Query 013121
Match_columns 449
No_of_seqs 196 out of 598
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 00:37:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013121.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013121hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00104 MYST -like histone ac 100.0 2E-147 5E-152 1135.5 39.2 400 50-449 40-445 (450)
2 PTZ00064 histone acetyltransfe 100.0 3E-137 6E-142 1062.7 31.6 354 95-448 146-541 (552)
3 PLN03239 histone acetyltransfe 100.0 6E-133 1E-137 1000.7 29.8 341 100-445 1-351 (351)
4 KOG2747 Histone acetyltransfer 100.0 6E-125 1E-129 954.8 24.8 350 80-443 36-396 (396)
5 PLN03238 probable histone acet 100.0 1E-123 2E-128 914.0 28.7 283 163-446 5-290 (290)
6 COG5027 SAS2 Histone acetyltra 100.0 1E-117 3E-122 884.3 24.6 371 63-442 5-395 (395)
7 PF01853 MOZ_SAS: MOZ/SAS fami 100.0 8.8E-93 1.9E-97 662.6 16.8 186 231-416 1-188 (188)
8 PF11717 Tudor-knot: RNA bindi 99.7 3.6E-18 7.8E-23 131.3 6.1 55 64-122 1-55 (55)
9 smart00333 TUDOR Tudor domain. 97.2 0.00098 2.1E-08 50.2 5.5 52 63-123 2-53 (57)
10 PF13673 Acetyltransf_10: Acet 96.0 0.011 2.4E-07 48.6 4.8 52 281-340 43-94 (117)
11 smart00298 CHROMO Chromatin or 95.9 0.005 1.1E-07 45.5 2.1 38 81-121 4-41 (55)
12 cd04508 TUDOR Tudor domains ar 95.9 0.017 3.6E-07 42.1 4.7 46 67-121 1-47 (48)
13 cd00024 CHROMO Chromatin organ 95.8 0.012 2.5E-07 43.7 3.6 40 81-122 5-44 (55)
14 PF00583 Acetyltransf_1: Acety 95.6 0.0078 1.7E-07 46.6 2.2 50 295-344 5-59 (83)
15 PRK10146 aminoalkylphosphonic 95.5 0.018 4E-07 49.1 4.3 59 282-344 47-110 (144)
16 PRK07757 acetyltransferase; Pr 95.3 0.024 5.2E-07 49.4 4.5 47 296-342 51-97 (152)
17 PF00855 PWWP: PWWP domain; I 95.2 0.044 9.5E-07 44.4 5.4 58 64-123 1-58 (86)
18 smart00561 MBT Present in Dros 95.1 0.068 1.5E-06 45.9 6.5 63 58-128 22-86 (96)
19 PF00096 zf-C2H2: Zinc finger, 95.0 0.017 3.7E-07 36.3 1.8 22 207-228 1-22 (23)
20 PF13508 Acetyltransf_7: Acety 94.9 0.038 8.3E-07 43.5 4.1 43 296-339 13-55 (79)
21 PF09339 HTH_IclR: IclR helix- 94.7 0.05 1.1E-06 40.9 4.1 42 367-408 7-51 (52)
22 PRK10514 putative acetyltransf 94.5 0.045 9.7E-07 47.1 3.9 38 296-338 60-97 (145)
23 PRK09831 putative acyltransfer 94.3 0.045 9.7E-07 48.0 3.7 46 283-337 54-99 (147)
24 TIGR02382 wecD_rffC TDP-D-fuco 94.3 0.064 1.4E-06 49.5 4.8 45 296-340 109-153 (191)
25 smart00743 Agenet Tudor-like d 94.2 0.16 3.5E-06 39.1 6.0 37 63-106 2-39 (61)
26 PHA01807 hypothetical protein 94.2 0.06 1.3E-06 49.5 4.2 48 296-343 63-114 (153)
27 PF05641 Agenet: Agenet domain 94.2 0.1 2.2E-06 41.7 5.0 54 64-124 1-64 (68)
28 PRK10975 TDP-fucosamine acetyl 94.1 0.072 1.6E-06 49.0 4.7 46 296-341 112-157 (194)
29 PF06003 SMN: Survival motor n 94.1 0.1 2.2E-06 52.2 6.1 58 59-124 64-122 (264)
30 TIGR01575 rimI ribosomal-prote 93.9 0.1 2.3E-06 43.0 4.8 46 296-342 41-86 (131)
31 PRK12308 bifunctional arginino 93.9 0.064 1.4E-06 59.0 4.5 57 283-343 504-560 (614)
32 cd04301 NAT_SF N-Acyltransfera 93.7 0.1 2.3E-06 36.3 3.9 46 295-340 8-55 (65)
33 KOG3216 Diamine acetyltransfer 93.6 0.15 3.4E-06 47.9 5.9 73 264-348 41-119 (163)
34 smart00550 Zalpha Z-DNA-bindin 93.3 0.31 6.8E-06 39.0 6.4 51 365-415 8-65 (68)
35 PF13894 zf-C2H2_4: C2H2-type 93.2 0.075 1.6E-06 32.7 2.2 22 207-228 1-22 (24)
36 smart00293 PWWP domain with co 93.2 0.13 2.8E-06 40.5 4.0 56 64-121 1-60 (63)
37 PLN02825 amino-acid N-acetyltr 93.1 0.11 2.3E-06 56.7 4.5 57 283-343 408-465 (515)
38 KOG3001 Dosage compensation re 93.0 0.033 7.1E-07 58.8 0.6 55 62-121 6-60 (391)
39 TIGR03827 GNAT_ablB putative b 92.9 0.17 3.7E-06 49.5 5.4 57 281-341 157-214 (266)
40 PLN02706 glucosamine 6-phospha 92.9 0.17 3.7E-06 43.9 4.8 28 316-343 91-118 (150)
41 PF13527 Acetyltransf_9: Acety 92.9 0.065 1.4E-06 45.0 2.0 34 311-344 73-106 (127)
42 PRK10140 putative acetyltransf 92.8 0.17 3.8E-06 43.8 4.6 49 282-335 51-103 (162)
43 PRK03624 putative acetyltransf 92.5 0.21 4.6E-06 41.5 4.6 55 282-341 45-99 (140)
44 PRK07922 N-acetylglutamate syn 92.4 0.17 3.8E-06 46.2 4.4 49 295-343 55-103 (169)
45 PRK13688 hypothetical protein; 92.2 0.17 3.6E-06 46.6 4.0 23 312-334 81-103 (156)
46 PRK05279 N-acetylglutamate syn 91.8 0.19 4.2E-06 52.7 4.5 57 283-343 335-392 (441)
47 PRK10562 putative acetyltransf 91.8 0.23 4.9E-06 43.3 4.2 45 283-335 49-93 (145)
48 cd05162 PWWP The PWWP domain, 91.7 0.26 5.5E-06 40.6 4.2 57 64-122 1-60 (87)
49 PF09465 LBR_tudor: Lamin-B re 91.6 0.68 1.5E-05 36.7 6.1 42 60-107 2-44 (55)
50 cd05834 HDGF_related The PWWP 91.5 0.27 5.9E-06 41.1 4.1 55 63-122 2-56 (83)
51 COG0454 WecD Histone acetyltra 91.4 0.11 2.3E-06 38.0 1.5 30 316-345 87-116 (156)
52 PF08445 FR47: FR47-like prote 91.4 0.11 2.3E-06 43.0 1.6 23 311-333 22-44 (86)
53 TIGR02431 pcaR_pcaU beta-ketoa 91.2 0.5 1.1E-05 45.7 6.2 49 367-415 13-64 (248)
54 PF12324 HTH_15: Helix-turn-he 90.8 0.56 1.2E-05 39.4 5.3 47 367-414 28-74 (77)
55 TIGR03448 mycothiol_MshD mycot 90.8 0.39 8.5E-06 46.5 5.1 53 281-337 45-97 (292)
56 PF13420 Acetyltransf_4: Acety 90.7 0.41 9E-06 41.4 4.7 56 279-339 48-105 (155)
57 smart00346 HTH_ICLR helix_turn 90.5 0.98 2.1E-05 36.5 6.5 54 367-422 9-67 (91)
58 TIGR01890 N-Ac-Glu-synth amino 90.4 0.34 7.3E-06 50.9 4.6 58 283-344 323-381 (429)
59 PF13912 zf-C2H2_6: C2H2-type 90.4 0.21 4.5E-06 32.5 1.9 22 206-227 1-22 (27)
60 PF08220 HTH_DeoR: DeoR-like h 90.1 1.2 2.6E-05 34.5 6.3 49 366-415 3-54 (57)
61 PTZ00330 acetyltransferase; Pr 90.1 0.5 1.1E-05 40.4 4.6 26 316-341 88-113 (147)
62 PF01978 TrmB: Sugar-specific 90.0 0.31 6.8E-06 38.2 3.0 44 367-411 12-58 (68)
63 smart00419 HTH_CRP helix_turn_ 89.9 0.79 1.7E-05 32.6 4.9 37 378-414 8-47 (48)
64 TIGR00124 cit_ly_ligase [citra 89.8 0.43 9.2E-06 49.3 4.7 67 269-344 18-84 (332)
65 COG0456 RimI Acetyltransferase 89.6 0.57 1.2E-05 41.3 4.8 48 296-343 72-124 (177)
66 PRK10314 putative acyltransfer 89.3 0.7 1.5E-05 41.8 5.2 45 296-340 58-104 (153)
67 cd00092 HTH_CRP helix_turn_hel 89.1 1.8 3.9E-05 32.8 6.6 38 377-414 24-65 (67)
68 smart00418 HTH_ARSR helix_turn 88.9 2.7 5.8E-05 30.5 7.2 57 368-426 2-63 (66)
69 TIGR03103 trio_acet_GNAT GNAT- 88.3 0.66 1.4E-05 50.7 5.1 61 281-343 122-188 (547)
70 PF13412 HTH_24: Winged helix- 87.9 1.1 2.3E-05 32.8 4.4 40 366-406 6-48 (48)
71 PF13545 HTH_Crp_2: Crp-like h 87.8 2.1 4.6E-05 33.6 6.4 45 378-423 28-75 (76)
72 TIGR02406 ectoine_EctA L-2,4-d 87.7 0.83 1.8E-05 41.1 4.6 45 296-340 50-96 (157)
73 PRK10163 DNA-binding transcrip 87.6 1.6 3.4E-05 43.2 6.8 49 367-415 29-82 (271)
74 TIGR03448 mycothiol_MshD mycot 87.6 0.74 1.6E-05 44.6 4.5 46 296-341 210-257 (292)
75 KOG2696 Histone acetyltransfer 87.6 0.85 1.8E-05 48.2 5.1 167 255-426 153-347 (403)
76 cd05835 Dnmt3b_related The PWW 87.3 0.74 1.6E-05 38.7 3.7 57 64-122 1-57 (87)
77 PF04760 IF2_N: Translation in 87.2 0.33 7.2E-06 36.9 1.4 30 377-406 2-32 (54)
78 PF08279 HTH_11: HTH domain; 86.6 1.2 2.7E-05 33.2 4.3 37 366-402 3-39 (55)
79 cd00090 HTH_ARSR Arsenical Res 86.5 5 0.00011 29.8 7.6 54 362-417 6-64 (78)
80 PF01726 LexA_DNA_bind: LexA D 86.2 1.6 3.5E-05 35.0 4.9 45 367-411 10-62 (65)
81 PF13302 Acetyltransf_3: Acety 86.1 1.2 2.7E-05 37.5 4.5 55 282-339 56-112 (142)
82 PF02082 Rrf2: Transcriptional 86.1 1.2 2.6E-05 36.5 4.2 52 368-419 13-72 (83)
83 PF12171 zf-C2H2_jaz: Zinc-fin 86.0 0.25 5.5E-06 32.6 0.2 21 207-227 2-22 (27)
84 PF13463 HTH_27: Winged helix 85.9 2.4 5.1E-05 32.5 5.6 53 366-418 6-66 (68)
85 PHA02768 hypothetical protein; 85.5 0.47 1E-05 37.5 1.5 22 207-228 6-27 (55)
86 cd02169 Citrate_lyase_ligase C 85.4 1 2.2E-05 45.8 4.3 44 296-344 16-59 (297)
87 PF01022 HTH_5: Bacterial regu 85.2 2.1 4.6E-05 31.5 4.8 40 366-407 5-47 (47)
88 PF12802 MarR_2: MarR family; 85.1 2.5 5.3E-05 31.9 5.3 43 366-408 8-54 (62)
89 PF07381 DUF1495: Winged helix 83.7 2 4.4E-05 37.0 4.7 42 362-403 8-50 (90)
90 PRK11569 transcriptional repre 83.4 3.2 6.9E-05 41.0 6.7 48 367-414 32-84 (274)
91 PF08784 RPA_C: Replication pr 83.3 1.9 4.2E-05 36.4 4.4 42 361-402 45-89 (102)
92 PRK09834 DNA-binding transcrip 83.1 3.2 6.9E-05 40.7 6.5 49 367-415 15-68 (263)
93 cd05837 MSH6_like The PWWP dom 82.9 1.8 3.8E-05 38.0 4.1 61 63-124 2-68 (110)
94 cd05840 SPBC215_ISWI_like The 82.7 1.5 3.3E-05 37.5 3.6 58 64-123 1-64 (93)
95 smart00420 HTH_DEOR helix_turn 82.5 4.2 9E-05 29.0 5.4 45 366-411 3-50 (53)
96 PF12874 zf-met: Zinc-finger o 82.4 1.2 2.7E-05 28.3 2.3 21 207-227 1-21 (25)
97 PF13913 zf-C2HC_2: zinc-finge 82.4 0.87 1.9E-05 30.2 1.5 24 206-230 2-25 (25)
98 PF02319 E2F_TDP: E2F/DP famil 81.8 3.9 8.4E-05 33.1 5.4 47 366-412 11-66 (71)
99 PRK15090 DNA-binding transcrip 81.3 3.4 7.4E-05 40.2 5.9 48 367-415 18-70 (257)
100 PRK09491 rimI ribosomal-protei 81.1 2.7 5.8E-05 36.4 4.6 28 313-340 66-93 (146)
101 smart00355 ZnF_C2H2 zinc finge 80.9 1 2.2E-05 27.6 1.4 21 207-227 1-21 (26)
102 cd05836 N_Pac_NP60 The PWWP do 80.9 2.1 4.6E-05 36.0 3.8 57 64-122 1-58 (86)
103 PRK06266 transcription initiat 80.8 8.1 0.00018 36.7 8.1 59 367-426 26-95 (178)
104 PF09904 HTH_43: Winged helix- 80.8 6.9 0.00015 34.0 6.8 65 362-427 6-85 (90)
105 COG1414 IclR Transcriptional r 80.6 3.9 8.5E-05 40.2 6.1 49 367-415 8-61 (246)
106 PRK13239 alkylmercury lyase; P 80.5 3.7 8E-05 40.2 5.8 42 367-409 26-67 (206)
107 PF14394 DUF4423: Domain of un 79.8 8.1 0.00018 36.4 7.6 68 347-414 8-81 (171)
108 PF00385 Chromo: Chromo (CHRro 79.4 2.7 5.9E-05 31.5 3.6 40 82-122 4-43 (55)
109 TIGR00738 rrf2_super rrf2 fami 79.4 4.5 9.7E-05 35.2 5.5 55 367-421 12-74 (132)
110 TIGR02010 IscR iron-sulfur clu 79.0 6.4 0.00014 35.0 6.4 61 368-428 13-83 (135)
111 TIGR02147 Fsuc_second hypothet 78.9 7.9 0.00017 39.2 7.7 70 346-415 105-180 (271)
112 COG1959 Predicted transcriptio 78.7 4.2 9.2E-05 37.3 5.3 54 369-422 14-75 (150)
113 PF13523 Acetyltransf_8: Acety 77.6 4.2 9.1E-05 35.4 4.8 52 280-335 46-103 (152)
114 PRK10151 ribosomal-protein-L7/ 77.5 4.2 9.2E-05 36.5 4.9 48 283-334 68-116 (179)
115 PRK01346 hypothetical protein; 77.5 3.2 6.9E-05 42.8 4.6 33 311-343 80-112 (411)
116 TIGR00373 conserved hypothetic 77.4 11 0.00024 35.0 7.7 57 368-425 19-86 (158)
117 PF15057 DUF4537: Domain of un 77.3 4.9 0.00011 36.0 5.2 58 58-120 50-109 (124)
118 PRK09391 fixK transcriptional 76.4 8.5 0.00018 36.7 6.9 46 378-423 179-227 (230)
119 smart00451 ZnF_U1 U1-like zinc 75.3 2.5 5.4E-05 28.8 2.2 22 206-227 3-24 (35)
120 PF01418 HTH_6: Helix-turn-hel 74.4 3.9 8.5E-05 33.2 3.5 42 366-407 19-63 (77)
121 TIGR01686 FkbH FkbH-like domai 74.4 4.6 0.0001 40.8 4.7 59 284-343 231-290 (320)
122 PF13404 HTH_AsnC-type: AsnC-t 74.3 6.1 0.00013 29.1 4.1 36 366-402 6-41 (42)
123 COG1246 ArgA N-acetylglutamate 73.9 2.7 5.9E-05 39.5 2.7 36 301-340 60-95 (153)
124 PF08221 HTH_9: RNA polymerase 73.8 8.7 0.00019 30.4 5.2 42 366-408 16-60 (62)
125 PF09012 FeoC: FeoC like trans 73.6 5.3 0.00012 31.7 4.0 40 367-407 4-46 (69)
126 PRK00135 scpB segregation and 73.4 5.3 0.00011 38.4 4.6 47 375-421 101-153 (188)
127 COG2388 Predicted acetyltransf 73.1 3.5 7.6E-05 36.0 3.0 65 283-351 16-80 (99)
128 TIGR02944 suf_reg_Xantho FeS a 72.9 6.6 0.00014 34.4 4.8 58 362-419 8-72 (130)
129 PRK10857 DNA-binding transcrip 72.7 11 0.00023 35.3 6.3 53 376-428 23-83 (164)
130 TIGR01610 phage_O_Nterm phage 72.6 8.7 0.00019 32.5 5.3 44 375-418 44-90 (95)
131 PRK10870 transcriptional repre 71.1 9.9 0.00021 35.5 5.8 91 321-421 23-122 (176)
132 TIGR00498 lexA SOS regulatory 70.9 8.6 0.00019 35.9 5.4 47 366-412 9-63 (199)
133 PHA00673 acetyltransferase dom 70.6 10 0.00022 35.5 5.7 60 296-355 65-135 (154)
134 PF01325 Fe_dep_repress: Iron 70.1 17 0.00037 28.6 6.1 36 375-410 19-57 (60)
135 PF03374 ANT: Phage antirepres 70.0 11 0.00024 32.1 5.4 38 370-407 16-53 (111)
136 PF08280 HTH_Mga: M protein tr 68.7 6.1 0.00013 30.6 3.2 38 367-405 9-46 (59)
137 PF04703 FaeA: FaeA-like prote 68.6 5.1 0.00011 32.2 2.8 43 365-407 2-47 (62)
138 TIGR02844 spore_III_D sporulat 68.3 8.4 0.00018 32.5 4.2 34 366-401 9-42 (80)
139 PF01047 MarR: MarR family; I 68.2 11 0.00025 28.1 4.6 42 366-408 6-50 (59)
140 KOG2488 Acetyltransferase (GNA 67.9 5.1 0.00011 39.2 3.2 51 283-337 92-147 (202)
141 PF13718 GNAT_acetyltr_2: GNAT 67.9 2.7 5.9E-05 40.7 1.4 27 313-339 93-119 (196)
142 PHA00616 hypothetical protein 67.8 2.4 5.1E-05 32.2 0.7 24 206-229 1-24 (44)
143 cd05838 WHSC1_related The PWWP 67.8 6.6 0.00014 33.6 3.6 56 65-122 2-61 (95)
144 PF02820 MBT: mbt repeat; Int 67.7 9 0.0002 30.9 4.2 43 78-128 13-55 (73)
145 cd07377 WHTH_GntR Winged helix 67.3 13 0.00029 27.6 4.8 37 377-413 23-63 (66)
146 PHA00738 putative HTH transcri 67.2 19 0.00041 32.2 6.4 50 365-415 14-67 (108)
147 PF12728 HTH_17: Helix-turn-he 66.7 20 0.00043 26.4 5.5 48 379-427 2-49 (51)
148 smart00345 HTH_GNTR helix_turn 66.0 13 0.00028 27.1 4.4 36 376-411 17-56 (60)
149 COG1522 Lrp Transcriptional re 65.6 22 0.00049 31.3 6.7 41 366-407 11-54 (154)
150 TIGR03826 YvyF flagellar opero 65.5 12 0.00026 34.6 4.9 42 366-407 33-75 (137)
151 PRK09802 DNA-binding transcrip 65.5 14 0.00031 36.8 6.0 47 366-413 20-69 (269)
152 PF04539 Sigma70_r3: Sigma-70 65.2 10 0.00023 30.0 4.1 38 368-405 10-47 (78)
153 PRK04214 rbn ribonuclease BN/u 65.1 18 0.00038 38.2 6.9 56 367-422 296-358 (412)
154 PF10771 DUF2582: Protein of u 64.2 9.1 0.0002 31.2 3.5 33 367-400 12-44 (65)
155 TIGR03697 NtcA_cyano global ni 64.1 19 0.00042 32.4 6.1 45 378-423 143-190 (193)
156 PF14542 Acetyltransf_CG: GCN5 64.0 4.4 9.5E-05 33.2 1.7 47 295-345 11-57 (78)
157 PRK10906 DNA-binding transcrip 63.6 17 0.00037 35.9 6.1 48 365-413 7-57 (252)
158 PF12840 HTH_20: Helix-turn-he 63.4 11 0.00024 29.0 3.8 42 365-407 12-56 (61)
159 PF02186 TFIIE_beta: TFIIE bet 63.3 13 0.00029 30.0 4.3 27 367-393 9-35 (65)
160 PHA02943 hypothetical protein; 63.3 29 0.00063 33.1 7.1 52 366-419 14-70 (165)
161 PF05301 Mec-17: Touch recepto 63.1 8.8 0.00019 34.9 3.6 52 283-334 5-70 (120)
162 COG1386 scpB Chromosome segreg 62.5 23 0.0005 34.1 6.5 48 375-422 103-156 (184)
163 PRK11920 rirA iron-responsive 62.5 21 0.00046 32.8 6.1 60 369-428 14-82 (153)
164 TIGR01764 excise DNA binding d 61.5 28 0.00061 24.4 5.4 47 379-426 2-48 (49)
165 cd05841 BS69_related The PWWP 61.0 14 0.0003 31.5 4.2 53 61-123 4-57 (83)
166 PF05584 Sulfolobus_pRN: Sulfo 60.6 16 0.00035 30.5 4.4 40 366-407 8-50 (72)
167 PF06163 DUF977: Bacterial pro 60.4 17 0.00037 33.4 4.9 71 365-440 14-87 (127)
168 TIGR03585 PseH pseudaminic aci 59.6 16 0.00035 31.4 4.6 46 283-334 52-99 (156)
169 PF08444 Gly_acyl_tr_C: Aralky 59.2 3.1 6.7E-05 35.9 -0.0 16 317-332 26-41 (89)
170 PF13909 zf-H2C2_5: C2H2-type 59.2 8.6 0.00019 24.4 2.1 21 207-228 1-21 (24)
171 PRK00215 LexA repressor; Valid 58.8 22 0.00047 33.5 5.6 44 366-409 7-58 (205)
172 PRK10434 srlR DNA-bindng trans 58.5 21 0.00046 35.2 5.7 48 365-413 7-57 (256)
173 PRK15130 spermidine N1-acetylt 58.3 17 0.00037 32.8 4.6 38 295-333 66-105 (186)
174 COG2512 Predicted membrane-ass 58.2 25 0.00054 35.5 6.2 62 346-416 187-254 (258)
