCeEEECCeEecCCcCCCCChhhcCCCeEEEccchhhhhCCHHHHHHHHhcCCCCCCCCCeEEEeCCEEEEEEeC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccch
Q psy6980 353 NQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLI 432 (760)
Q Consensus 353 ~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LI 432 (760)
+++++|||||||||||||||||||||||||+|||||+.|+.|+||||||||||.|+++||||||||||||||||||+|||
T Consensus 327 ~~~klYCQNLCLLAKLFLDhKTLYyDVdpFlFYVLtE~D~~G~HiVGYFSKEK~S~~~nNLACILtLPpyQRKGYGklLI 406 (552)
T PTZ00064 327 ALTRGYAENLCYLAKLFLDHKTLQYDVEPFLFYIVTEVDEEGCHIVGYFSKEKVSLLHYNLACILTLPCYQRKGYGKLLV 406 (552)
T ss_pred ccchhHHHHHHHHHHHhccCccccccccceEEEEEEEecCCCcEEEEEecccccCcccCceEEEEecchhhhcchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccC-----------------CcceeHHHHHHhhCCChh
Q psy6980 433 DFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRN-----------------QKLICIDQMCADTGLYHH 495 (760)
Q Consensus 433 dfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~-----------------~~~isi~dIS~~TgI~~~ 495 (760)
+|||+|||+||++|||||||||||+++|++||+.+|+++|.+... ...|||+|||++|||.++
T Consensus 407 dfSYeLSrrEgk~GsPEKPLSDLG~lSYrsYW~~~Ile~Ll~~~~~~~~~e~~~~k~~~~~~~~~iSI~dIS~~TgI~~e 486 (552)
T PTZ00064 407 DLSYKLSLKEGKWGHPERPLSDLGRAIYNNWWAHRISEYLLEYFKQNKICERGGSKQPLQVSNYWKFIDNVVRSTGIRRE 486 (552)
T ss_pred hhhhhhhhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccccccccCcccHHHHHHHhCCCHH
Confidence 999999999999999999999999999999999999999986421 012899999999999999
Q ss_pred HHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHHHHHhCCCcceecCCCCeEecCccccCCc
Q psy6980 496 DVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKIDPECLRWTPLVSHIVNP 559 (760)
Q Consensus 496 DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~idp~~L~W~P~~~~~~n~ 559 (760)
|||+||++||||++| +++++|++++++|++|+++.. ++.+.|||++|+|+|+....+-+
T Consensus 487 DII~TLq~L~llky~---kgq~~I~~~~~~ie~~~~~~~--k~~~~id~~~L~W~Py~~~~~s~ 545 (552)
T PTZ00064 487 DVIRILEENGIMRNI---KDQHYIFCNQEFLKGIVKRSG--RPGITLIDKYFNWVPFSRAPPSE 545 (552)
T ss_pred HHHHHHHHCCcEEEe---CCCEEEEECHHHHHHHHHHhc--CCCceechhHceecCCCCCCCCc
Confidence 999999999999999 578999999999999998854 56789999999999998764433
No 4
>PLN03239 histone acetyltransferase; Provisional
Probab=100.00 E-value=2.5e-112 Score=897.82 Aligned_cols=275 Identities=44% Similarity=0.838 Sum_probs=262.9
Q ss_pred CCCCCCCEEEeCCeeEecccCCCChhhhcC----CCcEeeecccccccCCHHHHHHHHhh---CCCCCCCCceeeecCCe
Q psy6980 273 PEQINPAAIEFGQYEVKTWYSSPFPQEYAR----LPKLFLCEFCLKYTKSKAVLERHRDK---CAWRHPPATEIYRKENL 345 (760)
Q Consensus 273 ~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~----~~~LyiCE~ClkY~~s~~~l~rH~~k---C~~r~PPG~eIYR~~~i 345 (760)
+.+|||+.|+||+|+|+|||+||||++|.. +++||||||||+||.++..|.+|+.+ |.++||||+||||++++
T Consensus 69 t~~rNI~~I~~G~y~i~tWYfSPyP~e~~~~~~~~~~lYiCE~Clky~~~~~~l~~H~~~~~~c~~~~PPG~eIYR~~~~ 148 (351)
T PLN03239 69 TKVKNVAFLELGPYQMDTWYFSPLPKELFKAGGFIDVLYVCEFSFGFFARKSELLRFQAKELPKERRHPPGNEIYRCGDL 148 (351)
T ss_pred hcCCCCCEEEECCeeecCCCCCCCcHHHhcccccCceEEEeccchhhhcCHHHHHHHHHhhccccCcCCCCCeEEEeCCE
Confidence 479999999999999999999999999975 78999999999999999999999987 88999999999999999
Q ss_pred EEEEEeCCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCccccc
Q psy6980 346 SVFEVDGNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRK 425 (760)
Q Consensus 346 svfEVDG~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrk 425 (760)
|||||||+++++|||||||||||||||||||||||||+|||||+.|+.|+||||||||||.|+++|||||||||||||||
T Consensus 149 sifEVDG~~~~~yCQnLCLlaKLFLdhKtlyyDV~~FlFYVl~e~D~~g~h~vGYFSKEK~s~~~~NLaCIltLPpyQrk 228 (351)
T PLN03239 149 AMFEVDGFEERIYCQNLCYIAKLFLDHKTLYFDVDPFLFYVLCEVDERGFHPVGYYSKEKYSDVGYNLACILTFPAHQRK 228 (351)
T ss_pred EEEEEeCccchHHHHHHHHHHHHhhcCcceeccccceEEEEEEEecCCceEEEEEeeecccCCCCCceEEEEecChhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccC-CcceeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 426 GYGRFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRN-QKLICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 426 GyG~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~-~~~isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
|||+|||+|||+|||+||++|||||||||||++||++||+.+|+++|.++.+ ...+||+|||++|||.++|||+||++|
T Consensus 229 GyG~lLI~fSYeLSr~Eg~~G~PEkPLSdlG~~sY~~YW~~~il~~L~~~~~~~~~~si~dis~~Tgi~~~DIi~tL~~l 308 (351)
T PLN03239 229 GYGRFLIAFSYELSKKEEKVGSPEKPMSDLGQQAYIPYWGSTIVDFLLNHSGNDSSLSIMDIAKKTSIMAEDIVFALNQL 308 (351)
T ss_pred chhhhhHhhhhHhhhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCccHHHHHHHhCCCHHHHHHHHHHC
Confidence 9999999999999999999999999999999999999999999999998753 257999999999999999999999999
Q ss_pred CceeeecCCCCCcEEEeeHHHHHHHHHHHHhCCCcceecCCCCeEecC
Q psy6980 505 GMLRTKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKIDPECLRWTPL 552 (760)
Q Consensus 505 ~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~idp~~L~W~P~ 552 (760)
|||+++ +++++|+++.+.|++++++.. ++++.|||++|+|+|+
T Consensus 309 ~~l~~~---~g~~~i~~~~~~l~~~~~~~~--~~~~~id~~~L~W~p~ 351 (351)
T PLN03239 309 GILKFI---NGIYFIAAEKGLLEELAEKHP--VKEPRVDPSKLHWTPF 351 (351)
T ss_pred CcEEEE---CCeEEEEeCHHHHHHHHHHhc--CCCccCChhHceecCC
Confidence 999999 478889999999999988754 3567899999999995
No 5
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=100.00 E-value=3.9e-112 Score=921.42 Aligned_cols=276 Identities=54% Similarity=1.016 Sum_probs=267.5
Q ss_pred CCCCCCCEEEeCCeeEecccCCCChhhhcCCCcEeeecccccccCCHHHHHHHHhhCCCCCCCCceeeecCC----eEEE
Q psy6980 273 PEQINPAAIEFGQYEVKTWYSSPFPQEYARLPKLFLCEFCLKYTKSKAVLERHRDKCAWRHPPATEIYRKEN----LSVF 348 (760)
Q Consensus 273 ~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~~~~LyiCE~ClkY~~s~~~l~rH~~kC~~r~PPG~eIYR~~~----isvf 348 (760)
+.+|||+.|+||+|+|+|||+||||+||...++||||||||+||+++..|.+|+.+|.++||||+||||+++ ||||
T Consensus 165 tk~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~lyiCe~Cl~y~~~~~~~~~H~~~C~~~~PPG~eIYr~~~~~~~~si~ 244 (450)
T PLN00104 165 TKVKNIATIELGRYEIDTWYFSPFPPEYNDCSKLYFCEFCLKFMKRKEQLQRHMKKCDLKHPPGDEIYRHPTRQEGLSMF 244 (450)
T ss_pred cccCccCEEEECCeEeeeeecCCCChHHcCCCeEEEchhhhhhhcCHHHHHHHHhcCCCCCCCcCeEEEcCCCCceEEEE
Confidence 589999999999999999999999999999999999999999999999999999999999999999999998 9999
Q ss_pred EEeCCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccC
Q psy6980 349 EVDGNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYG 428 (760)
Q Consensus 349 EVDG~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG 428 (760)
||||+++++||||||||||||||||||||||+||+|||||+.|+.|+||||||||||.|+++||||||||||||||||||
T Consensus 245 EvDG~~~~~yCqnLcLlaKLFLdhKtlyydV~~FlFYvl~e~d~~g~h~vGyFSKEk~s~~~~NLaCIltlP~yQrkGyG 324 (450)
T PLN00104 245 EVDGKKNKVYCQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEEDYNLACILTLPPYQRKGYG 324 (450)
T ss_pred EEeCCcchhHHHHHHHHHHHhhcCcceeccccceEEEEEEEecCCCcEEEEEecccccCcCCCceEEEEecchhhhcchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCcee
Q psy6980 429 RFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLR 508 (760)
Q Consensus 429 ~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~ 508 (760)
+|||+|||+|||+||++|||||||||||+++|++||+.+|+++|.++. ..|||++||++|||.++|||+||++||||+
T Consensus 325 ~~LI~~SYeLSr~eg~~G~PEkPLSdlG~~sY~~YW~~~i~~~L~~~~--~~~si~~is~~T~i~~~Dii~tL~~l~~l~ 402 (450)
T PLN00104 325 KFLIAFSYELSKREGKVGTPERPLSDLGLVSYRGYWTRVLLEILKKHK--GNISIKELSDMTAIKAEDIVSTLQSLNLIQ 402 (450)
T ss_pred heehhheehhhhccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcC--CCccHHHHHHHhCCCHHHHHHHHHHCCCEE
Confidence 999999999999999999999999999999999999999999998765 489999999999999999999999999999
Q ss_pred eecCCCCCcEEEeeHHHHHHHHHHHHhCCCcceecCCCCeEecCccc
Q psy6980 509 TKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKIDPECLRWTPLVSH 555 (760)
Q Consensus 509 ~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~idp~~L~W~P~~~~ 555 (760)
++ +|+++|+++++.|++++++.. ++++.|||++|+|+|+.+.
T Consensus 403 ~~---kg~~~i~~~~~~i~~~~~~~~--~~~~~i~~~~L~W~p~~~~ 444 (450)
T PLN00104 403 YR---KGQHVICADPKVLEEHLKAAG--RGGLEVDPSKLIWTPYKEQ 444 (450)
T ss_pred ec---CCcEEEEECHHHHHHHHHHhc--CCCcEEchhhcEEeCCCCC
Confidence 99 578899999999999998743 5789999999999998775
No 6
>COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=100.00 E-value=9.7e-101 Score=802.84 Aligned_cols=272 Identities=51% Similarity=1.000 Sum_probs=258.2
Q ss_pred CCCCCCCCEEEeCCeeEecccCCCChhhhcCCCcEeeecccccccCCHHHHHHHHhhCCCCCCCCceeeecCCeEEEEEe
Q psy6980 272 VPEQINPAAIEFGQYEVKTWYSSPFPQEYARLPKLFLCEFCLKYTKSKAVLERHRDKCAWRHPPATEIYRKENLSVFEVD 351 (760)
Q Consensus 272 ~~~~r~~~~I~~G~y~i~tWY~SPyP~ey~~~~~LyiCE~ClkY~~s~~~l~rH~~kC~~r~PPG~eIYR~~~isvfEVD 351 (760)
...++++..|.+|+|+|++||+||||++++..+.+|||||||+||.++..|.||+++|.++||||+||||++.|||||||
T Consensus 124 ~~~v~~i~~i~~~~y~iepwyfSpyp~~~s~~d~vyICefClkY~~s~~~~~rH~~kC~~~~pPG~eiYrD~~iS~~EiD 203 (395)
T COG5027 124 GARVKNINEIKLGNYEIEPWYFSPYPEEFSDLDIVYICEFCLKYYGSQTSLVRHRKKCSLQHPPGNEIYRDKYISFFEID 203 (395)
T ss_pred hhhhccchhheecccccccccccCcchhhcccceEEEhhhhHHHhcchhHHHHHHhcCcCcCCCCceeeecCceEEEEEc
Confidence 34789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccc
Q psy6980 352 GNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFL 431 (760)
Q Consensus 352 G~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~L 431 (760)
|+++.+|||||||||||||||||||||||||+|||||+.|+.|||+||||||||.|.++||||||||||||||+|||.||
T Consensus 204 G~~q~~~CrnLCLlsKlFLd~KtLYyDVDpflFYvl~~~~~~~~h~vGyFSKEK~S~~~yNLaCILtLP~yQRrGYG~lL 283 (395)
T COG5027 204 GRKQRLYCRNLCLLSKLFLDHKTLYYDVDPFLFYVLTERGDTGCHLVGYFSKEKESEQDYNLACILTLPPYQRRGYGKLL 283 (395)
T ss_pred CcchhhHHHHHHHHHHHHhcCceeEEeccceEEEEEEEcCCcceeeeeeechhhcccccCceEEEEecChhHhcccceEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeeec
Q psy6980 432 IDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTKH 511 (760)
Q Consensus 432 IdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~ 511 (760)
|||||+||++||++||||+||||||+++||+||+.+|+++|.++. ....+|.+||..|||+++|||.||++|||+.+.
T Consensus 284 IdFSY~Ls~~E~k~gsPEKPLSdlGLlsYr~YW~~~v~~~L~k~~-~~~~~I~~Is~~TgM~~dDVI~tLe~L~il~~~- 361 (395)
T COG5027 284 IDFSYLLSQKEGKVGSPEKPLSDLGLLSYRAYWSEIVAKLLLKMD-KEITDINEISKETGMSTDDVIHTLEALNILREY- 361 (395)
T ss_pred eeeeeecccccccCCCCCCCCchhhHHHHHHHHHHHHHHHHHhcC-cccccHHHHHhhhCCchhhHHHHHHHhccchhh-
Confidence 999999999999999999999999999999999999999999987 344459999999999999999999999999998
Q ss_pred CCCCCcEEEeeHHHHHHHHHHHHhCCCcceecCCCCeE
Q psy6980 512 GDSSEPCIVINWAIVDAHMKRLEQSKTRIKIDPECLRW 549 (760)
Q Consensus 512 ~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~idp~~L~W 549 (760)
++.+++.++.+.++.....+.++ + ..|+++.|.|
T Consensus 362 --~~~yI~~l~~~~l~~~~R~~~kk-~-~~i~~d~L~w 395 (395)
T COG5027 362 --KGQYIISLNSDKLHNYLRLWSKK-R-RRINPDLLLW 395 (395)
T ss_pred --CceEEEEeccchhhhHHHHhhhh-c-cccCHHhhCC
Confidence 47778888888887776665543 3 7799999998
No 7
>PF01853 MOZ_SAS: MOZ/SAS family; InterPro: IPR002717 Moz is a monocytic leukemia Zn_finger protein and the SAS protein from Saccharomyces cerevisiae (Baker's yeast) is involved in silencing the Hmr locus. These proteins were reported to be homologous to acetyltransferases [] but this similarity is not supported by standard sequence analysis.; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3TO6_A 1MJA_A 1MJ9_A 3TO7_A 3TO9_A 1MJB_A 1FY7_A 2OZU_A 2RC4_A 2OU2_A ....
Probab=100.00 E-value=4.9e-89 Score=672.87 Aligned_cols=187 Identities=63% Similarity=1.155 Sum_probs=166.8
Q ss_pred CCCCCCceeeecCCeEEEEEeCCcchhhHHHHHHhhhhcccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCC
Q psy6980 331 WRHPPATEIYRKENLSVFEVDGNQNKFYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQK 410 (760)
Q Consensus 331 ~r~PPG~eIYR~~~isvfEVDG~~~k~YCQnLCLLaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~ 410 (760)
||||||+||||++++|||||||+++++|||||||||||||||||||||||||+|||||+.|+.|+||||||||||.|+++
T Consensus 1 w~~PPG~eiYr~~~~sifEVdG~~~~~yCqnLcLlaKLFLd~Ktlyydv~~F~FYVl~e~d~~g~h~vGyFSKEk~s~~~ 80 (188)
T PF01853_consen 1 WRHPPGNEIYRDDNISIFEVDGAKHKLYCQNLCLLAKLFLDHKTLYYDVDPFLFYVLTEKDDDGFHIVGYFSKEKESWDN 80 (188)
T ss_dssp -SS-SSEEEEEETTEEEEEEETTTSHHHHHHHHHHHHTT-SSGCCTT-STTEEEEEEEEEETTEEEEEEEEEEESS-TT-
T ss_pred CCCCCcCEEEECCCeEEEEEECCcCchHHHHHHHHHHHHhhCeEEEeecCceEEEEEEEecCccceeEEEEEEEecccCC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEEEecCcccccccCccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhh
Q psy6980 411 YNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADT 490 (760)
Q Consensus 411 nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~T 490 (760)
||||||||||||||||||+|||||||+|||+|+++|||||||||||+++|++||+.+|+++|.+..+...|||+|||++|
T Consensus 81 ~NLsCIl~lP~yQrkGyG~~LI~fSY~LSr~e~~~G~PErPLSdlG~~sY~sYW~~~i~~~L~~~~~~~~isi~~is~~T 160 (188)
T PF01853_consen 81 NNLSCILTLPPYQRKGYGRFLIDFSYELSRREGKIGGPERPLSDLGRLSYRSYWRRVILEYLLEFKGKKSISIKDISQET 160 (188)
T ss_dssp EEESEEEE-GGGTTSSHHHHHHHHHHHHHHHTTS-BEE-SS--HHHHHHHHHHHHHHHHHHHHHTSSE--EEHHHHHHHH
T ss_pred eeEeehhhcchhhhcchhhhhhhhHHHHhhccCcCCCCcCccCHHHHHHHHHHHHHHHHHHHHhcCCCCeEEHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998754489999999999
Q ss_pred CCChhHHHHHHHHcCceeeecCCCCCcEEE
Q psy6980 491 GLYHHDVAETLELLGMLRTKHGDSSEPCIV 520 (760)
Q Consensus 491 gI~~~DIi~tL~~l~~l~~~~~~~~~~~i~ 520 (760)
||.++||++||++||||+++ +++++|+
T Consensus 161 gi~~~DIi~tL~~l~~l~~~---~~~~~i~ 187 (188)
T PF01853_consen 161 GIRPEDIISTLQQLGMLKYY---KGQHIIC 187 (188)
T ss_dssp -BTHHHHHHHHHHTT-EEEE---TTEEEEE
T ss_pred CCCHHHHHHHHHHCCCEEEE---CCcEEEE
Confidence 99999999999999999999 3555554
No 8
>KOG1244|consensus
Probab=99.89 E-value=1.5e-24 Score=223.49 Aligned_cols=93 Identities=16% Similarity=0.252 Sum_probs=86.5
Q ss_pred cccccccccccCCCCCCccccccccccccccCCCCCC-----------------CCcCCCCCCCCCcccccCCCcccEEe
Q psy6980 81 NTQVVSKLLATDLAPGVTRKDIDLYKQAHEEATKATP-----------------LLPLAVPEQINPAAIEFGQYEVCLIK 143 (760)
Q Consensus 81 n~~ICefcL~td~~N~~rkgdIEeLlsC~~CG~~a~P-----------------w~C~eck~C~~C~~~e~~~ce~cmLf 143 (760)
...+|+|||+....|+ +.+.+|+|++|++||.++|| |||+|||.|..|+.++ +++.+||
T Consensus 223 Pn~YCDFclgdsr~nk-kt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtse---nddqllf 298 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENK-KTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSE---NDDQLLF 298 (336)
T ss_pred CCcccceecccccccc-ccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcC---CCceeEe
Confidence 3459999999998886 78899999999999988887 9999999999999999 8899999
Q ss_pred cCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 144 CCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 144 CD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
||+||||||||||.|||.++|+|.|.|..|....
T Consensus 299 cddcdrgyhmyclsppm~eppegswsc~KOG~~~ 332 (336)
T KOG1244|consen 299 CDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEEL 332 (336)
T ss_pred ecccCCceeeEecCCCcCCCCCCchhHHHHHHHH
Confidence 9999999999999999999999999999997654
No 9
>KOG1512|consensus
Probab=99.42 E-value=3.9e-14 Score=147.90 Aligned_cols=89 Identities=13% Similarity=0.138 Sum_probs=76.9
Q ss_pred ccccccccccCCCCCCccccccccccccccCCCCC-----------------CCCcCCCCCCCCCcccccCCCcccEEec
Q psy6980 82 TQVVSKLLATDLAPGVTRKDIDLYKQAHEEATKAT-----------------PLLPLAVPEQINPAAIEFGQYEVCLIKC 144 (760)
Q Consensus 82 ~~ICefcL~td~~N~~rkgdIEeLlsC~~CG~~a~-----------------Pw~C~eck~C~~C~~~e~~~ce~cmLfC 144 (760)
+.+|..||...+.| ..+.-+-|+.|+.|.++.| +|+|++|+.|+.|.... .++-++||
T Consensus 258 ~~~~~~~~~~~~~~--~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~---~E~E~~FC 332 (381)
T KOG1512|consen 258 RNERKHFWDIQTNI--IQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPV---IESEHLFC 332 (381)
T ss_pred hhhhhhhhcchhhh--hhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcc---cchheecc
Confidence 45999999998877 5667799999999986665 48888898898888876 77889999
Q ss_pred CCCCCccccccCCCCcCCCCCCCcccC-CCCCCC
Q psy6980 145 CACNVYYHIICLQPPLERRLKVPWKCT-SCESGT 177 (760)
Q Consensus 145 D~CDrgyH~~CL~PpL~~iP~G~W~C~-~C~~~~ 177 (760)
|.||||||+||+ +|..+|.|.|+|. .|....
T Consensus 333 D~CDRG~HT~CV--GL~~lP~G~WICD~~C~~~~ 364 (381)
T KOG1512|consen 333 DVCDRGPHTLCV--GLQDLPRGEWICDMRCREAT 364 (381)
T ss_pred ccccCCCCcccc--ccccccCccchhhhHHHHhc
Confidence 999999999999 9999999999999 465444
No 10
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=99.24 E-value=2.1e-12 Score=142.93 Aligned_cols=47 Identities=36% Similarity=0.549 Sum_probs=42.1
Q ss_pred CCCCCcccCCceeeeccEEEEeeeeCCCchhhhhcc--cccccccccCC
Q psy6980 47 PLAVPEQINPAAIEFGQYEVKTWYSSPFPQEYARNT--QVVSKLLATDL 93 (760)
Q Consensus 47 ~~~~t~vkni~~Ie~GkyeIdtWYfSPYP~Eyarn~--~ICefcL~td~ 93 (760)
++..++++||+.|+||+|+|+||||||||+||.... +||+|||++..
T Consensus 161 ~ee~tk~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~lyiCe~Cl~y~~ 209 (450)
T PLN00104 161 HEEFTKVKNIATIELGRYEIDTWYFSPFPPEYNDCSKLYFCEFCLKFMK 209 (450)
T ss_pred cccccccCccCEEEECCeEeeeeecCCCChHHcCCCeEEEchhhhhhhc
Confidence 345689999999999999999999999999998764 69999999975
No 11
>PLN03239 histone acetyltransferase; Provisional
Probab=99.17 E-value=5.4e-12 Score=135.82 Aligned_cols=78 Identities=22% Similarity=0.269 Sum_probs=56.2
Q ss_pred cCCCCCCCCChhhhHHHHHH-----------HHH-----HHh---hCC-------CCCCCCCcccCCceeeeccEEEEee
Q psy6980 16 LATDLAPGVTRKDIDLYKQA-----------HEE-----ATK---ATP-------LLPLAVPEQINPAAIEFGQYEVKTW 69 (760)
Q Consensus 16 ~n~rL~~~VT~~Dl~LFreA-----------qee-----A~~---~~~-------~~~~~~t~vkni~~Ie~GkyeIdtW 69 (760)
+|+|||.||+.+++++-... ..+ +.. ..+ .+++.+++++||+.|+||+|+|+||
T Consensus 8 ~nkRlD~Wv~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~t~~rNI~~I~~G~y~i~tW 87 (351)
T PLN03239 8 FNRRMDEWISKDKSNEEILALPSDHLATHTVGEDVVATIAAPELDEHEGLDDAALKEHEEVTKVKNVAFLELGPYQMDTW 87 (351)
T ss_pred ccchHhhhcChhhcchhhhcCCccccccccccccccccccccccccccccChhhhhhhHHHhcCCCCCEEEECCeeecCC
Confidence 79999999999887543310 000 000 000 1234458899999999999999999
Q ss_pred eeCCCchhhhh------cccccccccccCC
Q psy6980 70 YSSPFPQEYAR------NTQVVSKLLATDL 93 (760)
Q Consensus 70 YfSPYP~Eyar------n~~ICefcL~td~ 93 (760)
||||||++|.. ..+||+|||++..
T Consensus 88 YfSPyP~e~~~~~~~~~~lYiCE~Clky~~ 117 (351)
T PLN03239 88 YFSPLPKELFKAGGFIDVLYVCEFSFGFFA 117 (351)
T ss_pred CCCCCcHHHhcccccCceEEEeccchhhhc
Confidence 99999999964 3479999999864
No 12
>PTZ00064 histone acetyltransferase; Provisional
Probab=99.09 E-value=1.8e-11 Score=136.04 Aligned_cols=46 Identities=22% Similarity=0.389 Sum_probs=41.5
Q ss_pred CCCCcccCCceeeeccEEEEeeeeCCCchhhhhcc--cccccccccCC
Q psy6980 48 LAVPEQINPAAIEFGQYEVKTWYSSPFPQEYARNT--QVVSKLLATDL 93 (760)
Q Consensus 48 ~~~t~vkni~~Ie~GkyeIdtWYfSPYP~Eyarn~--~ICefcL~td~ 93 (760)
+.+++++||+.|+||+|+|+||||||||+||...+ +||+|||++..
T Consensus 244 ee~tkvkNI~~I~~G~yei~TWYfSPYP~Ey~~~d~LYICEfCLkY~~ 291 (552)
T PTZ00064 244 EETTRLRTIGRVRIGKFILDTWYFSPLPDEYQNVDTLHFCEYCLDFFC 291 (552)
T ss_pred hhhhcCCCcCeEEECCeEecCCcCCCCChhhcCCCeEEEccchhhhhC
Confidence 34588999999999999999999999999998765 69999999975
No 13
>KOG2747|consensus
Probab=98.97 E-value=1.7e-10 Score=126.00 Aligned_cols=47 Identities=40% Similarity=0.641 Sum_probs=42.3
Q ss_pred CCCCCcccCCceeeeccEEEEeeeeCCCchhhhhcc--cccccccccCC
Q psy6980 47 PLAVPEQINPAAIEFGQYEVKTWYSSPFPQEYARNT--QVVSKLLATDL 93 (760)
Q Consensus 47 ~~~~t~vkni~~Ie~GkyeIdtWYfSPYP~Eyarn~--~ICefcL~td~ 93 (760)
+...+.++||..|+||+|+|++|||||||+||++++ +||+|||.+..
T Consensus 121 ~~~~~~~r~i~~i~~G~yei~~WY~SPyP~e~~~~~~lYiCEfCLkY~~ 169 (396)
T KOG2747|consen 121 HEEVEKVRNIEKIEFGRYEIKTWYFSPYPEEYAKLDKLYICEFCLKYMK 169 (396)
T ss_pred ccccceecccceEEEcceeeeeeecCCCchhhccCCeEEEehHHHhHhc
Confidence 445678899999999999999999999999999875 69999999964
No 14
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=98.93 E-value=3.5e-10 Score=119.43 Aligned_cols=48 Identities=33% Similarity=0.516 Sum_probs=42.6
Q ss_pred CCCCCCcccCCceeeeccEEEEeeeeCCCchhhhhcc--cccccccccCC
Q psy6980 46 LPLAVPEQINPAAIEFGQYEVKTWYSSPFPQEYARNT--QVVSKLLATDL 93 (760)
Q Consensus 46 ~~~~~t~vkni~~Ie~GkyeIdtWYfSPYP~Eyarn~--~ICefcL~td~ 93 (760)
+++..++++||+.|+||+|+|+||||||||+||.... +||+|||++..
T Consensus 10 ~~ee~t~~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~lyiCe~Clky~~ 59 (290)
T PLN03238 10 EHEETTKVKNIEMIELGKYEMDTWYYSPYPEPYASCTKLYICEYCLKYMR 59 (290)
T ss_pred cchhhhcCCCcCEEEECCeeeecCccCCCChHHcCCCeEEEcCCCcchhC
Confidence 4455678999999999999999999999999998765 69999999975
No 15
>KOG0825|consensus
Probab=98.69 E-value=4.5e-09 Score=121.09 Aligned_cols=50 Identities=30% Similarity=0.559 Sum_probs=43.5
Q ss_pred CCCCCcccccCCCcccEEecCCCCCc-cccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 125 EQINPAAIEFGQYEVCLIKCCACNVY-YHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 125 ~C~~C~~~e~~~ce~cmLfCD~CDrg-yH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
.|.+|...+ .++-||+||.|+.+ ||+|||+|+|.++|.+.|||++|.-..
T Consensus 217 ~C~IC~~~D---pEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 217 KCDICTVHD---PEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLLE 267 (1134)
T ss_pred cceeeccCC---hHHhheeecccccceeeccccCcccccccccceecCcchhhh
Confidence 456666655 77789999999999 999999999999999999999997654
No 16
>KOG4443|consensus
Probab=98.51 E-value=3.7e-08 Score=112.57 Aligned_cols=75 Identities=20% Similarity=0.340 Sum_probs=62.1
Q ss_pred ccccccccCCCCCC---------------CCcCCCCCCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCCCCCCc
Q psy6980 104 LYKQAHEEATKATP---------------LLPLAVPEQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERRLKVPW 168 (760)
Q Consensus 104 eLlsC~~CG~~a~P---------------w~C~eck~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W 168 (760)
.|+.|++||...|| |.|..|..|..|+... .....+||+.||-.||.||..|++..+|.|.|
T Consensus 34 ~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~g---D~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~ 110 (694)
T KOG4443|consen 34 RLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTG---DPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPW 110 (694)
T ss_pred cchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccC---CcccccccccccccccccccCCccccccCccc
Confidence 69999999955444 8888888888888544 55668999999999999999999999999999
Q ss_pred ccCCCCCCCCCCC
Q psy6980 169 KCTSCESGTTEPS 181 (760)
Q Consensus 169 ~C~~C~~~~~~~~ 181 (760)
+|+-|..+....+
T Consensus 111 ~ckk~~~c~qc~~ 123 (694)
T KOG4443|consen 111 LCKKCTRCRQCDS 123 (694)
T ss_pred ccHHHHhhhhccc
Confidence 9997766665543
No 17
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=98.46 E-value=1e-07 Score=92.89 Aligned_cols=32 Identities=34% Similarity=0.797 Sum_probs=29.0
Q ss_pred ccccccCCCCcCCCCCCCcccCCCCCCCCCCC
Q psy6980 150 YYHIICLQPPLERRLKVPWKCTSCESGTTEPS 181 (760)
Q Consensus 150 gyH~~CL~PpL~~iP~G~W~C~~C~~~~~~~~ 181 (760)
||||+||+|||+.+|+|+|+|+.|......++
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQS 32 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCCc
Confidence 79999999999999999999999998875543
No 18
>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=98.20 E-value=2.7e-07 Score=73.21 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=37.7
Q ss_pred CCCCcccccCCCcccEEecCCCCCccccccCCCCcC--CCCCCCcccCCCCC
Q psy6980 126 QINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLE--RRLKVPWKCTSCES 175 (760)
Q Consensus 126 C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~--~iP~G~W~C~~C~~ 175 (760)
|..|+... .+..||+||.|++.||+.|+.|++. .++.+.|+|+.|..