175 PF14947 HTH_45: Winged helix- 57.2 35 0.00076 27.7 5.9 50 367-416 7-60 (77)
176 COG1349 GlpR Transcriptional r 57.1 23 0.0005 35.0 5.7 50 365-415 7-59 (253)
177 TIGR03338 phnR_burk phosphonat 56.8 58 0.0013 30.3 8.0 50 375-424 31-85 (212)
178 PRK11014 transcriptional repre 56.8 26 0.00057 31.3 5.5 45 377-421 24-74 (141)
179 PF15057 DUF4537: Domain of un 56.3 24 0.00052 31.6 5.1 31 67-104 1-32 (124)
180 PRK00135 scpB segregation and 55.8 81 0.0018 30.4 9.0 55 367-421 7-73 (188)
181 PF08940 DUF1918: Domain of un 55.8 17 0.00038 29.2 3.7 39 64-106 3-43 (58)
182 PRK13918 CRP/FNR family transc 55.2 30 0.00065 31.5 5.8 47 378-425 149-198 (202)
183 TIGR01884 cas_HTH CRISPR locus 54.7 36 0.00079 32.2 6.4 43 366-409 146-191 (203)
184 PRK03573 transcriptional regul 53.9 86 0.0019 27.6 8.3 54 367-420 35-96 (144)
185 PRK10141 DNA-binding transcrip 53.7 59 0.0013 29.1 7.1 53 366-419 19-76 (117)
186 TIGR00281 segregation and cond 53.4 41 0.00088 32.4 6.5 51 368-418 89-146 (186)
187 PF07039 DUF1325: SGF29 tudor- 53.2 30 0.00065 31.4 5.3 46 58-108 66-112 (130)
188 smart00344 HTH_ASNC helix_turn 52.5 23 0.0005 29.6 4.2 40 366-406 6-48 (108)
189 PRK10809 ribosomal-protein-S5- 52.2 22 0.00048 32.3 4.4 48 284-334 77-127 (194)
190 cd06080 MUM1_like Mutated mela 51.5 27 0.00058 29.5 4.4 51 64-121 1-51 (80)
191 PRK10402 DNA-binding transcrip 51.4 81 0.0018 29.8 8.2 62 365-427 152-220 (226)
192 PF01710 HTH_Tnp_IS630: Transp 50.4 23 0.0005 31.1 4.0 41 366-407 60-100 (119)
193 TIGR02702 SufR_cyano iron-sulf 50.3 25 0.00055 33.3 4.6 43 365-408 3-48 (203)
194 COG1510 Predicted transcriptio 50.0 16 0.00034 35.3 3.1 40 368-407 31-73 (177)
195 PRK03902 manganese transport t 49.9 78 0.0017 28.2 7.4 51 367-419 12-65 (142)
196 cd05839 BR140_related The PWWP 49.8 23 0.00049 31.7 3.9 60 64-124 1-79 (111)
197 PF10781 DSRB: Dextransucrase 49.6 38 0.00082 27.4 4.7 41 64-108 1-41 (62)
198 PHA02701 ORF020 dsRNA-binding 49.5 36 0.00077 33.1 5.4 46 365-410 6-54 (183)
199 PRK11302 DNA-binding transcrip 49.5 20 0.00044 34.9 3.9 42 366-407 19-63 (284)
200 TIGR02787 codY_Gpos GTP-sensin 49.2 37 0.00081 34.4 5.7 57 366-422 186-249 (251)
201 cd04762 HTH_MerR-trunc Helix-T 49.1 49 0.0011 22.9 4.9 47 379-425 1-47 (49)
202 KOG2462 C2H2-type Zn-finger pr 49.1 9.1 0.0002 39.2 1.4 47 181-228 191-237 (279)
203 KOG3138 Predicted N-acetyltran 48.8 5.8 0.00013 38.3 0.0 20 316-335 95-114 (187)
204 PF12756 zf-C2H2_2: C2H2 type 48.7 14 0.00031 29.7 2.3 25 206-230 50-74 (100)
205 PRK11534 DNA-binding transcrip 48.7 73 0.0016 30.1 7.4 49 376-424 28-81 (224)
206 COG4190 Predicted transcriptio 48.5 35 0.00076 31.9 5.0 42 367-409 68-112 (144)
207 PRK10708 hypothetical protein; 47.6 45 0.00098 27.0 4.8 42 64-109 1-42 (62)
208 PRK05472 redox-sensing transcr 47.2 23 0.0005 33.7 3.8 42 361-402 14-56 (213)
209 TIGR01211 ELP3 histone acetylt 46.8 26 0.00056 38.7 4.5 26 319-344 466-491 (522)
210 COG1378 Predicted transcriptio 46.7 74 0.0016 31.7 7.4 63 352-419 9-76 (247)
211 PRK11512 DNA-binding transcrip 46.7 1.2E+02 0.0026 26.8 8.1 55 367-422 44-106 (144)
212 PF09756 DDRGK: DDRGK domain; 45.4 23 0.0005 34.3 3.5 54 367-422 103-162 (188)
213 PRK11161 fumarate/nitrate redu 45.1 58 0.0013 30.6 6.1 45 378-423 184-231 (235)
214 PRK13509 transcriptional repre 45.0 42 0.00091 33.0 5.4 48 365-413 7-57 (251)
215 PF09681 Phage_rep_org_N: N-te 44.7 58 0.0013 29.3 5.7 58 358-415 24-94 (121)
216 PRK13777 transcriptional regul 44.7 1.3E+02 0.0027 28.9 8.3 55 367-422 49-111 (185)
217 COG1321 TroR Mn-dependent tran 44.5 48 0.001 30.8 5.3 44 367-411 14-60 (154)
218 TIGR01889 Staph_reg_Sar staphy 43.6 1.5E+02 0.0033 25.3 7.9 55 368-422 30-95 (109)
219 COG5112 UFD2 U1-like Zn-finger 43.3 17 0.00037 32.7 2.1 33 195-228 45-77 (126)
220 PRK11337 DNA-binding transcrip 43.3 28 0.0006 34.3 3.8 42 366-407 31-75 (292)
221 PRK07921 RNA polymerase sigma 42.9 53 0.0012 33.9 5.9 27 377-403 188-214 (324)
222 PRK11179 DNA-binding transcrip 42.7 38 0.00083 30.7 4.3 40 366-406 12-54 (153)
223 PRK10411 DNA-binding transcrip 42.4 74 0.0016 31.2 6.6 47 366-413 7-56 (240)
224 PRK15482 transcriptional regul 42.3 27 0.00057 34.5 3.5 42 366-407 19-63 (285)
225 PF00392 GntR: Bacterial regul 42.3 83 0.0018 24.3 5.6 35 376-410 21-59 (64)
226 COG4049 Uncharacterized protei 42.2 15 0.00032 29.7 1.4 28 202-229 13-40 (65)
227 PHA00732 hypothetical protein 41.9 15 0.00033 30.7 1.5 21 207-227 2-22 (79)
228 PRK11557 putative DNA-binding 41.6 33 0.00071 33.5 4.0 42 366-407 15-59 (278)
229 PF10075 PCI_Csn8: COP9 signal 41.4 45 0.00097 29.8 4.5 52 366-418 85-136 (143)
230 PF02796 HTH_7: Helix-turn-hel 41.1 54 0.0012 24.0 4.1 22 379-400 22-43 (45)
231 PRK11886 bifunctional biotin-- 40.7 82 0.0018 31.8 6.8 47 366-413 7-58 (319)
232 TIGR02337 HpaR homoprotocatech 40.3 45 0.00098 28.5 4.2 53 368-421 33-93 (118)
233 PF02892 zf-BED: BED zinc fing 39.5 17 0.00036 26.3 1.2 34 192-229 6-44 (45)
234 PF02002 TFIIE_alpha: TFIIE al 39.2 34 0.00074 29.0 3.3 59 367-426 17-86 (105)
235 PF10007 DUF2250: Uncharacteri 38.8 73 0.0016 27.6 5.2 46 367-413 11-59 (92)
236 PF02513 Spin-Ssty: Spin/Ssty 38.4 1.1E+02 0.0024 24.0 5.6 38 66-108 1-42 (50)
237 COG3153 Predicted acetyltransf 38.4 21 0.00045 34.0 2.0 50 295-344 55-109 (171)
238 KOG2748 Uncharacterized conser 38.3 8.6 0.00019 40.6 -0.6 34 84-121 16-49 (369)
239 smart00347 HTH_MARR helix_turn 37.8 60 0.0013 25.8 4.3 54 366-420 13-74 (101)
240 PF13730 HTH_36: Helix-turn-he 37.7 32 0.0007 25.5 2.6 24 379-402 26-49 (55)
241 PRK00441 argR arginine repress 37.1 1E+02 0.0022 28.5 6.3 50 366-416 7-63 (149)
242 PF00567 TUDOR: Tudor domain; 36.8 1.8E+02 0.004 23.5 7.2 53 61-122 49-102 (121)
243 TIGR00281 segregation and cond 36.6 2.4E+02 0.0052 27.2 8.9 54 368-421 6-71 (186)
244 smart00614 ZnF_BED BED zinc fi 36.4 25 0.00054 26.4 1.8 27 205-231 17-49 (50)
245 COG2345 Predicted transcriptio 36.3 52 0.0011 32.7 4.4 42 365-407 13-57 (218)
246 PF13601 HTH_34: Winged helix 36.1 2E+02 0.0044 23.6 7.3 55 367-422 4-67 (80)
247 PF04079 DUF387: Putative tran 36.0 66 0.0014 30.2 4.9 56 367-422 83-146 (159)
248 PHA00733 hypothetical protein 35.8 25 0.00055 31.6 2.0 24 204-227 71-94 (128)
249 PRK11169 leucine-responsive tr 35.6 50 0.0011 30.3 4.0 40 366-406 17-59 (164)
250 PF09840 DUF2067: Uncharacteri 35.3 65 0.0014 31.2 4.9 39 383-421 147-186 (190)
251 smart00576 BTP Bromodomain tra 34.9 27 0.00059 28.5 1.9 27 379-405 48-74 (77)
252 PF13542 HTH_Tnp_ISL3: Helix-t 33.8 96 0.0021 22.6 4.6 33 366-401 18-50 (52)
253 COG1737 RpiR Transcriptional r 33.7 44 0.00096 33.3 3.6 42 366-407 21-65 (281)
254 TIGR02716 C20_methyl_CrtF C-20 33.7 73 0.0016 31.7 5.1 38 377-414 22-62 (306)
255 cd07153 Fur_like Ferric uptake 33.7 77 0.0017 26.8 4.6 43 365-407 3-53 (116)
256 PRK07405 RNA polymerase sigma 33.4 89 0.0019 32.0 5.8 27 376-402 182-208 (317)
257 PF13465 zf-H2C2_2: Zinc-finge 33.3 21 0.00045 23.5 0.8 16 203-218 11-26 (26)
258 PF05605 zf-Di19: Drought indu 32.8 30 0.00065 26.3 1.7 21 207-228 3-23 (54)
259 PF09824 ArsR: ArsR transcript 32.7 41 0.00089 32.0 2.9 60 351-413 88-155 (160)
260 PF03801 Ndc80_HEC: HEC/Ndc80p 32.6 62 0.0014 30.1 4.1 49 347-401 27-78 (157)
261 PRK05988 formate dehydrogenase 32.3 84 0.0018 29.3 4.9 50 366-415 23-79 (156)
262 PF13880 Acetyltransf_13: ESCO 32.3 25 0.00054 29.1 1.3 22 313-334 8-29 (70)
263 cd07977 TFIIE_beta_winged_heli 32.0 1.1E+02 0.0023 25.4 5.0 39 367-405 13-54 (75)
264 PRK11414 colanic acid/biofilm 31.6 2.1E+02 0.0046 26.9 7.6 49 376-424 32-85 (221)
265 PF10668 Phage_terminase: Phag 31.4 76 0.0017 25.6 3.8 26 370-395 14-39 (60)
266 smart00088 PINT motif in prote 31.3 75 0.0016 25.6 3.9 31 376-406 22-55 (88)
267 smart00753 PAM PCI/PINT associ 31.3 75 0.0016 25.6 3.9 31 376-406 22-55 (88)
268 PF08222 HTH_CodY: CodY helix- 31.2 1.6E+02 0.0035 24.0 5.6 46 378-423 4-56 (61)
269 COG1724 Predicted RNA binding 30.9 46 0.001 27.5 2.6 34 385-418 2-36 (66)
270 PF07524 Bromo_TP: Bromodomain 30.9 35 0.00076 27.6 1.9 25 380-404 49-73 (77)
271 PRK10681 DNA-binding transcrip 30.6 78 0.0017 31.2 4.6 31 365-396 9-39 (252)
272 PF09038 53-BP1_Tudor: Tumour 30.6 1.2E+02 0.0027 27.7 5.5 37 66-109 5-42 (122)
273 COG1654 BirA Biotin operon rep 30.6 96 0.0021 26.1 4.5 56 364-419 5-65 (79)
274 PRK11753 DNA-binding transcrip 30.5 1E+02 0.0022 28.2 5.1 37 378-414 168-207 (211)
275 smart00342 HTH_ARAC helix_turn 30.4 1.1E+02 0.0023 23.2 4.5 31 368-400 42-73 (84)
276 COG4519 Uncharacterized protei 30.3 81 0.0018 27.3 4.0 44 362-405 6-52 (95)
277 PF06969 HemN_C: HemN C-termin 30.2 1.7E+02 0.0037 22.4 5.6 49 365-414 8-60 (66)
278 TIGR01714 phage_rep_org_N phag 30.0 1.2E+02 0.0027 27.4 5.4 57 358-414 24-91 (119)
279 KOG3396 Glucosamine-phosphate 29.8 76 0.0017 29.9 4.1 68 266-340 40-115 (150)
280 PRK09990 DNA-binding transcrip 29.8 2.1E+02 0.0046 27.4 7.4 44 376-419 28-77 (251)
281 PRK10736 hypothetical protein; 29.6 1E+02 0.0022 32.9 5.6 49 366-416 311-362 (374)
282 PRK11050 manganese transport r 29.2 1.2E+02 0.0025 27.8 5.2 43 367-410 41-86 (152)
283 PF04492 Phage_rep_O: Bacterio 29.1 84 0.0018 27.4 4.1 33 377-409 53-88 (100)
284 PF01498 HTH_Tnp_Tc3_2: Transp 28.7 1.8E+02 0.0039 22.7 5.6 58 367-426 3-65 (72)
285 PF10410 DnaB_bind: DnaB-helic 28.5 48 0.001 24.9 2.2 54 331-394 1-58 (59)
286 PF12746 GNAT_acetyltran: GNAT 28.3 29 0.00062 35.2 1.2 19 313-331 189-209 (265)
287 PF08461 HTH_12: Ribonuclease 28.1 81 0.0017 25.3 3.5 41 367-407 2-50 (66)
288 PF00325 Crp: Bacterial regula 28.1 55 0.0012 23.3 2.2 25 378-402 2-26 (32)
289 PHA02763 hypothetical protein; 28.0 14 0.00029 32.3 -1.0 52 63-119 27-78 (102)
290 TIGR02850 spore_sigG RNA polym 27.8 1E+02 0.0022 30.1 4.9 33 371-403 129-161 (254)
291 COG2442 Uncharacterized conser 27.7 1.2E+02 0.0026 25.6 4.6 33 366-401 34-67 (79)
292 smart00874 B5 tRNA synthetase 27.6 66 0.0014 25.1 2.9 30 378-407 5-36 (71)
293 PRK03837 transcriptional regul 27.6 1.9E+02 0.0041 27.4 6.6 43 376-418 34-82 (241)
294 PF13591 MerR_2: MerR HTH fami 27.2 1.7E+02 0.0036 24.3 5.4 45 379-424 1-45 (84)
295 PF03484 B5: tRNA synthetase B 27.0 1.1E+02 0.0023 24.4 4.1 31 378-408 5-37 (70)
296 PRK07406 RNA polymerase sigma 26.9 1.3E+02 0.0029 31.8 5.8 27 377-403 238-264 (373)
297 COG1675 TFA1 Transcription ini 26.2 2.7E+02 0.0058 26.9 7.2 57 366-423 21-88 (176)
298 PRK07571 bidirectional hydroge 26.0 1.3E+02 0.0028 28.7 5.0 52 365-416 35-93 (169)
299 COG1247 Sortase and related ac 26.0 1.2E+02 0.0026 28.9 4.9 28 313-340 84-111 (169)
300 smart00739 KOW KOW (Kyprides, 25.9 1.4E+02 0.003 18.9 3.8 25 63-89 1-27 (28)
301 smart00531 TFIIE Transcription 25.6 81 0.0018 28.8 3.5 39 368-407 6-49 (147)
302 COG1802 GntR Transcriptional r 25.6 1.6E+02 0.0035 28.0 5.8 50 375-424 36-90 (230)
303 KOG3993 Transcription factor ( 25.5 35 0.00076 37.2 1.3 31 202-232 352-382 (500)
304 PRK14101 bifunctional glucokin 25.3 75 0.0016 35.4 3.9 42 366-407 359-403 (638)
305 COG4189 Predicted transcriptio 25.1 1.7E+02 0.0038 30.0 6.0 54 362-416 22-83 (308)
306 TIGR01958 nuoE_fam NADH-quinon 25.1 1.2E+02 0.0025 27.7 4.5 50 366-415 16-72 (148)
307 PRK04424 fatty acid biosynthes 25.0 1.1E+02 0.0023 29.0 4.4 40 365-405 9-51 (185)
308 PRK11426 hypothetical protein; 24.9 95 0.0021 28.7 3.8 44 344-402 51-96 (132)
309 KOG3766 Polycomb group protein 24.9 1.4E+02 0.0031 32.9 5.7 61 60-127 197-260 (478)
310 PTZ00326 phenylalanyl-tRNA syn 24.4 1E+02 0.0022 34.1 4.6 43 366-408 9-54 (494)
311 PRK11511 DNA-binding transcrip 24.1 1.4E+02 0.0031 26.2 4.7 41 364-404 10-52 (127)
312 PRK09464 pdhR transcriptional 23.8 2.7E+02 0.0059 26.8 7.0 41 375-415 30-76 (254)
313 PF01638 HxlR: HxlR-like helix 23.8 1.2E+02 0.0026 25.1 4.0 42 364-407 6-51 (90)
314 PF07750 GcrA: GcrA cell cycle 23.6 62 0.0013 30.4 2.4 45 364-408 3-49 (162)
315 PRK14165 winged helix-turn-hel 23.3 3.7E+02 0.0081 26.6 7.8 46 376-421 19-69 (217)
316 COG4226 HicB Predicted nucleas 23.0 1.2E+02 0.0025 27.5 3.9 54 380-433 39-94 (111)
317 PF01475 FUR: Ferric uptake re 22.8 1.2E+02 0.0027 26.0 4.0 43 365-407 10-60 (120)
318 PF06220 zf-U1: U1 zinc finger 22.3 54 0.0012 23.9 1.4 20 207-226 4-25 (38)
319 COG1670 RimL Acetyltransferase 22.2 1.6E+02 0.0034 25.4 4.6 21 313-334 99-119 (187)
320 PF00888 Cullin: Cullin family 21.8 86 0.0019 33.7 3.4 67 330-402 492-558 (588)
321 PF01399 PCI: PCI domain; Int 21.8 1.5E+02 0.0032 23.9 4.1 32 375-406 57-91 (105)
322 PF03444 HrcA_DNA-bdg: Winged 21.8 2.2E+02 0.0047 24.2 5.1 40 374-413 19-64 (78)
323 TIGR00122 birA_repr_reg BirA b 21.7 1.7E+02 0.0037 22.8 4.2 47 367-415 4-54 (69)
324 KOG3026 Splicing factor SPF30 21.7 75 0.0016 32.3 2.7 29 62-90 89-118 (262)
325 TIGR02980 SigBFG RNA polymeras 21.7 2.1E+02 0.0046 27.0 5.7 29 376-404 104-132 (227)
326 PRK12423 LexA repressor; Provi 21.6 1.9E+02 0.004 27.6 5.3 46 365-410 8-61 (202)
327 COG5648 NHP6B Chromatin-associ 21.3 1.1E+02 0.0024 30.4 3.7 47 337-389 60-106 (211)
328 PF00356 LacI: Bacterial regul 21.1 96 0.0021 23.4 2.6 24 380-403 1-24 (46)
329 PF09497 Med12: Transcription 21.1 65 0.0014 26.2 1.8 31 345-375 22-52 (64)
330 PRK05306 infB translation init 21.0 1.9E+02 0.004 33.9 6.0 50 376-429 220-269 (787)
331 PRK00110 hypothetical protein; 20.9 2.4E+02 0.0052 28.4 6.1 40 408-447 165-204 (245)
332 TIGR02997 Sig70-cyanoRpoD RNA 20.9 2.1E+02 0.0046 28.7 5.8 27 377-403 176-202 (298)
333 KOG3139 N-acetyltransferase [G 20.9 2E+02 0.0042 27.7 5.1 57 313-406 87-143 (165)
334 PF09237 GAGA: GAGA factor; I 20.8 93 0.002 24.8 2.5 27 202-228 20-46 (54)
335 cd04780 HTH_MerR-like_sg5 Heli 20.8 98 0.0021 26.3 2.9 43 379-423 1-46 (95)
336 PF04967 HTH_10: HTH DNA bindi 20.7 2.4E+02 0.0053 22.0 4.8 26 375-400 20-45 (53)
337 PF10678 DUF2492: Protein of u 20.5 2.7E+02 0.0059 23.7 5.4 51 366-416 7-73 (78)
338 PLN02853 Probable phenylalanyl 20.5 1.4E+02 0.003 33.1 4.6 43 366-408 6-51 (492)
339 PRK07539 NADH dehydrogenase su 20.5 1.6E+02 0.0034 27.1 4.4 51 365-415 21-78 (154)
340 COG1497 Predicted transcriptio 20.3 2.8E+02 0.006 28.5 6.3 49 367-415 14-66 (260)
341 COG4742 Predicted transcriptio 20.2 4.4E+02 0.0095 27.0 7.8 58 365-424 15-75 (260)
342 PRK05609 nusG transcription an 20.1 2.5E+02 0.0055 25.7 5.7 48 61-116 124-173 (181)
343 KOG4327 mRNA splicing protein 20.1 1.2E+02 0.0025 30.2 3.5 57 48-110 52-109 (218)
No 1
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=100.00 E-value=2.1e-147 Score=1135.51 Aligned_cols=400 Identities=92% Similarity=1.478 Sum_probs=369.6
Q ss_pred hhHHHHHhhcCCCCcccCcEEEEEec-CCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCCcccc
Q 013121 50 ESEATRKRRASMLPLEVGTRVMCRWR-DGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDSVETV 128 (449)
Q Consensus 50 e~~~~~~~~~~~~~~~vGerVl~~~~-dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~~~~~ 128 (449)
+.++.......+..|+||++|+|+|. +|++|+|+||++|..+.+..+.++|||||.||||||||||+.+||+++..+..