T Consensus 2 C~vC~~~~---~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSD---DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSC---TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcC---CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 34455433 5567999999999999999999998 66677999999864
No 19
>KOG4299|consensus
Probab=98.03 E-value=1.6e-06 Score=99.32 Aligned_cols=39 Identities=31% Similarity=0.728 Sum_probs=34.8
Q ss_pred EEecCCCCCccccccCCCC--cCCCCCCCcccCCCCCCCCC
Q psy6980 141 LIKCCACNVYYHIICLQPP--LERRLKVPWKCTSCESGTTE 179 (760)
Q Consensus 141 mLfCD~CDrgyH~~CL~Pp--L~~iP~G~W~C~~C~~~~~~ 179 (760)
.++||.|+++||++||+|| ...+|.|.|+|+.|......
T Consensus 268 ~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~i 308 (613)
T KOG4299|consen 268 IICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSVI 308 (613)
T ss_pred ceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeeeec
Confidence 5899999999999999999 58899999999999766533
No 20
>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 COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=97.82 E-value=4.9e-06 Score=90.23 Aligned_cols=44 Identities=27% Similarity=0.502 Sum_probs=39.5
Q ss_pred CCcccCCceeeeccEEEEeeeeCCCchhhhhcc--cccccccccCC
Q psy6980 50 VPEQINPAAIEFGQYEVKTWYSSPFPQEYARNT--QVVSKLLATDL 93 (760)
Q Consensus 50 ~t~vkni~~Ie~GkyeIdtWYfSPYP~Eyarn~--~ICefcL~td~ 93 (760)
...++++..|-+|+|+|++|||||||.+++..+ +||+|||.+..
T Consensus 124 ~~~v~~i~~i~~~~y~iepwyfSpyp~~~s~~d~vyICefClkY~~ 169 (395)
T COG5027 124 GARVKNINEIKLGNYEIEPWYFSPYPEEFSDLDIVYICEFCLKYYG 169 (395)
T ss_pred hhhhccchhheecccccccccccCcchhhcccceEEEhhhhHHHhc
Confidence 346899999999999999999999999998765 69999999865
No 22
>KOG0957|consensus
Probab=97.47 E-value=3.5e-05 Score=86.66 Aligned_cols=41 Identities=37% Similarity=0.916 Sum_probs=35.4
Q ss_pred CcccEEecCCCCCccccccCCCCcCCCCCCC----cccCCCCCCC
Q psy6980 137 YEVCLIKCCACNVYYHIICLQPPLERRLKVP----WKCTSCESGT 177 (760)
Q Consensus 137 ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~----W~C~~C~~~~ 177 (760)
.+.-++.||.|...||+-||+|||+++|+-. |.|+.|-...
T Consensus 555 dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECdk~e 599 (707)
T KOG0957|consen 555 DQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECDKNE 599 (707)
T ss_pred hhHHHhhcchhhceeeccccCCccccCcccccCcceeeccccccc
Confidence 5556889999999999999999999999874 9999994333
No 23
>KOG1245|consensus
Probab=97.35 E-value=3.5e-05 Score=96.32 Aligned_cols=38 Identities=29% Similarity=0.745 Sum_probs=36.1
Q ss_pred cEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 140 CLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 140 cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
.|++||.|+.+||++|++|.|+++|.|+|+|+.|+...
T Consensus 1122 ~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1122 KMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 48999999999999999999999999999999998766
No 24
>KOG1973|consensus
Probab=96.48 E-value=0.00098 Score=70.81 Aligned_cols=37 Identities=27% Similarity=0.768 Sum_probs=33.6
Q ss_pred ccEEecCC--CC-CccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 139 VCLIKCCA--CN-VYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 139 ~cmLfCD~--CD-rgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
..|+-||. |+ .=||+.|+ +|...|.|.|||+.|....
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CV--GL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCV--GLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred ccccccCCCCCCcceEEEecc--ccccCCCCcccchhhhhhh
Confidence 34999998 99 88999999 9999999999999998665
No 25
>KOG0955|consensus
Probab=96.30 E-value=0.0023 Score=78.35 Aligned_cols=52 Identities=17% Similarity=0.279 Sum_probs=38.8
Q ss_pred CCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCCCC
Q psy6980 125 EQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGTTE 179 (760)
Q Consensus 125 ~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~~~ 179 (760)
.|.+|..-+|. +-...||||.|+.++|++|.. ..=+|+|.|.|-.|......
T Consensus 221 ~C~iC~~~~~~-n~n~ivfCD~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~ 272 (1051)
T KOG0955|consen 221 VCCICLDGECQ-NSNVIVFCDGCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQR 272 (1051)
T ss_pred cceeecccccC-CCceEEEcCCCcchhhhhccC--CCCCCCCcEeehhhccCcCc
Confidence 45555544421 114489999999999999996 55599999999999887744
No 26
>KOG4323|consensus
Probab=96.25 E-value=0.0014 Score=74.11 Aligned_cols=51 Identities=24% Similarity=0.499 Sum_probs=39.8
Q ss_pred CCCCcccccCCCcccEEecCCCCCccccccCCCCcCCC----CCCCcccCCCCCCC
Q psy6980 126 QINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERR----LKVPWKCTSCESGT 177 (760)
Q Consensus 126 C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~i----P~G~W~C~~C~~~~ 177 (760)
|.+|.|-.-+. ...||+|+.|..-||..|..|+.+.. |.+.|+|..|....
T Consensus 171 c~vC~~g~~~~-~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 171 CSVCYCGGPGA-GNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred eeeeecCCcCc-cceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 56666544222 23799999999999999999998655 66789999998765
No 27
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=96.14 E-value=0.0022 Score=67.81 Aligned_cols=34 Identities=26% Similarity=0.784 Sum_probs=29.8
Q ss_pred cEEecC--CCCCc-cccccCCCCcCCCCCCCcccCCCCC
Q psy6980 140 CLIKCC--ACNVY-YHIICLQPPLERRLKVPWKCTSCES 175 (760)
Q Consensus 140 cmLfCD--~CDrg-yH~~CL~PpL~~iP~G~W~C~~C~~ 175 (760)
.|+-|| .|.+- ||+-|+ +|..+|+|.|||+.|..
T Consensus 233 qMVaCDn~nCkrEWFH~~CV--GLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 233 QMVACDNANCKREWFHLECV--GLKEPPKGKWYCPECKK 269 (271)
T ss_pred cceecCCCCCchhheecccc--ccCCCCCCcEeCHHhHh
Confidence 488999 47765 799999 99999999999999974
No 28
>KOG0383|consensus
Probab=95.78 E-value=0.0042 Score=73.53 Aligned_cols=36 Identities=31% Similarity=0.723 Sum_probs=33.4
Q ss_pred EEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 141 LIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 141 mLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
+|.||.|...||++|++|||...|.|.|.|++| ...
T Consensus 59 ~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc-~~p 94 (696)
T KOG0383|consen 59 LLWCDTCPASFHASCLGPPLTPQPNGEFICPRC-FCP 94 (696)
T ss_pred EEEeccccHHHHHHccCCCCCcCCccceeeeee-ccC
Confidence 788999999999999999999999999999999 444
No 29
>PF13673 Acetyltransf_10: Acetyltransferase (GNAT) domain; PDB: 2FIW_A 1BOB_A 3FNC_B 3EXN_A.
Probab=95.48 E-value=0.016 Score=50.98 Aligned_cols=53 Identities=26% Similarity=0.456 Sum_probs=39.6
Q ss_pred CCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 380 EPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 380 epFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
++..+||+.+.+ .+|||..=++ +..|..+.|+|.|||+|+|+.|++..=...+
T Consensus 42 ~~~~~~v~~~~~----~ivG~~~~~~----~~~i~~l~v~p~~r~~Gig~~Ll~~~~~~~~ 94 (117)
T PF13673_consen 42 GSHTIFVAEEGG----EIVGFAWLEP----DGEISHLYVLPEYRGRGIGRALLDAAEKEAK 94 (117)
T ss_dssp CCCEEEEEEETT----EEEEEEEEET----CEEEEEEEE-GGGTTSSHHHHHHHHHHHHHT
T ss_pred cCCEEEEEEECC----EEEEEEEEcC----CCeEEEEEEChhhcCCcHHHHHHHHHHHHHH
Confidence 345666666655 7999998652 3349999999999999999999987655543
No 30
>KOG0954|consensus
Probab=95.36 E-value=0.0061 Score=71.85 Aligned_cols=50 Identities=20% Similarity=0.404 Sum_probs=41.0
Q ss_pred CCCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCC
Q psy6980 124 PEQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESG 176 (760)
Q Consensus 124 k~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~ 176 (760)
-.|..|...+|.. ...|+|||.|+-.-|+-|. ++.++|+|.|.|..|.-.
T Consensus 272 viCDvCrspD~e~-~neMVfCd~Cn~cVHqaCy--GIle~p~gpWlCr~Calg 321 (893)
T KOG0954|consen 272 VICDVCRSPDSEE-ANEMVFCDKCNICVHQACY--GILEVPEGPWLCRTCALG 321 (893)
T ss_pred ceeceecCCCccc-cceeEEeccchhHHHHhhh--ceeecCCCCeeehhcccc
Confidence 3466777665332 3459999999999999999 999999999999999766
No 31
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.07 E-value=0.0039 Score=47.83 Aligned_cols=33 Identities=33% Similarity=0.698 Sum_probs=20.2
Q ss_pred cEEecCCCCCccccccCCCCcCCCCCC-CcccCCCC
Q psy6980 140 CLIKCCACNVYYHIICLQPPLERRLKV-PWKCTSCE 174 (760)
Q Consensus 140 cmLfCD~CDrgyH~~CL~PpL~~iP~G-~W~C~~C~ 174 (760)
.||+|+.|+-..|..|. ++..+|.+ .|+|..|.
T Consensus 3 ~ll~C~~C~v~VH~~CY--Gv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCY--GVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHH--T-SS--SS-----HHH-
T ss_pred ceEEeCCCCCcCChhhC--CcccCCCCCcEECCcCC
Confidence 48999999999999999 89999998 89999874
No 32
>PRK10146 aminoalkylphosphonic acid N-acetyltransferase; Provisional
Probab=94.74 E-value=0.028 Score=51.37 Aligned_cols=58 Identities=14% Similarity=0.240 Sum_probs=38.8
Q ss_pred ceEEEEEEeCCCCceEEeeecccccCC--CC---ceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 382 FLFYVLTQNDDKGCHLVGYFSKEKHCQ--QK---YNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 382 FlFYVLte~D~~G~h~VGYFSKEK~s~--~~---nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
..|||+.. | ..+|||.+=..... .. ..|..+.|.|.|||+|||+.|+++.=..++..|
T Consensus 47 ~~~~v~~~-~---~~ivG~~~~~~~~~~~~~~~~~~i~~l~v~p~~rg~GiG~~Ll~~~~~~a~~~~ 109 (144)
T PRK10146 47 MRYHLALL-D---GEVVGMIGLHLQFHLHHVNWIGEIQELVVMPQARGLNVGSKLLAWAEEEARQAG 109 (144)
T ss_pred ceEEEEEE-C---CEEEEEEEEEecccccccchhheeheeEECHHHcCCCHHHHHHHHHHHHHHHcC
Confidence 34556433 2 26899987432111 01 137789999999999999999998777666443
No 33
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=94.20 E-value=0.02 Score=65.18 Aligned_cols=52 Identities=15% Similarity=0.333 Sum_probs=40.4
Q ss_pred CCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCCCC
Q psy6980 125 EQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGTTE 179 (760)
Q Consensus 125 ~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~~~ 179 (760)
.|..|...+|. +-.-.+|||.|+-+-|-.|. ++.-+|+|.|+|..|.-...+
T Consensus 195 ~C~~c~~t~~e-N~naiVfCdgC~i~VHq~CY--GI~f~peG~WlCrkCi~~~~~ 246 (669)
T COG5141 195 ICTKCTSTHNE-NSNAIVFCDGCEICVHQSCY--GIQFLPEGFWLCRKCIYGEYQ 246 (669)
T ss_pred hhHhccccccC-CcceEEEecCcchhhhhhcc--cceecCcchhhhhhhcccccc
Confidence 34555554422 22347999999999999999 888899999999999887755
No 34
>PF00583 Acetyltransf_1: Acetyltransferase (GNAT) family; InterPro: IPR000182 The N-acetyltransferases (NAT) (EC 2.3.1.-) are enzymes that use acetyl coenzyme A (CoA) to transfer an acetyl group to a substrate, a reaction implicated in various functions from bacterial antibiotic resistance to mammalian circadian rhythm and chromatin remodeling. The Gcn5-related N-acetyltransferases (GNAT) catalyze the transfer of the acetyl from the CoA donor to a primary amine of the acceptor. The GNAT proteins share a domain composed of four conserved sequence motifs A-D [, ]. This GNAT domain is named after yeast GCN5 (from General Control Nonrepressed) and related histone acetyltransferases (HATs) like Hat1 and PCAF. HATs acetylate lysine residues of amino terminal histone tails, resulting in transcription activation. Another category of GNAT, the aminoglycoside N-acetyltransferases, confer antibiotic resistance by catalyzing the acetylation of amino groups in aminoglycoside antibiotics []. GNAT proteins can also have anabolic and catabolic functions in both prokaryotes and eukaryotes [, , , , ]. The acetyltransferase/GNAT domain forms a structurally conserved fold of 6 to 7 beta strands (B) and 4 helices (H) in the topology B1-H1-H2-B2-B3-B4-H3-B5-H4-B6, followed by a C-terminal strand which may be from the same monomer or contributed by another [, ]. Motifs D (B2-B3), A (B4-H3) and B (B5-H4) are collectively called the HAT core [, , ], while the N-terminal motif C (B1-H1) is less conserved. Some proteins known to contain a GNAT domain: Yeast GCN5 and Hat1, which are histone acetyltransferases (EC 2.3.1.48). Human PCAF, a histone acetyltransferase. Mammalian serotonin N-acetyltransferase (SNAT) or arylalkylamine NAT (AANAT), which acetylates serotonin into a circadian neurohormone that may participate in light-dark rhythms, and human mood and behavior. Mammalian glucosamine 6-phosphate N-acetyltransferase (GNA1) (EC 2.3.1.4). Escherichia coli rimI and rimJ, which acetylate the N-terminal alanine of ribosomal proteins S18 and S5, respectively (EC 2.3.1.128). Mycobacterium tuberculosis aminoglycoside 2'-N-acetyltransferase (aac), which acetylates the 2' hydroxyl or amino group of a broad spectrum of aminoglycoside antibiotics. Bacillus subtilis bltD and paiA, which acetylate spermine and spermidine. This entry represents the entire GNAT domain.; GO: 0008080 N-acetyltransferase activity, 0008152 metabolic process; PDB: 3T9Y_A 2R7H_B 2OZH_A 1Y9W_B 1VKC_B 2OH1_C 3R9E_B 3R9G_B 3R9F_A 3R96_A ....
Probab=93.99 E-value=0.024 Score=46.91 Aligned_cols=49 Identities=20% Similarity=0.349 Sum_probs=37.4
Q ss_pred ceEEeeecccccCC-----CCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 395 CHLVGYFSKEKHCQ-----QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 395 ~h~VGYFSKEK~s~-----~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
-.+|||.+=..... ....+-.+.|.|.||++|+|+.|++..-.+.+.++
T Consensus 5 ~~ivg~~~~~~~~~~~~~~~~~~i~~~~v~~~~r~~Gig~~L~~~~~~~~~~~g 58 (83)
T PF00583_consen 5 GQIVGFASLRPPPEPFDHGNHAYIHRLAVDPEYRGQGIGSKLLQAAEEWARKRG 58 (83)
T ss_dssp TEEEEEEEEEEEETTTTTTTEEEEEEEEECGGGTTSSHHHHHHHHHHHHHHHTT
T ss_pred CEEEEEEEEEECCCccccCCEEEEEEEEEcHHHhhCCCchhhhhhhhhhHHhcC
Confidence 36777766444332 34567889999999999999999999888777654
No 35
>PRK07757 acetyltransferase; Provisional
Probab=93.88 E-value=0.056 Score=50.32 Aligned_cols=46 Identities=15% Similarity=0.324 Sum_probs=34.0
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhcc
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKK 441 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~ 441 (760)
.+|||.+-.-.......+..|.|.|.|||+|||+.|++..-..++.
T Consensus 51 ~lvG~~~l~~~~~~~~~i~~v~V~p~~rg~Glg~~Ll~~l~~~a~~ 96 (152)
T PRK07757 51 EIVGCCALHILWEDLAEIRSLAVSEDYRGQGIGRMLVEACLEEARE 96 (152)
T ss_pred EEEEEEEEEeccCCceEEEEEEECHHHcCCCHHHHHHHHHHHHHHh
Confidence 7999987543332234577899999999999999988776655543
No 36
>PF13508 Acetyltransf_7: Acetyltransferase (GNAT) domain; PDB: 3EY5_A 3FRM_B 3D8P_B 3GY9_A 3GYA_A 3S6F_A 2Q7B_A 1CM0_B 1XEB_B 1Y7R_A ....
Probab=93.74 E-value=0.062 Score=45.27 Aligned_cols=47 Identities=21% Similarity=0.459 Sum_probs=34.0
Q ss_pred EEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhh
Q psy6980 384 FYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFS 435 (760)
Q Consensus 384 FYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfS 435 (760)
|||+.+.+ .+||+..=.... +..-+..+.|.|.||++|||+.||...
T Consensus 5 ~~~~~~~~----~ivG~~~~~~~~-~~~~i~~~~v~~~~rg~Gig~~ll~~~ 51 (79)
T PF13508_consen 5 FFVAEDDG----EIVGFIRLWPNE-DFAYIGYLAVDPEYRGKGIGSKLLNYL 51 (79)
T ss_dssp EEEEEETT----EEEEEEEEEETT-TEEEEEEEEE-GGGTTSSHHHHHHHHH
T ss_pred EEEEEECC----EEEEEEEEEEcC-CEEEEEEEEECHHHcCCCHHHHHHHHH
Confidence 55554433 588877654433 356789999999999999999999875
No 37
>PRK09831 putative acyltransferase; Provisional
Probab=92.85 E-value=0.083 Score=49.51 Aligned_cols=45 Identities=20% Similarity=0.310 Sum_probs=33.7
Q ss_pred eEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhh
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSY 436 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY 436 (760)
.|||+.+. -+++||..=. ...+.-+.|.|.|||+|+|+.|+++.-
T Consensus 54 ~~~v~~~~----~~iiG~~~~~-----~~~i~~~~v~p~~~g~GiG~~Ll~~~~ 98 (147)
T PRK09831 54 QVRVAVIN----AQPVGFITCI-----EHYIDMLFVDPEYTRRGVASALLKPLI 98 (147)
T ss_pred ceEEEEEC----CEEEEEEEeh-----hceeeeEEECHHHcCCCHHHHHHHHHH
Confidence 36666433 3899998743 246788999999999999999986654
No 38
>PHA01807 hypothetical protein
Probab=92.57 E-value=0.1 Score=51.19 Aligned_cols=48 Identities=19% Similarity=0.167 Sum_probs=34.4
Q ss_pred eEEeeecccccC----CCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 396 HLVGYFSKEKHC----QQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 396 h~VGYFSKEK~s----~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.+|||.+=.-.. ..-..|..|.|+|.|||+|+|+.||+.-....+.-|
T Consensus 63 ~lvG~~~l~~~~~~~~~~i~~l~~lYV~pe~RG~GiG~~Ll~~~~~~Ar~~G 114 (153)
T PHA01807 63 KLAGIAVLVFEDDPHVGPCLGVQWQYVLPEYRNAGVAREFLRELIRLAGEGN 114 (153)
T ss_pred EEEEEEEEEcCCCcceeeeccceeEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 788987632111 111234568999999999999999999888877543
No 39
>PRK10514 putative acetyltransferase; Provisional
Probab=92.48 E-value=0.11 Score=47.78 Aligned_cols=37 Identities=19% Similarity=0.385 Sum_probs=30.0
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhh
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYL 437 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~ 437 (760)
.+|||.+=.. ..+..+.+.|.||++|||+.||++...
T Consensus 60 ~~iG~~~~~~-----~~~~~~~v~p~~rgkGig~~Ll~~~~~ 96 (145)
T PRK10514 60 QPVGFMLLSG-----GHMEALFVDPDVRGCGVGRMLVEHALS 96 (145)
T ss_pred cEEEEEEEec-----CcEeEEEECHHhccCCHHHHHHHHHHH
Confidence 7899887421 336679999999999999999988775
No 40
>cd04301 NAT_SF N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate. NAT (N-Acyltransferase) is a large superfamily of enzymes that mostly catalyze the transfer of an acyl group to a substrate and are implicated in a variety of functions, ranging from bacterial antibiotic resistance to circadian rhythms in mammals. Members include GCN5-related N-Acetyltransferases (GNAT) such as Aminoglycoside N-acetyltransferases, Histone N-acetyltransferase (HAT) enzymes, and Serotonin N-acetyltransferase, which catalyze the transfer of an acetyl group to a substrate. The kinetic mechanism of most GNATs involves the ordered formation of a ternary complex: the reaction begins with Acetyl Coenzyme A (AcCoA) binding, followed by binding of substrate, then direct transfer of the acetyl group from AcCoA to the substrate, followed by product and subsequent CoA release. Other family members include Arginine/ornithine N-succinyltransfera
Probab=92.41 E-value=0.11 Score=38.83 Aligned_cols=45 Identities=22% Similarity=0.383 Sum_probs=32.3
Q ss_pred eEEeeecccccC--CCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 396 HLVGYFSKEKHC--QQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 396 h~VGYFSKEK~s--~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
+++||++=-... .....|.-+.+.|.||++|+|+.|+...-...+
T Consensus 9 ~~ig~~~~~~~~~~~~~~~l~~~~v~~~~~~~g~~~~~~~~~~~~~~ 55 (65)
T cd04301 9 EIVGFASLSPDGSGGDTAYIGDLAVLPEYRGKGIGSALLEAAEEEAR 55 (65)
T ss_pred EEEEEEEEEecCCCCccEEEEEEEECHHHcCcCHHHHHHHHHHHHHH
Confidence 789988743332 233556678899999999999998877544433
No 41
>PRK12308 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional
Probab=92.17 E-value=0.11 Score=60.84 Aligned_cols=56 Identities=14% Similarity=0.129 Sum_probs=40.5
Q ss_pred eEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhccc
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKE 442 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~E 442 (760)
.|||+...+ ++|||..=........-+..|.|.|.|||+|+|+.|++..-..++..
T Consensus 504 ~~~Va~~~g----~IVG~~~l~~~~~~~~~I~~i~V~P~~rGkGIGk~Ll~~l~~~ak~~ 559 (614)
T PRK12308 504 SFAVAEHHG----EVTGCASLYIYDSGLAEIRSLGVEAGWQVQGQGSALVQYLVEKARQM 559 (614)
T ss_pred cEEEEEECC----EEEEEEEEEEcCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHC
Confidence 367765443 79999764333222235889999999999999999999877776643
No 42
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=92.13 E-value=0.097 Score=35.23 Aligned_cols=22 Identities=36% Similarity=0.640 Sum_probs=20.8
Q ss_pred eeecccccccCCHHHHHHHHhh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRDK 328 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~k 328 (760)
|.|+.|.+.|.++..|.+|+..
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 7999999999999999999975
No 43
>TIGR01575 rimI ribosomal-protein-alanine acetyltransferase. Members of this model belong to the GCN5-related N-acetyltransferase (GNAT) superfamily. This model covers prokarotes and the archaea. The seed contains a characterized accession for Gram negative E. coli. An untraceable characterized accession (PIR|S66013) for Gram positive B. subtilis scores well (205.0) in the full alignment. Characterized members are lacking in the archaea. Noise cutoff (72.4) was set to exclude M. loti paralog of rimI. Trusted cutoff (80.0) was set at next highest scoring member in the mini-database.
Probab=92.02 E-value=0.18 Score=44.60 Aligned_cols=44 Identities=27% Similarity=0.355 Sum_probs=32.9
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
.+|||..-.... ....+..+.|.|.||++|+|+.|+..-....+
T Consensus 41 ~~vg~~~~~~~~-~~~~i~~~~v~~~~rg~G~g~~ll~~~~~~~~ 84 (131)
T TIGR01575 41 KVVGYAGVQIVL-DEAHILNIAVKPEYQGQGIGRALLRELIDEAK 84 (131)
T ss_pred eEEEEEEEEecC-CCeEEEEEEECHHHcCCCHHHHHHHHHHHHHH
Confidence 689998743322 34567889999999999999988876554443
No 44
>TIGR02382 wecD_rffC TDP-D-fucosamine acetyltransferase. This model represents the WecD protein (Formerly RffC) for the biosynthesis of enterobacterial common antigen (ECA), an outer leaflet, outer membrane glycolipid with a trisaccharide repeat unit. WecD is a member of the GNAT family of acetytransferases (pfam00583).
Probab=91.73 E-value=0.16 Score=50.08 Aligned_cols=44 Identities=16% Similarity=0.258 Sum_probs=32.0
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhh
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LS 439 (760)
.++||..=.........+.-|.+.|.||++|||+.|+..-=..+
T Consensus 109 ~iiG~i~l~~~~~~~~~i~~l~V~p~~rGkG~G~~ll~~~~~~a 152 (191)
T TIGR02382 109 DPRGYVTLRELNDTDARIGLLAVFPGAQSRGIGAELMQTALNWC 152 (191)
T ss_pred eEEEEEEEEecCCCceEEEEEEECHHHcCCCHHHHHHHHHHHHH
Confidence 69998764333333457888889999999999998877644333
No 45
>PF13527 Acetyltransf_9: Acetyltransferase (GNAT) domain; PDB: 3SXN_C 2I00_D 1M4D_B 1M44_A 1M4G_B 1M4I_A 2OZG_A 2HV2_F 3N7Z_A 3RYO_B ....
Probab=91.42 E-value=0.16 Score=45.69 Aligned_cols=49 Identities=18% Similarity=0.278 Sum_probs=35.2
Q ss_pred eEEeeeccccc-------CCCCceeEEEEecCcccccccCccchhhhhhhhcccCC
Q psy6980 396 HLVGYFSKEKH-------CQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEGQ 444 (760)
Q Consensus 396 h~VGYFSKEK~-------s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg~ 444 (760)
.+||...--.. ...-..+..++|.|.|||+|+|+.|++..++-.+.+|.
T Consensus 51 ~ivg~~~~~~~~~~~~g~~~~~~~i~~v~v~p~~R~~Gl~~~L~~~~~~~~~~~g~ 106 (127)
T PF13527_consen 51 KIVGHVGLIPRRLSVGGKKFKAAYIGDVAVDPEYRGRGLGRQLMRALLERARERGV 106 (127)
T ss_dssp EEEEEEEEEEEEEEETTEEEEEEEEEEEEE-GGGTTSSHHHHHHHHHHHHHHHTT-
T ss_pred EEEEEEEEEEEEEEECCEEEEEEEEEEEEECHHHcCCCHHHHHHHHHHHHHHhCCC
Confidence 57776653221 11235688999999999999999999999888876654
No 46
>KOG1246|consensus
Probab=91.41 E-value=0.26 Score=60.37 Aligned_cols=38 Identities=37% Similarity=0.899 Sum_probs=35.1
Q ss_pred cEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 140 CLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 140 cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
.+++||.|++.||.+|+.|++..+|+|.|.|+.|....
T Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 (904)
T KOG1246|consen 168 KLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTP 205 (904)
T ss_pred cceecccccCcccccccCCCCCcCCcCcccCCcccccc
Confidence 44599999999999999999999999999999998873
No 47
>PRK10975 TDP-fucosamine acetyltransferase; Provisional
Probab=91.36 E-value=0.2 Score=49.29 Aligned_cols=45 Identities=13% Similarity=0.289 Sum_probs=33.2
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
.+|||++=.........+..+.|.|.||++|||+.|+.+.-..++
T Consensus 112 ~~vG~~~l~~~~~~~~~i~~~~V~p~~rg~Gig~~Ll~~~~~~a~ 156 (194)
T PRK10975 112 QIQGFVTLRELNDTDARIGLLAVFPGAQGRGIGARLMQAALNWCQ 156 (194)
T ss_pred CEEEEEEEEecCCCceEEEEEEEChhhcCCCHHHHHHHHHHHHHH
Confidence 588987654332233567778899999999999999887665554
No 48
>PRK03624 putative acetyltransferase; Provisional
Probab=90.84 E-value=0.27 Score=43.86 Aligned_cols=55 Identities=22% Similarity=0.245 Sum_probs=33.6
Q ss_pred CceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 381 PFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 381 pFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
...|||+.. | | .+|||..=.- .....-+--|.|.|.|||+|||+.|++..-...+
T Consensus 44 ~~~~~v~~~-~--~-~~vG~~~~~~-~~~~~~i~~i~v~p~~rg~Gig~~ll~~~~~~~~ 98 (140)
T PRK03624 44 PSLFLVAEV-G--G-EVVGTVMGGY-DGHRGWAYYLAVHPDFRGRGIGRALVARLEKKLI 98 (140)
T ss_pred CceEEEEEc-C--C-cEEEEEEeec-cCCCceEEEEEECHHHhCCCHHHHHHHHHHHHHH
Confidence 345666543 2 2 5888854211 1122334456789999999999988886544443
No 49
>TIGR03827 GNAT_ablB putative beta-lysine N-acetyltransferase. Members of this protein family are GNAT family acetyltransferases, based on a seed alignment in which every member is associated with a lysine 2,3-aminomutase family protein, usually as the adjacent gene. This family includes AblB, the enzyme beta-lysine acetyltransferase that completes the two-step synthesis of the osmolyte (compatible solute) N-epsilon-acetyl-beta-lysine; all members of the family may have this function. Note that N-epsilon-acetyl-beta-lysine has been observed only in methanogenic archaea (e.g. Methanosarcina) but that this model, paired with TIGR03820, suggests a much broader distribution.