T Consensus 40 ~~~~~~~~~~~~~~~~VGekVla~~~~Dg~~~~A~VI~~R~~~~~~~~~~~YYVHY~g~nrRlDEWV~~~rLdls~~e~~ 119 (450)
T PLN00104 40 ESDPSKKRPGVMLPLEVGTRVMCRWRFDGKYHPVKVIERRRGGSGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDTVETV 119 (450)
T ss_pred CCCccccCCCccceeccCCEEEEEECCCCCEEEEEEEEEeccCCCCCCCceEEEEEecCCccHhhccCHhhccccccccc
Confidence 44445556778889999999999997 79999999999997442224567999999999999999999999999876654
Q ss_pred ccccccccccccccccccccccccccc-CCCccCChhhhhhhhcccccCCccEEEecceeeecccCCCCCcCcCCCCcEE
Q 013121 129 VDEKVEDKVTSLKMTRHQKRKIDETHV-EGHEELDAASLREHEEFTKVKNIATIELGRYEIETWYFSPFPPEYNDCLKLY 207 (449)
Q Consensus 129 ~~~~~~~~~~~~~~~r~~kr~~~~~~~-~~~~~~d~~~~~~~~~~t~~rni~~I~~G~y~i~tWY~SPYP~e~~~~~~ly 207 (449)
...+..+.....+.||++||+.++.+. +.++++++..+++|+++|++|||++|+||+|+|+||||||||+||.++++||
T Consensus 120 ~~~~~~~~~~~~k~TR~qKRK~eEin~ve~~~~~d~~~l~~~ee~tk~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~ly 199 (450)
T PLN00104 120 GDEKVEDKVASLKMTRHQKRKIDETHVEEGHEELDAASLREHEEFTKVKNIATIELGRYEIDTWYFSPFPPEYNDCSKLY 199 (450)
T ss_pred ccccccCcccccccchhhccccccccccccccccCcccccccccccccCccCEEEECCeEeeeeecCCCChHHcCCCeEE
Confidence 433332222455788999999887643 4567888888999999999999999999999999999999999999999999
Q ss_pred EeccccccccCHHHHHHHHhhCCCCCCCccEEEecCC----eEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCce
Q 013121 208 FCEFCLNFMKRKEQLQRHMRKCDLKHPPGDEIYRSGT----LSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFL 283 (449)
Q Consensus 208 iCe~Cl~y~~~~~~l~~H~~~C~~~~PPG~eIYr~~~----isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~Fl 283 (449)
||||||+||+++.+|.+|+.+|.++||||+||||+++ ||||||||+++++|||||||||||||||||||||||+|+
T Consensus 200 iCe~Cl~y~~~~~~~~~H~~~C~~~~PPG~eIYr~~~~~~~~si~EvDG~~~~~yCqnLcLlaKLFLdhKtlyydV~~Fl 279 (450)
T PLN00104 200 FCEFCLKFMKRKEQLQRHMKKCDLKHPPGDEIYRHPTRQEGLSMFEVDGKKNKVYCQNLCYLAKLFLDHKTLYYDVDLFL 279 (450)
T ss_pred EchhhhhhhcCHHHHHHHHhcCCCCCCCcCeEEEcCCCCceEEEEEEeCCcchhHHHHHHHHHHHhhcCcceeccccceE
Confidence 9999999999999999999999999999999999998 999999999999999999999999999999999999999
Q ss_pred EEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhh
Q 013121 284 FYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGY 363 (449)
Q Consensus 284 FYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sY 363 (449)
||||||.|+.|+||||||||||.|+++||||||||||||||||||+|||+|||+|||+||++|||||||||||+++|++|
T Consensus 280 FYvl~e~d~~g~h~vGyFSKEk~s~~~~NLaCIltlP~yQrkGyG~~LI~~SYeLSr~eg~~G~PEkPLSdlG~~sY~~Y 359 (450)
T PLN00104 280 FYVLCECDDRGCHMVGYFSKEKHSEEDYNLACILTLPPYQRKGYGKFLIAFSYELSKREGKVGTPERPLSDLGLVSYRGY 359 (450)
T ss_pred EEEEEEecCCCcEEEEEecccccCcCCCceEEEEecchhhhcchhheehhheehhhhccCCCCCCCCCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCceEe
Q 013121 364 WTRVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLKAAGRGGLEVDVSKLIWT 443 (449)
Q Consensus 364 W~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W~ 443 (449)
|+++|+++|.++.+.+||++||++|||+.+|||+||++||||+|++|+|+|++++++|++++++..++++.|||++|+|+
T Consensus 360 W~~~i~~~L~~~~~~~si~~is~~T~i~~~Dii~tL~~l~~l~~~kg~~~i~~~~~~i~~~~~~~~~~~~~i~~~~L~W~ 439 (450)
T PLN00104 360 WTRVLLEILKKHKGNISIKELSDMTAIKAEDIVSTLQSLNLIQYRKGQHVICADPKVLEEHLKAAGRGGLEVDPSKLIWT 439 (450)
T ss_pred HHHHHHHHHHhcCCCccHHHHHHHhCCCHHHHHHHHHHCCCEEecCCcEEEEECHHHHHHHHHHhcCCCcEEchhhcEEe
Confidence 99999999999888999999999999999999999999999999999999999999999999998899999999999999
Q ss_pred cCCCCC
Q 013121 444 PYKEQG 449 (449)
Q Consensus 444 P~~~~~ 449 (449)
|+...+
T Consensus 440 p~~~~~ 445 (450)
T PLN00104 440 PYKEQP 445 (450)
T ss_pred CCCCCC
Confidence 987653
No 2
>PTZ00064 histone acetyltransferase; Provisional
Probab=100.00 E-value=2.9e-137 Score=1062.74 Aligned_cols=354 Identities=44% Similarity=0.842 Sum_probs=325.8
Q ss_pred CCceeEEEecccccccccccccccccccCC----cccc-cccccc------------ccccccccccccccccc------
Q 013121 95 PNDYEYYVHYTEFNRRLDEWVKLEQLDLDS----VETV-VDEKVE------------DKVTSLKMTRHQKRKID------ 151 (449)
Q Consensus 95 ~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~----~~~~-~~~~~~------------~~~~~~~~~r~~kr~~~------ 151 (449)
.+.++|||||.|+||||||||..+||++.. .... ..++.. ......++||+|||+++
T Consensus 146 ~~~~eyYVHy~g~nrRlD~WV~~~ri~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~tr~qKR~~d~~~~~~ 225 (552)
T PTZ00064 146 KEDYEFYVHFRGLNRRLDRWVKGKDIKLSFDVEELNDPNLIERFQKQGIKFISSLSVSNSANKSGNKSKKRNVGVLDISD 225 (552)
T ss_pred CCCeEEEEEecCcCchHhhhcChhhccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 366899999999999999999999999832 1111 001111 01122368999999997
Q ss_pred ccccCCCccCChhhhhhhhcccccCCccEEEecceeeecccCCCCCcCcCCCCcEEEeccccccccCHHHHHHHHhhCCC
Q 013121 152 ETHVEGHEELDAASLREHEEFTKVKNIATIELGRYEIETWYFSPFPPEYNDCLKLYFCEFCLNFMKRKEQLQRHMRKCDL 231 (449)
Q Consensus 152 ~~~~~~~~~~d~~~~~~~~~~t~~rni~~I~~G~y~i~tWY~SPYP~e~~~~~~lyiCe~Cl~y~~~~~~l~~H~~~C~~ 231 (449)
+.+.++|+++|++.+++|+++|++|||++|+||+|+|+||||||||+||.++++||||||||+||+++.+|.+|+.+|.+
T Consensus 226 e~~~~~~~~~d~~~~kehee~tkvkNI~~I~~G~yei~TWYfSPYP~Ey~~~d~LYICEfCLkY~~s~~~l~rH~~~C~~ 305 (552)
T PTZ00064 226 GEDPDEHEGMDHSAILDHEETTRLRTIGRVRIGKFILDTWYFSPLPDEYQNVDTLHFCEYCLDFFCFEDELIRHLSRCQL 305 (552)
T ss_pred ccCchhhccCChhhhhcchhhhcCCCcCeEEECCeEecCCcCCCCChhhcCCCeEEEccchhhhhCCHHHHHHHHhcCCC
Confidence 44445688999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccEEEecCCeEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCCc
Q 013121 232 KHPPGDEIYRSGTLSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEESY 311 (449)
Q Consensus 232 ~~PPG~eIYr~~~isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~ 311 (449)
+||||+||||++++|||||||+++++|||||||||||||||||||||||+|+||||||.|+.|+||||||||||.|+++|
T Consensus 306 rhPPG~EIYR~~~iSifEVDG~~~klYCQNLCLLAKLFLDhKTLYyDVdpFlFYVLtE~D~~G~HiVGYFSKEK~S~~~n 385 (552)
T PTZ00064 306 RHPPGNEIYRKDNISVFEIDGALTRGYAENLCYLAKLFLDHKTLQYDVEPFLFYIVTEVDEEGCHIVGYFSKEKVSLLHY 385 (552)
T ss_pred CCCCCCeEEEeCCEEEEEEeCccchhHHHHHHHHHHHhccCccccccccceEEEEEEEecCCCcEEEEEecccccCcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCC---------------
Q 013121 312 NLACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHK--------------- 376 (449)
Q Consensus 312 NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~--------------- 376 (449)
|||||||||||||||||+|||+|||+|||+||++|||||||||||+++|++||+++|+++|.+..
T Consensus 386 NLACILtLPpyQRKGYGklLIdfSYeLSrrEgk~GsPEKPLSDLG~lSYrsYW~~~Ile~Ll~~~~~~~~~e~~~~k~~~ 465 (552)
T PTZ00064 386 NLACILTLPCYQRKGYGKLLVDLSYKLSLKEGKWGHPERPLSDLGRAIYNNWWAHRISEYLLEYFKQNKICERGGSKQPL 465 (552)
T ss_pred ceEEEEecchhhhcchhhhhhhhhhhhhhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999986521
Q ss_pred ----CCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCceEecCCCC
Q 013121 377 ----GNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLKAAGRGGLEVDVSKLIWTPYKEQ 448 (449)
Q Consensus 377 ----~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W~P~~~~ 448 (449)
..|||+|||++|||+++|||.||++||||+|++|+|+|++++++|++++++..++++.|||++|+|+|+++.
T Consensus 466 ~~~~~~iSI~dIS~~TgI~~eDII~TLq~L~llky~kgq~~I~~~~~~ie~~~~~~~k~~~~id~~~L~W~Py~~~ 541 (552)
T PTZ00064 466 QVSNYWKFIDNVVRSTGIRREDVIRILEENGIMRNIKDQHYIFCNQEFLKGIVKRSGRPGITLIDKYFNWVPFSRA 541 (552)
T ss_pred ccccCcccHHHHHHHhCCCHHHHHHHHHHCCcEEEeCCCEEEEECHHHHHHHHHHhcCCCceechhHceecCCCCC
Confidence 128999999999999999999999999999999999999999999999999999999999999999999865
No 3
>PLN03239 histone acetyltransferase; Provisional
Probab=100.00 E-value=5.8e-133 Score=1000.69 Aligned_cols=341 Identities=51% Similarity=0.914 Sum_probs=311.9
Q ss_pred EEEecccccccccccccccccccCCcccccccccccccccccccccccccccccccCCCccCChhhhhhhhcccccCCcc
Q 013121 100 YYVHYTEFNRRLDEWVKLEQLDLDSVETVVDEKVEDKVTSLKMTRHQKRKIDETHVEGHEELDAASLREHEEFTKVKNIA 179 (449)
Q Consensus 100 YYVHY~g~nkRlDEWV~~~rl~l~~~~~~~~~~~~~~~~~~~~~r~~kr~~~~~~~~~~~~~d~~~~~~~~~~t~~rni~ 179 (449)
|||||.++|||||+||+.++|++...+.+..++..... ..++.+..++. ..++++++|.+.+++|+|+|++|||+
T Consensus 1 yYVh~~~~nkRlD~Wv~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~----~~~~~~~~~~~~~~~~~e~t~~rNI~ 75 (351)
T PLN03239 1 YYVHYKDFNRRMDEWISKDKSNEEILALPSDHLATHTV-GEDVVATIAAP----ELDEHEGLDDAALKEHEEVTKVKNVA 75 (351)
T ss_pred CeEEeccccchHhhhcChhhcchhhhcCCccccccccc-ccccccccccc----ccccccccChhhhhhhHHHhcCCCCC
Confidence 89999999999999999999988765544433221111 11222221111 23467889999999999999999999
Q ss_pred EEEecceeeecccCCCCCcCcCC----CCcEEEeccccccccCHHHHHHHHhh---CCCCCCCccEEEecCCeEEEEEeC
Q 013121 180 TIELGRYEIETWYFSPFPPEYND----CLKLYFCEFCLNFMKRKEQLQRHMRK---CDLKHPPGDEIYRSGTLSMFEVDG 252 (449)
Q Consensus 180 ~I~~G~y~i~tWY~SPYP~e~~~----~~~lyiCe~Cl~y~~~~~~l~~H~~~---C~~~~PPG~eIYr~~~isifEVDG 252 (449)
+|+||+|+|+||||||||++|.+ +++||||||||+||.++.+|.+|+.+ |.++||||+||||++++|||||||
T Consensus 76 ~I~~G~y~i~tWYfSPyP~e~~~~~~~~~~lYiCE~Clky~~~~~~l~~H~~~~~~c~~~~PPG~eIYR~~~~sifEVDG 155 (351)
T PLN03239 76 FLELGPYQMDTWYFSPLPKELFKAGGFIDVLYVCEFSFGFFARKSELLRFQAKELPKERRHPPGNEIYRCGDLAMFEVDG 155 (351)
T ss_pred EEEECCeeecCCCCCCCcHHHhcccccCceEEEeccchhhhcCHHHHHHHHHhhccccCcCCCCCeEEEeCCEEEEEEeC
Confidence 99999999999999999999975 78999999999999999999999987 889999999999999999999999
Q ss_pred ccCcchhhhhhHHhhhhcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhh
Q 013121 253 KKNKVYGQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLI 332 (449)
Q Consensus 253 ~~~k~yCQnLCLlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI 332 (449)
+++++|||||||||||||||||||||||+|+||||||.|+.|+||||||||||.|+++||||||||||||||||||+|||
T Consensus 156 ~~~~~yCQnLCLlaKLFLdhKtlyyDV~~FlFYVl~e~D~~g~h~vGYFSKEK~s~~~~NLaCIltLPpyQrkGyG~lLI 235 (351)
T PLN03239 156 FEERIYCQNLCYIAKLFLDHKTLYFDVDPFLFYVLCEVDERGFHPVGYYSKEKYSDVGYNLACILTFPAHQRKGYGRFLI 235 (351)
T ss_pred ccchHHHHHHHHHHHHhhcCcceeccccceEEEEEEEecCCceEEEEEeeecccCCCCCceEEEEecChhhhcchhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCC---CCccHHHHHHhcCCChHHHHHHHHhcCceeeeC
Q 013121 333 AFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHK---GNISIKELSDMTAIKAEDILTTLQSLELIQYRK 409 (449)
Q Consensus 333 ~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~---~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~ 409 (449)
+|||+|||+||++|||||||||||++||++||+++|+++|.++. ..+||+|||++|||+++|||+||++||||++++
T Consensus 236 ~fSYeLSr~Eg~~G~PEkPLSdlG~~sY~~YW~~~il~~L~~~~~~~~~~si~dis~~Tgi~~~DIi~tL~~l~~l~~~~ 315 (351)
T PLN03239 236 AFSYELSKKEEKVGSPEKPMSDLGQQAYIPYWGSTIVDFLLNHSGNDSSLSIMDIAKKTSIMAEDIVFALNQLGILKFIN 315 (351)
T ss_pred hhhhHhhhhcCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCccHHHHHHHhCCCHHHHHHHHHHCCcEEEEC
Confidence 99999999999999999999999999999999999999998753 469999999999999999999999999999999
Q ss_pred CeEEEEeCHHHHHHHHHHhcCCCceeeCCCceEecC
Q 013121 410 GQHVICADPKVLDRHLKAAGRGGLEVDVSKLIWTPY 445 (449)
Q Consensus 410 g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W~P~ 445 (449)
|+|+|+++.+.+++++++..+++++|||++|+|+|+
T Consensus 316 g~~~i~~~~~~l~~~~~~~~~~~~~id~~~L~W~p~ 351 (351)
T PLN03239 316 GIYFIAAEKGLLEELAEKHPVKEPRVDPSKLHWTPF 351 (351)
T ss_pred CeEEEEeCHHHHHHHHHHhcCCCccCChhHceecCC
Confidence 999999999999999998877888999999999996
No 4
>KOG2747 consensus Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=100.00 E-value=5.5e-125 Score=954.81 Aligned_cols=350 Identities=57% Similarity=1.036 Sum_probs=295.1
Q ss_pred eeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCCcccccccccccccccccccccccccccccc---cC
Q 013121 80 HPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDSVETVVDEKVEDKVTSLKMTRHQKRKIDETH---VE 156 (449)
Q Consensus 80 ~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~~~~~~~~~~~~~~~~~~~~r~~kr~~~~~~---~~ 156 (449)
..|++..++.... .+.+|||||...|+|+|+|++...=.. .....+...........++. ++.. .+
T Consensus 36 ~~~~~~~~~~~~s---~~~~~~v~~~~~~~r~d~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~ 104 (396)
T KOG2747|consen 36 RKAETLPRKLIQS---ASLEYYVHYQKLNRRLDEWIGKPSQSI---KKARKEKLEGIKPEREITRL-----DEMDSRQVQ 104 (396)
T ss_pred ccccccccccccC---CCccchhhHHhhhccccccccCccccc---cccccccccccccchhhhcc-----ccchhhhhh
Confidence 3455554444332 256899999999999999999111000 00000000000000111111 1111 00
Q ss_pred -CCccCC---hhhhhhhhcccccCCccEEEecceeeecccCCCCCcCcCCCCcEEEeccccccccCHHHHHHHHhhCCCC
Q 013121 157 -GHEELD---AASLREHEEFTKVKNIATIELGRYEIETWYFSPFPPEYNDCLKLYFCEFCLNFMKRKEQLQRHMRKCDLK 232 (449)
Q Consensus 157 -~~~~~d---~~~~~~~~~~t~~rni~~I~~G~y~i~tWY~SPYP~e~~~~~~lyiCe~Cl~y~~~~~~l~~H~~~C~~~ 232 (449)
....++ .+.+++|++++++|||+.|+||+|+|+||||||||+||.+.++||||||||+||++++.|+||+.+|.++
T Consensus 105 ~~~~~~~~s~~~~~~~~~~~~~~r~i~~i~~G~yei~~WY~SPyP~e~~~~~~lYiCEfCLkY~~s~~~l~rH~~kC~~r 184 (396)
T KOG2747|consen 105 EKLNKFKGSTVQLEQEHEEVEKVRNIEKIEFGRYEIKTWYFSPYPEEYAKLDKLYICEFCLKYMKSRTSLQRHLKKCKLR 184 (396)
T ss_pred hhccccccchhhhhccccccceecccceEEEcceeeeeeecCCCchhhccCCeEEEehHHHhHhchHHHHHHHHHhcCCC
Confidence 112222 2345788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccEEEecCCeEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCCce
Q 013121 233 HPPGDEIYRSGTLSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEESYN 312 (449)
Q Consensus 233 ~PPG~eIYr~~~isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~N 312 (449)
||||+||||+++||||||||+++++|||||||||||||||||||||||||+||||||.|+.|+ ||||||||+|.++||
T Consensus 185 hPPG~EIYR~~~iSvfEVDG~~~k~YCQnLCLlaKLFLdhKTLYyDvdpFlFYVlte~d~~G~--VGYFSKEK~s~~~yN 262 (396)
T KOG2747|consen 185 HPPGNEIYRKGNISVFEVDGRKQKLYCQNLCLLAKLFLDHKTLYYDVDPFLFYVLTECDSYGC--VGYFSKEKESSENYN 262 (396)
T ss_pred CCCcceeeecCCEEEEEecCcchhHHHHHHHHHHHHHhcCceeEEeccceEEEEEEecCCcce--eeeeccccccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999996 999999999999999
Q ss_pred eeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCCC-ccHHHHHHhcCCC
Q 013121 313 LACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKGN-ISIKELSDMTAIK 391 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~-isi~~is~~Tgi~ 391 (449)
||||||||||||||||+|||+|||+|||+||++|||||||||||++|||+||+++|+++|.++++. |||+|||++|||+
T Consensus 263 laCILtLPpyQRkGYGklLIdFSYeLSr~E~~~GsPEKPLSDLGllsYrsYW~~~ll~~L~~~~~~~isI~~iS~~Tgi~ 342 (396)
T KOG2747|consen 263 LACILTLPPYQRKGYGKLLIDFSYELSRREGKIGSPEKPLSDLGLLSYRSYWRCVLLELLRKHRGEHISIKEISKETGIR 342 (396)
T ss_pred eeeeeecChhhhcccchhhhhhhhhhhcccCcCCCCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHhhCCC
Confidence 999999999999999999999999999999999999999999999999999999999999997765 9999999999999
Q ss_pred hHHHHHHHHhcCceeeeCCeEEEEeC-HHHHHHHHHHhc--CCCceeeCCCceEe
Q 013121 392 AEDILTTLQSLELIQYRKGQHVICAD-PKVLDRHLKAAG--RGGLEVDVSKLIWT 443 (449)
Q Consensus 392 ~~DIi~tL~~l~ll~~~~g~~~i~~~-~~~i~~~~~~~~--~~~~~id~~~L~W~ 443 (449)
++|||+||+.|||++|++| |+++++ +..++.+.++.. ++...+||++|.|+
T Consensus 343 ~~DIisTL~~L~m~~y~k~-~~~~~~~~~~i~~~~~~~~~~k~~~~~~~~~l~W~ 396 (396)
T KOG2747|consen 343 PDDIISTLQSLNMIKYYKG-YIISICSDDKLEDHKRNWAKFKKPRLLDPDCLLWT 396 (396)
T ss_pred HHHHHHHHHhhCCccccCC-eeEEEechHHHHHHHHHhhccCCccccCchhcccC
Confidence 9999999999999999999 888888 677777766533 56689999999996
No 5
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=100.00 E-value=1.1e-123 Score=914.03 Aligned_cols=283 Identities=66% Similarity=1.150 Sum_probs=274.9
Q ss_pred hhhhhhhhcccccCCccEEEecceeeecccCCCCCcCcCCCCcEEEeccccccccCHHHHHHHHhhCCCCCCCccEEEe-
Q 013121 163 AASLREHEEFTKVKNIATIELGRYEIETWYFSPFPPEYNDCLKLYFCEFCLNFMKRKEQLQRHMRKCDLKHPPGDEIYR- 241 (449)
Q Consensus 163 ~~~~~~~~~~t~~rni~~I~~G~y~i~tWY~SPYP~e~~~~~~lyiCe~Cl~y~~~~~~l~~H~~~C~~~~PPG~eIYr- 241 (449)
++.+++|+|.|++|||++|+||+|+|+||||||||+||.+.++||||||||+||+++.+|.+|+.+|.++||||+||||
T Consensus 5 ~~~~~~~ee~t~~kni~~i~~G~y~i~~WY~SPyP~e~~~~~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eIYr~ 84 (290)
T PLN03238 5 AELEREHEETTKVKNIEMIELGKYEMDTWYYSPYPEPYASCTKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGIYGA 84 (290)
T ss_pred hHHHhcchhhhcCCCcCEEEECCeeeecCccCCCChHHcCCCeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEeEec
Confidence 4456899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred --cCCeEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCCceeeEEeec
Q 013121 242 --SGTLSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTL 319 (449)
Q Consensus 242 --~~~isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~l 319 (449)
++++|||||||+++++|||||||||||||||||||||||+|+||||||.|+.|+||||||||||.|+++|||||||||
T Consensus 85 ~~~~~~sifEVDG~~~~~yCqnLcLlaKLFLdhKtlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~nNLaCIltL 164 (290)
T PLN03238 85 VTEGPLSVFEVDGKKAKVYCQNLCLLAKLFLDHKTLYYDVDPFLFYVMTEVDDHGSHIVGYFSKEKVSAEDYNLACILTL 164 (290)
T ss_pred CCCCcEEEEEEeCCcchhHHHHHHHHHHHhhcCccccccccceEEEEEEEecCCCcEEEEEeceeccccCCCcEEEEEec
Confidence 789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHH
Q 013121 320 PPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIKAEDILTTL 399 (449)
Q Consensus 320 P~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL 399 (449)
|||||||||+|||+|||+|||+||++|||||||||||++||++||+++|+++|.+....+||+|||++|||+++||++||
T Consensus 165 PpyQrkGyG~~LI~fSYeLSr~Eg~~G~PEkPLSdlG~~sY~~YW~~~il~~L~~~~~~isi~~is~~T~i~~~Dii~tL 244 (290)
T PLN03238 165 PPYQRKGYGKFLISFAYELSKREGKVGTPERPLSDLGKVSFRSYWTRVLLEQLRDVKGDVSIKDLSLATGIRGEDIVSTL 244 (290)
T ss_pred ChhhhccHhHhHHHHHhHHhhccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999887789999999999999999999999
Q ss_pred HhcCceeeeCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCceEecCC
Q 013121 400 QSLELIQYRKGQHVICADPKVLDRHLKAAGRGGLEVDVSKLIWTPYK 446 (449)
Q Consensus 400 ~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W~P~~ 446 (449)
++||++++++|+|+|+++++.+++++++.. +++.|||++|+|+|.+
T Consensus 245 ~~l~~l~~~~g~~~i~~~~~~~~~~~~~~~-~~~~id~~~L~W~p~~ 290 (290)
T PLN03238 245 QSLNLIKYWKGQHVIHVDQRVLDEHWAKFA-HQRVIEVDCLHWQPLP 290 (290)
T ss_pred HHCCcEEEECCcEEEEeCHHHHHHHHHhcC-CCccccchhceecCCC
Confidence 999999999999999999999999998844 4688999999999963
No 6
>COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=100.00 E-value=1.5e-117 Score=884.25 Aligned_cols=371 Identities=47% Similarity=0.886 Sum_probs=319.6
Q ss_pred CcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCCcccccccccccccccccc
Q 013121 63 PLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDSVETVVDEKVEDKVTSLKM 142 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~~~~~~~~~~~~~~~~~~~ 142 (449)
..-++.+|.+.- ||..+.|+||+++... .++.|||||.++||||||||..+.|++.........+.+ ..+.