Probab=90.81 E-value=0.26 Score=51.48 Aligned_cols=57 Identities=18% Similarity=0.296 Sum_probs=37.9
Q ss_pred CCceEEEEEEeCCCCceEEeeecccccCC-CCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 380 EPFLFYVLTQNDDKGCHLVGYFSKEKHCQ-QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 380 epFlFYVLte~D~~G~h~VGYFSKEK~s~-~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
+.+.|||+.. | -.+||+.+=+-... ...-+.-|.|+|.||++|+|+.|+++.-...+
T Consensus 156 ~~~~~~v~~~-~---g~iVG~~~~~~~~~~~~~eI~~i~V~P~yRG~GiG~~Ll~~l~~~a~ 213 (266)
T TIGR03827 156 SNVVYFGVED-G---GKIIALASAEMDPENGNAEMTDFATLPEYRGKGLAKILLAAMEKEMK 213 (266)
T ss_pred CCcEEEEEEE-C---CEEEEEEEEecCCCCCcEEEEEEEECHHHcCCCHHHHHHHHHHHHHH
Confidence 3455666554 2 27999987432211 22346778999999999999998887644443
No 50
>PLN02706 glucosamine 6-phosphate N-acetyltransferase
Probab=90.77 E-value=0.32 Score=45.23 Aligned_cols=26 Identities=15% Similarity=0.225 Sum_probs=22.2
Q ss_pred EEecCcccccccCccchhhhhhhhcc
Q psy6980 416 IMTLPQYQRKGYGRFLIDFSYLLSKK 441 (760)
Q Consensus 416 IltLP~yQrkGyG~~LIdfSY~LSr~ 441 (760)
|.|.|.||++|||+.|+...-..++.
T Consensus 91 i~V~~~~rg~GiG~~ll~~~~~~a~~ 116 (150)
T PLN02706 91 VVVDSAARGKGLGKKIIEALTEHARS 116 (150)
T ss_pred EEECHHHcCCCHHHHHHHHHHHHHHH
Confidence 88999999999999998877666653
No 51
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=90.43 E-value=1 Score=38.64 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=37.9
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
...|+++|.... +..++..+||+..||+...| +.+|+..|+|...
T Consensus 8 ~~~IL~~L~~~g-~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~ 55 (68)
T smart00550 8 EEKILEFLENSG-DETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQ 55 (68)
T ss_pred HHHHHHHHHHCC-CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 367999999875 33599999999999998876 7888999999886
No 52
>KOG3216|consensus
Probab=90.41 E-value=0.43 Score=47.88 Aligned_cols=73 Identities=23% Similarity=0.324 Sum_probs=47.0
Q ss_pred hhhhcccccccccccCCceEEEEEEeCCCCceEEee---ecc--cccCCCCceeEEEEecCcccccccCccchhhhhhhh
Q psy6980 365 LAKLFLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGY---FSK--EKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 365 LaKLFLDhKTLyyDVepFlFYVLte~D~~G~h~VGY---FSK--EK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LS 439 (760)
..-+|+|+..- .++| .+.+..|..++|| |-- -..+-+.-=|-=|-|.|+|||||+|+.||.+=|+.+
T Consensus 42 ~~~~F~d~~~~-------~~~v-~~ie~~~~~~aGf~~yf~~ystW~~k~~iYleDlyV~e~yR~kG~Gs~Ll~~va~~A 113 (163)
T KOG3216|consen 42 ARDGFIDPPFK-------HWLV-AAIETSGEVVAGFALYFNNYSTWLGKQGIYLEDLYVREQYRGKGIGSKLLKFVAEEA 113 (163)
T ss_pred hhhhccCCCcc-------EEEE-EEEecCCCceeEEeeeecccccccccceEEEEeeEecchhcccChHHHHHHHHHHHH
Confidence 34468877532 2333 3444457778885 211 011112334677899999999999999999999888
Q ss_pred cccCCCCCC
Q psy6980 440 KKEGQRGTP 448 (760)
Q Consensus 440 r~Eg~~GtP 448 (760)
. +.|+|
T Consensus 114 ~---~~G~~ 119 (163)
T KOG3216|consen 114 D---KLGTP 119 (163)
T ss_pred H---HcCCC
Confidence 7 46666
No 53
>PLN02825 amino-acid N-acetyltransferase
Probab=90.34 E-value=0.23 Score=57.68 Aligned_cols=57 Identities=18% Similarity=0.257 Sum_probs=40.2
Q ss_pred eEEEEEEeCCCCceEEeeecccccC-CCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHC-QQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s-~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.|||+. .|. .+|||..-.... .....|+||.|.|.||++|+|+.|+++.-..++..|
T Consensus 408 ~f~V~e-~Dg---~IVG~aal~~~~~~~~aEI~~laV~P~yRGkGiG~~LL~~le~~Ar~~G 465 (515)
T PLN02825 408 SFVVVE-REG---SIIACAALFPFFEEKCGEVAAIAVSPECRGQGQGDKLLDYIEKKAASLG 465 (515)
T ss_pred cEEEEE-ECC---EEEEEEEEEeecCCCcEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 467764 343 578876532211 123569999999999999999999998877776544
No 54
>PRK10140 putative acetyltransferase YhhY; Provisional
Probab=90.20 E-value=0.32 Score=45.12 Aligned_cols=48 Identities=15% Similarity=0.180 Sum_probs=29.9
Q ss_pred ceEEEEEEeCCCCceEEeeecccccC----CCCceeEEEEecCcccccccCccchhh
Q psy6980 382 FLFYVLTQNDDKGCHLVGYFSKEKHC----QQKYNVSCIMTLPQYQRKGYGRFLIDF 434 (760)
Q Consensus 382 FlFYVLte~D~~G~h~VGYFSKEK~s----~~~nNLSCIltLP~yQrkGyG~~LIdf 434 (760)
+.+||+.. + -++|||.+=-... .....++ |.+.|.||++|||+.|++.
T Consensus 51 ~~~~v~~~-~---~~~vG~~~~~~~~~~~~~~~~~~~-~~v~p~~rg~Gig~~ll~~ 102 (162)
T PRK10140 51 IKQLVACI-D---GDVVGHLTIDVQQRPRRSHVADFG-ICVDSRWKNRGVASALMRE 102 (162)
T ss_pred cEEEEEEE-C---CEEEEEEEEecccccccceEEEEE-EEECHHHcCCCHHHHHHHH
Confidence 44555543 2 2799996632111 0112345 7889999999999987754
No 55
>PRK13688 hypothetical protein; Provisional
Probab=89.68 E-value=0.3 Score=47.94 Aligned_cols=24 Identities=42% Similarity=0.913 Sum_probs=21.1
Q ss_pred ceeEEEEecCcccccccCccchhh
Q psy6980 411 YNVSCIMTLPQYQRKGYGRFLIDF 434 (760)
Q Consensus 411 nNLSCIltLP~yQrkGyG~~LIdf 434 (760)
.-|..|.|+|.|||+|+|+.|+++
T Consensus 80 ~~L~~l~V~p~~rgkGiG~~Ll~~ 103 (156)
T PRK13688 80 LELWKLEVLPKYQNRGYGEMLVDF 103 (156)
T ss_pred EEEEEEEECHHHcCCCHHHHHHHH
Confidence 358899999999999999999863
No 56
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=89.45 E-value=0.29 Score=32.25 Aligned_cols=22 Identities=36% Similarity=0.620 Sum_probs=18.7
Q ss_pred eeecccccccCCHHHHHHHHhh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRDK 328 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~k 328 (760)
|.|++|.+-|.+...|++|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 7999999999999999999964
No 57
>PTZ00330 acetyltransferase; Provisional
Probab=89.30 E-value=0.48 Score=43.44 Aligned_cols=45 Identities=24% Similarity=0.268 Sum_probs=29.2
Q ss_pred eEEeeecccccCC---CCcee---EEEEecCcccccccCccchhhhhhhhc
Q psy6980 396 HLVGYFSKEKHCQ---QKYNV---SCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 396 h~VGYFSKEK~s~---~~nNL---SCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
.+|||.+=-.... .+.+. .=+.|.|.|||+|+|+.|+.+.-..++
T Consensus 62 ~~vG~~~~~~~~~~~~~~~~~~~i~~~~V~~~~rg~Gig~~l~~~~~~~a~ 112 (147)
T PTZ00330 62 RIVGTASLFVEPKFTRGGKCVGHIEDVVVDPSYRGQGLGRALISDLCEIAR 112 (147)
T ss_pred EEEEEEEEEeccccccCCCceEEEEEEEECHHHcCCCHHHHHHHHHHHHHH
Confidence 7899976211111 11122 227899999999999999887655554
No 58
>PRK10562 putative acetyltransferase; Provisional
Probab=89.20 E-value=0.37 Score=44.88 Aligned_cols=45 Identities=22% Similarity=0.427 Sum_probs=32.3
Q ss_pred eEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhh
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFS 435 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfS 435 (760)
.+||+...+ .+|||.+=-. ...+.-+.|.|.||++|||+.|+++.
T Consensus 49 ~~~v~~~~~----~~iG~~~~~~----~~~i~~~~v~~~~rg~G~g~~ll~~~ 93 (145)
T PRK10562 49 QTWVWEEDG----KLLGFVSVLE----GRFVGALFVAPKAVRRGIGKALMQHV 93 (145)
T ss_pred cEEEEEECC----EEEEEEEEee----ccEEEEEEECHHHcCCCHHHHHHHHH
Confidence 467776532 6889976311 13466688999999999999888755
No 59
>PRK05279 N-acetylglutamate synthase; Validated
Probab=89.15 E-value=0.32 Score=54.51 Aligned_cols=57 Identities=18% Similarity=0.333 Sum_probs=39.8
Q ss_pred eEEEEEEeCCCCceEEeeecccccCC-CCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQ-QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~-~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.|||+.+.+ .+|||.+=..... ...-+.+|.|.|.||++|+|+.|++..-...+..|
T Consensus 335 ~~~va~~dg----~iVG~~~~~~~~~~~~~~I~~l~V~p~~Rg~GiG~~Ll~~l~~~a~~~g 392 (441)
T PRK05279 335 KFTVIERDG----LIIGCAALYPFPEEKMGEMACLAVHPDYRGSGRGERLLKRIEQRARQLG 392 (441)
T ss_pred cEEEEEECC----EEEEEEEEEEcCCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHcC
Confidence 356654432 6899875433221 23458999999999999999999988777666543
No 60
>PF13420 Acetyltransf_4: Acetyltransferase (GNAT) domain; PDB: 3DR8_A 3DR6_A 2AE6_B 2JLM_C 2J8R_A 1YVO_B 2J8M_A 2J8N_A 2BL1_A 3IWG_A ....
Probab=89.06 E-value=0.47 Score=43.99 Aligned_cols=57 Identities=28% Similarity=0.380 Sum_probs=35.1
Q ss_pred cCCceEEEEEEeCCCCceEEeeecccccCCCCceeEE-EEecCcccccccCccchhhhhhhh
Q psy6980 379 VEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSC-IMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 379 VepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSC-IltLP~yQrkGyG~~LIdfSY~LS 439 (760)
...++|+|.. .+ -.+|||++=-.....+.+.-+ +++.|.||++|+|+.|+++.-..+
T Consensus 48 ~~~~~~~v~~-~~---g~iiG~~~~~~~~~~~~~~~~~~~v~~~~~~~gig~~l~~~l~~~a 105 (155)
T PF13420_consen 48 SKQRLFLVAE-ED---GKIIGYVSLRDIDPYNHTAELSIYVSPDYRGKGIGRKLLDELIEYA 105 (155)
T ss_dssp HTTEEEEEEE-CT---TEEEEEEEEEESSSGTTEEEEEEEEEGGGTTSSHHHHHHHHHHHHH
T ss_pred CCCcEEEEEE-cC---CcEEEEEEEEeeeccCCEEEEeeEEChhHCCCcHHHHHHHHHHHHh
Confidence 3455555553 22 269999876543332222222 336699999999999988765555
No 61
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=88.89 E-value=0.66 Score=47.64 Aligned_cols=71 Identities=24% Similarity=0.375 Sum_probs=32.5
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHH---HHcCceeeecCCCCCcEEEeeHHHHHHHHHHHHhCCCccee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETL---ELLGMLRTKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKI 542 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL---~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~i 542 (760)
..++|+..+. .+.|.|||...||+..|||.-+ ...|.|.-.- +..|.+|.|+.+-++....-++.+ +++.|
T Consensus 103 ~Fi~yIK~~K---vv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~-DdrGkfIyIs~eE~~~va~fi~~r-GRvsi 176 (188)
T PF09756_consen 103 EFINYIKEHK---VVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVI-DDRGKFIYISEEEMEAVAKFIKQR-GRVSI 176 (188)
T ss_dssp HHHHHHHH-S---EE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE--TT--EEE----------------------
T ss_pred HHHHHHHHcc---eeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeE-cCCCCeEEecHHHHHHHHHHHHHc-CCccH
Confidence 4567777766 8999999999999999997655 5557776552 457789999997777665544433 44443
No 62
>PF08445 FR47: FR47-like protein; InterPro: IPR013653 Proteins in this entry have a conserved region similar to the C-terminal region of the Drosophila melanogaster (Fruit fly) hypothetical protein FR47 (Q9VR51 from SWISSPROT). This protein has been found to consist of two N-acyltransferase-like domains swapped with the C-terminal strands. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups; PDB: 1SQH_A 3EC4_B.
Probab=88.78 E-value=0.28 Score=43.36 Aligned_cols=23 Identities=30% Similarity=0.611 Sum_probs=19.5
Q ss_pred CceeEEEEecCcccccccCccch
Q psy6980 410 KYNVSCIMTLPQYQRKGYGRFLI 432 (760)
Q Consensus 410 ~nNLSCIltLP~yQrkGyG~~LI 432 (760)
.--|..+.|+|.|||+|||+.|+
T Consensus 21 ~g~i~~v~t~p~~RrrGlg~~lv 43 (86)
T PF08445_consen 21 DGEIGGVYTLPEHRRRGLGSALV 43 (86)
T ss_dssp TCCEEEEEE-GGGTTSSHHHHHH
T ss_pred CcEEEEEEECHHHcCCCHHHHHH
Confidence 36799999999999999998766
No 63
>PRK07922 N-acetylglutamate synthase; Validated
Probab=88.57 E-value=0.41 Score=46.82 Aligned_cols=47 Identities=11% Similarity=0.172 Sum_probs=33.4
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhccc
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKE 442 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~E 442 (760)
.++||-+-........-+..+.|.|.||++|+|+.|++..-..++-.
T Consensus 56 ~iiG~~~~~~~~~~~~~i~~l~V~p~~rgkGiG~~Ll~~~~~~a~~~ 102 (169)
T PRK07922 56 EVVGCGALHVMWEDLAEIRTVAVDPAARGRGVGHAIVERLLDVAREL 102 (169)
T ss_pred cEEEEEEEeecCCCceEEEEEEECHHHhCCCHHHHHHHHHHHHHHHc
Confidence 68998553322222335677899999999999999998876666543
No 64
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=88.57 E-value=0.86 Score=36.65 Aligned_cols=42 Identities=19% Similarity=0.236 Sum_probs=33.8
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~ 510 (760)
.|+++|.... ..+|+.|||+.+||... -++.+|...|+|...
T Consensus 7 ~iL~~l~~~~--~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 7 RILEALAESG--GPLTLSEIARALGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHCHHCTB--SCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHcCC--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCeecC
Confidence 5777887765 46899999999999864 668999999999764
No 65
>TIGR03448 mycothiol_MshD mycothiol biosynthesis acetyltransferase. Members of this family are MshD, the acetyltransferase that catalyzes the final step of mycothiol biosynthesis in various members of the Actinomyctes, Mycothiol replaces glutathione in these species.
Probab=88.20 E-value=0.55 Score=48.67 Aligned_cols=53 Identities=21% Similarity=0.220 Sum_probs=35.2
Q ss_pred CceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhh
Q psy6980 381 PFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYL 437 (760)
Q Consensus 381 pFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~ 437 (760)
+..++|..+ + -++|||-.--.......-+.-|.|.|.|||+|+|+.|++..-.
T Consensus 45 ~~~~~~~~~-~---~~~vG~~~~~~~~~~~~~~~~l~V~p~~rg~GiG~~Ll~~~~~ 97 (292)
T TIGR03448 45 HTRHLVAVD-S---DPIVGYANLVPARGTDPAMAELVVHPAHRRRGIGRALIRALLA 97 (292)
T ss_pred CceEEEEEE-C---CEEEEEEEEEcCCCCcceEEEEEECHhhcCCCHHHHHHHHHHH
Confidence 344555543 2 2799997632221122346778999999999999999998743
No 66
>PRK10314 putative acyltransferase; Provisional
Probab=88.13 E-value=0.53 Score=45.51 Aligned_cols=44 Identities=14% Similarity=0.129 Sum_probs=32.0
Q ss_pred eEEeeecccccCC--CCceeEEEEecCcccccccCccchhhhhhhh
Q psy6980 396 HLVGYFSKEKHCQ--QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 396 h~VGYFSKEK~s~--~~nNLSCIltLP~yQrkGyG~~LIdfSY~LS 439 (760)
.+|||.+--.... ...-|.-+.|+|.|||+|+|+.||...-...
T Consensus 58 ~~vg~~r~~~~~~~~~~~~i~rv~V~~~~rG~GiG~~Lm~~~~~~~ 103 (153)
T PRK10314 58 ELVAYARILKSDDDLEPVVIGRVIVSEALRGEKVGQQLMSKTLESC 103 (153)
T ss_pred EEEEEEEEecCCCCCCCEEEEEEEECHHHhCCCHHHHHHHHHHHHH
Confidence 6899987533221 1245889999999999999999998554433
No 67
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=86.95 E-value=2.4 Score=35.14 Aligned_cols=42 Identities=17% Similarity=0.381 Sum_probs=36.9
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
..|+++|.... .+|+++||+.+|++..-| +..|+..|+|...
T Consensus 3 ~~Il~~l~~~~---~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 3 QQILELLKEKG---KVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHHHHHcC---CEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 46899998765 899999999999999988 6788889999887
No 68
>TIGR01890 N-Ac-Glu-synth amino-acid N-acetyltransferase. This model represents a clade of amino-acid N-acetyltransferases acting mainly on glutamate in the first step of the "acetylated" ornithine biosynthesis pathway. For this reason it is also called N-acetylglutamate synthase. The enzyme may also act on aspartate.
Probab=86.80 E-value=0.55 Score=52.65 Aligned_cols=57 Identities=18% Similarity=0.352 Sum_probs=39.7
Q ss_pred eEEEEEEeCCCCceEEeeecccccCC-CCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQ-QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~-~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.|||+...+ .+|||.+-..... ...-+.+|.|.|.||++|+|+.|+++.-..++-.|
T Consensus 323 ~~~V~~~dg----~iVG~~~~~~~~~~~~~~I~~l~V~p~~Rg~GiG~~Ll~~l~~~A~~~G 380 (429)
T TIGR01890 323 EFSIIEHDG----NIIGCAALYPYAEEDCGEMACLAVSPEYQDGGRGERLLAHIEDRARQMG 380 (429)
T ss_pred cEEEEEECC----EEEEEEEEEecCCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHcC
Confidence 356654322 7899976544321 12458899999999999999999987766665443
No 69
>TIGR00124 cit_ly_ligase [citrate (pro-3S)-lyase] ligase. ATP is cleaved to AMP and pyrophosphate during the reaction. The carboxyl end is homologous to a number of cytidyltransferases that also release pyrophosphate.
Probab=86.66 E-value=0.6 Score=51.38 Aligned_cols=63 Identities=16% Similarity=0.234 Sum_probs=43.4
Q ss_pred cccccccccccCCceEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhc
Q psy6980 369 FLDHKTLYYDVEPFLFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 369 FLDhKTLyyDVepFlFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
||.+--|-+|-+.-.|+|+.+.+ .+||+=|-. ++-|-||.|.|.||++|+|+.||..-=..++
T Consensus 18 fL~~~~l~~d~~~d~~vv~~~~~----~lVg~g~l~-----g~~ik~vaV~~~~rG~Glg~~L~~~L~~~a~ 80 (332)
T TIGR00124 18 FLHQNELSLDAPLEIFIAVYEDE----EIIGCGGIA-----GNVIKCVAIDESLRGEGLALQLMTELENLAY 80 (332)
T ss_pred HHHhcCCcccCCCCEEEEEEECC----EEEEEEEEe-----cCEEEEEEEcHHHcCCCHHHHHHHHHHHHHH
Confidence 44444445565556677766443 799986642 3569999999999999999988765444333
No 70
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=86.57 E-value=2.1 Score=37.49 Aligned_cols=54 Identities=15% Similarity=0.286 Sum_probs=40.4
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEE
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCI 519 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i 519 (760)
-.++-+|..+.++..+|+++||+.+++++. .|+..|...|+|....+..||+.+
T Consensus 11 l~~l~~la~~~~~~~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L 67 (83)
T PF02082_consen 11 LRILLYLARHPDGKPVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRL 67 (83)
T ss_dssp HHHHHHHHCTTTSC-BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEE
T ss_pred HHHHHHHHhCCCCCCCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceee
Confidence 356777777765556999999999999986 568888889999988765555544
No 71
>COG0456 RimI Acetyltransferases [General function prediction only]
Probab=86.11 E-value=0.8 Score=43.20 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=34.3
Q ss_pred eEEeeecccccCC-----CCceeEEEEecCcccccccCccchhhhhhhhcc
Q psy6980 396 HLVGYFSKEKHCQ-----QKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKK 441 (760)
Q Consensus 396 h~VGYFSKEK~s~-----~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~ 441 (760)
.++||.--...-. ...-+..|-|.|.|||+|+|+.|++......+.
T Consensus 72 ~~~G~~~~~~~~~~~~~~~~~~i~~iaV~p~~r~~Gig~~Ll~~~~~~~~~ 122 (177)
T COG0456 72 KVVGFLLVRVVDGRPSADHEGHIYNLAVDPEYRGRGIGRALLDEALERLRE 122 (177)
T ss_pred ceeEEEEEEEecCCccccCccEEEEEEEChHhhcCCHHHHHHHHHHHHHHh
Confidence 5888887642211 145699999999999999999999876655543
No 72
>COG0454 WecD Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]
Probab=85.66 E-value=0.31 Score=38.19 Aligned_cols=28 Identities=32% Similarity=0.669 Sum_probs=23.4
Q ss_pred EEecCcccccccCccchhhhhhhhcccC
Q psy6980 416 IMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 416 IltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
+.|.|.||++|+|+.|++......+..|
T Consensus 87 l~v~~~~rg~Gig~~Ll~~~~~~~~~~g 114 (156)
T COG0454 87 LYVLPEYRGKGIGSALLEAALEWARKRG 114 (156)
T ss_pred EEecchhhccchHHHHHHHHHHHHHHcC
Confidence 9999999999999999996666666533
No 73
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=85.43 E-value=2.3 Score=40.57 Aligned_cols=61 Identities=8% Similarity=0.099 Sum_probs=45.9
Q ss_pred hHHHHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 464 WKSVLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 464 W~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
+.-.++-+|..+.++..+|+++||+.++|.+. .|+..|...|+|....+..||+.+.-+.+
T Consensus 9 YAl~~l~~La~~~~~~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~~ 72 (135)
T TIGR02010 9 YAVTAMLDLALNAETGPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPAE 72 (135)
T ss_pred HHHHHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCCHH
Confidence 34456777776665568999999999999975 67788888899998766666666555554
No 74
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=85.06 E-value=2.1 Score=39.87 Aligned_cols=61 Identities=11% Similarity=0.158 Sum_probs=44.9
Q ss_pred hHHHHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 464 WKSVLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 464 W~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
+.-.++-+|..+.+...+|+.+||+.++|.+. +|+.+|...|+|....+..+++.+.-+.+
T Consensus 9 ~al~~l~~la~~~~~~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~l~~~~~ 72 (132)
T TIGR00738 9 YALRALLDLALNPDEGPVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYRLARPPE 72 (132)
T ss_pred HHHHHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCccCCCCHH
Confidence 34456677776554558999999999999874 67889999999988655555655554554
No 75
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=84.11 E-value=3.1 Score=37.45 Aligned_cols=46 Identities=17% Similarity=0.238 Sum_probs=33.5
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEE
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCI 519 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i 519 (760)
|++.|.. +.+||+.+||.+||.+.++|..+|..+-.+.|. ..+.+|
T Consensus 29 LLr~LA~---G~PVt~~~LA~a~g~~~e~v~~~L~~~p~tEyD---~~GrIV 74 (77)
T PF12324_consen 29 LLRLLAK---GQPVTVEQLAAALGWPVEEVRAALAAMPDTEYD---DQGRIV 74 (77)
T ss_dssp HHHHHTT---TS-B-HHHHHHHHT--HHHHHHHHHH-TTSEEE---TTSEEE
T ss_pred HHHHHHc---CCCcCHHHHHHHHCCCHHHHHHHHHhCCCceEc---CCCCee
Confidence 5666654 679999999999999999999999999999998 345543
No 76
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=83.64 E-value=5.1 Score=31.22 Aligned_cols=59 Identities=14% Similarity=0.235 Sum_probs=40.3
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCCh---hHHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHH
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYH---HDVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHMK 531 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~---~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~ 531 (760)
|+++|. . ..+++.+|++.+|++. .+++..|.+.|++..... .....+.++.+.+.+.+.
T Consensus 2 il~~l~-~---~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~-~~~~~~~~~~~~~~~~~~ 63 (66)
T smart00418 2 ILKLLA-E---GELCVCELAEILGLSQSTVSHHLKKLREAGLVESRRE-GKRVYYSLTDEKVADLLE 63 (66)
T ss_pred HHHHhh-c---CCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeec-CCEEEEEEchHHHHHHHH
Confidence 566665 2 4789999999999965 456888888999987632 233445666655554443
No 77
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=83.42 E-value=4.2 Score=32.85 Aligned_cols=44 Identities=16% Similarity=0.234 Sum_probs=35.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.||.+|..+. +..+++.+|++.+++++.-| +..|+..|+|....
T Consensus 9 ~vL~~l~~~~-~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 9 RVLMALARHP-GEELTQSELAERLGISKSTVSRIVKRLEKKGLVERER 55 (62)
T ss_dssp HHHHHHHHST-TSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHCC-CCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeC
Confidence 5778888776 44699999999999998765 77888999998774
No 78
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=83.02 E-value=3.2 Score=34.87 Aligned_cols=46 Identities=13% Similarity=0.218 Sum_probs=37.9
Q ss_pred cceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHH
Q psy6980 479 KLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDA 528 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~ 528 (760)
-.+|.++||..+|++..=| +..|+..|+|... ++.+++.|.+.+++
T Consensus 27 ~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~----~~~i~I~d~~~L~~ 75 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRETVSRILKRLKDEGIIEVK----RGKIIILDPERLEE 75 (76)
T ss_dssp EESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEE----TTEEEESSHHHHHH
T ss_pred ecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEc----CCEEEECCHHHHhc
Confidence 3678999999999998765 6677788999987 66888889888765
No 79
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=82.79 E-value=2.2 Score=38.63 Aligned_cols=49 Identities=14% Similarity=0.399 Sum_probs=36.1
Q ss_pred HHhhHHHHHHHHHh-ccCCcceeHHHHHHhhCCChhHHHHHHHHc---Cceee
Q psy6980 461 HAYWKSVLLEYLDT-IRNQKLICIDQMCADTGLYHHDVAETLELL---GMLRT 509 (760)
Q Consensus 461 ~sYW~~~Il~~L~~-~~~~~~isi~dIS~~TgI~~~DIi~tL~~l---~~l~~ 509 (760)
.+-+...|+++|.. ......|+|.+|++.++|...||..+|+.| |.|+.
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEec
Confidence 34578899999998 444678999999999999999997776655 55543
No 80
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=82.38 E-value=0.95 Score=31.55 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=20.7
Q ss_pred EeeecccccccCCHHHHHHHHh
Q psy6980 306 LFLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 306 LyiCE~ClkY~~s~~~l~rH~~ 327 (760)
+|.|+.|.+-|.+...|.+|++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHC
T ss_pred CCCCCccCCccCChhHHHHHhH
Confidence 5899999999999999999994
No 81
>TIGR03103 trio_acet_GNAT GNAT-family acetyltransferase TIGR03103. Members of this protein family belong to the GNAT family of acetyltransferases. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, including alpha, beta, and gamma Proteobacteria, Mycobacterium, and Prosthecochloris, which is a member of the Chlorobi. The other two members of the cassette are a probable protease and an asparagine synthetase family protein.
Probab=81.40 E-value=1.4 Score=51.43 Aligned_cols=61 Identities=15% Similarity=0.227 Sum_probs=39.9
Q ss_pred CceEEEEEEeCCCCceEEeeecccc----cC--CCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 381 PFLFYVLTQNDDKGCHLVGYFSKEK----HC--QQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 381 pFlFYVLte~D~~G~h~VGYFSKEK----~s--~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.+.|+|... + .+-.+|||.+--. .. ....-+-||.|.|.||++|+|+.|++..-+..+..|
T Consensus 122 ~~~~~vA~~-~-~~g~IVG~~~~~~~~~~~~d~~~~~~i~~l~V~P~~Rg~GIG~~Ll~~l~e~a~~~G 188 (547)
T TIGR03103 122 AITYLVAED-E-ASGAIIGTVMGVDHRKAFNDPEHGSSLWCLAVDPQAAHPGVGEALVRALAEHFQSRG 188 (547)
T ss_pred CceEEEEEE-C-CCCeEEEEEEEEeccccccCCCCCeEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 345555432 2 2347999986211 01 011236789999999999999999999877766543
No 82
>TIGR03448 mycothiol_MshD mycothiol biosynthesis acetyltransferase. Members of this family are MshD, the acetyltransferase that catalyzes the final step of mycothiol biosynthesis in various members of the Actinomyctes, Mycothiol replaces glutathione in these species.
Probab=81.39 E-value=1.5 Score=45.40 Aligned_cols=44 Identities=20% Similarity=0.181 Sum_probs=28.6
Q ss_pred eEEeeecccccC--CCCceeEEEEecCcccccccCccchhhhhhhh
Q psy6980 396 HLVGYFSKEKHC--QQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 396 h~VGYFSKEK~s--~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LS 439 (760)
.+|||..-.... .....+..|.|.|.|||+|+|+.|+...-...
T Consensus 210 ~~vG~~~~~~~~~~~~~~~i~~~~V~p~~rg~GiG~~ll~~~~~~~ 255 (292)
T TIGR03448 210 ELLGFHWTKVHPDEPALGEVYVVGVDPAAQGRGLGDALTLIGLHHL 255 (292)
T ss_pred cEEEEEEEEecCCCCceeEEEEEEECHHHcCCCHHHHHHHHHHHHH
Confidence 699996322211 11234556779999999999999887543333
No 83
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=81.36 E-value=3.1 Score=40.89 Aligned_cols=58 Identities=12% Similarity=0.188 Sum_probs=46.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
.++-+|..+.++..+|+++||+..||++. -|+..|...|+|+...|.+||+.+.-+.+
T Consensus 12 ~~L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~ 72 (150)
T COG1959 12 RALLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLARPPE 72 (150)
T ss_pred HHHHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCCCChH
Confidence 35666776665558999999999999985 78999999999999988778877665554
No 84
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=81.35 E-value=1.3 Score=36.10 Aligned_cols=31 Identities=16% Similarity=0.419 Sum_probs=24.7
Q ss_pred cceeHHHHHHhhCCChhHHHHHH-HHcCceee
Q psy6980 479 KLICIDQMCADTGLYHHDVAETL-ELLGMLRT 509 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DIi~tL-~~l~~l~~ 509 (760)
..++|.+||+..|+.+.||+..| +.+|+...