T Consensus 5 ~~~~~sk~~~~~-d~e~~~~~Il~~~~~k----~~~~fyvh~~~~nrrl~e~i~~~~i~~~~~i~~~~~~~q----~~k~ 75 (395)
T COG5027 5 DIIIKSKVASEK-DGEARKAEILEINTRK----SRIKFYVHYVELNRRLDEWITADLINLGAAISIPKRKKQ----TEKG 75 (395)
T ss_pred ceEEEeeeeeec-CCceeEEeeeeeccCc----cCccEEEeehhhhhhhhhheeccccccccccccCccccc----chhh
Confidence 344567777764 8888999999998764 568999999999999999999999998543222211100 0011
Q ss_pred ccccccccccc-c--cC-----CCccCC----hhhhhhh-------hcccccCCccEEEecceeeecccCCCCCcCcCCC
Q 013121 143 TRHQKRKIDET-H--VE-----GHEELD----AASLREH-------EEFTKVKNIATIELGRYEIETWYFSPFPPEYNDC 203 (449)
Q Consensus 143 ~r~~kr~~~~~-~--~~-----~~~~~d----~~~~~~~-------~~~t~~rni~~I~~G~y~i~tWY~SPYP~e~~~~ 203 (449)
...++.+..+. + .+ .+..++ ...+|.+ .+..+++||..|.+|+|+|++|||||||.++.+.
T Consensus 76 k~ek~~k~~d~~~~~~~~~q~~~~~~~~~E~e~~~~r~~~~~~~~p~~~~~v~~i~~i~~~~y~iepwyfSpyp~~~s~~ 155 (395)
T COG5027 76 KKEKKPKVSDRMDLDNENVQLEMLYSISNEREIRQLRFGGSKVQNPHEGARVKNINEIKLGNYEIEPWYFSPYPEEFSDL 155 (395)
T ss_pred hcccCCccCcccccccccchhcccccccchhHHHhhccCccccCCccchhhhccchhheecccccccccccCcchhhccc
Confidence 11111111111 0 00 111111 1223322 2456899999999999999999999999999999
Q ss_pred CcEEEeccccccccCHHHHHHHHhhCCCCCCCccEEEecCCeEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCce
Q 013121 204 LKLYFCEFCLNFMKRKEQLQRHMRKCDLKHPPGDEIYRSGTLSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFL 283 (449)
Q Consensus 204 ~~lyiCe~Cl~y~~~~~~l~~H~~~C~~~~PPG~eIYr~~~isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~Fl 283 (449)
+.+|||||||+||.+..+|.||+++|+.+||||+|||||+.||||||||+++++|||||||||||||||||||||||||+
T Consensus 156 d~vyICefClkY~~s~~~~~rH~~kC~~~~pPG~eiYrD~~iS~~EiDG~~q~~~CrnLCLlsKlFLd~KtLYyDVDpfl 235 (395)
T COG5027 156 DIVYICEFCLKYYGSQTSLVRHRKKCSLQHPPGNEIYRDKYISFFEIDGRKQRLYCRNLCLLSKLFLDHKTLYYDVDPFL 235 (395)
T ss_pred ceEEEhhhhHHHhcchhHHHHHHhcCcCcCCCCceeeecCceEEEEEcCcchhhHHHHHHHHHHHHhcCceeEEeccceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhh
Q 013121 284 FYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGY 363 (449)
Q Consensus 284 FYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sY 363 (449)
|||||+.|+.|+|+||||||||+|.++||||||||||||||+|||+|||+|||+||++|+++||||+||||||+++||+|
T Consensus 236 FYvl~~~~~~~~h~vGyFSKEK~S~~~yNLaCILtLP~yQRrGYG~lLIdFSY~Ls~~E~k~gsPEKPLSdlGLlsYr~Y 315 (395)
T COG5027 236 FYVLTERGDTGCHLVGYFSKEKESEQDYNLACILTLPPYQRRGYGKLLIDFSYLLSQKEGKVGSPEKPLSDLGLLSYRAY 315 (395)
T ss_pred EEEEEEcCCcceeeeeeechhhcccccCceEEEEecChhHhcccceEeeeeeeecccccccCCCCCCCCchhhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhCCCCcc-HHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCceE
Q 013121 364 WTRVLLDILKKHKGNIS-IKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLKAAGRGGLEVDVSKLIW 442 (449)
Q Consensus 364 W~~~il~~L~~~~~~is-i~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W 442 (449)
|+.+|++.|.+.+.+++ |+|||.+|||+++|||.||+.||++++.+|+|++.++.+.++...+...+.+..|+++.|.|
T Consensus 316 W~~~v~~~L~k~~~~~~~I~~Is~~TgM~~dDVI~tLe~L~il~~~~~~yI~~l~~~~l~~~~R~~~kk~~~i~~d~L~w 395 (395)
T COG5027 316 WSEIVAKLLLKMDKEITDINEISKETGMSTDDVIHTLEALNILREYKGQYIISLNSDKLHNYLRLWSKKRRRINPDLLLW 395 (395)
T ss_pred HHHHHHHHHHhcCcccccHHHHHhhhCCchhhHHHHHHHhccchhhCceEEEEeccchhhhHHHHhhhhccccCHHhhCC
Confidence 99999999999888877 99999999999999999999999999999999999999888888877665558899999998
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=8.8e-93 Score=662.58 Aligned_cols=186 Identities=69% Similarity=1.203 Sum_probs=168.9
Q ss_pred CCCCCccEEEecCCeEEEEEeCccCcchhhhhhHHhhhhcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCC
Q 013121 231 LKHPPGDEIYRSGTLSMFEVDGKKNKVYGQNLCYLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEES 310 (449)
Q Consensus 231 ~~~PPG~eIYr~~~isifEVDG~~~k~yCQnLCLlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~ 310 (449)
++||||+||||++++|||||||+++++|||||||||||||||||||||||+|+|||||+.|+.|+|+||||||||.|+++
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 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCC--CccHHHHHHhc
Q 013121 311 YNLACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKG--NISIKELSDMT 388 (449)
Q Consensus 311 ~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~--~isi~~is~~T 388 (449)
||||||||||||||||||+|||+|||+|||+|+++|||||||||||++||++||+++|+++|.+..+ .|||+|||++|
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 9999999999999999999999999999999999999999999999999999999999999998666 69999999999
Q ss_pred CCChHHHHHHHHhcCceeeeCCeEEEEe
Q 013121 389 AIKAEDILTTLQSLELIQYRKGQHVICA 416 (449)
Q Consensus 389 gi~~~DIi~tL~~l~ll~~~~g~~~i~~ 416 (449)
||+++||++||++|||+++++|+++|++
T Consensus 161 gi~~~DIi~tL~~l~~l~~~~~~~~i~~ 188 (188)
T PF01853_consen 161 GIRPEDIISTLQQLGMLKYYKGQHIICI 188 (188)
T ss_dssp -BTHHHHHHHHHHTT-EEEETTEEEEE-
T ss_pred CCCHHHHHHHHHHCCCEEEECCcEEEEC
Confidence 9999999999999999999999999985
No 8
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=99.73 E-value=3.6e-18 Score=131.27 Aligned_cols=55 Identities=42% Similarity=0.968 Sum_probs=48.4
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
|++|++|+|.+.+|++|+|+|+++|... +..+|||||.|||+||||||+.++|+|
T Consensus 1 ~~vG~~v~~~~~~~~~y~A~I~~~r~~~----~~~~YyVHY~g~nkR~DeWV~~~~i~l 55 (55)
T PF11717_consen 1 FEVGEKVLCKYKDGQWYEAKILDIREKN----GEPEYYVHYQGWNKRLDEWVPESRIRL 55 (55)
T ss_dssp --TTEEEEEEETTTEEEEEEEEEEEECT----TCEEEEEEETTSTGCC-EEEETTTEEC
T ss_pred CCcCCEEEEEECCCcEEEEEEEEEEecC----CCEEEEEEcCCCCCCceeeecHHHccC
Confidence 6899999999989999999999999854 568999999999999999999999975
No 9
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=97.16 E-value=0.00098 Score=50.23 Aligned_cols=52 Identities=25% Similarity=0.482 Sum_probs=44.2
Q ss_pred CcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccC
Q 013121 63 PLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLD 123 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~ 123 (449)
.+++|+.|.|.+.+|.||+|+|+++... ..|.|+|.++-.+ +||+.++|...
T Consensus 2 ~~~~G~~~~a~~~d~~wyra~I~~~~~~-------~~~~V~f~D~G~~--~~v~~~~l~~l 53 (57)
T smart00333 2 TFKVGDKVAARWEDGEWYRARIIKVDGE-------QLYEVFFIDYGNE--EVVPPSDLRPL 53 (57)
T ss_pred CCCCCCEEEEEeCCCCEEEEEEEEECCC-------CEEEEEEECCCcc--EEEeHHHeecC
Confidence 5789999999988899999999999853 3699999997776 79999888654
No 10
>PF13673 Acetyltransf_10: Acetyltransferase (GNAT) domain; PDB: 2FIW_A 1BOB_A 3FNC_B 3EXN_A.
Probab=96.00 E-value=0.011 Score=48.56 Aligned_cols=52 Identities=23% Similarity=0.372 Sum_probs=37.9
Q ss_pred CceEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 281 LFLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 281 ~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
+..++|+.+. -.+|||..=++ +..|.++.|.|.|||+|+|+.|++..=...+
T Consensus 43 ~~~~~v~~~~----~~ivG~~~~~~----~~~i~~l~v~p~~r~~Gig~~Ll~~~~~~~~ 94 (117)
T PF13673_consen 43 SHTIFVAEEG----GEIVGFAWLEP----DGEISHLYVLPEYRGRGIGRALLDAAEKEAK 94 (117)
T ss_dssp CCEEEEEEET----TEEEEEEEEET----CEEEEEEEE-GGGTTSSHHHHHHHHHHHHHT
T ss_pred CCEEEEEEEC----CEEEEEEEEcC----CCeEEEEEEChhhcCCcHHHHHHHHHHHHHH
Confidence 3445555443 38999988652 2349999999999999999999998766553
No 11
>smart00298 CHROMO Chromatin organization modifier domain.
Probab=95.90 E-value=0.005 Score=45.49 Aligned_cols=38 Identities=24% Similarity=0.434 Sum_probs=31.1
Q ss_pred eEEEEEEeccCCCCCCceeEEEecccccccccccccccccc
Q 013121 81 PVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 81 ~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
.++|+++|... .+..+|+|||.|++.+.|.|++.++|.
T Consensus 4 v~~Il~~r~~~---~~~~~ylVkW~g~~~~~~tW~~~~~l~ 41 (55)
T smart00298 4 VEKILDHRWKK---KGELEYLVKWKGYSYSEDTWEPEENLL 41 (55)
T ss_pred hheeeeeeecC---CCcEEEEEEECCCCCccCceeeHHHHH
Confidence 46788888322 256899999999999999999998876
No 12
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=95.87 E-value=0.017 Score=42.13 Aligned_cols=46 Identities=22% Similarity=0.371 Sum_probs=35.8
Q ss_pred CcEEEEEecC-CceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccc
Q 013121 67 GTRVMCRWRD-GKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 67 GerVl~~~~d-g~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
|+.++|.+.+ |.||+|+|+++... ..|.|+|.++... +.|+.++|.
T Consensus 1 G~~c~a~~~~d~~wyra~V~~~~~~-------~~~~V~f~DyG~~--~~v~~~~l~ 47 (48)
T cd04508 1 GDLCLAKYSDDGKWYRAKITSILSD-------GKVEVFFVDYGNT--EVVPLSDLR 47 (48)
T ss_pred CCEEEEEECCCCeEEEEEEEEECCC-------CcEEEEEEcCCCc--EEEeHHHcC
Confidence 6889999864 99999999999752 2699999998766 456666553
No 13
>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Probab=95.78 E-value=0.012 Score=43.72 Aligned_cols=40 Identities=28% Similarity=0.510 Sum_probs=32.7
Q ss_pred eEEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 81 PVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 81 ~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
-.+||+.|.... .+..+|+||+.|++.+-|.|++.++|..
T Consensus 5 ve~Il~~r~~~~--~~~~~y~VkW~g~~~~~~tWe~~~~l~~ 44 (55)
T cd00024 5 VEKILDHRKKKD--GGEYEYLVKWKGYSYSEDTWEPEENLED 44 (55)
T ss_pred EeeeeeeeecCC--CCcEEEEEEECCCCCccCccccHHHhCc
Confidence 477888886532 2568999999999999999999998864
No 14
>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=95.60 E-value=0.0078 Score=46.65 Aligned_cols=50 Identities=24% Similarity=0.371 Sum_probs=37.3
Q ss_pred ceeeeeecccccCC-----CCceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 295 CHMVGYFSKEKHSE-----ESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 295 ~h~vGYFSKEK~s~-----~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
-.+|||.+=..... ..-.+-++.|.|.||++|+|+.|++..-+..+.++.
T Consensus 5 ~~ivg~~~~~~~~~~~~~~~~~~i~~~~v~~~~r~~Gig~~L~~~~~~~~~~~g~ 59 (83)
T PF00583_consen 5 GQIVGFASLRPPPEPFDHGNHAYIHRLAVDPEYRGQGIGSKLLQAAEEWARKRGI 59 (83)
T ss_dssp TEEEEEEEEEEEETTTTTTTEEEEEEEEECGGGTTSSHHHHHHHHHHHHHHHTTE
T ss_pred CEEEEEEEEEECCCccccCCEEEEEEEEEcHHHhhCCCchhhhhhhhhhHHhcCc
Confidence 35666554433332 234588999999999999999999999888887553
No 15
>PRK10146 aminoalkylphosphonic acid N-acetyltransferase; Provisional
Probab=95.48 E-value=0.018 Score=49.13 Aligned_cols=59 Identities=15% Similarity=0.242 Sum_probs=39.7
Q ss_pred ceEEEEEEecCCCceeeeeecccccCC--CC---ceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 282 FLFYVLCECDDRGCHMVGYFSKEKHSE--ES---YNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 282 FlFYVl~e~d~~g~h~vGYFSKEK~s~--~~---~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
..|||+.+ | ..+|||.+-..... .. ..|..+.|.|.|||+|||+.|+++.=+.++..+.
T Consensus 47 ~~~~v~~~-~---~~ivG~~~~~~~~~~~~~~~~~~i~~l~v~p~~rg~GiG~~Ll~~~~~~a~~~~~ 110 (144)
T PRK10146 47 MRYHLALL-D---GEVVGMIGLHLQFHLHHVNWIGEIQELVVMPQARGLNVGSKLLAWAEEEARQAGA 110 (144)
T ss_pred ceEEEEEE-C---CEEEEEEEEEecccccccchhheeheeEECHHHcCCCHHHHHHHHHHHHHHHcCC
Confidence 34555433 2 36889876432211 11 1377899999999999999999988877765443
No 16
>PRK07757 acetyltransferase; Provisional
Probab=95.33 E-value=0.024 Score=49.39 Aligned_cols=47 Identities=17% Similarity=0.297 Sum_probs=35.6
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhcc
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKE 342 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E 342 (449)
.++||.+-.-.......+.+|.|.|.|||+|||+.|++..-..++..
T Consensus 51 ~lvG~~~l~~~~~~~~~i~~v~V~p~~rg~Glg~~Ll~~l~~~a~~~ 97 (152)
T PRK07757 51 EIVGCCALHILWEDLAEIRSLAVSEDYRGQGIGRMLVEACLEEAREL 97 (152)
T ss_pred EEEEEEEEEeccCCceEEEEEEECHHHcCCCHHHHHHHHHHHHHHhC
Confidence 78998765433333234778999999999999999998877766543
No 17
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=95.19 E-value=0.044 Score=44.37 Aligned_cols=58 Identities=17% Similarity=0.225 Sum_probs=46.5
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccC
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLD 123 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~ 123 (449)
|++|+.|.+.+++..+.+|.|+..+...........|.|.|.|-+.+ .||+.++|..-
T Consensus 1 f~~GdlVWaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~~~--~wv~~~~i~~f 58 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYPWWPARVCDPDEKSKKKRKDGHVLVRFFGDNDY--AWVKPSNIKPF 58 (86)
T ss_dssp -STTEEEEEEETTSEEEEEEEEECCHCTSCSSSSTEEEEEETTTTEE--EEEEGGGEEEC
T ss_pred CCCCCEEEEEeCCCCCCceEEeecccccccCCCCCEEEEEecCCCCE--EEECHHHhhCh
Confidence 67999999999778899999999986433334567899999999965 79999988643
No 18
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=95.10 E-value=0.068 Score=45.90 Aligned_cols=63 Identities=16% Similarity=0.301 Sum_probs=50.2
Q ss_pred hcCCCCcccCcEEEEEecC--CceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCCcccc
Q 013121 58 RASMLPLEVGTRVMCRWRD--GKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDSVETV 128 (449)
Q Consensus 58 ~~~~~~~~vGerVl~~~~d--g~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~~~~~ 128 (449)
......|++|.+|-|.-.. ....-|+|+++.. ....|||.||+.+.|.|+..+.-++-++..-
T Consensus 22 ~~~~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g--------~~l~v~~dg~~~~~D~W~~~~S~~I~PvGwc 86 (96)
T smart00561 22 DSPPNGFKVGMKLEAVDPRNPSLICVATVVEVKG--------YRLLLHFDGWDDKYDFWCDADSPDIHPVGWC 86 (96)
T ss_pred CCccCcccCCCEEEEECCCCCceEEEEEEEEEEC--------CEEEEEEccCCCcCCEEEECCCCCcccCchH
Confidence 3456779999999997533 2357899999873 3789999999999999999988887766553
No 19
>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=94.95 E-value=0.017 Score=36.34 Aligned_cols=22 Identities=41% Similarity=0.834 Sum_probs=20.9
Q ss_pred EEeccccccccCHHHHHHHHhh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
|.|+.|.+.|.++..|.+|++.
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 20
>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=94.87 E-value=0.038 Score=43.49 Aligned_cols=43 Identities=21% Similarity=0.388 Sum_probs=29.9
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhh
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELS 339 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLS 339 (449)
.++|+..=.... +..-|..++|.|.||++|+|+.|++..-+..
T Consensus 13 ~ivG~~~~~~~~-~~~~i~~~~v~~~~rg~Gig~~ll~~~~~~~ 55 (79)
T PF13508_consen 13 EIVGFIRLWPNE-DFAYIGYLAVDPEYRGKGIGSKLLNYLLEKA 55 (79)
T ss_dssp EEEEEEEEEETT-TEEEEEEEEE-GGGTTSSHHHHHHHHHHHHH
T ss_pred EEEEEEEEEEcC-CEEEEEEEEECHHHcCCCHHHHHHHHHHHHc
Confidence 566755543222 2345999999999999999999998863333
No 21
>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=94.69 E-value=0.05 Score=40.91 Aligned_cols=42 Identities=17% Similarity=0.333 Sum_probs=35.6
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR 408 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~ 408 (449)
.||++|.++...+|+.|||+.|||.. .-++.||.+.|++...
T Consensus 7 ~iL~~l~~~~~~~t~~eia~~~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 7 RILEALAESGGPLTLSEIARALGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHCHHCTBSCEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCcCeecC
Confidence 57788888888899999999999985 6789999999999753
No 22
>PRK10514 putative acetyltransferase; Provisional
Probab=94.46 E-value=0.045 Score=47.07 Aligned_cols=38 Identities=18% Similarity=0.386 Sum_probs=30.6
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhh
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYEL 338 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeL 338 (449)
.++||.+=.. ..+..+.|.|.||++|||+.|+++..+.
T Consensus 60 ~~iG~~~~~~-----~~~~~~~v~p~~rgkGig~~Ll~~~~~~ 97 (145)
T PRK10514 60 QPVGFMLLSG-----GHMEALFVDPDVRGCGVGRMLVEHALSL 97 (145)
T ss_pred cEEEEEEEec-----CcEeEEEECHHhccCCHHHHHHHHHHHh
Confidence 7899876422 2366899999999999999999998764
No 23
>PRK09831 putative acyltransferase; Provisional
Probab=94.34 E-value=0.045 Score=47.99 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=34.2
Q ss_pred eEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchh
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYE 337 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYe 337 (449)
.|+|+.+ +.+++||..=.. ..+..+.|.|.|||+|+|+.|++..-.
T Consensus 54 ~~~v~~~----~~~iiG~~~~~~-----~~i~~~~v~p~~~g~GiG~~Ll~~~~~ 99 (147)
T PRK09831 54 QVRVAVI----NAQPVGFITCIE-----HYIDMLFVDPEYTRRGVASALLKPLIK 99 (147)
T ss_pred ceEEEEE----CCEEEEEEEehh-----ceeeeEEECHHHcCCCHHHHHHHHHHH
Confidence 3566543 238899876532 358889999999999999999876643
No 24
>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=94.33 E-value=0.064 Score=49.47 Aligned_cols=45 Identities=16% Similarity=0.281 Sum_probs=33.7
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
.++||..=........++..|.|.|.||++|||+.|++..=+.++
T Consensus 109 ~iiG~i~l~~~~~~~~~i~~l~V~p~~rGkG~G~~ll~~~~~~a~ 153 (191)
T TIGR02382 109 DPRGYVTLRELNDTDARIGLLAVFPGAQSRGIGAELMQTALNWCY 153 (191)
T ss_pred eEEEEEEEEecCCCceEEEEEEECHHHcCCCHHHHHHHHHHHHHH
Confidence 689986543333334568889999999999999999987655554
No 25
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=94.17 E-value=0.16 Score=39.08 Aligned_cols=37 Identities=19% Similarity=0.205 Sum_probs=31.2
Q ss_pred CcccCcEEEEEe-cCCceeeEEEEEEeccCCCCCCceeEEEeccc
Q 013121 63 PLEVGTRVMCRW-RDGKYHPVKVIERRKMHFGGPNDYEYYVHYTE 106 (449)
Q Consensus 63 ~~~vGerVl~~~-~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g 106 (449)
.|++|+.|-|++ .++.|++|+|+++... ..|.|+|.+
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~~-------~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLGD-------GKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECCC-------CEEEEEECC
Confidence 589999999997 4778999999988752 269999987
No 26
>PHA01807 hypothetical protein
Probab=94.16 E-value=0.06 Score=49.53 Aligned_cols=48 Identities=13% Similarity=0.178 Sum_probs=34.2
Q ss_pred eeeeeecccccC----CCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 296 HMVGYFSKEKHS----EESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 296 h~vGYFSKEK~s----~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.+|||.+-.-.. ..-..|.+|.|+|.|||+|+|+.||+.-....+..|
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 678876532111 111224568999999999999999999998887654
No 27
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=94.16 E-value=0.1 Score=41.73 Aligned_cols=54 Identities=22% Similarity=0.476 Sum_probs=35.6
Q ss_pred cccCcEEEEEec----CCceeeEEEEEEeccCCCCCCceeEEEeccccccc------ccccccccccccCC
Q 013121 64 LEVGTRVMCRWR----DGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRR------LDEWVKLEQLDLDS 124 (449)
Q Consensus 64 ~~vGerVl~~~~----dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkR------lDEWV~~~rl~l~~ 124 (449)
|++|+.|-|... .|.|+.|+|++..... .|+|-|..+..- |-|||+..+|+...
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~-------~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~p 64 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDD-------KYLVEYDDLPDEDGESPPLKEWVDARRIRPCP 64 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT--------EEEEEETT-SS--------EEEEEGGGEEE--
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCc-------EEEEEECCcccccccccccEEEechheEECcC
Confidence 678999999863 4569999999988642 799999655443 89999999987543
No 28
>PRK10975 TDP-fucosamine acetyltransferase; Provisional
Probab=94.12 E-value=0.072 Score=49.02 Aligned_cols=46 Identities=13% Similarity=0.322 Sum_probs=34.6
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhc
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKK 341 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~ 341 (449)
.+|||.+=.........+..+.|.|.|||+|||+.|+.+.=+.++.
T Consensus 112 ~~vG~~~l~~~~~~~~~i~~~~V~p~~rg~Gig~~Ll~~~~~~a~~ 157 (194)
T PRK10975 112 QIQGFVTLRELNDTDARIGLLAVFPGAQGRGIGARLMQAALNWCQA 157 (194)
T ss_pred CEEEEEEEEecCCCceEEEEEEEChhhcCCCHHHHHHHHHHHHHHH
Confidence 4788876543333334588888999999999999999988777654
No 29
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=94.11 E-value=0.1 Score=52.17 Aligned_cols=58 Identities=24% Similarity=0.359 Sum_probs=42.1
Q ss_pred cCCCCcccCcEEEEEe-cCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCC
Q 013121 59 ASMLPLEVGTRVMCRW-RDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDS 124 (449)
Q Consensus 59 ~~~~~~~vGerVl~~~-~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~ 124 (449)
.+....+||++++|.| .||.+|+|+|.+|.... -.+-|.|.+++.+ |.|..++|....
T Consensus 64 ~~~~~WkvGd~C~A~~s~Dg~~Y~A~I~~i~~~~------~~~~V~f~gYgn~--e~v~l~dL~~~~ 122 (264)
T PF06003_consen 64 APNKKWKVGDKCMAVYSEDGQYYPATIESIDEED------GTCVVVFTGYGNE--EEVNLSDLKPSE 122 (264)
T ss_dssp TTTT---TT-EEEEE-TTTSSEEEEEEEEEETTT------TEEEEEETTTTEE--EEEEGGGEEETT
T ss_pred CcccCCCCCCEEEEEECCCCCEEEEEEEEEcCCC------CEEEEEEcccCCe--Eeeehhhhcccc
Confidence 3456899999999999 59999999999998643 2578999999887 677777776543
No 30
>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=93.86 E-value=0.1 Score=43.02 Aligned_cols=46 Identities=24% Similarity=0.351 Sum_probs=35.1
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhcc
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKE 342 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E 342 (449)
.+|||..-.... ...-+..+.|.|.||++|+|+.|++..-+..+.+
T Consensus 41 ~~vg~~~~~~~~-~~~~i~~~~v~~~~rg~G~g~~ll~~~~~~~~~~ 86 (131)
T TIGR01575 41 KVVGYAGVQIVL-DEAHILNIAVKPEYQGQGIGRALLRELIDEAKGR 86 (131)
T ss_pred eEEEEEEEEecC-CCeEEEEEEECHHHcCCCHHHHHHHHHHHHHHHc
Confidence 689987744322 3345889999999999999999998877666543
No 31
>PRK12308 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional
Probab=93.85 E-value=0.064 Score=58.98 Aligned_cols=57 Identities=16% Similarity=0.123 Sum_probs=41.2
Q ss_pred eEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.|||+.+. -++|||..=........-|..|.|.|.|||+|+|+.|++..-+.++..|
T Consensus 504 ~~~Va~~~----g~IVG~~~l~~~~~~~~~I~~i~V~P~~rGkGIGk~Ll~~l~~~ak~~g 560 (614)
T PRK12308 504 SFAVAEHH----GEVTGCASLYIYDSGLAEIRSLGVEAGWQVQGQGSALVQYLVEKARQMA 560 (614)
T ss_pred cEEEEEEC----CEEEEEEEEEEcCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 35666543 2689987643332222348899999999999999999999888887544
No 32
>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=93.68 E-value=0.1 Score=36.35 Aligned_cols=46 Identities=24% Similarity=0.408 Sum_probs=33.4
Q ss_pred ceeeeeecccccC--CCCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 295 CHMVGYFSKEKHS--EESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 295 ~h~vGYFSKEK~s--~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
-+++||++=-... .....|.-+.|.|.||++|+|+.|+...-+..+
T Consensus 8 ~~~ig~~~~~~~~~~~~~~~l~~~~v~~~~~~~g~~~~~~~~~~~~~~ 55 (65)
T cd04301 8 GEIVGFASLSPDGSGGDTAYIGDLAVLPEYRGKGIGSALLEAAEEEAR 55 (65)
T ss_pred CEEEEEEEEEecCCCCccEEEEEEEECHHHcCcCHHHHHHHHHHHHHH
Confidence 3688877644433 233446779999999999999999987655554
No 33
>KOG3216 consensus Diamine acetyltransferase [Amino acid transport and metabolism]
Probab=93.65 E-value=0.15 Score=47.93 Aligned_cols=73 Identities=26% Similarity=0.390 Sum_probs=47.7
Q ss_pred HHhhhhcccccceecCCCceEEEEEEecCCCceeee---eecccccCC---CCceeeEEeecCcccccccchhhhhhchh
Q 013121 264 YLAKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVG---YFSKEKHSE---ESYNLACILTLPPYQRKGYGKFLIAFSYE 337 (449)
Q Consensus 264 LlaKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vG---YFSKEK~s~---~~~NLaCIl~lP~yQrkGyG~~LI~fSYe 337 (449)
|..-+|+|++.- +++|+ +.+..|..++| ||-- -.+| +.-=|-=|.|-|+|||||+|+.||.+=|+
T Consensus 41 l~~~~F~d~~~~-------~~~v~-~ie~~~~~~aGf~~yf~~-ystW~~k~~iYleDlyV~e~yR~kG~Gs~Ll~~va~ 111 (163)
T KOG3216|consen 41 LARDGFIDPPFK-------HWLVA-AIETSGEVVAGFALYFNN-YSTWLGKQGIYLEDLYVREQYRGKGIGSKLLKFVAE 111 (163)
T ss_pred hhhhhccCCCcc-------EEEEE-EEecCCCceeEEeeeecc-cccccccceEEEEeeEecchhcccChHHHHHHHHHH
Confidence 344468887643 33333 34455777888 3421 1111 22236679999999999999999999999
Q ss_pred hhhccCCCCCC
Q 013121 338 LSKKEGKVGTP 348 (449)
Q Consensus 338 LSr~E~~~G~P 348 (449)
.+.+ .|+|
T Consensus 112 ~A~~---~G~~ 119 (163)
T KOG3216|consen 112 EADK---LGTP 119 (163)
T ss_pred HHHH---cCCC
Confidence 9974 6665
No 34
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=93.31 E-value=0.31 Score=38.98 Aligned_cols=51 Identities=10% Similarity=0.161 Sum_probs=40.7
Q ss_pred HHHHHHHHHhCCC-CccHHHHHHhcCCChHH---HHHHHHhcCceeeeC---CeEEEE
Q 013121 365 TRVLLDILKKHKG-NISIKELSDMTAIKAED---ILTTLQSLELIQYRK---GQHVIC 415 (449)
Q Consensus 365 ~~~il~~L~~~~~-~isi~~is~~Tgi~~~D---Ii~tL~~l~ll~~~~---g~~~i~ 415 (449)
.+.||++|.+.++ .++..|||+.+||+... ++.+|+..|+|.... +.|.|.
T Consensus 8 ~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~ 65 (68)
T smart00550 8 EEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQGGTPPLWKLT 65 (68)
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCceEee
Confidence 3679999998766 49999999999998755 578889999998743 556654
No 35
>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=93.21 E-value=0.075 Score=32.68 Aligned_cols=22 Identities=32% Similarity=0.771 Sum_probs=18.8
Q ss_pred EEeccccccccCHHHHHHHHhh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
|.|+.|.+-|.+...|.+|+..
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 7999999999999999999975
No 36
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=93.19 E-value=0.13 Score=40.51 Aligned_cols=56 Identities=14% Similarity=0.205 Sum_probs=44.7
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCC----CCCceeEEEecccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFG----GPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~----~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
|++|+.|.+.+++-.+.+|.|+.-...... ......|.|+|.|-+.. .||+.++|.
T Consensus 1 f~~GdlVwaK~~G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~--awv~~~~l~ 60 (63)
T smart00293 1 FKPGDLVWAKMKGFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKDT--AWISSSKLF 60 (63)
T ss_pred CCCCCEEEEECCCCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCCE--EEECcccee
Confidence 578999999997778999999988753211 22456899999998888 899998875
No 37
>PLN02825 amino-acid N-acetyltransferase
Probab=93.06 E-value=0.11 Score=56.68 Aligned_cols=57 Identities=18% Similarity=0.216 Sum_probs=39.9
Q ss_pred eEEEEEEecCCCceeeeeecccccC-CCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHS-EESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s-~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.|||+. .|. .++||..-.... .....|+||.|.|.||++|+|+.|+++.-..++..|
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 442 567765422111 122459999999999999999999999888887554
No 38
>KOG3001 consensus Dosage compensation regulatory complex/histone acetyltransferase complex, subunit MSL-3/MRG15/EAF3, and related CHROMO domain-containing proteins [Chromatin structure and dynamics; Transcription]
Probab=93.05 E-value=0.033 Score=58.80 Aligned_cols=55 Identities=15% Similarity=0.231 Sum_probs=45.9
Q ss_pred CCcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccc
Q 013121 62 LPLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 62 ~~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
..+..|++|+|+| +...++|+|++..... ..++|++||.+|+.-|||||+...+.
T Consensus 6 ~~~~~~e~~~~~~-~~~~~eak~~k~~~~~----~~~~~~i~~~k~~~~~~e~v~~~~~~ 60 (391)
T KOG3001|consen 6 IEVLSNERVLCFH-GPLMEEAKIVKKEIGD----KSSKYKIHRSKWRDSIGEEVPETLKL 60 (391)
T ss_pred ccccccceeeecc-cchhhhhhhhhhcccc----CcccccccccccCCccchhhhhhhcC
Confidence 4577899999997 4445999999887653 55899999999999999999987764
No 39
>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=92.95 E-value=0.17 Score=49.45 Aligned_cols=57 Identities=23% Similarity=0.338 Sum_probs=38.8
Q ss_pred CceEEEEEEecCCCceeeeeecccccCC-CCceeeEEeecCcccccccchhhhhhchhhhhc
Q 013121 281 LFLFYVLCECDDRGCHMVGYFSKEKHSE-ESYNLACILTLPPYQRKGYGKFLIAFSYELSKK 341 (449)
Q Consensus 281 ~FlFYVl~e~d~~g~h~vGYFSKEK~s~-~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~ 341 (449)
...|||+.. | -.+||+.+=+.... ....+..|.|.|.|||+|+|+.|++..=+..+.
T Consensus 157 ~~~~~v~~~-~---g~iVG~~~~~~~~~~~~~eI~~i~V~P~yRG~GiG~~Ll~~l~~~a~~ 214 (266)
T TIGR03827 157 NVVYFGVED-G---GKIIALASAEMDPENGNAEMTDFATLPEYRGKGLAKILLAAMEKEMKE 214 (266)
T ss_pred CcEEEEEEE-C---CEEEEEEEEecCCCCCcEEEEEEEECHHHcCCCHHHHHHHHHHHHHHH
Confidence 345555543 2 36899887432221 223477889999999999999999987665554
No 40
>PLN02706 glucosamine 6-phosphate N-acetyltransferase
Probab=92.92 E-value=0.17 Score=43.93 Aligned_cols=28 Identities=25% Similarity=0.345 Sum_probs=24.3
Q ss_pred EeecCcccccccchhhhhhchhhhhccC
Q 013121 316 ILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 316 Il~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
|+|.|.||++|||+.|++..-+.++..|
T Consensus 91 i~V~~~~rg~GiG~~ll~~~~~~a~~~g 118 (150)
T PLN02706 91 VVVDSAARGKGLGKKIIEALTEHARSAG 118 (150)
T ss_pred EEECHHHcCCCHHHHHHHHHHHHHHHcC
Confidence 8899999999999999998888776433
No 41
>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=92.86 E-value=0.065 Score=45.01 Aligned_cols=34 Identities=21% Similarity=0.384 Sum_probs=29.1
Q ss_pred ceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 311 YNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 311 ~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
..+.+++|.|.|||+|+|+.|++...+-.+.+|.
T Consensus 73 ~~i~~v~v~p~~R~~Gl~~~L~~~~~~~~~~~g~ 106 (127)
T PF13527_consen 73 AYIGDVAVDPEYRGRGLGRQLMRALLERARERGV 106 (127)
T ss_dssp EEEEEEEE-GGGTTSSHHHHHHHHHHHHHHHTT-
T ss_pred EEEEEEEECHHHcCCCHHHHHHHHHHHHHHhCCC
Confidence 4589999999999999999999999998887665
No 42
>PRK10140 putative acetyltransferase YhhY; Provisional
Probab=92.75 E-value=0.17 Score=43.76 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=30.9
Q ss_pred ceEEEEEEecCCCceeeeeecccccC--CC--CceeeEEeecCcccccccchhhhhhc
Q 013121 282 FLFYVLCECDDRGCHMVGYFSKEKHS--EE--SYNLACILTLPPYQRKGYGKFLIAFS 335 (449)
Q Consensus 282 FlFYVl~e~d~~g~h~vGYFSKEK~s--~~--~~NLaCIl~lP~yQrkGyG~~LI~fS 335 (449)
+.+||+++ + -.+|||.+=-... .. ...++ |.|.|.||++|+|+.|++.-
T Consensus 51 ~~~~v~~~-~---~~~vG~~~~~~~~~~~~~~~~~~~-~~v~p~~rg~Gig~~ll~~l 103 (162)
T PRK10140 51 IKQLVACI-D---GDVVGHLTIDVQQRPRRSHVADFG-ICVDSRWKNRGVASALMREM 103 (162)
T ss_pred cEEEEEEE-C---CEEEEEEEEecccccccceEEEEE-EEECHHHcCCCHHHHHHHHH
Confidence 34556543 2 3799986532111 11 12344 78999999999999998754
No 43
>PRK03624 putative acetyltransferase; Provisional
Probab=92.46 E-value=0.21 Score=41.54 Aligned_cols=55 Identities=18% Similarity=0.127 Sum_probs=34.5
Q ss_pred ceEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhc
Q 013121 282 FLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKK 341 (449)
Q Consensus 282 FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~ 341 (449)
..++|+.. | ..+||+..=.- .....-+.-|.|.|.|||+|||+.|++..=...+.
T Consensus 45 ~~~~v~~~-~---~~~vG~~~~~~-~~~~~~i~~i~v~p~~rg~Gig~~ll~~~~~~~~~ 99 (140)
T PRK03624 45 SLFLVAEV-G---GEVVGTVMGGY-DGHRGWAYYLAVHPDFRGRGIGRALVARLEKKLIA 99 (140)
T ss_pred ceEEEEEc-C---CcEEEEEEeec-cCCCceEEEEEECHHHhCCCHHHHHHHHHHHHHHH
Confidence 44555532 2 25888753211 11222355678999999999999999987665553
No 44
>PRK07922 N-acetylglutamate synthase; Validated
Probab=92.43 E-value=0.17 Score=46.24 Aligned_cols=49 Identities=14% Similarity=0.227 Sum_probs=35.7
Q ss_pred ceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 295 CHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 295 ~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
-.++||-+-........-|..+.|-|.||++|+|+.|++..-+.++..|
T Consensus 55 ~~iiG~~~~~~~~~~~~~i~~l~V~p~~rgkGiG~~Ll~~~~~~a~~~g 103 (169)
T PRK07922 55 GEVVGCGALHVMWEDLAEIRTVAVDPAARGRGVGHAIVERLLDVARELG 103 (169)
T ss_pred CcEEEEEEEeecCCCceEEEEEEECHHHhCCCHHHHHHHHHHHHHHHcC
Confidence 3588875433322223347789999999999999999999887777543
No 45
>PRK13688 hypothetical protein; Provisional
Probab=92.23 E-value=0.17 Score=46.58 Aligned_cols=23 Identities=43% Similarity=0.878 Sum_probs=21.0
Q ss_pred eeeEEeecCcccccccchhhhhh
Q 013121 312 NLACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 312 NLaCIl~lP~yQrkGyG~~LI~f 334 (449)
-|..|.|.|.|||+|+|+.|++.
T Consensus 81 ~L~~l~V~p~~rgkGiG~~Ll~~ 103 (156)
T PRK13688 81 ELWKLEVLPKYQNRGYGEMLVDF 103 (156)
T ss_pred EEEEEEECHHHcCCCHHHHHHHH
Confidence 48899999999999999999874
No 46
>PRK05279 N-acetylglutamate synthase; Validated
Probab=91.84 E-value=0.19 Score=52.71 Aligned_cols=57 Identities=23% Similarity=0.361 Sum_probs=40.1
Q ss_pred eEEEEEEecCCCceeeeeecccccCC-CCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSE-ESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~-~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.|||+.+ | -.++||.+-..... ...-+.++.|.|.||++|+|+.|++..-+..+..|
T Consensus 335 ~~~va~~-d---g~iVG~~~~~~~~~~~~~~I~~l~V~p~~Rg~GiG~~Ll~~l~~~a~~~g 392 (441)
T PRK05279 335 KFTVIER-D---GLIIGCAALYPFPEEKMGEMACLAVHPDYRGSGRGERLLKRIEQRARQLG 392 (441)
T ss_pred cEEEEEE-C---CEEEEEEEEEEcCCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHcC
Confidence 3555543 2 26888764333221 22358999999999999999999999888877654
No 47
>PRK10562 putative acetyltransferase; Provisional
Probab=91.83 E-value=0.23 Score=43.26 Aligned_cols=45 Identities=24% Similarity=0.402 Sum_probs=32.1
Q ss_pred eEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhc
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFS 335 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fS 335 (449)
.+||+++. | .+|||.+=-. ...+.-+.|.|.||++|||+.|+++.
T Consensus 49 ~~~v~~~~---~-~~iG~~~~~~----~~~i~~~~v~~~~rg~G~g~~ll~~~ 93 (145)
T PRK10562 49 QTWVWEED---G-KLLGFVSVLE----GRFVGALFVAPKAVRRGIGKALMQHV 93 (145)
T ss_pred cEEEEEEC---C-EEEEEEEEee----ccEEEEEEECHHHcCCCHHHHHHHHH
Confidence 46777653 2 5888865311 12466689999999999999998765
No 48
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=91.71 E-value=0.26 Score=40.65 Aligned_cols=57 Identities=18% Similarity=0.222 Sum_probs=44.0
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCC---CCCceeEEEeccccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFG---GPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~---~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
|.+|+.|.+.+++-.+.+|.|++....... ......|.|+|.|.+.+ .||+.++|..
T Consensus 1 f~~GdlVwaK~~g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg~~~~--~wv~~~~l~p 60 (87)
T cd05162 1 FRPGDLVWAKMKGYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFGDKTF--AWVGAERLKP 60 (87)
T ss_pred CCCCCEEEEeCCCCCCCCEEEccccccchhhhccCCCCEEEEEEeCCCcE--EEeCccceee
Confidence 679999999997668999999998864311 12345899999995444 7999999864
No 49
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=91.61 E-value=0.68 Score=36.70 Aligned_cols=42 Identities=26% Similarity=0.399 Sum_probs=29.9
Q ss_pred CCCCcccCcEEEEEecCCc-eeeEEEEEEeccCCCCCCceeEEEecccc
Q 013121 60 SMLPLEVGTRVMCRWRDGK-YHPVKVIERRKMHFGGPNDYEYYVHYTEF 107 (449)
Q Consensus 60 ~~~~~~vGerVl~~~~dg~-~~~AeVIe~R~~~~~~~~~~~YYVHY~g~ 107 (449)
+...|..|++|+++|.+.. +|+|+|++..... ..|=|-|.+-
T Consensus 2 p~~k~~~Ge~V~~rWP~s~lYYe~kV~~~d~~~------~~y~V~Y~DG 44 (55)
T PF09465_consen 2 PSRKFAIGEVVMVRWPGSSLYYEGKVLSYDSKS------DRYTVLYEDG 44 (55)
T ss_dssp SSSSS-SS-EEEEE-TTTS-EEEEEEEEEETTT------TEEEEEETTS
T ss_pred CcccccCCCEEEEECCCCCcEEEEEEEEecccC------ceEEEEEcCC
Confidence 3467999999999996555 5899999988754 3688888653
No 50
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=91.48 E-value=0.27 Score=41.11 Aligned_cols=55 Identities=20% Similarity=0.260 Sum_probs=45.9
Q ss_pred CcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 63 PLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
.|.+||.|.+.+++-.+.+|+|++..... .....|-|.|.|.+.+ .||+.++|..
T Consensus 2 ~f~~GdlVwaK~kGyp~WPa~I~~~~~~~---~~~~~~~V~FfGt~~~--a~v~~~~l~p 56 (83)
T cd05834 2 QFKAGDLVFAKVKGYPAWPARVDEPEDWK---PPGKKYPVYFFGTHET--AFLKPEDLFP 56 (83)
T ss_pred CCCCCCEEEEecCCCCCCCEEEecccccC---CCCCEEEEEEeCCCCE--eEECHHHcee
Confidence 58999999999988889999999887541 2346899999999887 8999988854
No 51
>COG0454 WecD Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]
Probab=91.40 E-value=0.11 Score=38.03 Aligned_cols=30 Identities=33% Similarity=0.613 Sum_probs=25.1
Q ss_pred EeecCcccccccchhhhhhchhhhhccCCC
Q 013121 316 ILTLPPYQRKGYGKFLIAFSYELSKKEGKV 345 (449)
Q Consensus 316 Il~lP~yQrkGyG~~LI~fSYeLSr~E~~~ 345 (449)
+.|.|.||++|+|+.|++...+..+..+..
T Consensus 87 l~v~~~~rg~Gig~~Ll~~~~~~~~~~g~~ 116 (156)
T COG0454 87 LYVLPEYRGKGIGSALLEAALEWARKRGIS 116 (156)
T ss_pred EEecchhhccchHHHHHHHHHHHHHHcCce
Confidence 999999999999999999777777664433
No 52
>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=91.35 E-value=0.11 Score=43.00 Aligned_cols=23 Identities=35% Similarity=0.611 Sum_probs=19.6
Q ss_pred ceeeEEeecCcccccccchhhhh
Q 013121 311 YNLACILTLPPYQRKGYGKFLIA 333 (449)
Q Consensus 311 ~NLaCIl~lP~yQrkGyG~~LI~ 333 (449)
-.|..+.|+|.|||||||+.|+.
T Consensus 22 g~i~~v~t~p~~RrrGlg~~lv~ 44 (86)
T PF08445_consen 22 GEIGGVYTLPEHRRRGLGSALVA 44 (86)
T ss_dssp CCEEEEEE-GGGTTSSHHHHHHH
T ss_pred cEEEEEEECHHHcCCCHHHHHHH
Confidence 35999999999999999999874
No 53
>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=91.18 E-value=0.5 Score=45.70 Aligned_cols=49 Identities=10% Similarity=0.260 Sum_probs=41.4
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g~~~i~ 415 (449)
.||++|......+|+.|||+.+||.+ .-++.||.+.|+|....|.|.+-
T Consensus 13 ~IL~~l~~~~~~~~l~eia~~lglpksT~~RlL~tL~~~G~l~~~~~~Y~lG 64 (248)
T TIGR02431 13 AVIEAFGAERPRLTLTDVAEATGLTRAAARRFLLTLVELGYVTSDGRLFWLT 64 (248)
T ss_pred HHHHHHhcCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCEEEec
Confidence 46777777777899999999999985 78899999999998877777754
No 54
>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=90.79 E-value=0.56 Score=39.44 Aligned_cols=47 Identities=17% Similarity=0.353 Sum_probs=35.4
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVI 414 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i 414 (449)
.|++.|.. +..+|+.+|+..||.+.++|..+|..+--+.|.....||
T Consensus 28 ~LLr~LA~-G~PVt~~~LA~a~g~~~e~v~~~L~~~p~tEyD~~GrIV 74 (77)
T PF12324_consen 28 PLLRLLAK-GQPVTVEQLAAALGWPVEEVRAALAAMPDTEYDDQGRIV 74 (77)
T ss_dssp HHHHHHTT-TS-B-HHHHHHHHT--HHHHHHHHHH-TTSEEETTSEEE
T ss_pred HHHHHHHc-CCCcCHHHHHHHHCCCHHHHHHHHHhCCCceEcCCCCee
Confidence 46677765 789999999999999999999999999999998655554
No 55
>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=90.79 E-value=0.39 Score=46.51 Aligned_cols=53 Identities=21% Similarity=0.250 Sum_probs=34.8
Q ss_pred CceEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchh
Q 013121 281 LFLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYE 337 (449)
Q Consensus 281 ~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYe 337 (449)
+-.++|.++ +..+|||-.--.......-+.-|.|.|.|||+|+|+.|++..=+
T Consensus 45 ~~~~~~~~~----~~~~vG~~~~~~~~~~~~~~~~l~V~p~~rg~GiG~~Ll~~~~~ 97 (292)
T TIGR03448 45 HTRHLVAVD----SDPIVGYANLVPARGTDPAMAELVVHPAHRRRGIGRALIRALLA 97 (292)
T ss_pred CceEEEEEE----CCEEEEEEEEEcCCCCcceEEEEEECHhhcCCCHHHHHHHHHHH
Confidence 334555543 23788876532222222237789999999999999999997643
No 56
>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=90.68 E-value=0.41 Score=41.43 Aligned_cols=56 Identities=27% Similarity=0.348 Sum_probs=35.0
Q ss_pred CCCceEEEEEEecCCCceeeeeecccccCCCCc--eeeEEeecCcccccccchhhhhhchhhh
Q 013121 279 VDLFLFYVLCECDDRGCHMVGYFSKEKHSEESY--NLACILTLPPYQRKGYGKFLIAFSYELS 339 (449)
Q Consensus 279 V~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~--NLaCIl~lP~yQrkGyG~~LI~fSYeLS 339 (449)
...++|.|.. . .-.++||++=......+. .++ +++.|.||++|+|+.|+++.-..+
T Consensus 48 ~~~~~~~v~~-~---~g~iiG~~~~~~~~~~~~~~~~~-~~v~~~~~~~gig~~l~~~l~~~a 105 (155)
T PF13420_consen 48 SKQRLFLVAE-E---DGKIIGYVSLRDIDPYNHTAELS-IYVSPDYRGKGIGRKLLDELIEYA 105 (155)
T ss_dssp HTTEEEEEEE-C---TTEEEEEEEEEESSSGTTEEEEE-EEEEGGGTTSSHHHHHHHHHHHHH
T ss_pred CCCcEEEEEE-c---CCcEEEEEEEEeeeccCCEEEEe-eEEChhHCCCcHHHHHHHHHHHHh
Confidence 3444555543 2 235888876554333222 233 446699999999999998876655
No 57
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=90.55 E-value=0.98 Score=36.51 Aligned_cols=54 Identities=28% Similarity=0.505 Sum_probs=39.8
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChH---HHHHHHHhcCceeee--CCeEEEEeCHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAE---DILTTLQSLELIQYR--KGQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~--~g~~~i~~~~~~i~ 422 (449)
.|+++|....+.+|+.||++.+||... -++.+|.+.|+|... .|.|. +....++
T Consensus 9 ~Il~~l~~~~~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~~~~~~y~--l~~~~~~ 67 (91)
T smart00346 9 AVLRALAEEPGGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDGQNGRYR--LGPKVLE 67 (91)
T ss_pred HHHHHHHhCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeecCCCCcee--ecHHHHH
Confidence 577888776568999999999999864 567888899999875 33444 4444443
No 58
>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=90.38 E-value=0.34 Score=50.90 Aligned_cols=58 Identities=24% Similarity=0.412 Sum_probs=40.9
Q ss_pred eEEEEEEecCCCceeeeeecccccCC-CCceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSE-ESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~-~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
.|||+.+ | -.++||.+-..... ...-+.||.|.|.||++|+|+.|++..-+.++..|.