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l~~~~Gi~~~ 33 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKLFKELGIMVK 33 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH-HHHTS---
T ss_pred CceEHHHHHHHHCcCHHHHHHHHHHhCCcCcC
Confidence 36899999999999999999999 66999833
No 85
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=80.94 E-value=4.1 Score=40.70 Aligned_cols=58 Identities=7% Similarity=0.070 Sum_probs=44.6
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCCh---hHHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYH---HDVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~---~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
.++-+|..+.++..+|+++||+.++|.. ..|+..|...|+|....+..||+.+.-+.+
T Consensus 12 ~~l~~lA~~~~~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~p~ 72 (164)
T PRK10857 12 TAMLDVALNSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDAS 72 (164)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCCHH
Confidence 4455555455456899999999999986 588999999999998767777766655543
No 86
>KOG1473|consensus
Probab=80.11 E-value=1 Score=56.21 Aligned_cols=40 Identities=23% Similarity=0.427 Sum_probs=36.1
Q ss_pred CcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCC
Q psy6980 137 YEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESG 176 (760)
Q Consensus 137 ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~ 176 (760)
...++++|..|.+-||+.|..||+-.+|...|-|--|...
T Consensus 352 d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~h 391 (1414)
T KOG1473|consen 352 DLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIH 391 (1414)
T ss_pred cccceeecccCCceEEeeecCCccccCCCccchhhhhhhh
Confidence 4457899999999999999999999999999999998743
No 87
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=80.02 E-value=3.5 Score=32.36 Aligned_cols=39 Identities=23% Similarity=0.360 Sum_probs=28.2
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHH---HHHcCce
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAET---LELLGML 507 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~t---L~~l~~l 507 (760)
..|+.+|.+.. .+|..+||+.+||+..=|-.. |...|+|
T Consensus 6 ~~Il~~l~~~~---~~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 6 RKILNYLRENP---RITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHCT---TS-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHcC---CCCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 46888998855 699999999999998776554 4555555
No 88
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=79.78 E-value=5.1 Score=31.67 Aligned_cols=40 Identities=18% Similarity=0.355 Sum_probs=31.1
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRT 509 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~ 509 (760)
-.|+.+|.+ ++.++.+|++.+|++..-| +..|+.+|+|.+
T Consensus 5 ~~Il~~L~~----~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~~ 47 (47)
T PF01022_consen 5 LRILKLLSE----GPLTVSELAEELGLSQSTVSHHLKKLREAGLVEK 47 (47)
T ss_dssp HHHHHHHTT----SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHh----CCCchhhHHHhccccchHHHHHHHHHHHCcCeeC
Confidence 457777765 3799999999999999988 567778888753
No 89
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=79.68 E-value=4.8 Score=34.15 Aligned_cols=42 Identities=17% Similarity=0.116 Sum_probs=33.1
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
..|.++|.++. ..|+.+|++.|++++..| +..|-+.|++.|+
T Consensus 16 ~~V~~~Ll~~G---~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~y~ 60 (62)
T PF08221_consen 16 AKVGEVLLSRG---RLTLREIVRRTGLSPKQVKKALVVLIQHNLVQYF 60 (62)
T ss_dssp HHHHHHHHHC----SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHcC---CcCHHHHHHHhCCCHHHHHHHHHHHHHcCCeeee
Confidence 56788887765 799999999999999988 5667888999887
No 90
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=79.58 E-value=2.8 Score=38.56 Aligned_cols=43 Identities=21% Similarity=0.197 Sum_probs=36.2
Q ss_pred HhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcC
Q psy6980 462 AYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLG 505 (760)
Q Consensus 462 sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~ 505 (760)
|==+..|+.||.+.. ....++.+||+.||+++..|.-+|.-+|
T Consensus 8 S~~R~~vl~~L~~~y-p~~~~~~eIar~v~~~~snV~GaL~G~g 50 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIY-PEPAYPSEIARSVGSDYSNVLGALRGDG 50 (90)
T ss_pred HHHHHHHHHHHHHcC-CCcCCHHHHHHHHCCCHHHHHHHHhcCC
Confidence 334678999999985 5799999999999999999999887654
No 91
>KOG0956|consensus
Probab=79.56 E-value=0.89 Score=54.23 Aligned_cols=38 Identities=34% Similarity=0.684 Sum_probs=33.0
Q ss_pred cccEEecC--CCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 138 EVCLIKCC--ACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 138 e~cmLfCD--~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
+.-++.|| .|.-+-|..|. .+-.+|.|.|||..|....
T Consensus 19 eNPLVYCDG~nCsVAVHQaCY--GIvqVPtGpWfCrKCesqe 58 (900)
T KOG0956|consen 19 ENPLVYCDGHNCSVAVHQACY--GIVQVPTGPWFCRKCESQE 58 (900)
T ss_pred cCceeeecCCCceeeeehhcc--eeEecCCCchhhhhhhhhh
Confidence 34489999 59999999999 9999999999999996443
No 92
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=79.20 E-value=9.5 Score=30.43 Aligned_cols=56 Identities=14% Similarity=0.208 Sum_probs=41.2
Q ss_pred HhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEee
Q psy6980 462 AYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVIN 522 (760)
Q Consensus 462 sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~ 522 (760)
..|...|+.+|.... ++..+|++.+||+...| +..|...|+|...... ....+.++
T Consensus 6 ~~~~~~il~~l~~~~----~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~-~~~~~~~~ 64 (78)
T cd00090 6 DPTRLRILRLLLEGP----LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREG-RRVYYSLT 64 (78)
T ss_pred ChHHHHHHHHHHHCC----cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEec-cEEEEEeC
Confidence 467778888887632 99999999999998877 5666778999876322 23445565
No 93
>KOG2696|consensus
Probab=78.98 E-value=2.3 Score=47.84 Aligned_cols=150 Identities=19% Similarity=0.314 Sum_probs=84.5
Q ss_pred chhhHHHHHHhhhhcccccccccccCC-ceEEEEEEeC-CC---CceEEeeecccc---cCC-CCceeEEEEecCccccc
Q psy6980 355 NKFYCQNLCLLAKLFLDHKTLYYDVEP-FLFYVLTQND-DK---GCHLVGYFSKEK---HCQ-QKYNVSCIMTLPQYQRK 425 (760)
Q Consensus 355 ~k~YCQnLCLLaKLFLDhKTLyyDVep-FlFYVLte~D-~~---G~h~VGYFSKEK---~s~-~~nNLSCIltLP~yQrk 425 (760)
...+=..|=-|+-||++-=+..+..+| .+.|.+.|.- .. -+|++||.-==| .-. -.-=+|=||+|||||++
T Consensus 153 f~~~~~Rlqt~~llFie~~~~id~tde~w~~~lv~EK~~~d~~~ly~~~gy~tiyk~y~yid~~R~RiSQmlilpPfq~~ 232 (403)
T KOG2696|consen 153 FRLFHERLQTFSLLFIEAASYIDNTDECWLIYLVYEKKEEDGDTLYAYVGYYTIYKFYEYIDRIRPRISQMLILPPFQGK 232 (403)
T ss_pred HHHHHHhHHHHHHHHHhhcchhccCCCceEEEEeeeecccCCceeEeeeeeEEEeehhhhhhhhhhhhheeEEeccccCC
Confidence 456677888899999999888876666 5666666644 22 367888765322 110 11236889999999999
Q ss_pred ccCccchhhhh--hhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhcc---CC---ccee---HHHHHHhhCCCh
Q psy6980 426 GYGRFLIDFSY--LLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIR---NQ---KLIC---IDQMCADTGLYH 494 (760)
Q Consensus 426 GyG~~LIdfSY--~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~---~~---~~is---i~dIS~~TgI~~ 494 (760)
|.|.-|.+-=+ .+.--+-.=+|=|-|= -+|.+-=-.+++.-|.... .. ...| +..+-++|-|+.
T Consensus 233 Glgs~l~E~i~r~~~~~p~v~DiTVEdPs-----e~F~~LRD~vd~~r~~sl~~fS~~~~h~~~s~~~~~~a~e~lKLn~ 307 (403)
T KOG2696|consen 233 GLGSQLYEAIARDYLEEPTVLDITVEDPS-----EAFDSLRDRVDIVRLRSLDVFSPESIHPGFSDEMIEKAREALKLNK 307 (403)
T ss_pred chHHHHHHHHHHhhccCCceeEEEecCch-----HHHHHHHHHHHHHHhcccccCChhhhccchhHHHHHHHHHHhccCH
Confidence 99988777532 2222222234445442 2222222223333333221 00 0111 345556677777
Q ss_pred hHHHHHHHHcCceee
Q psy6980 495 HDVAETLELLGMLRT 509 (760)
Q Consensus 495 ~DIi~tL~~l~~l~~ 509 (760)
..+...++-|.++..
T Consensus 308 ~Q~~r~~EIl~l~~~ 322 (403)
T KOG2696|consen 308 RQFRRVYEILRLLAT 322 (403)
T ss_pred HHHHHHHHHHHHHhc
Confidence 777666665555443
No 94
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=78.57 E-value=3.1 Score=34.90 Aligned_cols=42 Identities=12% Similarity=0.169 Sum_probs=33.8
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhH---HHHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHD---VAETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~D---Ii~tL~~l~~l~~~~ 511 (760)
.|+.+|.... ..|+.+||+.+||...- ++..|...|+|....
T Consensus 12 ~vy~~Ll~~~---~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 12 KVYLALLKNG---PATAEEIAEELGISRSTVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHHHHHHHHC---HEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHcC---CCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 5677777444 89999999999998765 577788889998884
No 95
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=77.66 E-value=9 Score=33.13 Aligned_cols=56 Identities=14% Similarity=0.197 Sum_probs=40.2
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVD 527 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~ 527 (760)
.|+++|.... ..+|+.+|++.+||+..-| +.+|...|+|.... .+..+.+....++
T Consensus 9 ~Il~~l~~~~--~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~~---~~~~y~l~~~~~~ 67 (91)
T smart00346 9 AVLRALAEEP--GGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDG---QNGRYRLGPKVLE 67 (91)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeecC---CCCceeecHHHHH
Confidence 5778887653 3799999999999988766 77888899998752 1223455555443
No 96
>TIGR02406 ectoine_EctA L-2,4-diaminobutyric acid acetyltransferase. This enzyme family is the EctA of ectoine biosynthesis. Ectoine is a compatible solute, analagous to trehalose, betaines, etc., found often in halotolerant organisms. EctA is L-2,4-diaminobutyric acid acetyltransferase, also called DABA acetyltransferase.
Probab=77.60 E-value=2.7 Score=40.48 Aligned_cols=44 Identities=20% Similarity=0.221 Sum_probs=27.7
Q ss_pred eEEeeecccccCCCCce---eEEEEecCcccccccCccchhhhhhhhc
Q psy6980 396 HLVGYFSKEKHCQQKYN---VSCIMTLPQYQRKGYGRFLIDFSYLLSK 440 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nN---LSCIltLP~yQrkGyG~~LIdfSY~LSr 440 (760)
.+|||.+=-. .....+ +.=|.|.|.||++|||+.|+..-...++
T Consensus 50 ~ivG~~~~~~-~~~~~~~~~i~~l~V~p~~rg~GiG~~L~~~l~~~a~ 96 (157)
T TIGR02406 50 EIVGFVSGYL-RPDRPDVLFVWQVAVDPRARGKGLARRLLEALLERVA 96 (157)
T ss_pred eEEEEEEEEe-cCCCCCeEEEEEEEEChHhccCcHHHHHHHHHHHHHH
Confidence 5899864211 111222 2335589999999999998876654443
No 97
>KOG4443|consensus
Probab=77.46 E-value=0.57 Score=55.49 Aligned_cols=60 Identities=18% Similarity=0.309 Sum_probs=45.0
Q ss_pred CcCCCCCCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCC-CCCCcccCCCCCCCCC
Q psy6980 119 LPLAVPEQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERR-LKVPWKCTSCESGTTE 179 (760)
Q Consensus 119 ~C~eck~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~i-P~G~W~C~~C~~~~~~ 179 (760)
.|+.|-.|..|.... ..-..-|+.|..|..-||.||++--+... -.+-|.|+.|+.+.+.
T Consensus 14 ~~~~~~mc~l~~s~G-~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c 74 (694)
T KOG4443|consen 14 AIIVCLMCPLCGSSG-KGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEAC 74 (694)
T ss_pred hhhhhhhhhhhcccc-ccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeec
Confidence 466777788888775 22344589999999999999997555433 2334999999999866
No 98
>PF13302 Acetyltransf_3: Acetyltransferase (GNAT) domain; PDB: 3TTH_C 3JUW_A 2ZXV_A 2Z0Z_A 2VI7_B 3EG7_F 1YRE_C 3IGR_B 3FBU_A 2FCK_A ....
Probab=77.39 E-value=2.5 Score=38.18 Aligned_cols=49 Identities=18% Similarity=0.484 Sum_probs=33.1
Q ss_pred ceEEEEEEeCCCCceEEeeeccccc--CCCCceeEEEEecCcccccccCccchh
Q psy6980 382 FLFYVLTQNDDKGCHLVGYFSKEKH--CQQKYNVSCIMTLPQYQRKGYGRFLID 433 (760)
Q Consensus 382 FlFYVLte~D~~G~h~VGYFSKEK~--s~~~nNLSCIltLP~yQrkGyG~~LId 433 (760)
+.+|++...++ -.+||+.+=... .....+++ +.+.|.||++|||.-++.
T Consensus 56 ~~~~~i~~~~~--~~~iG~i~~~~~~~~~~~~eig-~~i~~~~~g~G~~~~~~~ 106 (142)
T PF13302_consen 56 YYYFAIEDKDD--GEIIGFIGLYNIDKNNNWAEIG-YWIGPDYRGKGYGTEALK 106 (142)
T ss_dssp EEEEEEEETTT--TEEEEEEEEEEEETTTTEEEEE-EEEEGGGTTSSHHHHHHH
T ss_pred ceEEEEEeccC--CceEEEeeeeecccCCCccccc-cchhHHHHhhhHHHHHHH
Confidence 55666665543 347777665221 34567888 889999999999975543
No 99
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=77.29 E-value=6.4 Score=32.51 Aligned_cols=44 Identities=16% Similarity=0.351 Sum_probs=34.5
Q ss_pred hHHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 464 WKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 464 W~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.+..|+.+|.. ....|+.+|++.+||++.-+ +..|+..|+|...
T Consensus 11 ~R~~Il~~L~~---~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 11 TRLRILRLLAS---NGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHHHHHHHHH---CSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHhc---CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 35678888843 34899999999999999998 5677788998765
No 100
>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle. Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.
Probab=77.27 E-value=5.4 Score=34.64 Aligned_cols=44 Identities=16% Similarity=0.393 Sum_probs=37.2
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhh---CC-----ChhHHHHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADT---GL-----YHHDVAETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~T---gI-----~~~DIi~tL~~l~~l~~~ 510 (760)
..++.++.... ...+++.++|+.. ++ ...||+..|+.+|+|...
T Consensus 11 ~~fi~~~~~~~-~~~i~l~~ia~~l~~~~~k~~~RRlYDI~NVLealgli~K~ 62 (71)
T PF02319_consen 11 QRFIQLFESSP-DKSISLNEIADKLISENVKTQRRRLYDIINVLEALGLIEKQ 62 (71)
T ss_dssp HHHHHHHHHCC-CTEEEHHHHHHHCHHHCCHHHCHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHHHHHHCC-CCcccHHHHHHHHcccccccccchhhHHHHHHHHhCceeec
Confidence 45666666665 4899999999999 98 678999999999999985
No 101
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=76.21 E-value=0.95 Score=32.05 Aligned_cols=21 Identities=38% Similarity=0.768 Sum_probs=19.7
Q ss_pred eeecccccccCCHHHHHHHHh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~ 327 (760)
|.|+.|-++|.+...|..|+.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 789999999999999999985
No 102
>cd02169 Citrate_lyase_ligase Citrate lyase ligase. Citrate lyase ligase, also known as [Citrate (pro-3S)-lyase] ligase, is responsible for acetylation of the (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) prosthetic group of the gamma subunit of citrate lyase, converting the inactive thiol form of this enzyme to the active form. The acetylation of 1 molecule of deacetyl-citrate lyase to enzymatically active citrate lyase requires 6 molecules of ATP. The Adenylylyltranferase activity of the enzyme involves the formation of AMP and and pyrophosphate in the acetylation reaction.
Probab=75.69 E-value=2.3 Score=46.26 Aligned_cols=43 Identities=21% Similarity=0.288 Sum_probs=33.4
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.+||+-+-.. +-+.++.|.|.||++|+|+.|++.-=...+.+|
T Consensus 16 ~iVG~~~l~~-----~~I~~vaV~p~~Rg~GiG~~Ll~~l~~~a~~~g 58 (297)
T cd02169 16 ELIATGSIAG-----NVLKCVAVCPKYQGEGLALKIVSELINKAYEEG 58 (297)
T ss_pred EEEEEEEecc-----CEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 7899876532 348999999999999999999887655555443
No 103
>PRK09491 rimI ribosomal-protein-alanine N-acetyltransferase; Provisional
Probab=75.08 E-value=3.4 Score=38.27 Aligned_cols=43 Identities=21% Similarity=0.293 Sum_probs=26.4
Q ss_pred eEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhh
Q psy6980 396 HLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLS 439 (760)
Q Consensus 396 h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LS 439 (760)
.+|||-.=.... ....+.=|.|.|.||++|||+.|+..-....
T Consensus 50 ~~vG~~~~~~~~-~~~~~~~i~v~~~~rg~G~g~~ll~~~~~~~ 92 (146)
T PRK09491 50 QMAAFAITQVVL-DEATLFNIAVDPDYQRQGLGRALLEHLIDEL 92 (146)
T ss_pred eEEEEEEEEeec-CceEEEEEEECHHHccCCHHHHHHHHHHHHH
Confidence 677773321111 1122333668999999999998887655443
No 104
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=74.77 E-value=6.9 Score=33.66 Aligned_cols=45 Identities=20% Similarity=0.265 Sum_probs=32.8
Q ss_pred HHHHHHHhcc--CCcceeHHHHHHhhCCC----hhHHHHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIR--NQKLICIDQMCADTGLY----HHDVAETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~--~~~~isi~dIS~~TgI~----~~DIi~tL~~l~~l~~~~ 511 (760)
.||++|.++- .+-.-|+.||++.+|+. ..+-+.+|+..|+|....
T Consensus 10 ~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~~ 60 (65)
T PF01726_consen 10 EVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRRDP 60 (65)
T ss_dssp HHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEGC
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccCCC
Confidence 4666665532 24678999999999998 667799999999999873
No 105
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=74.60 E-value=7.8 Score=33.40 Aligned_cols=47 Identities=21% Similarity=0.237 Sum_probs=36.5
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCC
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGD 513 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~ 513 (760)
++.|++||.... .+++-.|||+++||+..-+ +..|+.-|.|+..+..
T Consensus 2 ke~Il~~i~~~~--~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~~~~~~ 51 (62)
T PF04703_consen 2 KEKILEYIKEQN--GPLKTREIADALGLSIYQARYYLEKLEKEGKVERSPVR 51 (62)
T ss_dssp HHCHHHHHHHHT--S-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEEEES-S
T ss_pred cHHHHHHHHHcC--CCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecCC
Confidence 467999999854 4799999999999999877 6778888999876433
No 106
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=74.27 E-value=8.8 Score=31.47 Aligned_cols=43 Identities=14% Similarity=0.258 Sum_probs=30.5
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~ 511 (760)
.||.+|. + ....+++.+|++.++|+.. .+|..|..+|+|....
T Consensus 7 ~vL~~l~-~-~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~ 52 (68)
T PF13463_consen 7 QVLRALA-H-SDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKER 52 (68)
T ss_dssp HHHHHHT----TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHH-c-cCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecC
Confidence 4677777 2 2468999999999999854 5678888999997664
No 107
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=73.15 E-value=6.2 Score=33.60 Aligned_cols=41 Identities=20% Similarity=0.322 Sum_probs=29.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.|.+||.+.. .+|+.+||...+++++.| +..|..+|.|...
T Consensus 4 ~i~~~l~~~~---~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 4 EIRDYLRERG---RVSLAELAREFGISPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp HHHHHHHHS----SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEE
T ss_pred HHHHHHHHcC---CcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEe
Confidence 5777887765 899999999999999877 5555566777655
No 108
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=72.70 E-value=9.3 Score=39.00 Aligned_cols=47 Identities=13% Similarity=0.099 Sum_probs=36.6
Q ss_pred ceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHHH
Q psy6980 480 LICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDAH 529 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~ 529 (760)
.+|.++||...||+++-| +..|++.|+|.+. .++++.+.|++.+.+.
T Consensus 179 ~lt~~~IA~~lGisretlsR~L~~L~~~GlI~~~---~~~~i~I~D~~~L~~l 228 (230)
T PRK09391 179 PMSRRDIADYLGLTIETVSRALSQLQDRGLIGLS---GARQIELRNRQALRNL 228 (230)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCcEEec---CCceEEEcCHHHHHHh
Confidence 467899999999999987 5567778999876 2367888888877543
No 109
>PHA02768 hypothetical protein; Provisional
Probab=72.11 E-value=2.2 Score=36.13 Aligned_cols=23 Identities=17% Similarity=0.313 Sum_probs=21.6
Q ss_pred EeeecccccccCCHHHHHHHHhh
Q psy6980 306 LFLCEFCLKYTKSKAVLERHRDK 328 (760)
Q Consensus 306 LyiCE~ClkY~~s~~~l~rH~~k 328 (760)
-|.|+.|.+.|.....|.+|+++
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~ 27 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK 27 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh
Confidence 38999999999999999999987
No 110
>PRK13239 alkylmercury lyase; Provisional
Probab=71.65 E-value=9.1 Score=40.08 Aligned_cols=40 Identities=20% Similarity=0.271 Sum_probs=34.7
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
|++.|. .+..+|+.+|+..+|.+.+.|..+|++|..+.+.
T Consensus 27 llr~la---~G~pvt~~~lA~~~~~~~~~v~~~L~~l~~~~~d 66 (206)
T PRK13239 27 LLRLLA---KGRPVSVTTLAAALGWPVEEVEAVLEAMPDTEYD 66 (206)
T ss_pred HHHHHH---cCCCCCHHHHHHHhCCCHHHHHHHHHhCCCeEEC
Confidence 444444 4679999999999999999999999999999876
No 111
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=71.09 E-value=3.6 Score=28.09 Aligned_cols=21 Identities=33% Similarity=0.657 Sum_probs=19.8
Q ss_pred eeecccccccCCHHHHHHHHh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~ 327 (760)
|.|+.|-+.|.+...|+.|+.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 789999999999999999985
No 112
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=71.08 E-value=9.3 Score=30.76 Aligned_cols=42 Identities=19% Similarity=0.262 Sum_probs=33.9
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.||.+|.++. .+++.+||+.++++..-| +.-|+..|+|....
T Consensus 7 ~iL~~l~~~~---~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 7 RILRILYENG---GITQSELAEKLGISRSTVTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHHHHHS---SEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHcC---CCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEecc
Confidence 5778888766 599999999999998765 67788889998774
No 113
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=70.89 E-value=14 Score=36.71 Aligned_cols=42 Identities=17% Similarity=0.150 Sum_probs=33.8
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.|+..|..+. .+|.+|||+.+||+..+| +..|...|++.+.+
T Consensus 18 ~Vl~aL~~~~---~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r 62 (158)
T TIGR00373 18 LVLFSLGIKG---EFTDEEISLELGIKLNEVRKALYALYDAGLADYKR 62 (158)
T ss_pred HHHHHHhccC---CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeee
Confidence 3566666554 799999999999999987 77788899997654
No 114
>KOG0954|consensus
Probab=70.76 E-value=2.6 Score=50.89 Aligned_cols=38 Identities=8% Similarity=-0.010 Sum_probs=28.7
Q ss_pred cccccccccccCCCCCCccccccccccccccC------------CCCCCCCcCCCC
Q psy6980 81 NTQVVSKLLATDLAPGVTRKDIDLYKQAHEEA------------TKATPLLPLAVP 124 (760)
Q Consensus 81 n~~ICefcL~td~~N~~rkgdIEeLlsC~~CG------------~~a~Pw~C~eck 124 (760)
..-+|++|-..|... -.+|+.|..|. +..+||+|.-|.
T Consensus 270 edviCDvCrspD~e~------~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Ca 319 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEE------ANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCA 319 (893)
T ss_pred ccceeceecCCCccc------cceeEEeccchhHHHHhhhceeecCCCCeeehhcc
Confidence 457999998776433 35999999998 355689988774
No 115
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=70.44 E-value=17 Score=36.98 Aligned_cols=42 Identities=17% Similarity=0.093 Sum_probs=35.3
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.|+..|..+. .+|-++||..+||+..+| +..|...|++.+..
T Consensus 26 ~Vl~~L~~~g---~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r 70 (178)
T PRK06266 26 EVLKALIKKG---EVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKR 70 (178)
T ss_pred HHHHHHHHcC---CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEee
Confidence 5777777655 799999999999999987 77788899999764
No 116
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=70.21 E-value=8.5 Score=36.13 Aligned_cols=73 Identities=18% Similarity=0.235 Sum_probs=50.2
Q ss_pred HHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHH--HHHHHHHHHH
Q psy6980 461 HAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWA--IVDAHMKRLE 534 (760)
Q Consensus 461 ~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~--~i~~~~~~~~ 534 (760)
..-+.-.++.+|.... +..+|+.+||+..||++. .++..|...|+|....+..+++.+.-+.+ .+.+.++.+.
T Consensus 7 ~~~yal~~l~~la~~~-~~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~ggy~l~~~~~~it~~~v~~~l~ 84 (130)
T TIGR02944 7 LTDYATLVLTTLAQND-SQPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGGYTLARAPRDITVADIVKAVE 84 (130)
T ss_pred HHhHHHHHHHHHHhCC-CCCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCChhhcCCccccCHHHHHHHHc
Confidence 3445667788887654 568999999999999875 56889999999987654445544433331 2444555444
No 117
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=69.51 E-value=18 Score=29.41 Aligned_cols=33 Identities=21% Similarity=0.294 Sum_probs=28.4
Q ss_pred CcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 478 QKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
...+|+.+||+.+|++..-| +..|+..|+|...
T Consensus 23 ~~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~ 58 (67)
T cd00092 23 QLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRR 58 (67)
T ss_pred cCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 35799999999999998877 6677888999886
No 118
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=69.17 E-value=9.8 Score=34.69 Aligned_cols=61 Identities=13% Similarity=0.115 Sum_probs=36.2
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCC--CC---cEEEeeHHHHHHHH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDS--SE---PCIVINWAIVDAHM 530 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~--~~---~~i~i~~~~i~~~~ 530 (760)
.|++.|..+. .++=++||+.|||.+.+| +..|...|+|.+..... .+ +.+.|+.+.+...+
T Consensus 17 ~Il~~L~~~~---~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~~~~~d~~~~~~~~yw~i~~~~~~~~i 85 (105)
T PF02002_consen 17 RILDALLRKG---ELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSYRRRKDDERGWTRYYWYIDYDQIIDVI 85 (105)
T ss_dssp HHHHHHHHH-----B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EEEEE--------EEEEE-THHHH----
T ss_pred HHHHHHHHcC---CcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEEEEEcCCCcEEEEEEEEcHHHHHHHH
Confidence 6788888654 689999999999999997 66778889997764211 11 35778886665554
No 119
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=68.75 E-value=14 Score=35.37 Aligned_cols=55 Identities=11% Similarity=0.230 Sum_probs=40.9
Q ss_pred HHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHHH
Q psy6980 471 YLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWAI 525 (760)
Q Consensus 471 ~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~ 525 (760)
++.....+..+|+++||+..||+.. .|+..|...|+|....+..||..+..+.+.
T Consensus 16 ~la~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~~~ 73 (141)
T PRK11014 16 YMASLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPAST 73 (141)
T ss_pred HHhcCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCHHH
Confidence 3444444568999999999999975 667788888999999766566656555544
No 120
>PRK01346 hypothetical protein; Provisional
Probab=68.69 E-value=5.1 Score=44.17 Aligned_cols=48 Identities=17% Similarity=0.187 Sum_probs=35.2
Q ss_pred eEEeeeccccc--------CCCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 396 HLVGYFSKEKH--------CQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 396 h~VGYFSKEK~--------s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
.+|||..---. .....-+.-+.|.|.|||+|+|+.||...-...+..|
T Consensus 57 ~lvg~~~~~~~~~~~~~~~~~~~~~i~~v~V~P~~RgrGig~~Ll~~~l~~a~~~g 112 (411)
T PRK01346 57 EVVGTAGAFDLRLTVPGGAVLPAAGVTAVTVAPTHRRRGLLTALMREQLRRIRERG 112 (411)
T ss_pred EEEEEEEEeccccccCCCCccceeEEEEEEEChhhcCCCHHHHHHHHHHHHHHHCC
Confidence 58998763211 0122457889999999999999999999887776544
No 121
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=68.58 E-value=14 Score=36.34 Aligned_cols=57 Identities=19% Similarity=0.188 Sum_probs=44.6
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
.++-+|..+. +..+|+++||+..+|.+. -|+..|...|+|....|..||+.+.-+++
T Consensus 12 r~L~~LA~~~-~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La~~p~ 71 (153)
T PRK11920 12 RMLMYCAAND-GKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLGRPAA 71 (153)
T ss_pred HHHHHHHhCC-CCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCeeecCCHH
Confidence 4566776554 457899999999999985 56778888899999988878877765554
No 122
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=68.50 E-value=23 Score=35.98 Aligned_cols=64 Identities=9% Similarity=0.033 Sum_probs=46.7
Q ss_pred HHHHHHHHHhccC--CcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHHH
Q psy6980 465 KSVLLEYLDTIRN--QKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDAHMKR 532 (760)
Q Consensus 465 ~~~Il~~L~~~~~--~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~ 532 (760)
..+|+.+|..... ...++-.+||...|++.+=| +..|+..|+|... ++++.++|.+.+.+....
T Consensus 152 ~~Rla~~L~~~~~~~~~~~t~~~lA~~lG~sretvsR~L~~L~~~G~I~~~----~~~i~I~d~~~L~~~~~~ 220 (226)
T PRK10402 152 ENRLAAFILLTQEGDLYHEKHTQAAEYLGVSYRHLLYVLAQFIQDGYLKKS----KRGYLIKNRKQLSGLALE 220 (226)
T ss_pred HHHHHHHHHhcccCCcccchHHHHHHHHCCcHHHHHHHHHHHHHCCCEEee----CCEEEEeCHHHHHHHHHH
Confidence 4667777765321 23467899999999999887 4556677999887 567888888887766543
No 123
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=67.90 E-value=11 Score=28.57 Aligned_cols=31 Identities=19% Similarity=0.287 Sum_probs=27.0
Q ss_pred ceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 480 LICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.+|..+||+.+|++...| +..|+..|+|...
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~~~ 41 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLISRE 41 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 588999999999998877 7788888999876
No 124
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=67.77 E-value=15 Score=34.69 Aligned_cols=41 Identities=22% Similarity=0.267 Sum_probs=35.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.||+.|.... .+|+.+||++.|+++..| +.-|+..|+|+.+
T Consensus 12 ~IL~~L~~d~---r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 12 RILRLLQEDA---RISNAELAERVGLSPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHhC---CCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeE
Confidence 6888888765 599999999999999887 6788889999877
No 125
>TIGR01686 FkbH FkbH-like domain. The C-terminal portion of this domain is unique to this family (by BLAST).