T Consensus 323 ~~~V~~~-d---g~iVG~~~~~~~~~~~~~~I~~l~V~p~~Rg~GiG~~Ll~~l~~~A~~~G~ 381 (429)
T TIGR01890 323 EFSIIEH-D---GNIIGCAALYPYAEEDCGEMACLAVSPEYQDGGRGERLLAHIEDRARQMGI 381 (429)
T ss_pred cEEEEEE-C---CEEEEEEEEEecCCCCeEEEEEEEECHHHcCCCHHHHHHHHHHHHHHHcCC
Confidence 3566543 2 26888865444322 123488999999999999999999988887776543
No 59
>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=90.35 E-value=0.21 Score=32.52 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=20.8
Q ss_pred EEEeccccccccCHHHHHHHHh
Q 013121 206 LYFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 206 lyiCe~Cl~y~~~~~~l~~H~~ 227 (449)
+|.|+.|-+-|.+...|.+|++
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 5899999999999999999995
No 60
>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=90.08 E-value=1.2 Score=34.46 Aligned_cols=49 Identities=31% Similarity=0.535 Sum_probs=40.4
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEEEE
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHVIC 415 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~i~ 415 (449)
..|+++|.++ +.+|+++||+.++++..-| +..|+..|+|....|...+.
T Consensus 3 ~~Il~~l~~~-~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~~GG~~~~ 54 (57)
T PF08220_consen 3 QQILELLKEK-GKVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRTHGGAVLN 54 (57)
T ss_pred HHHHHHHHHc-CCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCEEEeC
Confidence 5788998775 6999999999999998766 45688889998888877654
No 61
>PTZ00330 acetyltransferase; Provisional
Probab=90.05 E-value=0.5 Score=40.44 Aligned_cols=26 Identities=27% Similarity=0.572 Sum_probs=22.8
Q ss_pred EeecCcccccccchhhhhhchhhhhc
Q 013121 316 ILTLPPYQRKGYGKFLIAFSYELSKK 341 (449)
Q Consensus 316 Il~lP~yQrkGyG~~LI~fSYeLSr~ 341 (449)
++|.|.|||+|+|+.|+...-..++.
T Consensus 88 ~~V~~~~rg~Gig~~l~~~~~~~a~~ 113 (147)
T PTZ00330 88 VVVDPSYRGQGLGRALISDLCEIARS 113 (147)
T ss_pred EEECHHHcCCCHHHHHHHHHHHHHHH
Confidence 89999999999999999887776654
No 62
>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=89.97 E-value=0.31 Score=38.17 Aligned_cols=44 Identities=20% Similarity=0.308 Sum_probs=34.0
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCCe
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKGQ 411 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g~ 411 (449)
.|+.+|.. .+.+|+.|||+.+||.. .+++..|...|++....|.
T Consensus 12 ~vy~~Ll~-~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~~~ 58 (68)
T PF01978_consen 12 KVYLALLK-NGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREEGR 58 (68)
T ss_dssp HHHHHHHH-HCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEEEC
T ss_pred HHHHHHHH-cCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCc
Confidence 45555553 46899999999999986 5677888899999876554
No 63
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=89.94 E-value=0.79 Score=32.62 Aligned_cols=37 Identities=24% Similarity=0.441 Sum_probs=31.0
Q ss_pred CccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEEE
Q 013121 378 NISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHVI 414 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~i 414 (449)
.+|..|||+++|++...| +..|+..|+|...+|.+.|
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~~~~~~~~i 47 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLISREGGRIVI 47 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 579999999999997655 7788899999988877665
No 64
>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=89.79 E-value=0.43 Score=49.27 Aligned_cols=67 Identities=19% Similarity=0.302 Sum_probs=45.1
Q ss_pred hcccccceecCCCceEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 269 FLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 269 FLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
||.+--|-.|-+.-.|+|+.+.+ .+||+=|-. ++-|-||.|.|.||++|+|+.||+.-=+.++..|.
T Consensus 18 fL~~~~l~~d~~~d~~vv~~~~~----~lVg~g~l~-----g~~ik~vaV~~~~rG~Glg~~L~~~L~~~a~~~G~ 84 (332)
T TIGR00124 18 FLHQNELSLDAPLEIFIAVYEDE----EIIGCGGIA-----GNVIKCVAIDESLRGEGLALQLMTELENLAYELGR 84 (332)
T ss_pred HHHhcCCcccCCCCEEEEEEECC----EEEEEEEEe-----cCEEEEEEEcHHHcCCCHHHHHHHHHHHHHHHcCC
Confidence 44433344555555666665332 788886542 24599999999999999999988766555555443
No 65
>COG0456 RimI Acetyltransferases [General function prediction only]
Probab=89.65 E-value=0.57 Score=41.26 Aligned_cols=48 Identities=19% Similarity=0.355 Sum_probs=34.8
Q ss_pred eeeeeecccccCCC-----CceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 296 HMVGYFSKEKHSEE-----SYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 296 h~vGYFSKEK~s~~-----~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.++||.--...-.. .--+.+|-|-|.|||+|+|+.|++..-+..+..+
T Consensus 72 ~~~G~~~~~~~~~~~~~~~~~~i~~iaV~p~~r~~Gig~~Ll~~~~~~~~~~~ 124 (177)
T COG0456 72 KVVGFLLVRVVDGRPSADHEGHIYNLAVDPEYRGRGIGRALLDEALERLRERG 124 (177)
T ss_pred ceeEEEEEEEecCCccccCccEEEEEEEChHhhcCCHHHHHHHHHHHHHHhcC
Confidence 57887766421111 2359999999999999999999998776665443
No 66
>PRK10314 putative acyltransferase; Provisional
Probab=89.31 E-value=0.7 Score=41.77 Aligned_cols=45 Identities=16% Similarity=0.236 Sum_probs=32.6
Q ss_pred eeeeeecccccCC--CCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 296 HMVGYFSKEKHSE--ESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 296 h~vGYFSKEK~s~--~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
.+|||.+--.... ...-|.-+.|.|.|||+|+|+.|++..-+..+
T Consensus 58 ~~vg~~r~~~~~~~~~~~~i~rv~V~~~~rG~GiG~~Lm~~~~~~~~ 104 (153)
T PRK10314 58 ELVAYARILKSDDDLEPVVIGRVIVSEALRGEKVGQQLMSKTLESCT 104 (153)
T ss_pred EEEEEEEEecCCCCCCCEEEEEEEECHHHhCCCHHHHHHHHHHHHHH
Confidence 6888876433221 12348999999999999999999986655544
No 67
>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=89.09 E-value=1.8 Score=32.84 Aligned_cols=38 Identities=24% Similarity=0.366 Sum_probs=31.2
Q ss_pred CCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC-CeEEE
Q 013121 377 GNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK-GQHVI 414 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~-g~~~i 414 (449)
..+|+.+||+.+|++..-| +..|+..|+|...+ |.|.|
T Consensus 24 ~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~~~~~~~l 65 (67)
T cd00092 24 LPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRGRGKYRV 65 (67)
T ss_pred CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCeEEe
Confidence 4689999999999997665 67788999998876 66654
No 68
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=88.94 E-value=2.7 Score=30.55 Aligned_cols=57 Identities=18% Similarity=0.335 Sum_probs=41.0
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCHHHHHHHHH
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADPKVLDRHLK 426 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~~~i~~~~~ 426 (449)
|++.|. .+.+|+.+|++.+|++. .+++..|.+.|++... ++.....++.+.+.+.+.
T Consensus 2 il~~l~--~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~~~~~~~~~ 63 (66)
T smart00418 2 ILKLLA--EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRREGKRVYYSLTDEKVADLLE 63 (66)
T ss_pred HHHHhh--cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEEchHHHHHHHH
Confidence 566665 56799999999999964 6778888899999753 333455667655555544
No 69
>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=88.33 E-value=0.66 Score=50.69 Aligned_cols=61 Identities=18% Similarity=0.272 Sum_probs=40.3
Q ss_pred CceEEEEEEecCCCceeeeeecccc--c--C--CCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 281 LFLFYVLCECDDRGCHMVGYFSKEK--H--S--EESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 281 ~FlFYVl~e~d~~g~h~vGYFSKEK--~--s--~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.+.|+|..+ +.+-.+|||.+--. . . ....-+-||.|.|.||++|+|+.|++..-+..+..|
T Consensus 122 ~~~~~vA~~--~~~g~IVG~~~~~~~~~~~~d~~~~~~i~~l~V~P~~Rg~GIG~~Ll~~l~e~a~~~G 188 (547)
T TIGR03103 122 AITYLVAED--EASGAIIGTVMGVDHRKAFNDPEHGSSLWCLAVDPQAAHPGVGEALVRALAEHFQSRG 188 (547)
T ss_pred CceEEEEEE--CCCCeEEEEEEEEeccccccCCCCCeEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCC
Confidence 445555532 22447899975210 0 1 111237899999999999999999999877776554
No 70
>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=87.88 E-value=1.1 Score=32.84 Aligned_cols=40 Identities=30% Similarity=0.491 Sum_probs=28.2
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCcee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQ 406 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~ 406 (449)
..|+.+|.++ +.+|+.+||+.+||+..=| +.-|...|+|+
T Consensus 6 ~~Il~~l~~~-~~~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 6 RKILNYLREN-PRITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHC-TTS-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHc-CCCCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 5688888885 4599999999999997555 55555566653
No 71
>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=87.81 E-value=2.1 Score=33.55 Aligned_cols=45 Identities=29% Similarity=0.578 Sum_probs=36.2
Q ss_pred CccHHHHHHhcCCChH---HHHHHHHhcCceeeeCCeEEEEeCHHHHHH
Q 013121 378 NISIKELSDMTAIKAE---DILTTLQSLELIQYRKGQHVICADPKVLDR 423 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~ 423 (449)
.+|.++||.++|++.+ -++..|+..|+|...++ .++..|.+.+++
T Consensus 28 ~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~~-~i~I~d~~~L~~ 75 (76)
T PF13545_consen 28 PLTQEEIADMLGVSRETVSRILKRLKDEGIIEVKRG-KIIILDPERLEE 75 (76)
T ss_dssp ESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETT-EEEESSHHHHHH
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCC-EEEECCHHHHhc
Confidence 5799999999999975 56677788899998777 666778777764
No 72
>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=87.72 E-value=0.83 Score=41.06 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=29.4
Q ss_pred eeeeeecc--cccCCCCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 296 HMVGYFSK--EKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 296 h~vGYFSK--EK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
.+|||.+= .....+..-+.=|.|.|.||++|||+.|++.--..++
T Consensus 50 ~ivG~~~~~~~~~~~~~~~i~~l~V~p~~rg~GiG~~L~~~l~~~a~ 96 (157)
T TIGR02406 50 EIVGFVSGYLRPDRPDVLFVWQVAVDPRARGKGLARRLLEALLERVA 96 (157)
T ss_pred eEEEEEEEEecCCCCCeEEEEEEEEChHhccCcHHHHHHHHHHHHHH
Confidence 58887542 1111111123345699999999999999998777665
No 73
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=87.63 E-value=1.6 Score=43.19 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=40.3
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~ 415 (449)
.||++|..+...+|+.|||+.+||.+ ..++.||.+.|+|... .|.|.+-
T Consensus 29 ~IL~~~~~~~~~~tl~eIa~~lglpkStv~RlL~tL~~~G~l~~~~~~~~Y~lG 82 (271)
T PRK10163 29 AILQYLEKSGGSSSVSDISLNLDLPLSTTFRLLKVLQAADFVYQDSQLGWWHIG 82 (271)
T ss_pred HHHHHHHhCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCCCCeEEec
Confidence 57788877777899999999999985 7889999999999764 4566643
No 74
>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=87.58 E-value=0.74 Score=44.60 Aligned_cols=46 Identities=15% Similarity=0.209 Sum_probs=30.5
Q ss_pred eeeeeecccccC--CCCceeeEEeecCcccccccchhhhhhchhhhhc
Q 013121 296 HMVGYFSKEKHS--EESYNLACILTLPPYQRKGYGKFLIAFSYELSKK 341 (449)
Q Consensus 296 h~vGYFSKEK~s--~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~ 341 (449)
.+|||..-.... .....+..|.|.|.|||+|+|+.|+...=...+.
T Consensus 210 ~~vG~~~~~~~~~~~~~~~i~~~~V~p~~rg~GiG~~ll~~~~~~~~~ 257 (292)
T TIGR03448 210 ELLGFHWTKVHPDEPALGEVYVVGVDPAAQGRGLGDALTLIGLHHLAA 257 (292)
T ss_pred cEEEEEEEEecCCCCceeEEEEEEECHHHcCCCHHHHHHHHHHHHHHH
Confidence 689986322211 1112456678999999999999999865554443
No 75
>KOG2696 consensus Histone acetyltransferase type b catalytic subunit [Chromatin structure and dynamics]
Probab=87.56 E-value=0.85 Score=48.22 Aligned_cols=167 Identities=20% Similarity=0.289 Sum_probs=99.1
Q ss_pred CcchhhhhhHHhhhhcccccceecCCC-ceEEEEEEec-CCC---ceeeeeecccccCC--CC--ceeeEEeecCccccc
Q 013121 255 NKVYGQNLCYLAKLFLDHKTLYYDVDL-FLFYVLCECD-DRG---CHMVGYFSKEKHSE--ES--YNLACILTLPPYQRK 325 (449)
Q Consensus 255 ~k~yCQnLCLlaKLFLdhKTlyyDV~~-FlFYVl~e~d-~~g---~h~vGYFSKEK~s~--~~--~NLaCIl~lP~yQrk 325 (449)
...+-..|--|+-||++-=+..+..++ .+.|.+.|.- .+| +|++||.-==|--. ++ -=+|=|++|||||++
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 356667788899999998887775555 5666677664 233 78888764332221 11 127999999999999
Q ss_pred ccchhhhhhchhhhhccCC--CCCCCccCChhhhhHHHhhhHHHHHHHHHhCC----C----Cc---cHHHHHHhcCCCh
Q 013121 326 GYGKFLIAFSYELSKKEGK--VGTPERPLSDLGLLSYRGYWTRVLLDILKKHK----G----NI---SIKELSDMTAIKA 392 (449)
Q Consensus 326 GyG~~LI~fSYeLSr~E~~--~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~----~----~i---si~~is~~Tgi~~ 392 (449)
|.|.-|.+.=+-=...+.. =+|=|-|= .+|.+-=-.+++.-|..-+ . .. =+..+-++|-|..
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 9999998864433333322 25555552 2333322233333333211 0 11 2445667777777
Q ss_pred HHHHHHHHhcCceeee------CCeEEEEeCHHHHHHHHH
Q 013121 393 EDILTTLQSLELIQYR------KGQHVICADPKVLDRHLK 426 (449)
Q Consensus 393 ~DIi~tL~~l~ll~~~------~g~~~i~~~~~~i~~~~~ 426 (449)
..+...++-+-++... .+.+.+-+.+.++...++
T Consensus 308 ~Q~~r~~EIl~l~~~~~~d~~e~~s~rl~ik~Rl~~~~~k 347 (403)
T KOG2696|consen 308 RQFRRVYEILRLLATDKKDKEEYKSFRLDIKRRLYAPNKK 347 (403)
T ss_pred HHHHHHHHHHHHHhcccchhhcccceeecchhhhhhhhHH
Confidence 7776666655555432 556777777766665543
No 76
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=87.29 E-value=0.74 Score=38.66 Aligned_cols=57 Identities=16% Similarity=0.118 Sum_probs=43.9
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
|.+||.|.+..++-.+.+|+|++.............|-|+|.|.+.+ .||+.++|..
T Consensus 1 f~vGDlVWaK~kg~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs~~~--a~v~~~~l~p 57 (87)
T cd05835 1 FNVGDLVWGKIKGFPWWPGRVVSITVTSKRPPVVGMRWVTWFGSGTF--SEVSVDKLSP 57 (87)
T ss_pred CCCCCEEEEecCCCCCCCeEEechhhcccccCCCCeEEEEEeCCCCE--eEECHHHCcC
Confidence 67999999999888899999998865321122346899999997765 6998888753
No 77
>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=87.18 E-value=0.33 Score=36.88 Aligned_cols=30 Identities=20% Similarity=0.452 Sum_probs=24.5
Q ss_pred CCccHHHHHHhcCCChHHHHHHH-HhcCcee
Q 013121 377 GNISIKELSDMTAIKAEDILTTL-QSLELIQ 406 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DIi~tL-~~l~ll~ 406 (449)
..++|.|||+..|+...||+..| +++|+..
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l~~~~Gi~~ 32 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKLFKELGIMV 32 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH-HHHTS--
T ss_pred CceEHHHHHHHHCcCHHHHHHHHHHhCCcCc
Confidence 35899999999999999999999 6699983
No 78
>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=86.62 E-value=1.2 Score=33.19 Aligned_cols=37 Identities=24% Similarity=0.409 Sum_probs=28.0
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
..|+..|.++.+.+|+++||+.++++..-|..-|+.+
T Consensus 3 ~~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i~~L 39 (55)
T PF08279_consen 3 KQILKLLLESKEPITAKELAEELGVSRRTIRRDIKEL 39 (55)
T ss_dssp HHHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHHH
Confidence 4688888777777999999999999987665544443
No 79
>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=86.55 E-value=5 Score=29.80 Aligned_cols=54 Identities=15% Similarity=0.249 Sum_probs=40.1
Q ss_pred hhhHHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCC--eEEEEeC
Q 013121 362 GYWTRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKG--QHVICAD 417 (449)
Q Consensus 362 sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g--~~~i~~~ 417 (449)
..|...|+.+|.... ++..+|++.++|+...| +..|...|+|....+ .....++
T Consensus 6 ~~~~~~il~~l~~~~--~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~ 64 (78)
T cd00090 6 DPTRLRILRLLLEGP--LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLT 64 (78)
T ss_pred ChHHHHHHHHHHHCC--cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeC
Confidence 467888999887754 99999999999998765 566677889875432 2444555
No 80
>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=86.22 E-value=1.6 Score=35.01 Aligned_cols=45 Identities=16% Similarity=0.334 Sum_probs=33.7
Q ss_pred HHHHHH----HhCCCCccHHHHHHhcCCC----hHHHHHHHHhcCceeeeCCe
Q 013121 367 VLLDIL----KKHKGNISIKELSDMTAIK----AEDILTTLQSLELIQYRKGQ 411 (449)
Q Consensus 367 ~il~~L----~~~~~~isi~~is~~Tgi~----~~DIi~tL~~l~ll~~~~g~ 411 (449)
.||++| .+++-.-|+.||++.+|++ +.+-+.+|+..|+|+..+|.
T Consensus 10 ~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~~~~ 62 (65)
T PF01726_consen 10 EVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRRDPGK 62 (65)
T ss_dssp HHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEGCCS
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccCCCCC
Confidence 445544 4466778999999999998 68889999999999987653
No 81
>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=86.15 E-value=1.2 Score=37.48 Aligned_cols=55 Identities=16% Similarity=0.427 Sum_probs=36.0
Q ss_pred ceEEEEEEecCCCceeeeeeccccc--CCCCceeeEEeecCcccccccchhhhhhchhhh
Q 013121 282 FLFYVLCECDDRGCHMVGYFSKEKH--SEESYNLACILTLPPYQRKGYGKFLIAFSYELS 339 (449)
Q Consensus 282 FlFYVl~e~d~~g~h~vGYFSKEK~--s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLS 339 (449)
+.+|+++..++ ..+||+.+=... .....++. +.+.|.||++|||+-++.+--...
T Consensus 56 ~~~~~i~~~~~--~~~iG~i~~~~~~~~~~~~eig-~~i~~~~~g~G~~~~~~~~~~~~~ 112 (142)
T PF13302_consen 56 YYYFAIEDKDD--GEIIGFIGLYNIDKNNNWAEIG-YWIGPDYRGKGYGTEALKLLLDWA 112 (142)
T ss_dssp EEEEEEEETTT--TEEEEEEEEEEEETTTTEEEEE-EEEEGGGTTSSHHHHHHHHHHHHH
T ss_pred ceEEEEEeccC--CceEEEeeeeecccCCCccccc-cchhHHHHhhhHHHHHHHHHHHHH
Confidence 56666665543 346775554221 34456788 789999999999988776644433
No 82
>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=86.11 E-value=1.2 Score=36.46 Aligned_cols=52 Identities=27% Similarity=0.406 Sum_probs=37.9
Q ss_pred HHHHHHhCCC--CccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHH
Q 013121 368 LLDILKKHKG--NISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPK 419 (449)
Q Consensus 368 il~~L~~~~~--~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~ 419 (449)
++-+|..+.+ .+|+++||+.+++.+ ..|+..|+..|+|... +|.|.+.-+++
T Consensus 13 ~l~~la~~~~~~~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~~ 72 (83)
T PF02082_consen 13 ILLYLARHPDGKPVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRLARPPE 72 (83)
T ss_dssp HHHHHHCTTTSC-BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-CC
T ss_pred HHHHHHhCCCCCCCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecCCHH
Confidence 4455554332 499999999999996 7889999999999876 46788776553
No 83
>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=85.96 E-value=0.25 Score=32.60 Aligned_cols=21 Identities=29% Similarity=0.980 Sum_probs=19.8
Q ss_pred EEeccccccccCHHHHHHHHh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~ 227 (449)
|.|+.|-++|.+...|..|++
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 84
>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=85.87 E-value=2.4 Score=32.46 Aligned_cols=53 Identities=19% Similarity=0.298 Sum_probs=35.5
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee-----CCeEEEEeCH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR-----KGQHVICADP 418 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~-----~g~~~i~~~~ 418 (449)
+.||..|....+.+++.+|++.++|.. ..+|.-|..+|+|... +....+.+++
T Consensus 6 ~~vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~ 66 (68)
T PF13463_consen 6 WQVLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTP 66 (68)
T ss_dssp HHHHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-H
T ss_pred HHHHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCC
Confidence 456777775567899999999999984 6778888999999643 2335566654
No 85
>PHA02768 hypothetical protein; Provisional
Probab=85.50 E-value=0.47 Score=37.52 Aligned_cols=22 Identities=27% Similarity=0.709 Sum_probs=21.2
Q ss_pred EEeccccccccCHHHHHHHHhh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
|.|+.|.+.|.....|.+|+++
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~ 27 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRK 27 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHh
Confidence 8999999999999999999987
No 86
>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=85.42 E-value=1 Score=45.81 Aligned_cols=44 Identities=20% Similarity=0.285 Sum_probs=35.1
Q ss_pred eeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 296 HMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 296 h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
.+||+-+-.. +-+.++.|.|.||++|+|+.|++.-=+..+.+|.
T Consensus 16 ~iVG~~~l~~-----~~I~~vaV~p~~Rg~GiG~~Ll~~l~~~a~~~g~ 59 (297)
T cd02169 16 ELIATGSIAG-----NVLKCVAVCPKYQGEGLALKIVSELINKAYEEGI 59 (297)
T ss_pred EEEEEEEecc-----CEEEEEEECHHHcCCCHHHHHHHHHHHHHHHCCC
Confidence 6888766542 3489999999999999999999987777766553
No 87
>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=85.23 E-value=2.1 Score=31.53 Aligned_cols=40 Identities=20% Similarity=0.448 Sum_probs=30.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~ 407 (449)
-.|+..|.+ ++.++.||++.+|++..-| +..|+.+|+|.+
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 457777766 6899999999999998777 456777788753
No 88
>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=85.12 E-value=2.5 Score=31.87 Aligned_cols=43 Identities=23% Similarity=0.366 Sum_probs=33.0
Q ss_pred HHHHHHHHhCCCC-ccHHHHHHhcCCCh---HHHHHHHHhcCceeee
Q 013121 366 RVLLDILKKHKGN-ISIKELSDMTAIKA---EDILTTLQSLELIQYR 408 (449)
Q Consensus 366 ~~il~~L~~~~~~-isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~ 408 (449)
..||.+|..+.+. +|+.+|++.+++++ .-++..|+..|+|...
T Consensus 8 ~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 8 FRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 3567777776544 99999999999997 5667888899999754
No 89
>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=83.70 E-value=2 Score=36.95 Aligned_cols=42 Identities=12% Similarity=0.072 Sum_probs=35.5
Q ss_pred hhhHHHHHHHHHhC-CCCccHHHHHHhcCCChHHHHHHHHhcC
Q 013121 362 GYWTRVLLDILKKH-KGNISIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 362 sYW~~~il~~L~~~-~~~isi~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
|==+..||.+|.+. ....++.|||+.||+....|+-+|.-+|
T Consensus 8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~~~snV~GaL~G~g 50 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGSDYSNVLGALRGDG 50 (90)
T ss_pred HHHHHHHHHHHHHcCCCcCCHHHHHHHHCCCHHHHHHHHhcCC
Confidence 33467889999885 8899999999999999999999887644
No 90
>PRK11569 transcriptional repressor IclR; Provisional
Probab=83.40 E-value=3.2 Score=41.04 Aligned_cols=48 Identities=23% Similarity=0.450 Sum_probs=40.0
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVI 414 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i 414 (449)
.||++|.+....+|+.|||+.+||.. .-++.||.+.|+|... .|.|.+
T Consensus 32 ~IL~~l~~~~~~~~lseia~~lglpksTv~RlL~tL~~~G~l~~~~~~~~Y~l 84 (274)
T PRK11569 32 KLLEWIAESNGSVALTELAQQAGLPNSTTHRLLTTMQQQGFVRQVGELGHWAI 84 (274)
T ss_pred HHHHHHHhCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCCCCeEec
Confidence 57888887777899999999999986 6779999999999764 466765
No 91
>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=83.27 E-value=1.9 Score=36.39 Aligned_cols=42 Identities=12% Similarity=0.291 Sum_probs=32.6
Q ss_pred HhhhHHHHHHHHHh---CCCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 361 RGYWTRVLLDILKK---HKGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 361 ~sYW~~~il~~L~~---~~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
.+=+.+.|+++|+. ...-++|++|++.++|..+||..+|+.|
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L 89 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFL 89 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHH
Confidence 45578899999988 3456999999999999998887776654
No 92
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=83.12 E-value=3.2 Score=40.72 Aligned_cols=49 Identities=18% Similarity=0.354 Sum_probs=39.5
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~ 415 (449)
.||+.|..+...+|+.||++.+||.. .-++.||.++|+|... .+.|.+.
T Consensus 15 ~iL~~l~~~~~~ls~~eia~~lgl~kstv~RlL~tL~~~g~v~~~~~~~~Y~Lg 68 (263)
T PRK09834 15 MVLRALNRLDGGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRSASDDSFRLT 68 (263)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecCCCcEEEc
Confidence 46777777766799999999999975 6789999999999864 4667653
No 93
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=82.85 E-value=1.8 Score=37.97 Aligned_cols=61 Identities=16% Similarity=0.194 Sum_probs=44.5
Q ss_pred CcccCcEEEEEecCCceeeEEEEEEeccC------CCCCCceeEEEecccccccccccccccccccCC
Q 013121 63 PLEVGTRVMCRWRDGKYHPVKVIERRKMH------FGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDS 124 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~~~AeVIe~R~~~------~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~ 124 (449)
.|.+|+.|.+.+++-.+.+|.|+.-.... ........|.|.|.|-+.+. .||+.++|..-+
T Consensus 2 ~~~~GdlVWaK~~g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~~~~-aWv~~~~l~pf~ 68 (110)
T cd05837 2 KYQVGDLVWAKVSGYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDNPER-AWISEKSLKPFK 68 (110)
T ss_pred CCCCCCEEEEeCCCCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCCCCE-EEecHHHccccC
Confidence 68999999999977789999999522110 00123468999999987444 699999987543
No 94
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=82.69 E-value=1.5 Score=37.47 Aligned_cols=58 Identities=19% Similarity=0.218 Sum_probs=43.2
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccC------CCCCCceeEEEecccccccccccccccccccC
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMH------FGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLD 123 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~------~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~ 123 (449)
|++|+.|.|.+++-.+.+|.|+.-+... ........|.|.|.|-+.+ -||...+|..-
T Consensus 1 f~~GDlVwaK~~GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg~~~~--~Wv~~~~l~pl 64 (93)
T cd05840 1 FQPGDRVLAKVKGFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFPDGDY--YWVPNKDLKPL 64 (93)
T ss_pred CCCCCEEEEeCCCCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeCCCcE--EEEChhhcccC
Confidence 6789999999987789999999743211 0112446899999997655 59999888643
No 95
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=82.48 E-value=4.2 Score=29.03 Aligned_cols=45 Identities=24% Similarity=0.530 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCe
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQ 411 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~ 411 (449)
..|+++|.++ +.+|+.+|++..+++..-| +..|...|+|....|+
T Consensus 3 ~~il~~l~~~-~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~~~~ 50 (53)
T smart00420 3 QQILELLAQQ-GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRVHGG 50 (53)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeecC
Confidence 3577888765 4699999999999997555 5666777888765544
No 96
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=82.36 E-value=1.2 Score=28.29 Aligned_cols=21 Identities=24% Similarity=0.891 Sum_probs=19.9
Q ss_pred EEeccccccccCHHHHHHHHh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~ 227 (449)
|.|+-|-+.|.++.+|+.|++
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 97
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=82.36 E-value=0.87 Score=30.21 Aligned_cols=24 Identities=25% Similarity=0.635 Sum_probs=21.2
Q ss_pred EEEeccccccccCHHHHHHHHhhCC
Q 013121 206 LYFCEFCLNFMKRKEQLQRHMRKCD 230 (449)
Q Consensus 206 lyiCe~Cl~y~~~~~~l~~H~~~C~ 230 (449)
+-.|..|.+-| ....|.+|+..|.
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 45799999999 8889999999985
No 98
>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=81.81 E-value=3.9 Score=33.14 Aligned_cols=47 Identities=21% Similarity=0.441 Sum_probs=37.0
Q ss_pred HHHHHHHHh-CCCCccHHHHHHhc---CC-----ChHHHHHHHHhcCceeeeCCeE
Q 013121 366 RVLLDILKK-HKGNISIKELSDMT---AI-----KAEDILTTLQSLELIQYRKGQH 412 (449)
Q Consensus 366 ~~il~~L~~-~~~~isi~~is~~T---gi-----~~~DIi~tL~~l~ll~~~~g~~ 412 (449)
..+++.+.. ....++++++|+.. ++ +.-||+..|+.+|++...+...
T Consensus 11 ~~fi~~~~~~~~~~i~l~~ia~~l~~~~~k~~~RRlYDI~NVLealgli~K~~k~~ 66 (71)
T PF02319_consen 11 QRFIQLFESSPDKSISLNEIADKLISENVKTQRRRLYDIINVLEALGLIEKQSKNS 66 (71)
T ss_dssp HHHHHHHHHCCCTEEEHHHHHHHCHHHCCHHHCHHHHHHHHHHHHCTSEEEEETTE
T ss_pred HHHHHHHHHCCCCcccHHHHHHHHcccccccccchhhHHHHHHHHhCceeecCCCc
Confidence 455666654 44789999999999 98 5689999999999998744433
No 99
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=81.26 E-value=3.4 Score=40.23 Aligned_cols=48 Identities=21% Similarity=0.293 Sum_probs=38.7
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~ 415 (449)
.||+.|... ..+|+.|||+.|||.. .-++.||.+.|+|... +|.|.+-
T Consensus 18 ~IL~~l~~~-~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~~~~~~~~Y~lG 70 (257)
T PRK15090 18 GILQALGEE-REIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQEGESEKYSLT 70 (257)
T ss_pred HHHHHhhcC-CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCCCCcEEec
Confidence 567777665 4799999999999985 7789999999999764 4667754
No 100
>PRK09491 rimI ribosomal-protein-alanine N-acetyltransferase; Provisional
Probab=81.14 E-value=2.7 Score=36.40 Aligned_cols=28 Identities=32% Similarity=0.463 Sum_probs=22.8
Q ss_pred eeEEeecCcccccccchhhhhhchhhhh
Q 013121 313 LACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
+.=|.|.|.||++|||+.|++.-....+
T Consensus 66 ~~~i~v~~~~rg~G~g~~ll~~~~~~~~ 93 (146)
T PRK09491 66 LFNIAVDPDYQRQGLGRALLEHLIDELE 93 (146)
T ss_pred EEEEEECHHHccCCHHHHHHHHHHHHHH
Confidence 3336789999999999999988777664
No 101
>smart00355 ZnF_C2H2 zinc finger.
Probab=80.95 E-value=1 Score=27.60 Aligned_cols=21 Identities=43% Similarity=0.768 Sum_probs=19.7
Q ss_pred EEeccccccccCHHHHHHHHh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~ 227 (449)
|.|+.|-+.|.+...|.+|++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 579999999999999999987
No 102
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=80.91 E-value=2.1 Score=36.01 Aligned_cols=57 Identities=16% Similarity=0.271 Sum_probs=42.7
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCC-CCCceeEEEeccccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFG-GPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~-~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
|++||.|.+.+++-.+.+|+|++-...... ......|.|.|.|-+.+ .||..++|..
T Consensus 1 f~~GDlVwaK~~g~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~~~--~wv~~~~l~p 58 (86)
T cd05836 1 LKLGDLVWAKMKGFPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSENH--AWIKEENIKP 58 (86)
T ss_pred CCCCCEEEEeCCCCCCCCEEEechhhhcccccCCCCeEEEEEeCCCCE--EEECHHhCee
Confidence 679999999997778899999985432111 11235799999998876 7999998854
No 103
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.83 E-value=8.1 Score=36.72 Aligned_cols=59 Identities=24% Similarity=0.362 Sum_probs=43.4
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC------C--eEEEEeCHHHHHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK------G--QHVICADPKVLDRHLK 426 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~------g--~~~i~~~~~~i~~~~~ 426 (449)
.|+..|..+ +.+|.+|||..+||+..+| +..|.+.||+.+.+ | .|+..++.+.+...++
T Consensus 26 ~Vl~~L~~~-g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~~~~i~d~ik 95 (178)
T PRK06266 26 EVLKALIKK-GEVTDEEIAEQTGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTWKPELEKLPEIIK 95 (178)
T ss_pred HHHHHHHHc-CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeCHHHHHHHHH
Confidence 467777765 4899999999999998775 67788899998642 2 2556687766655443
No 104
>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=80.83 E-value=6.9 Score=33.96 Aligned_cols=65 Identities=22% Similarity=0.323 Sum_probs=42.9
Q ss_pred hhhHHHHHHHHHhCCCCccHHHHHHhcCCC---hHHHHHHHHhcCceee-e-------CCeEEEE----eCHHHHHHHHH
Q 013121 362 GYWTRVLLDILKKHKGNISIKELSDMTAIK---AEDILTTLQSLELIQY-R-------KGQHVIC----ADPKVLDRHLK 426 (449)
Q Consensus 362 sYW~~~il~~L~~~~~~isi~~is~~Tgi~---~~DIi~tL~~l~ll~~-~-------~g~~~i~----~~~~~i~~~~~ 426 (449)
+|-++--+.+|.++... |+..|-+.|||- ..|+|.+|.++|+.-. . .|-|.|. +|++.|..+++
T Consensus 6 sF~Rrlyla~li~~~~~-nvp~L~~~TGmPrRT~Qd~i~aL~~~~I~~~Fvq~G~R~~~GyY~i~~WG~id~~wi~~~~~ 84 (90)
T PF09904_consen 6 SFYRRLYLAYLIDSGER-NVPALMEATGMPRRTIQDTIKALPELGIECEFVQDGERNNAGYYRISDWGPIDRKWIADHLQ 84 (90)
T ss_dssp HHHHHHHHHHHHHHS-B--HHHHHHHH---HHHHHHHHHGGGGGT-EEEEE--TTS-S--EEEEEE-TTB-HHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCc-cHHHHHHHhCCCHhHHHHHHHHhhcCCeEEEEEecCccCCCCcEEeeecCCCCHHHHHHHHH
Confidence 45556667778777767 999999999996 5899999999998532 2 4567776 78888888876
Q ss_pred H
Q 013121 427 A 427 (449)
Q Consensus 427 ~ 427 (449)
.
T Consensus 85 ~ 85 (90)
T PF09904_consen 85 E 85 (90)
T ss_dssp H
T ss_pred H
Confidence 4
No 105
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=80.61 E-value=3.9 Score=40.16 Aligned_cols=49 Identities=24% Similarity=0.440 Sum_probs=40.1
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeC--CeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRK--GQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~--g~~~i~ 415 (449)
.||++|......+++.||++.+|+.+ .-++.||+++|++.+.. |.|.+-
T Consensus 8 ~iL~~l~~~~~~l~l~ela~~~glpksT~~RlL~tL~~~G~v~~d~~~g~Y~Lg 61 (246)
T COG1414 8 AILDLLAEGPGGLSLAELAERLGLPKSTVHRLLQTLVELGYVEQDPEDGRYRLG 61 (246)
T ss_pred HHHHHHHhCCCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEcCCCCcEeeh
Confidence 57888887666689999999999986 66799999999999876 456653
No 106
>PRK13239 alkylmercury lyase; Provisional
Probab=80.47 E-value=3.7 Score=40.22 Aligned_cols=42 Identities=19% Similarity=0.330 Sum_probs=36.2
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceeeeC
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQYRK 409 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~ 409 (449)
.||+.|. ++..+|+++|++.+|...+.|..+|+++..+.|..
T Consensus 26 ~llr~la-~G~pvt~~~lA~~~~~~~~~v~~~L~~l~~~~~d~ 67 (206)
T PRK13239 26 PLLRLLA-KGRPVSVTTLAAALGWPVEEVEAVLEAMPDTEYDE 67 (206)
T ss_pred HHHHHHH-cCCCCCHHHHHHHhCCCHHHHHHHHHhCCCeEECC
Confidence 4555555 67899999999999999999999999999888753
No 107
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=79.78 E-value=8.1 Score=36.36 Aligned_cols=68 Identities=21% Similarity=0.241 Sum_probs=47.2
Q ss_pred CCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhc--CCChHHH---HHHHHhcCceeeeC-CeEEE
Q 013121 347 TPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMT--AIKAEDI---LTTLQSLELIQYRK-GQHVI 414 (449)
Q Consensus 347 ~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~T--gi~~~DI---i~tL~~l~ll~~~~-g~~~i 414 (449)
.+.+.|..--..-|.++|-.+|.+.+.-....-++..|++++ +|+.++| +..|..+|+|+... |.|+.
T Consensus 8 ~~~~~l~~~~~~~~~~W~~~~ir~l~~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~~~g~y~~ 81 (171)
T PF14394_consen 8 NKVRVLDEDEFEYYSSWYHPAIRELLPLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKDGDGKYVQ 81 (171)
T ss_pred cceeeccHHHHHHHhhhHHHHHHHHhhcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEECCCCcEEE
Confidence 345556555555566655566666555455556999999999 9998665 66788999998754 46664
No 108
>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain, with weak but significant sequence similarity to the N-terminal chromo domain,[], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1). The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigen and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1. Functional dissections of chromo domain proteins suggests a mechanistic role for chromo domains in targeting chromo domain proteins to specific regions of the nucleus. The mechanism of targeting may involve protein-protein and/or protein/nucleic acid interactions. Hence, several line of evidence show that the HP1 chromo domain is a methyl-specific histone binding module, whereas the chromo domain of two protein components of the drosophila dosage compensation complex, MSL3 and MOF, contain chromo domains that bind to RNA in vitro []. The high resolution structures of HP1-family protein chromo and chromo shadow domain reveal a conserved chromo domain fold motif consisting of three beta strands packed against an alpha helix. The chromo domain fold belongs to the OB (oligonucleotide/oligosaccharide binding)-fold class found in a variety of prokaryotic and eukaryotic nucleic acid binding protein [].; PDB: 2H1E_B 3MWY_W 2DY8_A 1KNE_A 1KNA_A 1Q3L_A 2EE1_A 1AP0_A 1GUW_A 1X3P_A ....
Probab=79.44 E-value=2.7 Score=31.47 Aligned_cols=40 Identities=23% Similarity=0.482 Sum_probs=30.6
Q ss_pred EEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 82 VKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 82 AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
-+||+.|....+. +..+|.|++.|+...-+.|.+.+.|.-
T Consensus 4 e~Il~~r~~~~~~-~~~~ylVkW~g~~~~~~tWe~~~~l~~ 43 (55)
T PF00385_consen 4 ERILDHRVVKGGN-KVYEYLVKWKGYPYSENTWEPEENLKN 43 (55)
T ss_dssp EEEEEEEEETTEE-SEEEEEEEETTSSGGGEEEEEGGGCSS
T ss_pred EEEEEEEEeCCCc-ccEEEEEEECCCCCCCCeEeeHHHHhH
Confidence 4688888654210 025999999999999999999998764
No 109
>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=79.37 E-value=4.5 Score=35.16 Aligned_cols=55 Identities=27% Similarity=0.373 Sum_probs=42.3
Q ss_pred HHHHHHHhC--CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHHHH
Q 013121 367 VLLDILKKH--KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPKVL 421 (449)
Q Consensus 367 ~il~~L~~~--~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i 421 (449)
.++-+|..+ +..+|+++||+.++|.. .+|+.+|...|+|... .|.|.+..+++.|
T Consensus 12 ~~l~~la~~~~~~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~l~~~~~~i 74 (132)
T TIGR00738 12 RALLDLALNPDEGPVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYRLARPPEEI 74 (132)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCccCCCCHHHC
Confidence 344555443 34799999999999985 7899999999999864 4578888777644
No 110
>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=79.00 E-value=6.4 Score=35.02 Aligned_cols=61 Identities=15% Similarity=0.249 Sum_probs=45.2
Q ss_pred HHHHHHhC--CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHHHHH--HHHHHh
Q 013121 368 LLDILKKH--KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPKVLD--RHLKAA 428 (449)
Q Consensus 368 il~~L~~~--~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i~--~~~~~~ 428 (449)
++-+|..+ +..+|+++||+.++|.. +.|+..|...|+|... +|.|.+..+++.|. +.+...
T Consensus 13 ~l~~La~~~~~~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~~~Itl~dv~~a~ 83 (135)
T TIGR02010 13 AMLDLALNAETGPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPAEDISVADIIDAV 83 (135)
T ss_pred HHHHHHhCCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCCHHHCcHHHHHHHh
Confidence 44555433 34799999999999996 7889999999999764 56799998886443 444443
No 111
>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=78.86 E-value=7.9 Score=39.18 Aligned_cols=70 Identities=24% Similarity=0.224 Sum_probs=48.5
Q ss_pred CCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcC--CChH---HHHHHHHhcCceee-eCCeEEEE
Q 013121 346 GTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTA--IKAE---DILTTLQSLELIQY-RKGQHVIC 415 (449)
Q Consensus 346 G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tg--i~~~---DIi~tL~~l~ll~~-~~g~~~i~ 415 (449)
..+.+-|.+--..-|.++|-.+|.+.+.-..+.-++.+||++.+ |+.+ |.+..|..+|||+. .+|.|+..
T Consensus 105 ~~~~~~L~~~~~~y~~~W~~~virel~~~~~~~~~~~~ia~~l~p~is~~ev~~sL~~L~~~glikk~~~g~y~~t 180 (271)
T TIGR02147 105 RPRLRVLAADQFEYYRHWYNSVIRELLGVMPFADDPEELAKRCFPKISAEQVKESLDLLERLGLIKKNEDGFYKQT 180 (271)
T ss_pred hchheeccHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHCCCeeECCCCcEEee
Confidence 34566665544444456666666666655566778999999999 8876 66778889999986 35666643
No 112
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=78.68 E-value=4.2 Score=37.34 Aligned_cols=54 Identities=24% Similarity=0.338 Sum_probs=42.9
Q ss_pred HHHHHhCCC--CccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHHHHH
Q 013121 369 LDILKKHKG--NISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPKVLD 422 (449)
Q Consensus 369 l~~L~~~~~--~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i~ 422 (449)
|-+|..+.+ .+|+++||+..+|++ +-|+..|...|+|+.. +|.|.+.-+++.|.
T Consensus 14 L~~LA~~~~~~~~s~~~IA~~~~is~~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~~Is 75 (150)
T COG1959 14 LLYLALLPGGGPVSSAEIAERQGISPSYLEKILSKLRKAGLVKSVRGKGGGYRLARPPEEIT 75 (150)
T ss_pred HHHHHhCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHHcCCEEeecCCCCCccCCCChHHCc
Confidence 344544333 689999999999997 7899999999999875 56899988886554
No 113
>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=77.56 E-value=4.2 Score=35.40 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=33.3
Q ss_pred CCceEEEEEEecCCCceeeeeecccc----c--CCCCceeeEEeecCcccccccchhhhhhc
Q 013121 280 DLFLFYVLCECDDRGCHMVGYFSKEK----H--SEESYNLACILTLPPYQRKGYGKFLIAFS 335 (449)
Q Consensus 280 ~~FlFYVl~e~d~~g~h~vGYFSKEK----~--s~~~~NLaCIl~lP~yQrkGyG~~LI~fS 335 (449)
.....||++..+ +++|||--.. . ......+--+++-|.|+++|+|+.++...
T Consensus 46 ~~~~~~v~~~dg----~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rg~G~g~~~~~~~ 103 (152)
T PF13523_consen 46 PGHHPYVAEDDG----EPIGYFEIYWPDEDYDADDGDRGIHRLIVDPEYRGQGLGKAMLRAL 103 (152)
T ss_dssp TTEEEEEEEETT----EEEEEEEEEEGGGSS---TTEEEEEEEESTGGGTTSSHHHHHHHHH
T ss_pred CCceEEEEEECC----EEEEEEEEecccccccCCCCEEEEeeeeechhhcCCCHHHHHHHHH
Confidence 344455554432 7888885422 1 12234577778889999999999888653
No 114
>PRK10151 ribosomal-protein-L7/L12-serine acetyltransferase; Provisional
Probab=77.50 E-value=4.2 Score=36.45 Aligned_cols=48 Identities=8% Similarity=0.075 Sum_probs=29.1
Q ss_pred eEEEEEEecCCCceeeeeecccccCCC-CceeeEEeecCcccccccchhhhhh
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEE-SYNLACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~-~~NLaCIl~lP~yQrkGyG~~LI~f 334 (449)
.+|+++. + | .++|+.+=...... ..-.-.+.+.|.||++|||+.++..