Probab=67.45 E-value=5.2 Score=43.18 Aligned_cols=58 Identities=12% Similarity=0.149 Sum_probs=39.9
Q ss_pred EEEEEeCCC-CceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhcccC
Q psy6980 385 YVLTQNDDK-GCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEG 443 (760)
Q Consensus 385 YVLte~D~~-G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg 443 (760)
|++...|.. +..+|||+.=.... ...-+.=|++.|.|||+|+|+.|++.--..++..|
T Consensus 232 ~~~~~~d~~gd~givG~~~~~~~~-~~~~I~~l~vs~r~~grGig~~Ll~~l~~~a~~~G 290 (320)
T TIGR01686 232 VTVSMSDRFGDSGIIGIFVFEKKE-GNLFIDDLCMSCRALGRGVETRMLRWLFEQALDLG 290 (320)
T ss_pred EEEEEEecCCCCceEEEEEEEecC-CcEEEEEEEEcHhHhcCcHHHHHHHHHHHHHHHcC
Confidence 444444543 34599998643321 22346778999999999999999998877776544
No 126
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=67.11 E-value=15 Score=35.88 Aligned_cols=47 Identities=15% Similarity=0.177 Sum_probs=37.7
Q ss_pred ceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHHHH
Q psy6980 480 LICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDAHM 530 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~ 530 (760)
.+|-++||...|++++=| +..|+..|+|... ++++.+.|++.+.+..
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~~----~~~i~I~d~~~L~~~~ 198 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYIRSG----YGKIQLLDLKGLEELA 198 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCEEcC----CCEEEEECHHHHHHHH
Confidence 578899999999999876 5566777999865 5678888998877653
No 127
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=67.11 E-value=37 Score=30.08 Aligned_cols=66 Identities=12% Similarity=0.133 Sum_probs=45.5
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCC---cEEEeeH---HHHHHHHHHHH
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSE---PCIVINW---AIVDAHMKRLE 534 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~---~~i~i~~---~~i~~~~~~~~ 534 (760)
-.|+.+|.... .++..+|.+.+||+...+ +..|+..|+|...+.-.++ .++.++. +.+++|++.++
T Consensus 3 l~Il~~L~~~~---~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~~~~~~~~L~ 77 (80)
T PF13601_consen 3 LAILALLYANE---EATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREAFERYVAALR 77 (80)
T ss_dssp HHHHHHHHHHS---EEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhcC---CCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHHHHHHHHHHH
Confidence 35788888754 799999999999999998 6678888999987643233 2355554 66677766544
No 128
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=66.50 E-value=3.8 Score=29.21 Aligned_cols=24 Identities=29% Similarity=0.605 Sum_probs=21.0
Q ss_pred EeeecccccccCCHHHHHHHHhhCC
Q psy6980 306 LFLCEFCLKYTKSKAVLERHRDKCA 330 (760)
Q Consensus 306 LyiCE~ClkY~~s~~~l~rH~~kC~ 330 (760)
|..|..|.+-| ....|.+|+..|.
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKICK 25 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHhcC
Confidence 56799999999 6799999999984
No 129
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=66.21 E-value=23 Score=35.67 Aligned_cols=52 Identities=17% Similarity=0.217 Sum_probs=38.6
Q ss_pred HHHHHhhHHHHHHHHHhccCCcceeHHHHHHhh--CCChhHH---HHHHHHcCceeee
Q psy6980 458 VSYHAYWKSVLLEYLDTIRNQKLICIDQMCADT--GLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 458 ~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~T--gI~~~DI---i~tL~~l~~l~~~ 510 (760)
..|.+=|...++..|....+ ..-++..||+.. +|+.++| +..|..+|+|+..
T Consensus 18 ~~~~~~W~~~~ir~l~~l~~-~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~ 74 (171)
T PF14394_consen 18 FEYYSSWYHPAIRELLPLMP-FAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKD 74 (171)
T ss_pred HHHHhhhHHHHHHHHhhcCC-CCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEEC
Confidence 34445566666666666653 344999999999 9999887 6778889999987
No 130
>KOG2488|consensus
Probab=66.21 E-value=4.5 Score=42.12 Aligned_cols=50 Identities=26% Similarity=0.395 Sum_probs=34.3
Q ss_pred eEEEEEEeCCCCceEEeeecccccCCCCceeEEEE-----ecCcccccccCccchhhhh
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIM-----TLPQYQRKGYGRFLIDFSY 436 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIl-----tLP~yQrkGyG~~LIdfSY 436 (760)
+-||++-+... .+|||-+=.-. .+.++-|+- +-|.|||+|+|+||+|--=
T Consensus 92 ~~Yi~a~~~~~--~~vgf~~Frf~--vd~g~~vlYcyEvqv~~~yR~kGiGk~LL~~l~ 146 (202)
T KOG2488|consen 92 LRYICAWNNKS--KLVGFTMFRFT--VDTGDPVLYCYEVQVASAYRGKGIGKFLLDTLE 146 (202)
T ss_pred ceEEEEEcCCC--ceeeEEEEEEE--cccCCeEEEEEEEeehhhhhccChHHHHHHHHH
Confidence 45777765543 89999775443 234555554 3488999999999998643
No 131
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=66.05 E-value=21 Score=32.78 Aligned_cols=55 Identities=16% Similarity=0.269 Sum_probs=40.4
Q ss_pred HHHHHH--hccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEE--EeeH
Q psy6980 468 LLEYLD--TIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCI--VINW 523 (760)
Q Consensus 468 Il~~L~--~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i--~i~~ 523 (760)
||.+|. ... +..+++.+||..++|+..-| +..|+..|+|.......+.+.+ .++.
T Consensus 30 vL~~l~~~~~~-~~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~ 91 (109)
T TIGR01889 30 ILYYLGKLENN-EGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKVIISINK 91 (109)
T ss_pred HHHHHHhhhcc-CCcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECH
Confidence 566665 322 45899999999999998876 7788899999987655555544 4444
No 132
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=65.64 E-value=7.3 Score=33.92 Aligned_cols=44 Identities=11% Similarity=0.242 Sum_probs=32.9
Q ss_pred HHHHHHHHhccC-CcceeHHHHHHhhCCChhHHHHHHHHcCceee
Q psy6980 466 SVLLEYLDTIRN-QKLICIDQMCADTGLYHHDVAETLELLGMLRT 509 (760)
Q Consensus 466 ~~Il~~L~~~~~-~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~ 509 (760)
..|++||..+.. -...||.+||+.+|+++.=|+...+.||+--|
T Consensus 19 ~~Ia~yil~~~~~~~~~si~elA~~~~vS~sti~Rf~kkLG~~gf 63 (77)
T PF01418_consen 19 KKIADYILENPDEIAFMSISELAEKAGVSPSTIVRFCKKLGFSGF 63 (77)
T ss_dssp HHHHHHHHH-HHHHCT--HHHHHHHCTS-HHHHHHHHHHCTTTCH
T ss_pred HHHHHHHHhCHHHHHHccHHHHHHHcCCCHHHHHHHHHHhCCCCH
Confidence 357888877652 34799999999999999999999999998443
No 133
>smart00355 ZnF_C2H2 zinc finger.
Probab=65.43 E-value=4.1 Score=26.72 Aligned_cols=21 Identities=38% Similarity=0.578 Sum_probs=19.7
Q ss_pred eeecccccccCCHHHHHHHHh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~ 327 (760)
|.|+.|.+.|.+...|.+|+.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 679999999999999999986
No 134
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=65.43 E-value=0.93 Score=39.33 Aligned_cols=38 Identities=24% Similarity=0.470 Sum_probs=18.2
Q ss_pred ccEEecC--CCCCccccccCCCCcCCCCCC-------CcccCCCCCC
Q psy6980 139 VCLIKCC--ACNVYYHIICLQPPLERRLKV-------PWKCTSCESG 176 (760)
Q Consensus 139 ~cmLfCD--~CDrgyH~~CL~PpL~~iP~G-------~W~C~~C~~~ 176 (760)
.-.+.|+ .|.+.||+.||.--+...+.+ .+.||.|...
T Consensus 18 ~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 18 IPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp ---B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SE
T ss_pred cCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCe
Confidence 3457898 999999999997665544333 3679999753
No 135
>KOG3054|consensus
Probab=65.31 E-value=24 Score=38.30 Aligned_cols=71 Identities=23% Similarity=0.381 Sum_probs=51.6
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHc---CceeeecCCCCCcEEEeeHHHHHHHHHHHHhCCCccee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELL---GMLRTKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIKI 542 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l---~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~i 542 (760)
..++|+..++ .+.|.|||...|+...|.|.-+|.+ |+|.-. .+..|.+|+|+.+.+....+=++.. +++.|
T Consensus 204 eFv~YIk~nK---vV~ledLas~f~Lrtqd~inriq~~l~eg~ltGV-mDDRGKfIYIS~eEl~AVAkfIkqr-GRVSI 277 (299)
T KOG3054|consen 204 EFVEYIKKNK---VVPLEDLASEFGLRTQDSINRIQELLAEGLLTGV-MDDRGKFIYISMEELAAVAKFIKQR-GRVSI 277 (299)
T ss_pred HHHHHHHhcC---eeeHHHHHHHhCccHHHHHHHHHHHHHhhhheee-ecCCCceEEecHHHHHHHHHHHHHc-CceeH
Confidence 3467777655 8999999999999999999887765 555444 3567889999997766655444433 55555
No 136
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=65.20 E-value=17 Score=36.61 Aligned_cols=46 Identities=15% Similarity=0.135 Sum_probs=37.1
Q ss_pred ceeHHHHHHhhCCChhHHH---HHHHHcCceeeecCCCCCcEEEeeHHHHHHH
Q psy6980 480 LICIDQMCADTGLYHHDVA---ETLELLGMLRTKHGDSSEPCIVINWAIVDAH 529 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DIi---~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~ 529 (760)
.+|.++||...|++.+-|- ..|+..|+|... ++.+.+.|.+.+.+.
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~~~----~~~i~i~d~~~L~~~ 232 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLAVK----GKYITIENNDALAQL 232 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEEec----CCEEEEcCHHHHHHH
Confidence 5788999999999999874 566778999987 667788888776653
No 137
>PRK10151 ribosomal-protein-L7/L12-serine acetyltransferase; Provisional
Probab=65.09 E-value=7.9 Score=37.22 Aligned_cols=45 Identities=11% Similarity=0.086 Sum_probs=27.4
Q ss_pred EEEEEEeCCCCceEEeeecccccCCCC-ceeEEEEecCcccccccCccch
Q psy6980 384 FYVLTQNDDKGCHLVGYFSKEKHCQQK-YNVSCIMTLPQYQRKGYGRFLI 432 (760)
Q Consensus 384 FYVLte~D~~G~h~VGYFSKEK~s~~~-nNLSCIltLP~yQrkGyG~~LI 432 (760)
+|++.. + | .+||+.+=......+ .-.-.+.+.|.||++|||..++
T Consensus 69 ~~~i~~-~--~-~~iG~~~l~~~~~~~~~~~ig~~i~~~~~g~G~~tea~ 114 (179)
T PRK10151 69 MFMIFK-E--D-ELIGVLSFNRIEPLNKTAYIGYWLDESHQGQGIISQAL 114 (179)
T ss_pred EEEEEE-C--C-EEEEEEEEEeeccCCCceEEEEEEChhhcCCcHHHHHH
Confidence 466653 2 2 688888743322211 1223567899999999998544
No 138
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=64.88 E-value=10 Score=37.39 Aligned_cols=44 Identities=7% Similarity=0.163 Sum_probs=36.9
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
..|-+||.++. +...||.+||++||++.+.|..-+.+=.|....
T Consensus 33 ~kV~~yLr~~p-~~~ati~eV~e~tgVs~~~I~~~IreGRL~~~~ 76 (137)
T TIGR03826 33 EKVYKFLRKHE-NRQATVSEIVEETGVSEKLILKFIREGRLQLKH 76 (137)
T ss_pred HHHHHHHHHCC-CCCCCHHHHHHHHCcCHHHHHHHHHcCCeeccC
Confidence 46788999877 456999999999999999999999887776544
No 139
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=64.52 E-value=20 Score=37.99 Aligned_cols=42 Identities=12% Similarity=0.226 Sum_probs=35.1
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCCh---hHHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYH---HDVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~---~DIi~tL~~l~~l~~~ 510 (760)
.||++|.... ..+++.|||+.+||.. +.++.||.+.|+|.+.
T Consensus 29 ~IL~~~~~~~--~~~tl~eIa~~lglpkStv~RlL~tL~~~G~l~~~ 73 (271)
T PRK10163 29 AILQYLEKSG--GSSSVSDISLNLDLPLSTTFRLLKVLQAADFVYQD 73 (271)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEc
Confidence 5788886543 4799999999999976 5669999999999875
No 140
>PF13523 Acetyltransf_8: Acetyltransferase (GNAT) domain; PDB: 2VQY_A 2BUE_A 1V0C_A 1YK3_D 2PR8_A 2QIR_A 2PRB_A 2QML_A 2PC1_A.
Probab=64.45 E-value=8.2 Score=36.01 Aligned_cols=50 Identities=18% Similarity=0.345 Sum_probs=31.8
Q ss_pred CceEEEEEEeCCCCceEEeeecccc----c--CCCCceeEEEEecCcccccccCccchhh
Q psy6980 381 PFLFYVLTQNDDKGCHLVGYFSKEK----H--CQQKYNVSCIMTLPQYQRKGYGRFLIDF 434 (760)
Q Consensus 381 pFlFYVLte~D~~G~h~VGYFSKEK----~--s~~~nNLSCIltLP~yQrkGyG~~LIdf 434 (760)
.+..||+...+ +++|||--.. . ......+.-+++-|.|+++|+|+.+|..
T Consensus 47 ~~~~~v~~~dg----~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rg~G~g~~~~~~ 102 (152)
T PF13523_consen 47 GHHPYVAEDDG----EPIGYFEIYWPDEDYDADDGDRGIHRLIVDPEYRGQGLGKAMLRA 102 (152)
T ss_dssp TEEEEEEEETT----EEEEEEEEEEGGGSS---TTEEEEEEEESTGGGTTSSHHHHHHHH
T ss_pred CceEEEEEECC----EEEEEEEEecccccccCCCCEEEEeeeeechhhcCCCHHHHHHHH
Confidence 33445554443 8999995422 1 1123457777788999999999877653
No 141
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=64.01 E-value=15 Score=35.47 Aligned_cols=46 Identities=7% Similarity=0.028 Sum_probs=37.3
Q ss_pred cceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHH
Q psy6980 479 KLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDA 528 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~ 528 (760)
-.+|-++||...|++.+-| +..|+..|+|... ++++++.|.+.+.+
T Consensus 142 ~~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~~----~~~i~I~d~~~L~~ 190 (193)
T TIGR03697 142 LRLSHQAIAEAIGSTRVTITRLLGDLRKKKLISIH----KKKITVHDPIALGQ 190 (193)
T ss_pred CCCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEec----CCEEEEeCHHHHHH
Confidence 3578999999999999887 5567788999887 66788888877654
No 142
>KOG1473|consensus
Probab=63.46 E-value=1.4 Score=54.93 Aligned_cols=39 Identities=18% Similarity=0.281 Sum_probs=32.2
Q ss_pred EEecCC-CCCcccc-ccCCCCc--CCCCCCCcccCCCCCCCCC
Q psy6980 141 LIKCCA-CNVYYHI-ICLQPPL--ERRLKVPWKCTSCESGTTE 179 (760)
Q Consensus 141 mLfCD~-CDrgyH~-~CL~PpL--~~iP~G~W~C~~C~~~~~~ 179 (760)
.|.|++ |.+.||+ .||+--. ..+++|-|.|+.|......
T Consensus 440 ~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~ 482 (1414)
T KOG1473|consen 440 LLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMG 482 (1414)
T ss_pred EEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhcc
Confidence 588998 9999999 9998433 6689999999999876543
No 143
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=63.01 E-value=25 Score=32.35 Aligned_cols=53 Identities=13% Similarity=0.177 Sum_probs=39.0
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCC--cEEEeeH
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSE--PCIVINW 523 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~--~~i~i~~ 523 (760)
||.+|.... .+|+.+||+.+||+...| +..|+..|+|.......+. ..+.++.
T Consensus 33 iL~~l~~~~---~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~ 90 (118)
T TIGR02337 33 ILRILAEQG---SMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTP 90 (118)
T ss_pred HHHHHHHcC---CcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECH
Confidence 777776543 699999999999988876 5667888999987543333 3566665
No 144
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=62.53 E-value=6.3 Score=28.79 Aligned_cols=22 Identities=23% Similarity=0.442 Sum_probs=20.0
Q ss_pred EeeecccccccCCHHHHHHHHh
Q psy6980 306 LFLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 306 LyiCE~ClkY~~s~~~l~rH~~ 327 (760)
.|.|+.|-++|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4789999999999999999984
No 145
>PRK11569 transcriptional repressor IclR; Provisional
Probab=62.53 E-value=22 Score=37.74 Aligned_cols=42 Identities=19% Similarity=0.397 Sum_probs=35.0
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~ 510 (760)
.||++|.... ..+++.|||+.+||... -++.||.+.|+|.+.
T Consensus 32 ~IL~~l~~~~--~~~~lseia~~lglpksTv~RlL~tL~~~G~l~~~ 76 (274)
T PRK11569 32 KLLEWIAESN--GSVALTELAQQAGLPNSTTHRLLTTMQQQGFVRQV 76 (274)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEc
Confidence 5788887643 57999999999999865 559999999999875
No 146
>KOG0957|consensus
Probab=62.51 E-value=3.3 Score=48.14 Aligned_cols=27 Identities=11% Similarity=0.041 Sum_probs=22.6
Q ss_pred ccccccccCCCCCCccccccccccccccCCCCC
Q psy6980 84 VVSKLLATDLAPGVTRKDIDLYKQAHEEATKAT 116 (760)
Q Consensus 84 ICefcL~td~~N~~rkgdIEeLlsC~~CG~~a~ 116 (760)
||-.||+. ++.|..+++.|..||+..|
T Consensus 121 iCcVClg~------rs~da~ei~qCd~CGi~VH 147 (707)
T KOG0957|consen 121 ICCVCLGQ------RSVDAGEILQCDKCGINVH 147 (707)
T ss_pred EEEEeecC------ccccccceeeccccCceec
Confidence 99999985 4557789999999997665
No 147
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=61.65 E-value=13 Score=38.26 Aligned_cols=41 Identities=15% Similarity=0.137 Sum_probs=34.3
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
.+|.++..+ ++||..+|++.+|++...|+..|...|+|...
T Consensus 94 EtLaiIay~---qPiTr~eI~~irGv~~~~ii~~L~~~gLI~e~ 134 (188)
T PRK00135 94 EVLAIIAYK---QPITRIEIDEIRGVNSDGALQTLLAKGLIKEV 134 (188)
T ss_pred HHHHHHHHc---CCcCHHHHHHHHCCCHHHHHHHHHHCCCeEEc
Confidence 345555544 48999999999999999999999999999853
No 148
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=61.51 E-value=24 Score=31.73 Aligned_cols=41 Identities=24% Similarity=0.346 Sum_probs=33.5
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRT 509 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~ 509 (760)
..|+.+|.... .+|+.+||+.+|+++.-| +..|...|+|..
T Consensus 6 ~~il~~L~~~~---~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 6 RKILEELQKDA---RISLAELAKKVGLSPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHhC---CCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeec
Confidence 35788887754 799999999999999988 667777888873
No 149
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=60.34 E-value=25 Score=34.20 Aligned_cols=42 Identities=14% Similarity=0.172 Sum_probs=35.0
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
..|++.|.... .+|..+||+..|+++..| +..|++.|+|..+
T Consensus 12 ~~Il~~Lq~d~---R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~ 56 (153)
T PRK11179 12 RGILEALMENA---RTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGT 56 (153)
T ss_pred HHHHHHHHHcC---CCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeE
Confidence 36888888754 899999999999999999 5677888999744
No 150
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.79 E-value=24 Score=34.74 Aligned_cols=42 Identities=19% Similarity=0.184 Sum_probs=34.0
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
..|+..|.... .+|..+||+..|++..-| +.-|+..|+|..+
T Consensus 17 ~~IL~~Lq~d~---R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~~ 61 (164)
T PRK11169 17 RNILNELQKDG---RISNVELSKRVGLSPTPCLERVRRLERQGFIQGY 61 (164)
T ss_pred HHHHHHhccCC---CCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEE
Confidence 36788777544 899999999999999988 5667788999744
No 151
>PRK00215 LexA repressor; Validated
Probab=59.18 E-value=25 Score=35.41 Aligned_cols=46 Identities=17% Similarity=0.287 Sum_probs=36.1
Q ss_pred HHHHHHHHhc--cCCcceeHHHHHHhhCC-Ch---hHHHHHHHHcCceeeec
Q psy6980 466 SVLLEYLDTI--RNQKLICIDQMCADTGL-YH---HDVAETLELLGMLRTKH 511 (760)
Q Consensus 466 ~~Il~~L~~~--~~~~~isi~dIS~~TgI-~~---~DIi~tL~~l~~l~~~~ 511 (760)
..|+++|.+. .++..+|+.|||+++|+ +. ..++.+|+..|+|....
T Consensus 7 ~~il~~i~~~~~~~~~~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~ 58 (205)
T PRK00215 7 QEILDFIRDHIEETGYPPSRREIADALGLRSPSAVHEHLKALERKGFIRRDP 58 (205)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCC
Confidence 3567777643 23567899999999999 65 78899999999998873
No 152
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=59.17 E-value=20 Score=28.64 Aligned_cols=37 Identities=14% Similarity=0.287 Sum_probs=27.5
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
..|+.+|.... ..+|+++||+..|++..-|..-|+.|
T Consensus 3 ~~il~~L~~~~--~~it~~eLa~~l~vS~rTi~~~i~~L 39 (55)
T PF08279_consen 3 KQILKLLLESK--EPITAKELAEELGVSRRTIRRDIKEL 39 (55)
T ss_dssp HHHHHHHHHTT--TSBEHHHHHHHCTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcC--CCcCHHHHHHHhCCCHHHHHHHHHHH
Confidence 35788887665 24999999999999998885555444
No 153
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=59.05 E-value=25 Score=36.68 Aligned_cols=41 Identities=17% Similarity=0.233 Sum_probs=34.0
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCCh---hHHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYH---HDVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~---~DIi~tL~~l~~l~~~ 510 (760)
.||++|... ..+|+.|||+.+||.. +-++.||.+.|+|.+.
T Consensus 18 ~IL~~l~~~---~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~~~ 61 (257)
T PRK15090 18 GILQALGEE---REIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQE 61 (257)
T ss_pred HHHHHhhcC---CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEc
Confidence 577777643 3699999999999986 5669999999999886
No 154
>PF12728 HTH_17: Helix-turn-helix domain
Probab=58.87 E-value=32 Score=27.20 Aligned_cols=48 Identities=13% Similarity=0.105 Sum_probs=35.8
Q ss_pred eeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHHH
Q psy6980 481 ICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHMKR 532 (760)
Q Consensus 481 isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~ 532 (760)
+|++|+++..||+..-|-..+. -|-|.... .+..+.++++.|+++++.
T Consensus 2 lt~~e~a~~l~is~~tv~~~~~-~g~i~~~~---~g~~~~~~~~~l~~~~~~ 49 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVYRWIR-QGKIPPFK---IGRKWRIPKSDLDRWLER 49 (51)
T ss_pred CCHHHHHHHHCcCHHHHHHHHH-cCCCCeEE---eCCEEEEeHHHHHHHHHh
Confidence 6899999999999988766555 44554442 344578899999998764
No 155
>PRK10870 transcriptional repressor MprA; Provisional
Probab=57.61 E-value=33 Score=34.38 Aligned_cols=91 Identities=18% Similarity=0.182 Sum_probs=57.7
Q ss_pred ccccccCccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---H
Q psy6980 422 YQRKGYGRFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---A 498 (760)
Q Consensus 422 yQrkGyG~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i 498 (760)
+|+-..++++..++=.|+..= .+-|.++|+ +++...||..|.... ...++..+||+.+||+..-| +
T Consensus 24 ~~~~~~~~l~~~~~~~l~~~~------~~~l~~~gL----t~~q~~iL~~L~~~~-~~~it~~eLa~~l~l~~~tvsr~v 92 (176)
T PRK10870 24 YQEILLTRLCMHMQSKLLENR------NKMLKAQGI----NETLFMALITLESQE-NHSIQPSELSCALGSSRTNATRIA 92 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHH------HHHHHHCCC----CHHHHHHHHHHhcCC-CCCcCHHHHHHHHCCCHHHHHHHH
Confidence 466677777666654443221 112333332 234556677776533 46899999999999999876 6
Q ss_pred HHHHHcCceeeecCCCCCc--EEEeeH
Q psy6980 499 ETLELLGMLRTKHGDSSEP--CIVINW 523 (760)
Q Consensus 499 ~tL~~l~~l~~~~~~~~~~--~i~i~~ 523 (760)
..|+..|+|.......+.. .|.++.
T Consensus 93 ~rLe~kGlV~R~~~~~DrR~~~v~LT~ 119 (176)
T PRK10870 93 DELEKRGWIERRESDNDRRCLHLQLTE 119 (176)
T ss_pred HHHHHCCCEEecCCCCCCCeeEEEECH
Confidence 8889999999886444444 455554
No 156
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=57.42 E-value=9.6 Score=39.02 Aligned_cols=44 Identities=23% Similarity=0.441 Sum_probs=31.8
Q ss_pred CcccEEecCCCCCccccccCCCCc------CCCCCCC--cccCCCCCCCCCC
Q psy6980 137 YEVCLIKCCACNVYYHIICLQPPL------ERRLKVP--WKCTSCESGTTEP 180 (760)
Q Consensus 137 ce~cmLfCD~CDrgyH~~CL~PpL------~~iP~G~--W~C~~C~~~~~~~ 180 (760)
....|++|-+|-.+||-.||-|-. ++|-++. -.|..|+.-...+
T Consensus 13 ~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kK 64 (175)
T PF15446_consen 13 NKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKK 64 (175)
T ss_pred cCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcc
Confidence 344699999999999999997643 3344444 4599998766443
No 157
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=57.06 E-value=9.1 Score=39.18 Aligned_cols=20 Identities=30% Similarity=0.765 Sum_probs=17.0
Q ss_pred EEe-cCCCCCccccccCCCCc
Q psy6980 141 LIK-CCACNVYYHIICLQPPL 160 (760)
Q Consensus 141 mLf-CD~CDrgyH~~CL~PpL 160 (760)
+|| |..|.||||+.-|.|+-
T Consensus 123 VLFRC~~C~RawH~~HLP~~~ 143 (175)
T PF15446_consen 123 VLFRCTSCHRAWHFEHLPPPS 143 (175)
T ss_pred eEEecCCccceeehhhCCCCc
Confidence 466 99999999999997654
No 158
>PHA02943 hypothetical protein; Provisional
Probab=56.60 E-value=45 Score=34.01 Aligned_cols=55 Identities=13% Similarity=0.056 Sum_probs=41.3
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhH---HHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHD---VAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~D---Ii~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
...|+++| . ....|..+|++++|++... ++..|+..|+|+....+ ...+++++.+
T Consensus 13 ~~eILE~L-k---~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~VkrV~~G-~~tyw~l~~d 70 (165)
T PHA02943 13 MIKTLRLL-A---DGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLKVEIG-RAAIWCLDED 70 (165)
T ss_pred HHHHHHHH-h---cCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEEEeec-ceEEEEEChH
Confidence 45678888 2 3478899999999999765 58899999999998422 2345677653
No 159
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=56.41 E-value=34 Score=32.63 Aligned_cols=53 Identities=8% Similarity=-0.005 Sum_probs=37.5
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCc--EEEeeH
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEP--CIVINW 523 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~--~i~i~~ 523 (760)
|+..|.. ...+|..+||+.+||++.-| +..|+..|+|.......+.. .|.++.
T Consensus 45 vL~~l~~---~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~ 102 (144)
T PRK11512 45 VLCSIRC---AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTT 102 (144)
T ss_pred HHHHHHH---cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEECh
Confidence 4444543 24799999999999998776 67788899999885433444 345554
No 160
>COG2388 Predicted acetyltransferase [General function prediction only]
Probab=56.41 E-value=7.2 Score=36.48 Aligned_cols=65 Identities=14% Similarity=0.157 Sum_probs=53.3
Q ss_pred eEEEEEEeCCCCceEEeeecccccCCCCceeEEEEecCcccccccCccchhhhhhhhcccCCCCCCCCC
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQQKYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEGQRGTPEKP 451 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~~~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg~~GtPEkP 451 (760)
.||+++... ..+|++..=....+.=|+.|--|=|.+|+||+|+-|+...-+-+|++|+-=.|==|
T Consensus 16 ~~y~~~~~G----~~~~e~~y~~~~~~~i~i~HT~V~d~lrGqGia~~L~~~al~~ar~~g~kiiP~Cs 80 (99)
T COG2388 16 GRYVLTDEG----EVIGEATYYDRGENLIIIDHTYVPDELRGQGIAQKLVEKALEEAREAGLKIIPLCS 80 (99)
T ss_pred eEEEEecCC----cEEEEEEEecCCCCEEEEecCcCCHHHcCCcHHHHHHHHHHHHHHHcCCeEcccch
Confidence 567776543 26888887777767788999999999999999999999999999999986666555
No 161
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=56.24 E-value=33 Score=36.18 Aligned_cols=42 Identities=19% Similarity=0.289 Sum_probs=35.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhH---HHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHD---VAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~D---Ii~tL~~l~~l~~~ 510 (760)
.||++|.... ..+++.+||+.+|+.+.- ++.||+++|++.+.
T Consensus 8 ~iL~~l~~~~--~~l~l~ela~~~glpksT~~RlL~tL~~~G~v~~d 52 (246)
T COG1414 8 AILDLLAEGP--GGLSLAELAERLGLPKSTVHRLLQTLVELGYVEQD 52 (246)
T ss_pred HHHHHHHhCC--CCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEc
Confidence 5788888733 458999999999998765 58999999999998
No 162
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=55.87 E-value=22 Score=28.13 Aligned_cols=35 Identities=17% Similarity=0.223 Sum_probs=27.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
.|+..|... ...|..+||+..|++..-|..-++.|
T Consensus 7 ~Il~~Lq~d---~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 7 KILRLLQED---GRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHH----TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHc---CCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 577777765 48999999999999999999888765
No 163
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=55.78 E-value=43 Score=32.09 Aligned_cols=55 Identities=11% Similarity=0.132 Sum_probs=40.1
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
-.|+.+|.+. ...++.+|++.+||++.-| +..|++.|+|.....+ ...++.++.+
T Consensus 19 l~IL~~L~~~---~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~G-r~~~Y~l~~~ 76 (117)
T PRK10141 19 LGIVLLLRES---GELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQG-KWVHYRLSPH 76 (117)
T ss_pred HHHHHHHHHc---CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEc-CEEEEEECch
Confidence 4677777643 3699999999999999999 6788899999877421 2234556654
No 164
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=54.98 E-value=41 Score=25.37 Aligned_cols=47 Identities=15% Similarity=0.146 Sum_probs=34.6
Q ss_pred eeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHH
Q psy6980 481 ICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHMK 531 (760)
Q Consensus 481 isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~ 531 (760)
+|++++|+.+||+..-|-.-++ .|.|..... + ....++.+.|+++++
T Consensus 2 lt~~e~a~~lgis~~ti~~~~~-~g~i~~~~~--g-~~~~~~~~~l~~~~~ 48 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVYRLIH-EGELPAYRV--G-RHYRIPREDVDEYLE 48 (49)
T ss_pred CCHHHHHHHHCCCHHHHHHHHH-cCCCCeEEe--C-CeEEEeHHHHHHHHh
Confidence 6899999999999987766655 466655432 3 456788988888764
No 165
>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 3KE2_B.
Probab=54.63 E-value=33 Score=32.00 Aligned_cols=69 Identities=17% Similarity=0.374 Sum_probs=40.1
Q ss_pred HhhHHHHHHHHHhccCCcceeHHHHHHhhCCC---hhHHHHHHHHcCceeeec--C--CCCCcEEEeeH-----HHHHHH
Q psy6980 462 AYWKSVLLEYLDTIRNQKLICIDQMCADTGLY---HHDVAETLELLGMLRTKH--G--DSSEPCIVINW-----AIVDAH 529 (760)
Q Consensus 462 sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~---~~DIi~tL~~l~~l~~~~--~--~~~~~~i~i~~-----~~i~~~ 529 (760)
+|-|.-.+.+|.+.. .. |+-+|-+.|||- ..|+|.+|..+|+..... + +..|++-+.+| +-|..|
T Consensus 6 sF~Rrlyla~li~~~--~~-nvp~L~~~TGmPrRT~Qd~i~aL~~~~I~~~Fvq~G~R~~~GyY~i~~WG~id~~wi~~~ 82 (90)
T PF09904_consen 6 SFYRRLYLAYLIDSG--ER-NVPALMEATGMPRRTIQDTIKALPELGIECEFVQDGERNNAGYYRISDWGPIDRKWIADH 82 (90)
T ss_dssp HHHHHHHHHHHHHHS---B--HHHHHHHH---HHHHHHHHHGGGGGT-EEEEE--TTS-S--EEEEEE-TTB-HHHHHHH
T ss_pred HHHHHHHHHHHHhcC--Cc-cHHHHHHHhCCCHhHHHHHHHHhhcCCeEEEEEecCccCCCCcEEeeecCCCCHHHHHHH
Confidence 455555677777765 24 999999999995 689999999999866532 1 22345555555 555555
Q ss_pred HHHH
Q psy6980 530 MKRL 533 (760)
Q Consensus 530 ~~~~ 533 (760)
++.+
T Consensus 83 ~~~i 86 (90)
T PF09904_consen 83 LQEI 86 (90)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5543
No 166
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=54.10 E-value=37 Score=35.73 Aligned_cols=42 Identities=24% Similarity=0.309 Sum_probs=34.1
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~ 510 (760)
.||++|..+. ..+|+.|||+.+||... -++.||..+|+|...
T Consensus 15 ~iL~~l~~~~--~~ls~~eia~~lgl~kstv~RlL~tL~~~g~v~~~ 59 (263)
T PRK09834 15 MVLRALNRLD--GGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRS 59 (263)
T ss_pred HHHHHHHhcC--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 4677776543 46999999999999764 569999999999876
No 167
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=54.00 E-value=46 Score=28.47 Aligned_cols=42 Identities=19% Similarity=0.309 Sum_probs=33.2
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.|+..|.... .+++.+|++.++|+..-| +..|+..|+|....
T Consensus 14 ~il~~l~~~~---~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~ 58 (101)
T smart00347 14 LVLRILYEEG---PLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLP 58 (101)
T ss_pred HHHHHHHHcC---CcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecC
Confidence 5677777644 699999999999987665 67788889998764
No 168
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=53.79 E-value=51 Score=33.83 Aligned_cols=53 Identities=13% Similarity=0.101 Sum_probs=37.3
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCc--EEEeeH
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEP--CIVINW 523 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~--~i~i~~ 523 (760)
||.+|..+. .+|+.+||+.++++.. -++.-|+..|+|.......+.+ .|.++.
T Consensus 50 iL~~L~~~~---~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTe 107 (185)
T PRK13777 50 ILWIAYHLK---GASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTE 107 (185)
T ss_pred HHHHHHhCC---CcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECH
Confidence 455555443 7999999999999854 4566899999999875333333 455554
No 169
>PF05301 Mec-17: Touch receptor neuron protein Mec-17; InterPro: IPR007965 Mec-17 is the protein product of one of the 18 genes required for the development and function of the touch receptor neuron for gentle touch. Mec-17 is specifically required for maintaining the differentiation of the touch receptor []. This family is conserved to higher eukaryotes.; GO: 0019799 tubulin N-acetyltransferase activity
Probab=53.67 E-value=13 Score=36.17 Aligned_cols=51 Identities=25% Similarity=0.606 Sum_probs=31.8
Q ss_pred EEEEEEeCCCC-ceEEeeecc---------cccCC-CCceeEEEE---ecCcccccccCccchhh
Q psy6980 384 FYVLTQNDDKG-CHLVGYFSK---------EKHCQ-QKYNVSCIM---TLPQYQRKGYGRFLIDF 434 (760)
Q Consensus 384 FYVLte~D~~G-~h~VGYFSK---------EK~s~-~~nNLSCIl---tLP~yQrkGyG~~LIdf 434 (760)
-|+|.+....| -.++|+.-= +.... .-..+-||| |-+..||+|+|+-|.+.
T Consensus 6 ~Yll~d~~~~~~g~viG~LKVG~K~Lfl~d~~g~~~e~~~~~cvLDFyVhes~QR~G~Gk~LF~~ 70 (120)
T PF05301_consen 6 LYLLKDSEAGGKGAVIGFLKVGYKKLFLLDERGQHREIEPLLCVLDFYVHESRQRRGYGKRLFDH 70 (120)
T ss_pred EEEEEecCCCCCceEEEEEEEeeeeEEEEcCCCCEEEecccceeeeEEEEeceeccCchHHHHHH
Confidence 58888876643 357776531 11111 113445776 44889999999998774
No 170
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=53.63 E-value=8.4 Score=39.54 Aligned_cols=34 Identities=15% Similarity=0.353 Sum_probs=27.8
Q ss_pred CcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 478 QKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.+++|+.+|+++|||+..-| +.-|+..|++.+..
T Consensus 39 ~~Pmtl~Ei~E~lg~Sks~vS~~lkkL~~~~lV~~~~ 75 (177)
T COG1510 39 RKPLTLDEIAEALGMSKSNVSMGLKKLQDWNLVKKVF 75 (177)
T ss_pred CCCccHHHHHHHHCCCcchHHHHHHHHHhcchHHhhh
Confidence 47999999999999999887 55567778877654
No 171
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=53.49 E-value=15 Score=42.45 Aligned_cols=58 Identities=14% Similarity=0.299 Sum_probs=38.6
Q ss_pred CcCCCCCCCCCcccccCCCcccEEecCCCCCccccccCCCCc--------CC---CCCCCcccCCCCCCC
Q psy6980 119 LPLAVPEQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPL--------ER---RLKVPWKCTSCESGT 177 (760)
Q Consensus 119 ~C~eck~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL--------~~---iP~G~W~C~~C~~~~ 177 (760)
+|..| .|..|...++..+.--=+-||.|+.--|+.|--.-- .. ..++.++|..|-..+
T Consensus 125 FC~~C-~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~s 193 (446)
T PF07227_consen 125 FCRRC-MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTS 193 (446)
T ss_pred ccccC-CccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChh
Confidence 57777 677777766444333348899999999999953211 01 235578999996554
No 172
>PF09681 Phage_rep_org_N: N-terminal phage replisome organiser (Phage_rep_org_N); InterPro: IPR010056 This entry is represented by the N-terminal domain of Bacteriophage A500, Gp45. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The proteins in this entry contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The low-complexity region is adjacent to this N-terminal domain.
Probab=53.32 E-value=35 Score=32.95 Aligned_cols=65 Identities=15% Similarity=0.268 Sum_probs=48.0
Q ss_pred HHHHHhhHHHHHHH--HHhc-----cCCcceeHHHHHHhhCCChhHHH---HHHHHcCceeeecCCCCCcEEEeeHHH
Q psy6980 458 VSYHAYWKSVLLEY--LDTI-----RNQKLICIDQMCADTGLYHHDVA---ETLELLGMLRTKHGDSSEPCIVINWAI 525 (760)
Q Consensus 458 ~sY~sYW~~~Il~~--L~~~-----~~~~~isi~dIS~~TgI~~~DIi---~tL~~l~~l~~~~~~~~~~~i~i~~~~ 525 (760)
..|.-+|-.-++.. +... .+.-+.+.++||..|+-..++|- .+|+.+|||... .++.+.+.+++.
T Consensus 24 d~~~~i~lkLlllsgk~n~~G~L~~~~~ipy~~e~LA~~~~~~~~~V~~AL~~f~k~glIe~~---ed~~i~i~~~~~ 98 (121)
T PF09681_consen 24 DTYTVIWLKLLLLSGKLNDEGKLYLSGNIPYTAEMLALEFDRPVDTVRLALAVFQKLGLIEID---EDGVIYIPNWEK 98 (121)
T ss_pred ceeHHHHHHHHHHhcccCCCCEEEECCCCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe---cCCeEEeecHHH
Confidence 57888888877776 4432 22458899999999999999994 556789999987 355566666643
No 173
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=52.96 E-value=61 Score=25.34 Aligned_cols=33 Identities=18% Similarity=0.326 Sum_probs=26.8
Q ss_pred Ccce-eHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 478 QKLI-CIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 478 ~~~i-si~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
+..+ |+.+||+..|++..-| +..|+..|+|...
T Consensus 17 ~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 17 GDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred CCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 4467 9999999999987766 6677778998766
No 174
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=51.10 E-value=23 Score=36.68 Aligned_cols=42 Identities=21% Similarity=0.317 Sum_probs=33.8
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCCh---hHHHHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYH---HDVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~---~DIi~tL~~l~~l~~~ 510 (760)
.||++|.... ..+++.|||+.+||.. +-++.||.+.|+|...
T Consensus 13 ~IL~~l~~~~--~~~~l~eia~~lglpksT~~RlL~tL~~~G~l~~~ 57 (248)
T TIGR02431 13 AVIEAFGAER--PRLTLTDVAEATGLTRAAARRFLLTLVELGYVTSD 57 (248)
T ss_pred HHHHHHhcCC--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 4667766533 5799999999999976 5669999999999864
No 175
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=50.88 E-value=26 Score=32.92 Aligned_cols=42 Identities=17% Similarity=0.242 Sum_probs=36.3
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
..|.+++..+. .+++.||++..||+..-|...|+.||+....
T Consensus 60 ~~L~~~v~~~p---d~tl~Ela~~l~Vs~~ti~~~Lkrlg~t~KK 101 (119)
T PF01710_consen 60 DELKALVEENP---DATLRELAERLGVSPSTIWRALKRLGITRKK 101 (119)
T ss_pred HHHHHHHHHCC---CcCHHHHHHHcCCCHHHHHHHHHHcCchhcc
Confidence 45677777655 7999999999999999999999999998765
No 176
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=50.43 E-value=6.1 Score=36.23 Aligned_cols=38 Identities=18% Similarity=0.441 Sum_probs=28.1
Q ss_pred ccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 139 VCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 139 ~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
+|-|.-..|...||+.|+..-|++- .+.=.||-|+..-
T Consensus 44 ~Cplv~g~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~~w 81 (85)
T PF12861_consen 44 DCPLVWGKCSHNFHMHCILKWLSTQ-SSKGQCPMCRQPW 81 (85)
T ss_pred CCceeeccCccHHHHHHHHHHHccc-cCCCCCCCcCCee
Confidence 4444455699999999998888764 3345999998653
No 177
>PHA00673 acetyltransferase domain containing protein
Probab=50.36 E-value=25 Score=35.25 Aligned_cols=60 Identities=22% Similarity=0.227 Sum_probs=44.1
Q ss_pred eEEeeecccccC---CCC---ceeEEEEecCcccccccCccchhhhhhhhcccCC-----CCCCCCCCChh
Q psy6980 396 HLVGYFSKEKHC---QQK---YNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEGQ-----RGTPEKPLSDL 455 (760)
Q Consensus 396 h~VGYFSKEK~s---~~~---nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg~-----~GtPEkPLSDL 455 (760)
.+|||..=.-.. ..+ --+.=+.|-|.+|++|+|+-|++..=..+|.-|- .++|++-.=|+
T Consensus 65 ~vVG~~~l~~~p~l~~~~~~~~~Ie~l~V~~~~RGqGIG~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~f 135 (154)
T PHA00673 65 ELVGFACLLVTPVPHFKGQLIGTTESIFVAAAHRPGGAGMALLRATEALARDLGATGLYVSGPTEGRLVQL 135 (154)
T ss_pred EEEEEEEEEEecCCccCCccEEEEEEEEEChhccCCCHHHHHHHHHHHHHHHCCCCEEEEecCCCccchHH
Confidence 589976543222 111 1366778999999999999999999888888763 68898876554
No 178
>PHA00738 putative HTH transcription regulator
Probab=49.99 E-value=49 Score=31.76 Aligned_cols=44 Identities=14% Similarity=0.143 Sum_probs=36.8
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
|..|+++|.... ..++.+|++.++|+..-| +..|++.|+|...+
T Consensus 14 Rr~IL~lL~~~e---~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK 60 (108)
T PHA00738 14 RRKILELIAENY---ILSASLISHTLLLSYTTVLRHLKILNEQGYIELYK 60 (108)
T ss_pred HHHHHHHHHHcC---CccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEE
Confidence 457888887643 699999999999999998 67888999999873
No 179
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=49.98 E-value=35 Score=36.19 Aligned_cols=44 Identities=20% Similarity=0.329 Sum_probs=38.6
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
...|+++|.++. .++++|||+.++++..=| +..|++.|+|...+
T Consensus 7 ~~~Il~~l~~~g---~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~R~h 53 (253)
T COG1349 7 HQKILELLKEKG---KVSVEELAELFGVSEMTIRRDLNELEEQGLLLRVH 53 (253)
T ss_pred HHHHHHHHHHcC---cEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEEEEe
Confidence 357899998865 899999999999999999 55999999999974
No 180
>PF13718 GNAT_acetyltr_2: GNAT acetyltransferase 2; PDB: 2ZPA_B.
Probab=49.92 E-value=5.5 Score=41.26 Aligned_cols=23 Identities=35% Similarity=0.528 Sum_probs=17.0
Q ss_pred eEEEEecCcccccccCccchhhh
Q psy6980 413 VSCIMTLPQYQRKGYGRFLIDFS 435 (760)
Q Consensus 413 LSCIltLP~yQrkGyG~~LIdfS 435 (760)
+.=|-|-|.+||+|||+.|+++=
T Consensus 93 IvRIAvhP~~q~~G~Gs~lL~~l 115 (196)
T PF13718_consen 93 IVRIAVHPDLQRMGYGSRLLQQL 115 (196)
T ss_dssp EEEEEE-CCC-SSSHHHHHHHHH
T ss_pred EEEEEEChhhhcCCHHHHHHHHH
Confidence 34578889999999999888763
No 181
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=49.82 E-value=35 Score=36.10 Aligned_cols=44 Identities=16% Similarity=0.215 Sum_probs=36.1
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
+..|+++|.++. .++++|||+.+|++..=| +..|+..|+|...+
T Consensus 7 ~~~Il~~L~~~~---~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l~r~~ 53 (256)
T PRK10434 7 QAAILEYLQKQG---KTSVEELAQYFDTTGTTIRKDLVILEHAGTVIRTY 53 (256)
T ss_pred HHHHHHHHHHcC---CEEHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEE
Confidence 357888888765 799999999999998755 55688899988774
No 182
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=49.60 E-value=55 Score=30.98 Aligned_cols=54 Identities=15% Similarity=0.162 Sum_probs=37.9
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCc--EEEeeH
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEP--CIVINW 523 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~--~i~i~~ 523 (760)
||..|.... ..+|..+||+.+||++.-| +..|+..|+|.......+.. .|.++.
T Consensus 36 vL~~l~~~~--~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~ 94 (144)
T PRK03573 36 TLHNIHQLP--PEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTE 94 (144)
T ss_pred HHHHHHHcC--CCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEECh
Confidence 455555432 3588999999999998766 67788899999886444444 445554
No 183
>TIGR03585 PseH pseudaminic acid biosynthesis N-acetyl transferase. Sequences in this family are members of the pfam00583 (GNAT) superfamily of acetyltransferases and are proposed to perform a N-acetylation step in the process of pseudaminic acid biosynthesis in Campylobacter species. This gene is commonly observed in apparent operons with other genes responsible for the biosynthesis of pseudaminic acid and as a component of flagellar and exopolysaccharide biosynthesis loci. Significantly, many genomes containing other components of this pathway lack this gene, indicating that some other N-acetyl transferases may be incolved and/or the step is optional, resulting in a non-acetylated pseudaminic acid variant sugar.
Probab=49.11 E-value=21 Score=32.97 Aligned_cols=45 Identities=16% Similarity=0.216 Sum_probs=25.7
Q ss_pred eEEEEEEeCCCCceEEeeecccccCC--CCceeEEEEecCcccccccCccchh
Q psy6980 383 LFYVLTQNDDKGCHLVGYFSKEKHCQ--QKYNVSCIMTLPQYQRKGYGRFLID 433 (760)
Q Consensus 383 lFYVLte~D~~G~h~VGYFSKEK~s~--~~nNLSCIltLP~yQrkGyG~~LId 433 (760)
.+||+.+.+ .+|||.+=..... ....+.. .+.|.|| +|||+.++.
T Consensus 52 ~~~~~~~~g----~~vG~~~~~~~~~~~~~~~~g~-~~~~~~~-~G~g~~~~~ 98 (156)
T TIGR03585 52 RYWIVCQES----RPIGVISFTDINLVHKSAFWGI-YANPFCK-PGVGSVLEE 98 (156)
T ss_pred eEEEEEECC----EEEEEEEEEecChhhCeEEEEE-EeChhhh-cCchHHHHH
Confidence 456665422 5788766543221 1223443 3667777 999986653
No 184
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=49.09 E-value=34 Score=26.06 Aligned_cols=41 Identities=20% Similarity=0.321 Sum_probs=32.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.|+.+|.+.. .+++.+|++..+++..-| +..|+..|+|...
T Consensus 4 ~il~~l~~~~---~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 4 QILELLAQQG---KVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred HHHHHHHHcC---CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 5788887643 699999999999998777 5666777888765
No 185
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=48.98 E-value=29 Score=34.75 Aligned_cols=46 Identities=15% Similarity=0.197 Sum_probs=37.4
Q ss_pred HHHHHHHHhcc--CCcceeHHHHHHhhCCC-h---hHHHHHHHHcCceeeec
Q psy6980 466 SVLLEYLDTIR--NQKLICIDQMCADTGLY-H---HDVAETLELLGMLRTKH 511 (760)
Q Consensus 466 ~~Il~~L~~~~--~~~~isi~dIS~~TgI~-~---~DIi~tL~~l~~l~~~~ 511 (760)
..||++|.+.. ++...|+.+||+++|++ . ...+.+|+..|+|....
T Consensus 9 ~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~ 60 (199)
T TIGR00498 9 QEVLDLIRAHIESTGYPPSIREIARAVGLRSPSAAEEHLKALERKGYIERDP 60 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCC
Confidence 46888887642 35578999999999998 5 67799999999999873
No 186
>PF13730 HTH_36: Helix-turn-helix domain
Probab=48.38 E-value=34 Score=27.30 Aligned_cols=25 Identities=16% Similarity=0.317 Sum_probs=20.5
Q ss_pred ceeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 480 LICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
--|++.||+.+|++..-|..+|..|
T Consensus 25 ~pS~~~la~~~g~s~~Tv~~~i~~L 49 (55)
T PF13730_consen 25 FPSQETLAKDLGVSRRTVQRAIKEL 49 (55)
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHH
Confidence 3499999999999999987766554
No 187
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=48.23 E-value=39 Score=35.79 Aligned_cols=44 Identities=7% Similarity=0.203 Sum_probs=37.6
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
...|+++|.++. .+++.||++..+++..=| +..|++.|+|...+
T Consensus 7 ~~~Il~~l~~~~---~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~r~~ 53 (252)
T PRK10906 7 HDAIIELVKQQG---YVSTEELVEHFSVSPQTIRRDLNDLAEQNKILRHH 53 (252)
T ss_pred HHHHHHHHHHcC---CEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEec
Confidence 357899997655 899999999999999888 55899999998874
No 188
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=47.97 E-value=27 Score=30.57 Aligned_cols=35 Identities=14% Similarity=0.183 Sum_probs=27.2
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHH
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLEL 503 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~ 503 (760)
..|..+|... ..+|+.+|+++||++..|+..+|--
T Consensus 11 G~Vw~~L~~~---~~~s~~el~k~~~l~~~~~~~AiGW 45 (65)
T PF10771_consen 11 GKVWQLLNEN---GEWSVSELKKATGLSDKEVYLAIGW 45 (65)
T ss_dssp HHHHHHHCCS---SSEEHHHHHHHCT-SCHHHHHHHHH
T ss_pred HHHHHHHhhC---CCcCHHHHHHHhCcCHHHHHHHHHH
Confidence 4566777663 4899999999999999999888643
No 189
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=46.43 E-value=66 Score=34.95 Aligned_cols=63 Identities=13% Similarity=0.143 Sum_probs=43.1
Q ss_pred CCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhC--CChhH---HHHHHHHcCceeee
Q psy6980 446 GTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTG--LYHHD---VAETLELLGMLRTK 510 (760)
Q Consensus 446 GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~Tg--I~~~D---Ii~tL~~l~~l~~~ 510 (760)
..+.+-|..=- ..|.+=|...+++.|.... +..-++.+||+..+ |+.++ .+..|..+|+|+..
T Consensus 105 ~~~~~~L~~~~-~~y~~~W~~~virel~~~~-~~~~~~~~ia~~l~p~is~~ev~~sL~~L~~~glikk~ 172 (271)
T TIGR02147 105 RPRLRVLAADQ-FEYYRHWYNSVIRELLGVM-PFADDPEELAKRCFPKISAEQVKESLDLLERLGLIKKN 172 (271)
T ss_pred hchheeccHHH-HHHHHHHHHHHHHHHhhcC-CCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHCCCeeEC
Confidence 34555564433 4455556666666666555 24456889999999 88875 57788899999975
No 190
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=46.41 E-value=94 Score=24.76 Aligned_cols=30 Identities=17% Similarity=0.311 Sum_probs=24.5
Q ss_pred eeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 481 ICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 481 isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.|+.+||+.+|++..=| +..|+..|+|...
T Consensus 26 ~~~~~la~~~~is~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 26 PSERELAEELGVSRTTVREALRELEAEGLVERR 58 (66)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 45999999999987654 6777888998766
No 191
>KOG0383|consensus
Probab=45.91 E-value=15 Score=44.65 Aligned_cols=34 Identities=35% Similarity=0.808 Sum_probs=30.1
Q ss_pred CCCCccccccCCCCcCCCCCCCcccCCCCCCCCC
Q psy6980 146 ACNVYYHIICLQPPLERRLKVPWKCTSCESGTTE 179 (760)
Q Consensus 146 ~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~~~ 179 (760)
.|.|.||.-|++|-+..-|+++|.|+.|-....+
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~ 34 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQ 34 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccc
Confidence 4899999999999999999999999998766544
No 192
>PRK15130 spermidine N1-acetyltransferase; Provisional
Probab=45.60 E-value=24 Score=34.18 Aligned_cols=36 Identities=19% Similarity=0.231 Sum_probs=23.0
Q ss_pred eEEeeecccccCCC--CceeEEEEecCcccccccCccch
Q psy6980 396 HLVGYFSKEKHCQQ--KYNVSCIMTLPQYQRKGYGRFLI 432 (760)
Q Consensus 396 h~VGYFSKEK~s~~--~nNLSCIltLP~yQrkGyG~~LI 432 (760)
.+||+.+=-..... ...+ -+.+.|.||++|||+.|+
T Consensus 67 ~~iG~~~~~~~~~~~~~~~~-~~~v~~~~~g~G~g~~l~ 104 (186)
T PRK15130 67 EKAGLVELVEINHVHRRAEF-QIIISPEYQGKGLATRAA 104 (186)
T ss_pred EEEEEEEEEeecCCCCeEEE-EEEECHHHcCCCHHHHHH
Confidence 68898763111111 1223 388999999999997543
No 193
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=44.98 E-value=48 Score=30.82 Aligned_cols=41 Identities=20% Similarity=0.219 Sum_probs=32.8
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.||.+|.... .=....||..|+|..++| +..|+++|+|...
T Consensus 11 ~IL~hl~~~~---~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLler~ 54 (92)
T PF10007_consen 11 KILQHLKKAG---PDYAKSIARRLKIPLEEVREALEKLEEMGLLERV 54 (92)
T ss_pred HHHHHHHHHC---CCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEe
Confidence 5788887765 345578999999999887 5567889999998
No 194
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=44.77 E-value=45 Score=35.62 Aligned_cols=43 Identities=14% Similarity=0.158 Sum_probs=36.0
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
..|+++|..+. .+++.|||+.+|++..=| +..|++.|++...+
T Consensus 20 ~~Il~~L~~~~---~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~r~~ 65 (269)
T PRK09802 20 EQIIQRLRQQG---SVQVNDLSALYGVSTVTIRNDLAFLEKQGIAVRAY 65 (269)
T ss_pred HHHHHHHHHcC---CEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeEEEe
Confidence 46888888765 699999999999998866 56788999998874
No 195
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=44.55 E-value=5.4 Score=36.78 Aligned_cols=15 Identities=33% Similarity=0.671 Sum_probs=12.8
Q ss_pred ecCcccccccCccch
Q psy6980 418 TLPQYQRKGYGRFLI 432 (760)
Q Consensus 418 tLP~yQrkGyG~~LI 432 (760)
|||.||||||.+.++
T Consensus 27 TlPeyR~~G~~~~v~ 41 (89)
T PF08444_consen 27 TLPEYRGQGLMSQVM 41 (89)
T ss_pred cCHhHhcCCHHHHHH
Confidence 899999999987544
No 196
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=44.10 E-value=47 Score=36.67 Aligned_cols=49 Identities=12% Similarity=0.325 Sum_probs=37.7
Q ss_pred HHHHHHhh-HHHHHHHHHhccC--------------------------CcceeHHHHHHhhCCChhHHHHHHHHcC
Q psy6980 457 RVSYHAYW-KSVLLEYLDTIRN--------------------------QKLICIDQMCADTGLYHHDVAETLELLG 505 (760)
Q Consensus 457 ~~sY~sYW-~~~Il~~L~~~~~--------------------------~~~isi~dIS~~TgI~~~DIi~tL~~l~ 505 (760)
..+|-.|| +..|.++|.+... +..-|+++||..+||+.++|...+...+
T Consensus 139 FsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~~~~~l~~~~~~l~~~lgr~pt~~EiA~~lgi~~~~v~~~~~~~~ 214 (324)
T PRK07921 139 FSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELAEESGIPEEKIADLLEHSR 214 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCccCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHcC
Confidence 57899999 5788888865431 3456799999999999999998876543
No 197
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=43.96 E-value=53 Score=32.28 Aligned_cols=39 Identities=18% Similarity=0.204 Sum_probs=30.5
Q ss_pred ceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEee
Q psy6980 480 LICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVIN 522 (760)
Q Consensus 480 ~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~ 522 (760)
.+|.++||..+|++++=| +..|+..|+|... ++++++.+
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~~~----~~~i~i~~ 209 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLISAH----GKTIVVYG 209 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEec----CCEEEEec
Confidence 678899999999999876 5577888999876 55565554
No 198
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=43.39 E-value=36 Score=30.76 Aligned_cols=32 Identities=9% Similarity=0.117 Sum_probs=28.3
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHH
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETL 501 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL 501 (760)
..|+++|.. . .++|.|||+.+|++..=|-..|
T Consensus 9 ~~I~e~l~~-~---~~ti~dvA~~~gvS~~TVsr~L 40 (80)
T TIGR02844 9 LEIGKYIVE-T---KATVRETAKVFGVSKSTVHKDV 40 (80)
T ss_pred HHHHHHHHH-C---CCCHHHHHHHhCCCHHHHHHHh
Confidence 568888887 4 7999999999999999998877
No 199
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=43.32 E-value=52 Score=32.85 Aligned_cols=42 Identities=24% Similarity=0.311 Sum_probs=33.6
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
.|++.|.. .+..||+++|+.+|=.+..| ++||..+|+|.+.+
T Consensus 68 eLl~~Ia~---~~P~Si~ElAe~vgRdv~nvhr~Ls~l~~~GlI~fe~ 112 (144)
T COG4190 68 ELLELIAQ---EEPASINELAELVGRDVKNVHRTLSTLADLGLIFFEE 112 (144)
T ss_pred HHHHHHHh---cCcccHHHHHHHhCcchHHHHHHHHHHHhcCeEEEec
Confidence 34455554 45899999999999998877 77888999999985
No 200
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=42.87 E-value=49 Score=34.92 Aligned_cols=44 Identities=18% Similarity=0.383 Sum_probs=35.8
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
...|+++|.++. .+++++|++.+|++..=| +..|++.|+|...+
T Consensus 7 ~~~Il~~l~~~~---~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~r~~ 53 (251)
T PRK13509 7 HQILLELLAQLG---FVTVEKVIERLGISPATARRDINKLDESGKLKKVR 53 (251)
T ss_pred HHHHHHHHHHcC---CcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEec
Confidence 356888888755 899999999999998766 56677889998874
No 201
>KOG1512|consensus
Probab=42.67 E-value=8.8 Score=42.17 Aligned_cols=42 Identities=29% Similarity=0.445 Sum_probs=30.7
Q ss_pred cccEEecCCCCCccccccCCCCcCCC---CCCCcccCCCCCCCCC
Q psy6980 138 EVCLIKCCACNVYYHIICLQPPLERR---LKVPWKCTSCESGTTE 179 (760)
Q Consensus 138 e~cmLfCD~CDrgyH~~CL~PpL~~i---P~G~W~C~~C~~~~~~ 179 (760)
...|+.|..|..+||.+|+.=+..-+ -...|.|..|.-+.--
T Consensus 276 ~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC 320 (381)
T KOG1512|consen 276 RNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRIC 320 (381)
T ss_pred hccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhcc
Confidence 33489999999999999996543222 2348999988766544
No 202
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=41.06 E-value=15 Score=28.45 Aligned_cols=34 Identities=29% Similarity=0.378 Sum_probs=21.3
Q ss_pred cCCCChhhhcCCCcEeeecccccccCCH----HHHHHHH-hhC
Q psy6980 292 YSSPFPQEYARLPKLFLCEFCLKYTKSK----AVLERHR-DKC 329 (760)
Q Consensus 292 Y~SPyP~ey~~~~~LyiCE~ClkY~~s~----~~l~rH~-~kC 329 (760)
||...+ .......|-+|.+-++.. ..|.+|+ .+|
T Consensus 6 ~F~~~~----~~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 6 HFTKIP----GDKKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CCEE------GCSS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cEEEcc----CCcCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 555544 456788999999988765 8999999 555
No 203
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=40.43 E-value=1.3e+02 Score=31.05 Aligned_cols=37 Identities=22% Similarity=0.250 Sum_probs=30.6
Q ss_pred HHHHHHHhccCCcc-eeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 467 VLLEYLDTIRNQKL-ICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 467 ~Il~~L~~~~~~~~-isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
.+++.+.-.. +.+ ||+++|++.+++...+|...|+.|
T Consensus 7 ~~iEA~LF~s-g~pgls~~~La~~l~~~~~~v~~~l~~L 44 (188)
T PRK00135 7 SIIEALLFVS-GEEGLSLEQLAEILELEPTEVQQLLEEL 44 (188)
T ss_pred HHHHHHHHHc-CCCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 5677776655 455 999999999999999998888887
No 204
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=40.30 E-value=70 Score=34.18 Aligned_cols=64 Identities=20% Similarity=0.243 Sum_probs=47.1
Q ss_pred CChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCC---hhHHHHHHHHcCceeeecCCCCCcEEEeeH
Q psy6980 452 LSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLY---HHDVAETLELLGMLRTKHGDSSEPCIVINW 523 (760)
Q Consensus 452 LSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~---~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~ 523 (760)
|.+||+-.|-+ .+.-+|..+. ..|-.+||+.+||. ..||+.-|+..|++.-..+. -..+-.+++
T Consensus 9 L~~lGlt~yEa----~vY~aLl~~g---~~tA~eis~~sgvP~~kvY~vl~sLe~kG~v~~~~g~-P~~y~av~p 75 (247)
T COG1378 9 LQKLGLTEYEA----KVYLALLCLG---EATAKEISEASGVPRPKVYDVLRSLEKKGLVEVIEGR-PKKYRAVPP 75 (247)
T ss_pred HHHcCCCHHHH----HHHHHHHHhC---CccHHHHHHHcCCCchhHHHHHHHHHHCCCEEeeCCC-CceEEeCCH
Confidence 67788877754 4555666554 78999999999996 57999999999999988432 223455665
No 205
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=39.69 E-value=24 Score=24.07 Aligned_cols=21 Identities=33% Similarity=0.649 Sum_probs=15.7
Q ss_pred eeecccccccCCHHHHHHHHhh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRDK 328 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~k 328 (760)
|.|.+|-.-.+ ...|.+|+..
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 78999995555 9999999864
No 206
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=39.65 E-value=40 Score=28.08 Aligned_cols=38 Identities=18% Similarity=0.269 Sum_probs=31.7
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
-.|+++|.. . ..+++++||+.+|++.-=|..-+.+++-
T Consensus 8 ~~Ll~~L~~-~--~~~~~~ela~~l~~S~rti~~~i~~L~~ 45 (59)
T PF08280_consen 8 LKLLELLLK-N--KWITLKELAKKLNISERTIKNDINELNE 45 (59)
T ss_dssp HHHHHHHHH-H--TSBBHHHHHHHCTS-HHHHHHHHHHHHT
T ss_pred HHHHHHHHc-C--CCCcHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 368889988 3 4899999999999999999988888873
No 207
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=39.37 E-value=99 Score=29.61 Aligned_cols=41 Identities=7% Similarity=0.101 Sum_probs=30.4
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHH---HHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAE---TLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~---tL~~l~~l~~~ 510 (760)
.|..++.. ...+++++||+..+|++.-|.. .|+..|+|.+.
T Consensus 12 ~I~~l~~~---~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~ 55 (142)
T PRK03902 12 QIYLLIEE---KGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYE 55 (142)
T ss_pred HHHHHHhc---CCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEe
Confidence 34444443 3478999999999998887754 55888999876
No 208
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=39.23 E-value=11 Score=33.18 Aligned_cols=36 Identities=11% Similarity=0.271 Sum_probs=28.9
Q ss_pred CceeEEEEecCcccccccCccchhhhhhhhcccCCC
Q psy6980 410 KYNVSCIMTLPQYQRKGYGRFLIDFSYLLSKKEGQR 445 (760)
Q Consensus 410 ~nNLSCIltLP~yQrkGyG~~LIdfSY~LSr~Eg~~ 445 (760)
...+-=..|-|.||++|+|+.|++.....++.+|..
T Consensus 22 ~~~i~hT~V~~~~rGqGia~~L~~~~l~~a~~~~~k 57 (78)
T PF14542_consen 22 VIVITHTEVPPELRGQGIAKKLVEAALDYARENGLK 57 (78)
T ss_dssp EEEEEEEEE-CSSSTTTHHHHHHHHHHHHHHHTT-E
T ss_pred EEEEEEEEECccccCCcHHHHHHHHHHHHHHHCCCE
Confidence 355666777899999999999999999999988763
No 209
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=38.90 E-value=64 Score=34.26 Aligned_cols=46 Identities=15% Similarity=0.122 Sum_probs=35.4
Q ss_pred HHHHHhh-HHHHHHHHHhccC--------------------------CcceeHHHHHHhhCCChhHHHHHHHH
Q psy6980 458 VSYHAYW-KSVLLEYLDTIRN--------------------------QKLICIDQMCADTGLYHHDVAETLEL 503 (760)
Q Consensus 458 ~sY~sYW-~~~Il~~L~~~~~--------------------------~~~isi~dIS~~TgI~~~DIi~tL~~ 503 (760)
.+|..+| +..|+.+|.+... +...|+++||+.+||+.++|...+..
T Consensus 94 sTYA~~~Irg~I~~~lr~~~~~ir~Pr~~~~~~~~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~~ 166 (264)
T PRK07122 94 VSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVA 166 (264)
T ss_pred HHHHHHHHHHHHHHHHHHcCCccccCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 5777777 4778888876421 34567899999999999999988865
No 210
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=38.76 E-value=72 Score=27.82 Aligned_cols=45 Identities=20% Similarity=0.245 Sum_probs=37.2
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeec
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~ 511 (760)
..||+.+...+ ...++-.||++.+|+++..| +..|+.+|+|....
T Consensus 5 ~~~Le~I~rsR-~~Gi~q~~L~~~~~~D~r~i~~~~k~L~~~gLI~k~~ 52 (75)
T PF04182_consen 5 YCLLERIARSR-YNGITQSDLSKLLGIDPRSIFYRLKKLEKKGLIVKQS 52 (75)
T ss_pred HHHHHHHHhcC-CCCEehhHHHHHhCCCchHHHHHHHHHHHCCCEEEEE
Confidence 36788888776 67899999999999999987 56778888988763
No 211
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=38.69 E-value=92 Score=31.66 Aligned_cols=41 Identities=20% Similarity=0.247 Sum_probs=34.2
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.|+.+|.++. .+++.+||+.+|+++.-| +..|+..|+|...
T Consensus 147 ~IL~~l~~~g---~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~ 190 (203)
T TIGR01884 147 KVLEVLKAEG---EKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQK 190 (203)
T ss_pred HHHHHHHHcC---CcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 6888887654 699999999999997665 6777788999987
No 212
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=38.47 E-value=1.4e+02 Score=29.97 Aligned_cols=54 Identities=19% Similarity=0.161 Sum_probs=37.2
Q ss_pred cCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHHHH
Q psy6980 476 RNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDAHM 530 (760)
Q Consensus 476 ~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~ 530 (760)
..+..|+-.+||+..|++..=| +..|+..|+|...+ +.|-.+..++.+.+.+..
T Consensus 30 ~pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~~~-~~G~~V~~~~~~~~~ei~ 86 (212)
T TIGR03338 30 PPGAKLNESDIAARLGVSRGPVREAFRALEEAGLVRNEK-NRGVFVREISLAEADEIY 86 (212)
T ss_pred CCCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEEec-CCCeEEecCCHHHHHHHH
Confidence 4577899999999999997655 77778889999883 223233344555554443
No 213
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=38.39 E-value=87 Score=28.47 Aligned_cols=43 Identities=16% Similarity=0.120 Sum_probs=32.5
Q ss_pred CcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeH
Q psy6980 478 QKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINW 523 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~ 523 (760)
...+|..+||+.+|++.+=| +..|+..|+|.... +...+.||.
T Consensus 45 ~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r~~---~~~~~~~n~ 90 (95)
T TIGR01610 45 QDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFRQG---MMGIVGVNT 90 (95)
T ss_pred CCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeec---CCceeecCC
Confidence 46899999999999998765 77888899998762 223455554
No 214
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=37.58 E-value=32 Score=35.91 Aligned_cols=43 Identities=9% Similarity=-0.035 Sum_probs=36.6
Q ss_pred HHHHHHHHhccCC-cceeHHHHHHhhCCChhHHHHHHHHcCcee
Q psy6980 466 SVLLEYLDTIRNQ-KLICIDQMCADTGLYHHDVAETLELLGMLR 508 (760)
Q Consensus 466 ~~Il~~L~~~~~~-~~isi~dIS~~TgI~~~DIi~tL~~l~~l~ 508 (760)
..|++|+.++... ..+||.+||+++|+++.=|+...+.||+=-
T Consensus 19 ~~Ia~yil~n~~~v~~~si~~lA~~~~vS~aTv~Rf~kklG~~g 62 (284)
T PRK11302 19 RKVAEVILASPQTAIHSSIATLAKMANVSEPTVNRFCRSLDTKG 62 (284)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHcCCCC
Confidence 4688999887632 368999999999999999999999999843
No 215
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=36.98 E-value=1.2e+02 Score=30.06 Aligned_cols=73 Identities=23% Similarity=0.276 Sum_probs=48.1
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHHH---HHHHHcCceeeecCCCCCcEEEeeHHHHHHHHHHHHhCCCcce
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVA---ETLELLGMLRTKHGDSSEPCIVINWAIVDAHMKRLEQSKTRIK 541 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi---~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~~~~~~~~ 541 (760)
+..|++++.++. .+||++++..||.+.+-|= .-|-.-|-|... |..-|..+......|.++.+ ..
T Consensus 14 k~rIvElVRe~G---RiTi~ql~~~TGasR~Tvk~~lreLVa~G~l~~~----G~~GvF~seqA~~dw~~~~~-----~~ 81 (127)
T PF06163_consen 14 KARIVELVREHG---RITIKQLVAKTGASRNTVKRYLRELVARGDLYRH----GRSGVFPSEQARKDWDKARK-----KL 81 (127)
T ss_pred HHHHHHHHHHcC---CccHHHHHHHHCCCHHHHHHHHHHHHHcCCeEeC----CCccccccHHHHHHHHHhHH-----hh
Confidence 457888888775 8999999999999987764 444455666655 33245666655555544322 22
Q ss_pred ecCCCCeEe
Q psy6980 542 IDPECLRWT 550 (760)
Q Consensus 542 idp~~L~W~ 550 (760)
+||+ |.|.
T Consensus 82 ~~~~-~~~~ 89 (127)
T PF06163_consen 82 VDPD-LIWK 89 (127)
T ss_pred ccch-hhhh
Confidence 7775 4555
No 216
>PHA00616 hypothetical protein
Probab=36.74 E-value=17 Score=29.74 Aligned_cols=22 Identities=18% Similarity=0.232 Sum_probs=20.7
Q ss_pred eeecccccccCCHHHHHHHHhh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRDK 328 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~k 328 (760)
|.|..|.+-|....+|.+|+.+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~ 23 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLS 23 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHH
Confidence 7899999999999999999965
No 217
>TIGR01714 phage_rep_org_N phage replisome organizer, putative, N-terminal region. This model represents the N-terminal domain of a small family of phage proteins. The protein contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The region covered by this model is N-terminal to the low-complexity region.
Probab=36.46 E-value=98 Score=30.05 Aligned_cols=65 Identities=20% Similarity=0.276 Sum_probs=47.0
Q ss_pred HHHHHHhhHHHHHHHHHhc-----cCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 457 RVSYHAYWKSVLLEYLDTI-----RNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 457 ~~sY~sYW~~~Il~~L~~~-----~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
...|.-.|-.-++..+... .+.-+.+.+.||..|+-..++| +.+|+.+|||... .++.+.+.+|+
T Consensus 23 Gd~~~~I~lkLll~s~n~~G~L~~~~~ipy~~e~LA~~~~~~~~~V~~Al~~f~k~glIe~~---d~g~i~i~~~~ 95 (119)
T TIGR01714 23 GDTHTIIWLKLLLLSLNDGGCIYLNELAPYNAEMLATMFNRNVGDIRITLQTLESLGLIEKK---NNGDIFLENWE 95 (119)
T ss_pred CcEeHHHHHHHHHHHhcCCCEEEEcCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe---cCCcEEehhHH
Confidence 3467778888777774331 1235779999999999999999 5667789999988 24555555654
No 218
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=36.42 E-value=99 Score=22.99 Aligned_cols=47 Identities=6% Similarity=0.027 Sum_probs=31.7
Q ss_pred eeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHH
Q psy6980 481 ICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHM 530 (760)
Q Consensus 481 isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~ 530 (760)
+|+.++|+.+||+..-|..-.++ |.+.... .++....++.+.|.+++
T Consensus 1 ~s~~e~a~~lgvs~~tl~~~~~~-g~~~~~~--~~~~~~~~~~~ei~~~~ 47 (49)
T cd04762 1 LTTKEAAELLGVSPSTLRRWVKE-GKLKAIR--TPGGHRRFPEEDLERLL 47 (49)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHc-CCCCcee--CCCCceecCHHHHHHHH
Confidence 47899999999999888765554 5554332 22344567777776654
No 219
>KOG3138|consensus
Probab=35.45 E-value=10 Score=39.23 Aligned_cols=20 Identities=40% Similarity=0.828 Sum_probs=16.8
Q ss_pred EEecCcccccccCccchhhh
Q psy6980 416 IMTLPQYQRKGYGRFLIDFS 435 (760)
Q Consensus 416 IltLP~yQrkGyG~~LIdfS 435 (760)
+-|||+||++|+|.+||++-
T Consensus 95 Lgvl~~yR~~gIGs~Ll~~~ 114 (187)
T KOG3138|consen 95 LGVLPRYRNKGIGSKLLEFV 114 (187)
T ss_pred ecccHHHHhcchHHHHHHHH
Confidence 44789999999999888763
No 220
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=34.81 E-value=29 Score=30.43 Aligned_cols=40 Identities=23% Similarity=0.316 Sum_probs=28.1
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCce
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGML 507 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~l 507 (760)
.+.+||.+.. .......+.+..|..+..||..+|+.+|+.
T Consensus 35 i~~~yl~~l~-~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 35 ILQSYIQELG-RTAHSYAELAGRTEPNLGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHHHHH-HHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence 3444444433 234455677788899999999999999983
No 221
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=33.61 E-value=1.3e+02 Score=26.31 Aligned_cols=54 Identities=17% Similarity=0.167 Sum_probs=37.0
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCc--EEEeeH
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEP--CIVINW 523 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~--~i~i~~ 523 (760)
.|+.+|.... .++..+|++.++|++.-| +..|+..|+|.......+.. ++.++.
T Consensus 26 ~~L~~l~~~~---~~~~~~la~~l~i~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~ 84 (126)
T COG1846 26 QVLLALYEAG---GITVKELAERLGLDRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTE 84 (126)
T ss_pred HHHHHHHHhC---CCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeeecCCccccceeeEEECc
Confidence 4666666655 233399999999998876 66778889999886544443 344443
No 222
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=33.10 E-value=1e+02 Score=29.53 Aligned_cols=43 Identities=12% Similarity=0.074 Sum_probs=27.2
Q ss_pred CcceeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEEEeeHH
Q psy6980 478 QKLICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCIVINWA 524 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~ 524 (760)
-..|++.++++.+|+..+++..-++..|+.... ++.++..+++
T Consensus 95 Y~sIs~~~la~~Lg~~~~el~~~~~~~gW~~d~----~~~~~~~~~~ 137 (143)
T PF10075_consen 95 YSSISLSDLAEMLGLSEEELEKFIKSRGWTVDG----DGVLFPPNPE 137 (143)
T ss_dssp -SEE-HHHHHHHTTS-HHHHHHHHHHHT-EE---------EE---HH
T ss_pred HhHcCHHHHHHHhCCCHHHHHHHHHHcCCEECC----CccEEecCCc
Confidence 358999999999999999999999999997653 4444444444
No 223
>PRK10809 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional
Probab=32.82 E-value=46 Score=32.51 Aligned_cols=36 Identities=8% Similarity=0.068 Sum_probs=23.0
Q ss_pred eEEeeecccccCC---CCceeEEEEecCcccccccCccch
Q psy6980 396 HLVGYFSKEKHCQ---QKYNVSCIMTLPQYQRKGYGRFLI 432 (760)
Q Consensus 396 h~VGYFSKEK~s~---~~nNLSCIltLP~yQrkGyG~~LI 432 (760)
.+||+.+=-.... ....+. +.+-|.||++|||+.++
T Consensus 87 ~~iG~i~l~~~~~~~~~~~eig-~~i~~~~~G~G~~~ea~ 125 (194)
T PRK10809 87 EIIGVANFSNVVRGSFHACYLG-YSLGQKWQGQGLMFEAL 125 (194)
T ss_pred eEEEEEEEEeecCCCeeeEEEE-EEECHHHcCCCHHHHHH
Confidence 6898877432221 112333 45689999999998665
No 224
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=32.75 E-value=1.2e+02 Score=31.24 Aligned_cols=49 Identities=16% Similarity=0.184 Sum_probs=37.5
Q ss_pred cceeHHHHHHhhCCChhHHHHHHHHcCceeeecC--CCCCcEE-EeeHHHHH
Q psy6980 479 KLICIDQMCADTGLYHHDVAETLELLGMLRTKHG--DSSEPCI-VINWAIVD 527 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~--~~~~~~i-~i~~~~i~ 527 (760)
++||-.+|.+.-|...+.+|.+|+.+|+|+...- ..|..++ .++.+.++
T Consensus 105 QPiTR~eI~~iRGv~~~~~i~~L~e~glI~~~g~~~~~Grp~ly~tT~~Fl~ 156 (184)
T COG1386 105 QPVTRSEIEEIRGVAVSQVISTLLERGLIREVGRRDTPGRPYLYGTTEKFLD 156 (184)
T ss_pred CCccHHHHHHHhCccHHHHHHHHHHCCCeEecCCCCCCCCceeeeccHHHHH
Confidence 4799999999999999999999999999998831 1333344 44455544
No 225
>TIGR01211 ELP3 histone acetyltransferase, ELP3 family. The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases.
Probab=32.70 E-value=40 Score=39.77 Aligned_cols=26 Identities=31% Similarity=0.597 Sum_probs=22.6
Q ss_pred cCcccccccCccchhhhhhhhcccCC
Q psy6980 419 LPQYQRKGYGRFLIDFSYLLSKKEGQ 444 (760)
Q Consensus 419 LP~yQrkGyG~~LIdfSY~LSr~Eg~ 444 (760)
-|.||++|||+.||+..-.+++.+|.
T Consensus 466 ~~~~rg~GiG~~Ll~~ae~~Ar~~G~ 491 (522)
T TIGR01211 466 DDEWQHRGYGRRLLEEAERIAAEEGS 491 (522)
T ss_pred ChhHhCcCHHHHHHHHHHHHHHHCCC
Confidence 38999999999999999888887654
No 226
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=32.53 E-value=77 Score=26.96 Aligned_cols=30 Identities=13% Similarity=0.134 Sum_probs=23.5
Q ss_pred CcceeHHHHHHhhCCChhHHHHHHHHcCce
Q psy6980 478 QKLICIDQMCADTGLYHHDVAETLELLGML 507 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~tL~~l~~l 507 (760)
+..-|..+||+.+||+.++|-.+|+..+-.
T Consensus 18 gr~Pt~eEiA~~lgis~~~v~~~l~~~~~~ 47 (78)
T PF04539_consen 18 GREPTDEEIAEELGISVEEVRELLQASRRP 47 (78)
T ss_dssp SS--BHHHHHHHHTS-HHHHHHHHHHHSCC
T ss_pred CCCCCHHHHHHHHcccHHHHHHHHHhCCCC
Confidence 468999999999999999999999876543
No 227
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=32.12 E-value=65 Score=32.73 Aligned_cols=43 Identities=19% Similarity=0.239 Sum_probs=34.7
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHHH---HHHHHcCceeee
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVA---ETLELLGMLRTK 510 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi---~tL~~l~~l~~~ 510 (760)
+..|+.+|.... .+|+.+|++.+||++.=|- ..|+..|+|...
T Consensus 3 r~~IL~~L~~~~---~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 3 KEDILSYLLKQG---QATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHHHcC---CCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 467889888754 5999999999999998875 555667999876
No 228
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=31.34 E-value=1.6e+02 Score=29.65 Aligned_cols=57 Identities=14% Similarity=0.177 Sum_probs=39.3
Q ss_pred HHHHHHHHhccC---CcceeHHHHHHhhCCChhHHHHH---HHHcCceeeecCCCCCcEEEeeHHHH
Q psy6980 466 SVLLEYLDTIRN---QKLICIDQMCADTGLYHHDVAET---LELLGMLRTKHGDSSEPCIVINWAIV 526 (760)
Q Consensus 466 ~~Il~~L~~~~~---~~~isi~dIS~~TgI~~~DIi~t---L~~l~~l~~~~~~~~~~~i~i~~~~i 526 (760)
..|+.||.++-+ .-..|.++||+.+||+..=|..+ |+..++|... ....+.||++++
T Consensus 58 ~~Vl~~il~~~d~~N~v~~t~~~ia~~l~iS~~Tv~r~ik~L~e~~iI~k~----~~G~Y~iNP~~~ 120 (165)
T PF05732_consen 58 FRVLMYILENMDKDNAVVATQKEIAEKLGISKPTVSRAIKELEEKNIIKKI----RNGAYMINPNFF 120 (165)
T ss_pred HHHHHHHHHhcCCCCeEEeeHHHHHHHhCCCHHHHHHHHHHHHhCCcEEEc----cCCeEEECcHHh
Confidence 467777776542 23578999999999998887555 5666888776 222556666543
No 229
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=31.14 E-value=31 Score=26.80 Aligned_cols=29 Identities=31% Similarity=0.505 Sum_probs=22.3
Q ss_pred EecCCCCCccccccCCCCcCCCCCCCcccCCCCCC
Q psy6980 142 IKCCACNVYYHIICLQPPLERRLKVPWKCTSCESG 176 (760)
Q Consensus 142 LfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~ 176 (760)
..|-.|.+.||+.-. .|.-...|..|-..
T Consensus 2 r~C~~Cg~~Yh~~~~------pP~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 2 RICPKCGRIYHIEFN------PPKVEGVCDNCGGE 30 (36)
T ss_dssp EEETTTTEEEETTTB--------SSTTBCTTTTEB
T ss_pred cCcCCCCCccccccC------CCCCCCccCCCCCe
Confidence 479999999998876 35778899998653
No 230
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=30.55 E-value=38 Score=29.42 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=21.9
Q ss_pred eHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 482 CIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 482 si~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
...+.+..|..+..||..+|++||+
T Consensus 49 ~~ae~~gRt~~~~~Dv~~al~~~gi 73 (77)
T PF07524_consen 49 RYAEHAGRTEPNLQDVEQALEEMGI 73 (77)
T ss_pred HHHHHcCCCCCCHHHHHHHHHHhCC
Confidence 3457788899999999999999998
No 231
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=30.52 E-value=1.9e+02 Score=23.93 Aligned_cols=35 Identities=14% Similarity=0.250 Sum_probs=26.6
Q ss_pred cCCcce-eHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 476 RNQKLI-CIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 476 ~~~~~i-si~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
..+..+ |..+|++..|++..=| +..|+..|+|...
T Consensus 19 ~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 19 PPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp -TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEEE
Confidence 346789 9999999999997655 6667788999887
No 232
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=30.44 E-value=85 Score=29.66 Aligned_cols=42 Identities=7% Similarity=0.236 Sum_probs=33.5
Q ss_pred hHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHc-Cc
Q psy6980 464 WKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELL-GM 506 (760)
Q Consensus 464 W~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l-~~ 506 (760)
.-..|+++|..+- ...+||++||+..||++.-+...++.. |+
T Consensus 10 ~i~~~~~~I~~~~-~~~~sl~~lA~~~g~S~~~l~r~Fk~~~G~ 52 (127)
T PRK11511 10 TIHSILDWIEDNL-ESPLSLEKVSERSGYSKWHLQRMFKKETGH 52 (127)
T ss_pred HHHHHHHHHHHhc-CCCCCHHHHHHHHCcCHHHHHHHHHHHHCc
Confidence 3457889998887 467999999999999998887777654 54
No 233
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=30.26 E-value=1e+02 Score=34.85 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=34.7
Q ss_pred HHHHHHHh-ccCCcceeHHHHHHhhCCChh---HHHHHHHHcCceeee
Q psy6980 467 VLLEYLDT-IRNQKLICIDQMCADTGLYHH---DVAETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~-~~~~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~ 510 (760)
.|+..+.+ +..++.+|..+|++.+++.++ ||+..|++.|+|...
T Consensus 296 ~iL~~l~~~~~~g~~~t~~~La~~l~~~~~~v~~iL~~L~~agLI~~~ 343 (412)
T PRK04214 296 RLLGRLDQARKHGKALDVDEIRRLEPMGYDELGELLCELARIGLLRRG 343 (412)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCeEec
Confidence 35555542 334679999999999999987 889999999999854
No 234
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=29.57 E-value=73 Score=33.87 Aligned_cols=43 Identities=21% Similarity=0.379 Sum_probs=34.7
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHH---HHHHcCceeee
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAE---TLELLGMLRTK 510 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~---tL~~l~~l~~~ 510 (760)
+.+|+.+|.++. ++|+.|||+..||++.-|-. -|+..|++...
T Consensus 13 r~~il~lL~~~g---~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~~ 58 (218)
T COG2345 13 RERILELLKKSG---PVSADELAEELGISPMAVRRHLDDLEAEGLVEVE 58 (218)
T ss_pred HHHHHHHHhccC---CccHHHHHHHhCCCHHHHHHHHHHHHhCcceeee
Confidence 568888888766 89999999999999999954 55566777654
No 235
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=29.48 E-value=1.8e+02 Score=29.58 Aligned_cols=54 Identities=4% Similarity=-0.052 Sum_probs=36.7
Q ss_pred cCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeHHHHHHHH
Q psy6980 476 RNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINWAIVDAHM 530 (760)
Q Consensus 476 ~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~ 530 (760)
..+..|+..+||+..|++..=| +..|+..|+|...+ +.|-.+..++.+.+.+.+
T Consensus 26 ~pG~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~~~-~~G~~V~~~~~~~~~ei~ 82 (224)
T PRK11534 26 QPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVN-QKGYRVASMSEQELLDIF 82 (224)
T ss_pred CCCCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEEeC-CCceEeCCCCHHHHHHHH
Confidence 3477899999999999997655 66677889999873 323233334555444443
No 236
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=29.26 E-value=99 Score=33.89 Aligned_cols=28 Identities=21% Similarity=0.229 Sum_probs=23.2
Q ss_pred CcceeHHHHHHhhCCChhHHHHHHHHcC
Q psy6980 478 QKLICIDQMCADTGLYHHDVAETLELLG 505 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~tL~~l~ 505 (760)
+..-|+.+||+.+||+.++|...++...
T Consensus 182 gr~pt~~eiA~~~~~~~~~v~~~~~~~~ 209 (317)
T PRK07405 182 GRAATIGELAEELELTPKQVREYLERAR 209 (317)
T ss_pred CCCCCHHHHHHHhCcCHHHHHHHHHHcC
Confidence 3466899999999999999999887543
No 237
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=29.03 E-value=96 Score=27.91 Aligned_cols=40 Identities=15% Similarity=0.243 Sum_probs=30.2
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHH---cCceee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLEL---LGMLRT 509 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~---l~~l~~ 509 (760)
..|+..|... -+|+++|.+.|||+...+...|.. -|+|..
T Consensus 8 ~~IL~~ls~~----c~TLeeL~ekTgi~k~~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 8 QKILIILSKR----CCTLEELEEKTGISKNTLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHHHHhc----cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeee
Confidence 3455555543 699999999999999999777655 477654
No 238
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=28.67 E-value=54 Score=34.67 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=35.9
Q ss_pred HHHHHHHHhccC-CcceeHHHHHHhhCCChhHHHHHHHHcCce
Q psy6980 466 SVLLEYLDTIRN-QKLICIDQMCADTGLYHHDVAETLELLGML 507 (760)
Q Consensus 466 ~~Il~~L~~~~~-~~~isi~dIS~~TgI~~~DIi~tL~~l~~l 507 (760)
..|++|+.++.+ -...||.+||+.+|+++.=|+...+.||+=
T Consensus 31 ~~Ia~yil~~~~~v~~~si~~lA~~~~vS~aTi~Rf~kkLGf~ 73 (292)
T PRK11337 31 SRVVEWLLKPGDLSEATALKDIAEALAVSEAMIVKVAKKLGFS 73 (292)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCChHHHHHHHHHcCCC
Confidence 468899988753 236899999999999999999999999983
No 239
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=28.41 E-value=42 Score=28.90 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=21.2
Q ss_pred EeeecccccccCCHHHHHHHHhhC
Q psy6980 306 LFLCEFCLKYTKSKAVLERHRDKC 329 (760)
Q Consensus 306 LyiCE~ClkY~~s~~~l~rH~~kC 329 (760)
-+.|.+|.+-|.+...|..|+..=
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 699999999999999999999753
No 240
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=27.85 E-value=1.2e+02 Score=27.68 Aligned_cols=33 Identities=18% Similarity=0.177 Sum_probs=31.0
Q ss_pred CcceeHHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 478 QKLICIDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
+..++|.++|+..||.+.+...-|...|+|...
T Consensus 22 ~~~~ti~~~AK~L~i~~~~l~~~Lr~~g~l~~~ 54 (111)
T PF03374_consen 22 DGLYTIREAAKLLGIGRNKLFQWLREKGWLYRR 54 (111)
T ss_pred CCCccHHHHHHHhCCCHHHHHHHHHhCCceEEC
Confidence 468999999999999999999999999999984
No 241
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=27.69 E-value=1.5e+02 Score=27.03 Aligned_cols=40 Identities=15% Similarity=0.197 Sum_probs=30.7
Q ss_pred CcceeHHHHHHhhCCChh---HHHHHHHHcCceeeecCCCCCc
Q psy6980 478 QKLICIDQMCADTGLYHH---DVAETLELLGMLRTKHGDSSEP 517 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~---DIi~tL~~l~~l~~~~~~~~~~ 517 (760)
+.+|.=++|++..++++. .++..|+.||+|...+...+|+
T Consensus 21 ~~PVgSk~ia~~l~~s~aTIRN~M~~Le~lGlve~~p~~s~Gr 63 (78)
T PF03444_consen 21 GEPVGSKTIAEELGRSPATIRNEMADLEELGLVESQPHPSGGR 63 (78)
T ss_pred CCCcCHHHHHHHHCCChHHHHHHHHHHHHCCCccCCCCCCCCC
Confidence 568999999999999876 4589999999997653333444
No 242
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=27.12 E-value=2e+02 Score=29.14 Aligned_cols=44 Identities=9% Similarity=0.105 Sum_probs=31.9
Q ss_pred eeHHHHHHhhCCChhHHHH---HHHHcCceeeecCCCCCcEEEeeHHHHHHH
Q psy6980 481 ICIDQMCADTGLYHHDVAE---TLELLGMLRTKHGDSSEPCIVINWAIVDAH 529 (760)
Q Consensus 481 isi~dIS~~TgI~~~DIi~---tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~ 529 (760)
+|-++||...||+.+-|-. .|+..|+ ... ++.+.++|.+.+.+.
T Consensus 174 ~t~~~iA~~lG~tretvsR~l~~L~~~gl-~~~----~~~i~I~d~~~L~~~ 220 (236)
T PRK09392 174 YEKRVLASYLGMTPENLSRAFAALASHGV-HVD----GSAVTITDPAGLARF 220 (236)
T ss_pred CCHHHHHHHhCCChhHHHHHHHHHHhCCe-Eee----CCEEEEcCHHHHHHh
Confidence 3457999999999998755 5566785 433 556778888887654
No 243
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=26.80 E-value=1.4e+02 Score=31.09 Aligned_cols=44 Identities=14% Similarity=0.211 Sum_probs=35.6
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.+.|+.+|..+. ..++-.+||++.||....| +..|+..++|...
T Consensus 6 ~~~i~~~l~~~~--~~~~a~~i~k~l~i~k~~vNr~LY~L~~~~~v~~~ 52 (183)
T PHA02701 6 ASLILTLLSSSG--DKLPAKRIAKELGISKHEANRCLYRLLESDAVSCE 52 (183)
T ss_pred HHHHHHHHHhcC--CCCcHHHHHHHhCccHHHHHHHHHHHhhcCcEecC
Confidence 467999999654 3499999999999999998 6677777887666
No 244
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=26.79 E-value=3.1e+02 Score=29.10 Aligned_cols=73 Identities=15% Similarity=0.073 Sum_probs=46.5
Q ss_pred CcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCCCCCcEEEeeH---HHHHHHHHHHHhCCCcceecCCCCeEec
Q psy6980 478 QKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGDSSEPCIVINW---AIVDAHMKRLEQSKTRIKIDPECLRWTP 551 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~~~~~~i~i~~---~~i~~~~~~~~~~~~~~~idp~~L~W~P 551 (760)
...||..+||+.+++++.-+ +..|+..|+|..... ..++.+.++. +.++.....+.. +.-.+..+.+.=
T Consensus 19 ~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~-~r~~~v~LTekG~~ll~~~~~d~~~----if~~~~ei~l~G 93 (217)
T PRK14165 19 TVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIV-PRGQLITITEKGLDVLYNEYADYSR----IFSIKDNLELEG 93 (217)
T ss_pred CCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEc-CCceEEEECHHHHHHHHHHHHHHHH----Hhcccccceehh
Confidence 45799999999999998766 666778899988743 3556777765 344444433321 112245566655
Q ss_pred Cccc
Q psy6980 552 LVSH 555 (760)
Q Consensus 552 ~~~~ 555 (760)
.+++
T Consensus 94 ~v~s 97 (217)
T PRK14165 94 NVVK 97 (217)
T ss_pred hhhh
Confidence 4443
No 245
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=26.72 E-value=1.5e+02 Score=32.34 Aligned_cols=71 Identities=17% Similarity=0.281 Sum_probs=44.5
Q ss_pred hHHHHHHHhhH-HHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCC-CCCcEEEeeHHHHH
Q psy6980 455 LGRVSYHAYWK-SVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGD-SSEPCIVINWAIVD 527 (760)
Q Consensus 455 LG~~sY~sYW~-~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~-~~~~~i~i~~~~i~ 527 (760)
+|-+||.--=. ..|++.|... +..++-.+||+..|++..=| +..|++.|+|...+-+ +|.++-.++..+++
T Consensus 174 i~tLSySEleAv~~IL~~L~~~--egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r~LG~kGt~V~~l~~~~~~ 249 (251)
T TIGR02787 174 INTLSYSELEAVEHIFEELDGN--EGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNDKLIE 249 (251)
T ss_pred HHhccHhHHHHHHHHHHHhccc--cccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCCCCccEeCCCChhhhh
Confidence 34455543211 3445554432 35899999999999999877 5567788999998412 34444355555554
No 246
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.41 E-value=69 Score=37.40 Aligned_cols=25 Identities=24% Similarity=0.618 Sum_probs=17.2
Q ss_pred cEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 140 CLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 140 cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
..|.|-.|+.. ..-.|.||.|....
T Consensus 239 ~~l~Ch~Cg~~-------------~~~~~~Cp~C~s~~ 263 (505)
T TIGR00595 239 GKLRCHYCGYQ-------------EPIPKTCPQCGSED 263 (505)
T ss_pred CeEEcCCCcCc-------------CCCCCCCCCCCCCe
Confidence 36789888752 12368999997654
No 247
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=26.15 E-value=66 Score=33.70 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=36.1
Q ss_pred HHHHHHHHhccC-CcceeHHHHHHhhCCChhHHHHHHHHcCce
Q psy6980 466 SVLLEYLDTIRN-QKLICIDQMCADTGLYHHDVAETLELLGML 507 (760)
Q Consensus 466 ~~Il~~L~~~~~-~~~isi~dIS~~TgI~~~DIi~tL~~l~~l 507 (760)
..|++|+.++.. -...||.+||+.+|+++.=|+...+.||+=
T Consensus 15 ~~ia~yil~n~~~v~~~si~elA~~~~vS~aTv~Rf~kklG~~ 57 (278)
T PRK11557 15 RKLADYLLLQPDTARHLSSQQLANEAGVSQSSVVKFAQKLGYK 57 (278)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHcCCC
Confidence 468899988763 236899999999999999999999999983
No 248
>PRK15482 transcriptional regulator MurR; Provisional
Probab=26.11 E-value=67 Score=33.98 Aligned_cols=42 Identities=14% Similarity=0.258 Sum_probs=36.1
Q ss_pred HHHHHHHHhccC-CcceeHHHHHHhhCCChhHHHHHHHHcCce
Q psy6980 466 SVLLEYLDTIRN-QKLICIDQMCADTGLYHHDVAETLELLGML 507 (760)
Q Consensus 466 ~~Il~~L~~~~~-~~~isi~dIS~~TgI~~~DIi~tL~~l~~l 507 (760)
..|++|+.++.. -...||.+||+.+|+++.=|+..-+.||+=
T Consensus 19 ~~Ia~yIl~n~~~v~~~si~elA~~~~vS~aTv~Rf~kkLGf~ 61 (285)
T PRK15482 19 QKIADFLRANVSELKSVSSRKMAKQLGISQSSIVKFAQKLGAQ 61 (285)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHhCCC
Confidence 468889888763 247899999999999999999999999983
No 249
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=26.08 E-value=2.4e+02 Score=25.66 Aligned_cols=45 Identities=20% Similarity=0.238 Sum_probs=34.3
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhh-----CCChhHH---HHHHHHcCceeeec
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADT-----GLYHHDV---AETLELLGMLRTKH 511 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~T-----gI~~~DI---i~tL~~l~~l~~~~ 511 (760)
|..|+++|.... ..+|..+|.+.. +|...-| +.+|.+.|+|....
T Consensus 3 R~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~ 55 (116)
T cd07153 3 RLAILEVLLESD--GHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIE 55 (116)
T ss_pred HHHHHHHHHhCC--CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEE
Confidence 467899998763 589999998776 5666555 66778889998764
No 250
>smart00753 PAM PCI/PINT associated module.
Probab=26.02 E-value=1.2e+02 Score=26.27 Aligned_cols=44 Identities=16% Similarity=0.144 Sum_probs=29.0
Q ss_pred cceeHHHHHHhhCCChhHHHHHHH---HcCceeeecCCCCCcEEEeeH
Q psy6980 479 KLICIDQMCADTGLYHHDVAETLE---LLGMLRTKHGDSSEPCIVINW 523 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DIi~tL~---~l~~l~~~~~~~~~~~i~i~~ 523 (760)
..|++++||+..+++.++|-..|. ..|.|.-. .+.....+.+.+
T Consensus 23 ~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~-ID~~~~~v~~~~ 69 (88)
T smart00753 23 SSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAK-IDQVNGIVEFEE 69 (88)
T ss_pred ceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEE-EcCcCCEEEECC
Confidence 489999999999998887654444 44555443 333444555544
No 251
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=26.02 E-value=1.2e+02 Score=26.27 Aligned_cols=44 Identities=16% Similarity=0.144 Sum_probs=29.0
Q ss_pred cceeHHHHHHhhCCChhHHHHHHH---HcCceeeecCCCCCcEEEeeH
Q psy6980 479 KLICIDQMCADTGLYHHDVAETLE---LLGMLRTKHGDSSEPCIVINW 523 (760)
Q Consensus 479 ~~isi~dIS~~TgI~~~DIi~tL~---~l~~l~~~~~~~~~~~i~i~~ 523 (760)
..|++++||+..+++.++|-..|. ..|.|.-. .+.....+.+.+
T Consensus 23 ~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~-ID~~~~~v~~~~ 69 (88)
T smart00088 23 SSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAK-IDQVNGIVEFEE 69 (88)
T ss_pred ceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEE-EcCcCCEEEECC
Confidence 489999999999998887654444 44555443 333444555544
No 252
>PF08887 GAD-like: GAD-like domain; InterPro: IPR014983 This domain is functionally uncharacterised, but it appears to be distantly related to the GAD domain IPR004115 from INTERPRO.
Probab=25.70 E-value=2.3e+02 Score=27.06 Aligned_cols=53 Identities=8% Similarity=-0.016 Sum_probs=46.4
Q ss_pred CcceeHHHHHHhhCCChhHHHHHHHHcCceeeecCCCCCcEEEeeHHHHHHHHHHHH
Q psy6980 478 QKLICIDQMCADTGLYHHDVAETLELLGMLRTKHGDSSEPCIVINWAIVDAHMKRLE 534 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~tL~~l~~l~~~~~~~~~~~i~i~~~~i~~~~~~~~ 534 (760)
...+..+.|.+-.|+-|+.++.-.+..|+=.+. +|.+.+||++..+..++.+-
T Consensus 17 ~~~vp~~~I~kyk~~lP~~Ll~~W~~~G~g~~~----dG~f~~vnP~dy~~vl~~~~ 69 (109)
T PF08887_consen 17 RQEVPEESIEKYKGKLPDELLEYWKEYGFGGYG----DGLFWLVNPDDYEDVLDEWL 69 (109)
T ss_pred CCcCCHHHHHHhcCCCcHHHHHHHHHcCCchhc----CcEEEEECHHHHHHHHHHHh
Confidence 457888899999999999999999999998887 78899999987777777653
No 253
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=24.87 E-value=1.9e+02 Score=30.54 Aligned_cols=42 Identities=7% Similarity=0.192 Sum_probs=32.9
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHH---HHHHcCceeee
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAE---TLELLGMLRTK 510 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~---tL~~l~~l~~~ 510 (760)
..|+++|.++. .++++||++..|++..-|-. .|+..|+|...
T Consensus 7 ~~Il~~l~~~~---~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r~ 51 (240)
T PRK10411 7 QAIVDLLLNHT---SLTTEALAEQLNVSKETIRRDLNELQTQGKILRN 51 (240)
T ss_pred HHHHHHHHHcC---CCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 45888888654 89999999999999987744 55556788765
No 254
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=24.21 E-value=1.2e+02 Score=25.57 Aligned_cols=34 Identities=12% Similarity=0.170 Sum_probs=27.3
Q ss_pred CCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 477 NQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 477 ~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.+..++..+||+..|+++.=| +.-|+..|+|.+.
T Consensus 19 ~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 19 EGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp CTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEEec
Confidence 467999999999999998755 5667778999887
No 255
>COG1246 ArgA N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]
Probab=23.92 E-value=31 Score=34.84 Aligned_cols=25 Identities=20% Similarity=0.381 Sum_probs=20.8
Q ss_pred ceeEEEEecCcccccccCccchhhh
Q psy6980 411 YNVSCIMTLPQYQRKGYGRFLIDFS 435 (760)
Q Consensus 411 nNLSCIltLP~yQrkGyG~~LIdfS 435 (760)
-=+.|+-|-|.||++|.|.-|+.-.
T Consensus 66 gE~~~laV~pd~r~~G~G~~Ll~~~ 90 (153)
T COG1246 66 GELRSLAVHPDYRGSGRGERLLERL 90 (153)
T ss_pred eeEEEEEECHHhcCCCcHHHHHHHH
Confidence 3499999999999999998666543
No 256
>PRK14873 primosome assembly protein PriA; Provisional
Probab=23.80 E-value=70 Score=38.84 Aligned_cols=50 Identities=18% Similarity=0.309 Sum_probs=0.0
Q ss_pred cccccccCCCCCCCCcCCCCCCCCCcccccCCCcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCC
Q psy6980 105 YKQAHEEATKATPLLPLAVPEQINPAAIEFGQYEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGT 177 (760)
Q Consensus 105 LlsC~~CG~~a~Pw~C~eck~C~~C~~~e~~~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~ 177 (760)
++.|.+||... .|+.|...-... .....|.|-.|+. .. ..|.|+.|....
T Consensus 383 ~l~C~~Cg~~~------~C~~C~~~L~~h---~~~~~l~Ch~CG~-------------~~-~p~~Cp~Cgs~~ 432 (665)
T PRK14873 383 SLACARCRTPA------RCRHCTGPLGLP---SAGGTPRCRWCGR-------------AA-PDWRCPRCGSDR 432 (665)
T ss_pred eeEhhhCcCee------ECCCCCCceeEe---cCCCeeECCCCcC-------------CC-cCccCCCCcCCc
No 257
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=23.21 E-value=3.3e+02 Score=27.21 Aligned_cols=33 Identities=15% Similarity=0.226 Sum_probs=30.0
Q ss_pred CcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 478 QKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
...+.++|||+..++++.=| +.=|+.+|+|.|.
T Consensus 22 ~~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~~ 57 (154)
T COG1321 22 KGFARTKDIAERLKVSPPSVTEMLKRLERLGLVEYE 57 (154)
T ss_pred cCcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEEe
Confidence 56899999999999999988 7888899999997
No 258
>KOG0956|consensus
Probab=23.08 E-value=37 Score=41.41 Aligned_cols=27 Identities=22% Similarity=0.302 Sum_probs=22.7
Q ss_pred cccccccccccCCCCCCCCcccccccc
Q psy6980 602 KTKRGRKRKLSLDTDAASPVVEVTPKK 628 (760)
Q Consensus 602 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 628 (760)
.+.++.+.+.+...|...|+.--.+++
T Consensus 716 ~TS~~p~~~vs~~~~~s~~t~~~~~~s 742 (900)
T KOG0956|consen 716 PTSKSPKAEVSKQEDNSLPTSVPDPAS 742 (900)
T ss_pred ccccCCccccccCCCccccccCCCCcc
Confidence 467888889999999999998777776
No 259
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=22.93 E-value=3.1e+02 Score=22.58 Aligned_cols=43 Identities=16% Similarity=0.158 Sum_probs=30.2
Q ss_pred HHHHHHHHHhccCCcceeHHHHHHhhCCChhHH----HHHHHHcCceeee
Q psy6980 465 KSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV----AETLELLGMLRTK 510 (760)
Q Consensus 465 ~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI----i~tL~~l~~l~~~ 510 (760)
++.|+.-|+-.. .|++.++.+.+|+...+. +..|++.|+|...
T Consensus 8 ~e~i~~~LR~~~---Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~ 54 (66)
T PF06969_consen 8 REYIMLGLRCNE---GIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEID 54 (66)
T ss_dssp HHHHHHHHHHHS---EEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-
T ss_pred HHHHHHHHHhHC---CcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEe
Confidence 344455555443 799999999999986555 7788999999886
No 260
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=22.75 E-value=1.8e+02 Score=27.33 Aligned_cols=33 Identities=24% Similarity=0.269 Sum_probs=27.3
Q ss_pred CcceeHHHHHHhhCCChhHHHHH---HHHcCceeee
Q psy6980 478 QKLICIDQMCADTGLYHHDVAET---LELLGMLRTK 510 (760)
Q Consensus 478 ~~~isi~dIS~~TgI~~~DIi~t---L~~l~~l~~~ 510 (760)
...||...|+++||++...|..+ |..+|||...
T Consensus 52 ~d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI~~~ 87 (100)
T PF04492_consen 52 MDRISNSQIAEMTGLSRDHVSKALNELIRRGVIIRD 87 (100)
T ss_pred cceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 56899999999999999998555 5667898554
No 261
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=22.36 E-value=70 Score=38.80 Aligned_cols=15 Identities=20% Similarity=0.304 Sum_probs=11.2
Q ss_pred CCCCCcccCCCCCCC
Q psy6980 163 RLKVPWKCTSCESGT 177 (760)
Q Consensus 163 iP~G~W~C~~C~~~~ 177 (760)
+|.|.=+|+.|-...
T Consensus 37 ~~~~~~fC~~CG~~~ 51 (645)
T PRK14559 37 VPVDEAHCPNCGAET 51 (645)
T ss_pred CCcccccccccCCcc
Confidence 677777888886655
No 262
>KOG4399|consensus
Probab=22.30 E-value=22 Score=38.78 Aligned_cols=97 Identities=14% Similarity=0.106 Sum_probs=58.3
Q ss_pred ceeeeccEEEEeeeeCCCchhhhhcccccccccccCCCCCCccccccccccccccCCCCCC-CCcCCCCCCCCCcccccC
Q psy6980 57 AAIEFGQYEVKTWYSSPFPQEYARNTQVVSKLLATDLAPGVTRKDIDLYKQAHEEATKATP-LLPLAVPEQINPAAIEFG 135 (760)
Q Consensus 57 ~~Ie~GkyeIdtWYfSPYP~Eyarn~~ICefcL~td~~N~~rkgdIEeLlsC~~CG~~a~P-w~C~eck~C~~C~~~e~~ 135 (760)
.+|..|.=|- -.|-||-|.-.....+-|++|+.. .+++-+.+-.|..|-....| | ++|..|..|..
T Consensus 194 ~~i~~~~EE~-~~~~~~~~~Yv~~~~~H~~~~~S~------~~~~~~~~~H~~~~~~~~~~~~--i~C~~~~~~A~---- 260 (325)
T KOG4399|consen 194 NKIILPTEEG-YRFCSPCQRYVSLENQHCEHCNSC------TSKDGRKWNHCFLCKKCVKPSW--IHCSICNHCAV---- 260 (325)
T ss_pred ceeecccccc-eEEEeehHHHHHHHhhhchhhccc------ccchhHHHhHhHHhhhhcccce--eeeecccchhh----
Confidence 5666665332 256788876555556899999764 44455666666666543333 3 44433333332
Q ss_pred CCcccEEecCCCCCccccccCCCCcCCCCCCCcccCCCCCCCCCCCCCC
Q psy6980 136 QYEVCLIKCCACNVYYHIICLQPPLERRLKVPWKCTSCESGTTEPSPAK 184 (760)
Q Consensus 136 ~ce~cmLfCD~CDrgyH~~CL~PpL~~iP~G~W~C~~C~~~~~~~~~~~ 184 (760)
--+|..||+--| ..-.|++|.....+++.+-
T Consensus 261 -----~~~C~iC~~~~~-------------~R~~C~~~kA~~~~~Q~K~ 291 (325)
T KOG4399|consen 261 -----KHGCFICGELDH-------------KRSTCPNIKAVRKQKQRKS 291 (325)
T ss_pred -----hcceeecccccc-------------ccccCccHHHHHHHHhccc
Confidence 237888888433 1367999988887766554
No 263
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=22.29 E-value=1.1e+02 Score=30.86 Aligned_cols=37 Identities=24% Similarity=0.300 Sum_probs=27.2
Q ss_pred HHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 468 LLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 468 Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
+++.|.-.. +.++|+++|++.++ +.++|...|+.|.-
T Consensus 2 ~iEAlLF~s-~~pvs~~~La~~l~-~~~~v~~~l~~L~~ 38 (159)
T PF04079_consen 2 IIEALLFAS-GEPVSIEELAEILG-SEDEVEEALEELQE 38 (159)
T ss_dssp HHHHHHHH--SS-B-HHHHHHHCT--HHHHHHHHHHHHH
T ss_pred hhHhhHHHc-CCCCCHHHHHHHhC-CHHHHHHHHHHHHH
Confidence 566666555 56799999999999 99999999988754
No 264
>PRK09978 DNA-binding transcriptional regulator GadX; Provisional
Probab=21.75 E-value=1.3e+02 Score=32.94 Aligned_cols=44 Identities=2% Similarity=-0.031 Sum_probs=36.2
Q ss_pred HhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 462 AYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 462 sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
..+...+++||..+- ...+||++||+..||++.=...-++..|+
T Consensus 141 ~~~~~~v~~yI~~~~-~~~lsl~~lA~~~g~S~~~L~R~Fk~~G~ 184 (274)
T PRK09978 141 PNMRTRVCTVINNNI-AHEWTLARIASELLMSPSLLKKKLREEET 184 (274)
T ss_pred HHHHHHHHHHHHhcc-cCCCCHHHHHHHHCcCHHHHHHHHHhcCC
Confidence 445678999999887 46899999999999999988777776553
No 265
>PF00888 Cullin: Cullin family; InterPro: IPR001373 Cullins are a family of hydrophobic proteins that act as scaffolds for ubiquitin ligases (E3). Cullins are found throughout eukaryotes. Humans express seven cullins (Cul1, 2, 3, 4A, 4B, 5 and 7), each forming part of a multi-subunit ubiquitin complex. Cullin-RING ubiquitin ligases (CRLs), such as Cul1 (SCF) [], play an essential role in targeting proteins for ubiquitin-mediated destruction; as such, they are diverse in terms of composition and function, regulating many different processes from glucose sensing and DNA replication to limb patterning and circadian rhythms. The catalytic core of CRLs consists of a RING protein and a cullin family member. For Cul1, the C-terminal cullin-homology domain binds the RING protein. The RING protein appears to function as a docking site for ubiquitin-conjugating enzymes (E2s). Other proteins contain a cullin-homology domain, such as the APC2 subunit of the anaphase-promoting complex/cyclosome and the p53 cytoplasmic anchor PARC; both APC2 and PARC have ubiquitin ligase activity. The N-terminal region of cullins is more variable, and is used to interact with specific adaptor proteins [, , ]. This entry represents the N-terminal region of cullin proteins, which consists of several domains, including cullin repeat domain, a 4-helical bundle domain, an alpha+beta domain, and a winged helix-like domain.; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 2WZK_A 3DQV_D 3DPL_C 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_A 1U6G_A 4A0K_A ....
Probab=21.53 E-value=88 Score=35.99 Aligned_cols=80 Identities=16% Similarity=0.230 Sum_probs=43.5
Q ss_pred EEecCc------------ccccccCccchhhhhhhhcccCCCCCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeH
Q psy6980 416 IMTLPQ------------YQRKGYGRFLIDFSYLLSKKEGQRGTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICI 483 (760)
Q Consensus 416 IltLP~------------yQrkGyG~~LIdfSY~LSr~Eg~~GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi 483 (760)
-+.||+ |+.+.=| --+.+.|.||..+=....+.+. ..--.+-....||-.+ .+...+|+
T Consensus 467 ~~~lP~~l~~~~~~f~~~Y~~~~~~-R~L~w~~~l~~~~i~~~~~~~~-----~~l~~s~~q~~iLl~F---n~~~~~t~ 537 (588)
T PF00888_consen 467 NIKLPPELQQALDSFEKFYKEKHKG-RKLTWLPSLSSVEIEFNFNNGK-----YELTVSTLQAAILLLF---NDNDSLTV 537 (588)
T ss_dssp -----HHHHHHHHHHHHHHHTTSTT-EEEEEEGGGEEEEEEEESSSSE-----EEEEEEHHHHHHHHGG---GSSSEEEH
T ss_pred cccCCHHHHHHHHHHHHHHHhcCCC-cEEEEecccCcEEEEEEecCCc-----eeEEeeHHHHHHHHHH---ccCCCccH
Confidence 667776 4444444 4456778888877554444443 0001112223344333 33568999
Q ss_pred HHHHHhhCCChhHHHHHHHHc
Q psy6980 484 DQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 484 ~dIS~~TgI~~~DIi~tL~~l 504 (760)
++|++.|||..+++...|+.|
T Consensus 538 ~ei~~~~~~~~~~l~~~L~~l 558 (588)
T PF00888_consen 538 EEISEKTGISEEELKRALKSL 558 (588)
T ss_dssp HHHHHHC---HHHHHHHHHCC
T ss_pred HHHHHHHCcCHHHHHHHHHHH
Confidence 999999999999999999854
No 266
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=21.24 E-value=1.5e+02 Score=31.11 Aligned_cols=40 Identities=8% Similarity=0.225 Sum_probs=34.2
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHcCc
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELLGM 506 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l~~ 506 (760)
.+.+|+..+-.+..+|+.+||++.||++.=+...++..|+
T Consensus 201 ~~~~~I~~~l~~~~ls~~~lA~~~giS~r~L~r~Fk~~G~ 240 (302)
T PRK09685 201 KVVALIDQSIQEEILRPEWIAGELGISVRSLYRLFAEQGL 240 (302)
T ss_pred HHHHHHHHhcCCCCCCHHHHHHHHCCCHHHHHHHHHHcCC
Confidence 6778888876555699999999999999999998888776
No 267
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=21.14 E-value=61 Score=26.14 Aligned_cols=27 Identities=26% Similarity=0.368 Sum_probs=21.4
Q ss_pred cEeeecccccccCCH-----HHHHHHHh-hCCC
Q psy6980 305 KLFLCEFCLKYTKSK-----AVLERHRD-KCAW 331 (760)
Q Consensus 305 ~LyiCE~ClkY~~s~-----~~l~rH~~-kC~~ 331 (760)
..=+|.+|.+-++.. ..|.||+. +|+.
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 356899999888655 69999998 7764
No 268
>PRK11050 manganese transport regulator MntR; Provisional
Probab=21.03 E-value=2.1e+02 Score=28.04 Aligned_cols=41 Identities=12% Similarity=0.175 Sum_probs=30.3
Q ss_pred HHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeee
Q psy6980 467 VLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTK 510 (760)
Q Consensus 467 ~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~ 510 (760)
.|+.++.. ...+++.+||+.++|++.-| +..|+..|+|...
T Consensus 41 ~I~~~l~~---~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~ 84 (152)
T PRK11050 41 LIADLIAE---VGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMR 84 (152)
T ss_pred HHHHHHHh---cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 34444443 24799999999999976655 6677888998875
No 269
>PHA00732 hypothetical protein
Probab=21.02 E-value=58 Score=29.23 Aligned_cols=21 Identities=29% Similarity=0.455 Sum_probs=19.9
Q ss_pred eeecccccccCCHHHHHHHHh
Q psy6980 307 FLCEFCLKYTKSKAVLERHRD 327 (760)
Q Consensus 307 yiCE~ClkY~~s~~~l~rH~~ 327 (760)
|.|+.|.+-|.+...|.+|+.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 789999999999999999986
No 270
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=20.95 E-value=2.2e+02 Score=30.85 Aligned_cols=57 Identities=18% Similarity=0.200 Sum_probs=44.1
Q ss_pred CCCCCCCChhHHHHHHHhhHHHHHHHHHhccCCcceeHHHHHHhhCCChhHH---HHHHHHcCceeeecCC
Q psy6980 446 GTPEKPLSDLGRVSYHAYWKSVLLEYLDTIRNQKLICIDQMCADTGLYHHDV---AETLELLGMLRTKHGD 513 (760)
Q Consensus 446 GtPEkPLSDLG~~sY~sYW~~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DI---i~tL~~l~~l~~~~~~ 513 (760)
-..+-+|+|-=+ .|+++|.++. ..+.-+||.+++|+...=| +.-|+.+|+|+..+.+
T Consensus 187 ~~~~~~L~~~e~---------~il~~i~~~G--Gri~Q~eL~r~lglsktTvsR~L~~LEk~GlIe~~K~G 246 (258)
T COG2512 187 LVNEYDLNEDEK---------EILDLIRERG--GRITQAELRRALGLSKTTVSRILRRLEKRGLIEKEKKG 246 (258)
T ss_pred ccccCCCCHHHH---------HHHHHHHHhC--CEEeHHHHHHhhCCChHHHHHHHHHHHhCCceEEEEeC
Confidence 334467777643 5889998875 5899999999999987665 6677889999988643
No 271
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=20.60 E-value=1.8e+02 Score=26.20 Aligned_cols=38 Identities=13% Similarity=0.281 Sum_probs=30.5
Q ss_pred HHHHHHHHhccCCcceeHHHHHHhhCCChhHHHHHHHHc
Q psy6980 466 SVLLEYLDTIRNQKLICIDQMCADTGLYHHDVAETLELL 504 (760)
Q Consensus 466 ~~Il~~L~~~~~~~~isi~dIS~~TgI~~~DIi~tL~~l 504 (760)
..++.+|..+- ...+++++||+..||++.-+-..++..
T Consensus 8 ~~~~~~i~~~~-~~~~~~~~lA~~~~~S~~~l~r~f~~~ 45 (107)
T PRK10219 8 QTLIAWIDEHI-DQPLNIDVVAKKSGYSKWYLQRMFRTV 45 (107)
T ss_pred HHHHHHHHHhc-CCCCCHHHHHHHHCCCHHHHHHHHHHH
Confidence 45777888776 467999999999999998887777664
No 272
>KOG4299|consensus
Probab=20.58 E-value=84 Score=37.91 Aligned_cols=36 Identities=31% Similarity=0.773 Sum_probs=29.3
Q ss_pred EEecCCCCCccccccCCCCcCCC-CCCCcccCCCCCC
Q psy6980 141 LIKCCACNVYYHIICLQPPLERR-LKVPWKCTSCESG 176 (760)
Q Consensus 141 mLfCD~CDrgyH~~CL~PpL~~i-P~G~W~C~~C~~~ 176 (760)
.+.|+.|+.+||..|.+++|+.. +.+.|.|..|-..
T Consensus 59 ~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~~ 95 (613)
T KOG4299|consen 59 LLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPKG 95 (613)
T ss_pred ccccccCccccchhccCcccCcccccccccccCCCcc
Confidence 67899999999999999999833 3347888888664
No 273
>PF14297 DUF4373: Domain of unknown function (DUF4373)
Probab=20.38 E-value=2.1e+02 Score=25.48 Aligned_cols=54 Identities=22% Similarity=0.431 Sum_probs=43.1
Q ss_pred hhHHHHHHHhhHHHHHHHHHhccCCccee---HHHHHHhhCCChhHHHHHHHHcCceeee
Q psy6980 454 DLGRVSYHAYWKSVLLEYLDTIRNQKLIC---IDQMCADTGLYHHDVAETLELLGMLRTK 510 (760)
Q Consensus 454 DLG~~sY~sYW~~~Il~~L~~~~~~~~is---i~dIS~~TgI~~~DIi~tL~~l~~l~~~ 510 (760)
..|..+|.-||. |+++|....+ -.+. +..||...|++.+.|-..+++.|+....
T Consensus 20 ~~G~~G~~~y~~--ll~~iy~~~~-y~~~~~~~~~~a~~~~~~~~~v~~II~~~~LF~~~ 76 (87)
T PF14297_consen 20 EYGCEGYGIYWY--LLEYIYKQGG-YYLWWDKLFLIARKLGVSEEYVEEIINEYGLFDIE 76 (87)
T ss_pred HcCCchHHHHHH--HHHHHHcCCC-eEeeHHHHHHHHHHHCcCHHHHHHHHHHhCCcccC
Confidence 457889999995 8899987652 2221 6789999999999999999999888754
Done!