T Consensus 68 ~~~~i~~-~--~-~~iG~~~l~~~~~~~~~~~ig~~i~~~~~g~G~~tea~~~ 116 (179)
T PRK10151 68 KMFMIFK-E--D-ELIGVLSFNRIEPLNKTAYIGYWLDESHQGQGIISQALQA 116 (179)
T ss_pred EEEEEEE-C--C-EEEEEEEEEeeccCCCceEEEEEEChhhcCCcHHHHHHHH
Confidence 3566653 2 2 57887663322221 1123356789999999999977643
No 115
>PRK01346 hypothetical protein; Provisional
Probab=77.48 E-value=3.2 Score=42.76 Aligned_cols=33 Identities=15% Similarity=0.260 Sum_probs=27.5
Q ss_pred ceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 311 YNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 311 ~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.-+..+.|.|.|||+|+|+.|++..-+..+..|
T Consensus 80 ~~i~~v~V~P~~RgrGig~~Ll~~~l~~a~~~g 112 (411)
T PRK01346 80 AGVTAVTVAPTHRRRGLLTALMREQLRRIRERG 112 (411)
T ss_pred eEEEEEEEChhhcCCCHHHHHHHHHHHHHHHCC
Confidence 347899999999999999999998776666543
No 116
>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=77.36 E-value=11 Score=35.00 Aligned_cols=57 Identities=23% Similarity=0.236 Sum_probs=39.7
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC------C--eEEEEeCHHHHHHHH
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK------G--QHVICADPKVLDRHL 425 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~------g--~~~i~~~~~~i~~~~ 425 (449)
|++.|..+ +.+|.+|||+.+||+..+| +..|.+.||+.|.+ | .|+-.++.+.+.+.+
T Consensus 19 Vl~aL~~~-~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~I 86 (158)
T TIGR00373 19 VLFSLGIK-GEFTDEEISLELGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDVL 86 (158)
T ss_pred HHHHHhcc-CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHHH
Confidence 55666554 4799999999999998765 67788899996532 2 244457776555443
No 117
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=77.27 E-value=4.9 Score=35.98 Aligned_cols=58 Identities=28% Similarity=0.492 Sum_probs=39.9
Q ss_pred hcCCCCcccCcEEEEEecCC--ceeeEEEEEEeccCCCCCCceeEEEeccccccccccccccccc
Q 013121 58 RASMLPLEVGTRVMCRWRDG--KYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQL 120 (449)
Q Consensus 58 ~~~~~~~~vGerVl~~~~dg--~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl 120 (449)
.+...++.+|++|+|.|..+ .+.+|+|+..-+... .....|=||| ||.+ -.+|+.+.+
T Consensus 50 ~~~~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~--~~~~~~~V~f--~ng~-~~~vp~~~~ 109 (124)
T PF15057_consen 50 DAMRHSLQVGDKVLAPWEPDDCRYGPGTVIAGPERRA--SEDKEYTVRF--YNGK-TAKVPRGEV 109 (124)
T ss_pred CcccCcCCCCCEEEEecCcCCCEEeCEEEEECccccc--cCCceEEEEE--ECCC-CCccchhhE
Confidence 34478999999999999533 358999997544321 2446889999 7766 345555444
No 118
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=76.45 E-value=8.5 Score=36.66 Aligned_cols=46 Identities=17% Similarity=0.298 Sum_probs=36.5
Q ss_pred CccHHHHHHhcCCChHHHH---HHHHhcCceeeeCCeEEEEeCHHHHHH
Q 013121 378 NISIKELSDMTAIKAEDIL---TTLQSLELIQYRKGQHVICADPKVLDR 423 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DIi---~tL~~l~ll~~~~g~~~i~~~~~~i~~ 423 (449)
.+|.++||...|++.+-|- ..|++.|+|.+.++.++...|.+.+++
T Consensus 179 ~lt~~~IA~~lGisretlsR~L~~L~~~GlI~~~~~~~i~I~D~~~L~~ 227 (230)
T PRK09391 179 PMSRRDIADYLGLTIETVSRALSQLQDRGLIGLSGARQIELRNRQALRN 227 (230)
T ss_pred cCCHHHHHHHHCCCHHHHHHHHHHHHHCCcEEecCCceEEEcCHHHHHH
Confidence 4688999999999988764 567778999887766777788877754
No 119
>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=75.29 E-value=2.5 Score=28.76 Aligned_cols=22 Identities=14% Similarity=0.593 Sum_probs=20.1
Q ss_pred EEEeccccccccCHHHHHHHHh
Q 013121 206 LYFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 206 lyiCe~Cl~y~~~~~~l~~H~~ 227 (449)
.|.|+.|-++|.+..++..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4789999999999999999985
No 120
>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=74.40 E-value=3.9 Score=33.19 Aligned_cols=42 Identities=17% Similarity=0.328 Sum_probs=31.7
Q ss_pred HHHHHHHHhCC---CCccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHK---GNISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~---~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
..|++++.++. ..+||.|||+.+|+++.=|+...+.||+-.|
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 35777776653 3689999999999999999999999998654
No 121
>TIGR01686 FkbH FkbH-like domain. The C-terminal portion of this domain is unique to this family (by BLAST).
Probab=74.36 E-value=4.6 Score=40.75 Aligned_cols=59 Identities=14% Similarity=0.166 Sum_probs=41.3
Q ss_pred EEEEEEecCC-CceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccC
Q 013121 284 FYVLCECDDR-GCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEG 343 (449)
Q Consensus 284 FYVl~e~d~~-g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~ 343 (449)
.|++...|.. +..+|||+.=.... ...-+.-|++.|.|||+|+|+.|++.--+.++..|
T Consensus 231 ~~~~~~~d~~gd~givG~~~~~~~~-~~~~I~~l~vs~r~~grGig~~Ll~~l~~~a~~~G 290 (320)
T TIGR01686 231 IVTVSMSDRFGDSGIIGIFVFEKKE-GNLFIDDLCMSCRALGRGVETRMLRWLFEQALDLG 290 (320)
T ss_pred EEEEEEEecCCCCceEEEEEEEecC-CcEEEEEEEEcHhHhcCcHHHHHHHHHHHHHHHcC
Confidence 3444444542 45689988644322 12237779999999999999999999888887654
No 122
>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=74.30 E-value=6.1 Score=29.14 Aligned_cols=36 Identities=22% Similarity=0.421 Sum_probs=28.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
..|++.|.+. ...|..+||+..|++..-|..-++.|
T Consensus 6 ~~Il~~Lq~d-~r~s~~~la~~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 6 RKILRLLQED-GRRSYAELAEELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHH--TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHc-CCccHHHHHHHHCcCHHHHHHHHHHh
Confidence 4688888775 68999999999999999999888765
No 123
>COG1246 ArgA N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]
Probab=73.91 E-value=2.7 Score=39.47 Aligned_cols=36 Identities=22% Similarity=0.322 Sum_probs=28.1
Q ss_pred ecccccCCCCceeeEEeecCcccccccchhhhhhchhhhh
Q 013121 301 FSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 301 FSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
|-.++... ++|+.|-|.||++|.|.-|++-.=.-+|
T Consensus 60 ~~~~~~gE----~~~laV~pd~r~~G~G~~Ll~~~~~~Ar 95 (153)
T COG1246 60 VLEEDLGE----LRSLAVHPDYRGSGRGERLLERLLADAR 95 (153)
T ss_pred cCccCeee----EEEEEECHHhcCCCcHHHHHHHHHHHHH
Confidence 55566554 9999999999999999998876544443
No 124
>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=73.82 E-value=8.7 Score=30.40 Aligned_cols=42 Identities=19% Similarity=0.387 Sum_probs=31.1
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHH---HHHHhcCceeee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDIL---TTLQSLELIQYR 408 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi---~tL~~l~ll~~~ 408 (449)
..|.+.|.++ +..|+.+|++.|+++...|- .+|-+.|++.|+
T Consensus 16 ~~V~~~Ll~~-G~ltl~~i~~~t~l~~~~Vk~~L~~LiQh~~v~y~ 60 (62)
T PF08221_consen 16 AKVGEVLLSR-GRLTLREIVRRTGLSPKQVKKALVVLIQHNLVQYF 60 (62)
T ss_dssp HHHHHHHHHC--SEEHHHHHHHHT--HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHc-CCcCHHHHHHHhCCCHHHHHHHHHHHHHcCCeeee
Confidence 4567777764 58999999999999988775 456788998875
No 125
>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=73.60 E-value=5.3 Score=31.69 Aligned_cols=40 Identities=28% Similarity=0.410 Sum_probs=28.2
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChH---HHHHHHHhcCceee
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAE---DILTTLQSLELIQY 407 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~ 407 (449)
.|.++|.+ .+.+|+.|||+..+++++ +++..|..+|.|+.
T Consensus 4 ~i~~~l~~-~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~ 46 (69)
T PF09012_consen 4 EIRDYLRE-RGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRK 46 (69)
T ss_dssp HHHHHHHH-S-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEE
T ss_pred HHHHHHHH-cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEE
Confidence 46667766 469999999999999975 55666777787764
No 126
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=73.36 E-value=5.3 Score=38.38 Aligned_cols=47 Identities=21% Similarity=0.345 Sum_probs=36.8
Q ss_pred CCCCccHHHHHHhcCCChHHHHHHHHhcCceee-----eCCeEEEE-eCHHHH
Q 013121 375 HKGNISIKELSDMTAIKAEDILTTLQSLELIQY-----RKGQHVIC-ADPKVL 421 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~-----~~g~~~i~-~~~~~i 421 (449)
+...||..+|++.+|++...|+.+|..+|||.- ..|...+. ++++.+
T Consensus 101 y~qPiTr~eI~~irGv~~~~ii~~L~~~gLI~e~gr~~~~Grp~ly~tT~~F~ 153 (188)
T PRK00135 101 YKQPITRIEIDEIRGVNSDGALQTLLAKGLIKEVGRKEVPGRPILYGTTDEFL 153 (188)
T ss_pred HcCCcCHHHHHHHHCCCHHHHHHHHHHCCCeEEcCcCCCCCCCeeeehhHHHH
Confidence 457999999999999999999999999999974 24544443 555433
No 127
>COG2388 Predicted acetyltransferase [General function prediction only]
Probab=73.10 E-value=3.5 Score=36.01 Aligned_cols=65 Identities=17% Similarity=0.150 Sum_probs=52.3
Q ss_pred eEEEEEEecCCCceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCCCCCCCcc
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERP 351 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErP 351 (449)
.||+++.. |- .+|++..=+...+--|+.|-.|=|.+|++|+|+-|++..=+-+|++|.-=.|==|
T Consensus 16 ~~y~~~~~---G~-~~~e~~y~~~~~~~i~i~HT~V~d~lrGqGia~~L~~~al~~ar~~g~kiiP~Cs 80 (99)
T COG2388 16 GRYVLTDE---GE-VIGEATYYDRGENLIIIDHTYVPDELRGQGIAQKLVEKALEEAREAGLKIIPLCS 80 (99)
T ss_pred eEEEEecC---Cc-EEEEEEEecCCCCEEEEecCcCCHHHcCCcHHHHHHHHHHHHHHHcCCeEcccch
Confidence 57777643 33 5787777777767778999999999999999999999999999999985555444
No 128
>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=72.88 E-value=6.6 Score=34.37 Aligned_cols=58 Identities=19% Similarity=0.366 Sum_probs=44.2
Q ss_pred hhhHHHHHHHHHhC-CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHH
Q 013121 362 GYWTRVLLDILKKH-KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPK 419 (449)
Q Consensus 362 sYW~~~il~~L~~~-~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~ 419 (449)
.-+.=.++.+|... ...+|+.+||+.+||.. ..++..|...|+|... .|.|.+..+++
T Consensus 8 ~~yal~~l~~la~~~~~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~ggy~l~~~~~ 72 (130)
T TIGR02944 8 TDYATLVLTTLAQNDSQPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGGYTLARAPR 72 (130)
T ss_pred HhHHHHHHHHHHhCCCCCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCChhhcCCcc
Confidence 34455667777654 45799999999999985 7889999999999864 46777766553
No 129
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=72.68 E-value=11 Score=35.34 Aligned_cols=53 Identities=17% Similarity=0.341 Sum_probs=42.5
Q ss_pred CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHHHHH--HHHHHh
Q 013121 376 KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPKVLD--RHLKAA 428 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i~--~~~~~~ 428 (449)
...+|+++||+.++|.. +.|+..|...|+|... +|.|.+..+++.|. +.+...
T Consensus 23 ~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~p~~Itl~dIl~ai 83 (164)
T PRK10857 23 AGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAV 83 (164)
T ss_pred CCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCCHHHCCHHHHHHHH
Confidence 45799999999999995 8999999999999864 57899998886443 444443
No 130
>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=72.59 E-value=8.7 Score=32.52 Aligned_cols=44 Identities=9% Similarity=0.249 Sum_probs=34.4
Q ss_pred CCCCccHHHHHHhcCCChH---HHHHHHHhcCceeeeCCeEEEEeCH
Q 013121 375 HKGNISIKELSDMTAIKAE---DILTTLQSLELIQYRKGQHVICADP 418 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~~g~~~i~~~~ 418 (449)
....+|..||++++|++.+ .++..|+..|+|....|.-.|+++.
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r~~~~~~~~~n~ 90 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFRQGMMGIVGVNT 90 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeecCCceeecCC
Confidence 3467999999999999865 5677889999999877555556654
No 131
>PRK10870 transcriptional repressor MprA; Provisional
Probab=71.13 E-value=9.9 Score=35.51 Aligned_cols=91 Identities=19% Similarity=0.134 Sum_probs=62.2
Q ss_pred cccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhC-CCCccHHHHHHhcCCChHH---HH
Q 013121 321 PYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKH-KGNISIKELSDMTAIKAED---IL 396 (449)
Q Consensus 321 ~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~-~~~isi~~is~~Tgi~~~D---Ii 396 (449)
|+|+-..++++..++=.|+.. -.+=|.++| .+++...||..|... .+.+|..|||+.++++..- ++
T Consensus 23 ~~~~~~~~~l~~~~~~~l~~~------~~~~l~~~g----Lt~~q~~iL~~L~~~~~~~it~~eLa~~l~l~~~tvsr~v 92 (176)
T PRK10870 23 PYQEILLTRLCMHMQSKLLEN------RNKMLKAQG----INETLFMALITLESQENHSIQPSELSCALGSSRTNATRIA 92 (176)
T ss_pred cHHHHHHHHHHHHHHHHHHHH------HHHHHHHCC----CCHHHHHHHHHHhcCCCCCcCHHHHHHHHCCCHHHHHHHH
Confidence 347777788877766555432 122344444 335667778877653 5679999999999999765 56
Q ss_pred HHHHhcCceeee-----CCeEEEEeCHHHH
Q 013121 397 TTLQSLELIQYR-----KGQHVICADPKVL 421 (449)
Q Consensus 397 ~tL~~l~ll~~~-----~g~~~i~~~~~~i 421 (449)
..|+..|+|... +-...|.++++-.
T Consensus 93 ~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~ 122 (176)
T PRK10870 93 DELEKRGWIERRESDNDRRCLHLQLTEKGH 122 (176)
T ss_pred HHHHHCCCEEecCCCCCCCeeEEEECHHHH
Confidence 888999999863 3356788887533
No 132
>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=70.94 E-value=8.6 Score=35.94 Aligned_cols=47 Identities=21% Similarity=0.371 Sum_probs=38.4
Q ss_pred HHHHHHHHh----CCCCccHHHHHHhcCCC-h---HHHHHHHHhcCceeeeCCeE
Q 013121 366 RVLLDILKK----HKGNISIKELSDMTAIK-A---EDILTTLQSLELIQYRKGQH 412 (449)
Q Consensus 366 ~~il~~L~~----~~~~isi~~is~~Tgi~-~---~DIi~tL~~l~ll~~~~g~~ 412 (449)
..||++|.+ ..-..|+.||++++|++ . ...+.+|+..|+|....|.+
T Consensus 9 ~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~~~~ 63 (199)
T TIGR00498 9 QEVLDLIRAHIESTGYPPSIREIARAVGLRSPSAAEEHLKALERKGYIERDPGKP 63 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCCCCC
Confidence 467777764 34468999999999998 5 78899999999999877764
No 133
>PHA00673 acetyltransferase domain containing protein
Probab=70.62 E-value=10 Score=35.48 Aligned_cols=60 Identities=20% Similarity=0.248 Sum_probs=44.4
Q ss_pred eeeeeecccccCC---CC---ceeeEEeecCcccccccchhhhhhchhhhhccCC-----CCCCCccCChh
Q 013121 296 HMVGYFSKEKHSE---ES---YNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK-----VGTPERPLSDL 355 (449)
Q Consensus 296 h~vGYFSKEK~s~---~~---~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~-----~G~PErPLSDL 355 (449)
.+|||..=.-... .+ --+.=+.|-|.+|++|+|+.|++..=+.+|..|- .++|++=.=|+
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 5899654332221 11 1367789999999999999999999999998876 48898876553
No 134
>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=70.05 E-value=17 Score=28.56 Aligned_cols=36 Identities=17% Similarity=0.402 Sum_probs=28.8
Q ss_pred CCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCC
Q 013121 375 HKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKG 410 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g 410 (449)
.++.++..+||+..++++ .+.+.-|+..|++.+.+-
T Consensus 19 ~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~~~~y 57 (60)
T PF01325_consen 19 EGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVEYEPY 57 (60)
T ss_dssp CTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred CCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEEecCC
Confidence 677999999999999997 566667788899988653
No 135
>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=69.96 E-value=11 Score=32.06 Aligned_cols=38 Identities=16% Similarity=0.252 Sum_probs=33.9
Q ss_pred HHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 370 DILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 370 ~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.+....+.+||.++|+..||...+...-|...|+|..
T Consensus 16 d~~~~~~~~~ti~~~AK~L~i~~~~l~~~Lr~~g~l~~ 53 (111)
T PF03374_consen 16 DAFVDSDGLYTIREAAKLLGIGRNKLFQWLREKGWLYR 53 (111)
T ss_pred HHHHcCCCCccHHHHHHHhCCCHHHHHHHHHhCCceEE
Confidence 44455668999999999999999999999999999987
No 136
>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=68.72 E-value=6.1 Score=30.65 Aligned_cols=38 Identities=29% Similarity=0.391 Sum_probs=31.8
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCce
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELI 405 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll 405 (449)
.|+++|.+ .+.+++.+||+.+|++.--|..-+.+++-.
T Consensus 9 ~Ll~~L~~-~~~~~~~ela~~l~~S~rti~~~i~~L~~~ 46 (59)
T PF08280_consen 9 KLLELLLK-NKWITLKELAKKLNISERTIKNDINELNEF 46 (59)
T ss_dssp HHHHHHHH-HTSBBHHHHHHHCTS-HHHHHHHHHHHHTT
T ss_pred HHHHHHHc-CCCCcHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 57888888 789999999999999998888888877743
No 137
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=68.64 E-value=5.1 Score=32.23 Aligned_cols=43 Identities=16% Similarity=0.349 Sum_probs=34.0
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHH---HHHHHHhcCceee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAED---ILTTLQSLELIQY 407 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~D---Ii~tL~~l~ll~~ 407 (449)
++.|+++|.+....++-.|||+.+||+.-- ++..|+.-|.|+.
T Consensus 2 ke~Il~~i~~~~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~~ 47 (62)
T PF04703_consen 2 KEKILEYIKEQNGPLKTREIADALGLSIYQARYYLEKLEKEGKVER 47 (62)
T ss_dssp HHCHHHHHHHHTS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEEE
T ss_pred cHHHHHHHHHcCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEE
Confidence 467999999867789999999999999755 5677778888875
No 138
>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=68.34 E-value=8.4 Score=32.46 Aligned_cols=34 Identities=3% Similarity=0.127 Sum_probs=29.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHh
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQS 401 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~ 401 (449)
..|+++|.+ +.+||.||++.+|++..=|-..|..
T Consensus 9 ~~I~e~l~~--~~~ti~dvA~~~gvS~~TVsr~L~~ 42 (80)
T TIGR02844 9 LEIGKYIVE--TKATVRETAKVFGVSKSTVHKDVTE 42 (80)
T ss_pred HHHHHHHHH--CCCCHHHHHHHhCCCHHHHHHHhcC
Confidence 467888888 7999999999999999999988743
No 139
>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=68.23 E-value=11 Score=28.14 Aligned_cols=42 Identities=26% Similarity=0.341 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR 408 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~ 408 (449)
..+|..|.+++ .+|+.+||+.++++. ..++.-|+..|+|...
T Consensus 6 ~~iL~~l~~~~-~~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~ 50 (59)
T PF01047_consen 6 FRILRILYENG-GITQSELAEKLGISRSTVTRIIKRLEKKGLIERE 50 (59)
T ss_dssp HHHHHHHHHHS-SEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHcC-CCCHHHHHHHHCCChhHHHHHHHHHHHCCCEEec
Confidence 35677777764 499999999999986 5567778888998753
No 140
>KOG2488 consensus Acetyltransferase (GNAT) domain-containing protein [General function prediction only]
Probab=67.93 E-value=5.1 Score=39.20 Aligned_cols=51 Identities=22% Similarity=0.341 Sum_probs=33.3
Q ss_pred eEEEEEEecCCCceeeeeecccccCCCCceeeEEe-----ecCcccccccchhhhhhchh
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSEESYNLACIL-----TLPPYQRKGYGKFLIAFSYE 337 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~~~~NLaCIl-----~lP~yQrkGyG~~LI~fSYe 337 (449)
+-||++-.. .+ ..|||-+=.-.-. .++-|+- +-|.|||+|+|++|++--=.
T Consensus 92 ~~Yi~a~~~-~~-~~vgf~~Frf~vd--~g~~vlYcyEvqv~~~yR~kGiGk~LL~~l~~ 147 (202)
T KOG2488|consen 92 LRYICAWNN-KS-KLVGFTMFRFTVD--TGDPVLYCYEVQVASAYRGKGIGKFLLDTLEK 147 (202)
T ss_pred ceEEEEEcC-CC-ceeeEEEEEEEcc--cCCeEEEEEEEeehhhhhccChHHHHHHHHHH
Confidence 567777543 33 7888866554332 3344443 56889999999999986433
No 141
>PF13718 GNAT_acetyltr_2: GNAT acetyltransferase 2; PDB: 2ZPA_B.
Probab=67.85 E-value=2.7 Score=40.73 Aligned_cols=27 Identities=30% Similarity=0.426 Sum_probs=19.7
Q ss_pred eeEEeecCcccccccchhhhhhchhhh
Q 013121 313 LACILTLPPYQRKGYGKFLIAFSYELS 339 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~fSYeLS 339 (449)
+.-|-|-|.+||+|||+.|+++-.+-.
T Consensus 93 IvRIAvhP~~q~~G~Gs~lL~~l~~~~ 119 (196)
T PF13718_consen 93 IVRIAVHPDLQRMGYGSRLLQQLEQYA 119 (196)
T ss_dssp EEEEEE-CCC-SSSHHHHHHHHHHHT-
T ss_pred EEEEEEChhhhcCCHHHHHHHHHHHHH
Confidence 456899999999999999998754443
No 142
>PHA00616 hypothetical protein
Probab=67.84 E-value=2.4 Score=32.25 Aligned_cols=24 Identities=21% Similarity=0.585 Sum_probs=21.6
Q ss_pred EEEeccccccccCHHHHHHHHhhC
Q 013121 206 LYFCEFCLNFMKRKEQLQRHMRKC 229 (449)
Q Consensus 206 lyiCe~Cl~y~~~~~~l~~H~~~C 229 (449)
.|.|..|.+-|..+.+|.+|+++=
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~ 24 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSV 24 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHh
Confidence 378999999999999999999753
No 143
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=67.83 E-value=6.6 Score=33.57 Aligned_cols=56 Identities=14% Similarity=0.129 Sum_probs=41.4
Q ss_pred ccCcEEEEEecCCceeeEEEEEEeccCC----CCCCceeEEEeccccccccccccccccccc
Q 013121 65 EVGTRVMCRWRDGKYHPVKVIERRKMHF----GGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 65 ~vGerVl~~~~dg~~~~AeVIe~R~~~~----~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
.+|+.|.|.+++..+.+|.|++-..... .......|.|+|.|.+.. .||+.++|..
T Consensus 2 ~~GdlVWaK~~g~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ffgs~~y--~Wv~~~~l~p 61 (95)
T cd05838 2 LYGDIVWAKLGNFRWWPAIICDPREVPPNIQVLRHCIGEFCVMFFGTHDY--YWVHRGRVFP 61 (95)
T ss_pred CcCCEEEEECCCCCCCCeEEcChhhcChhHhhccCCCCeEEEEEeCCCCE--EEeccccccc
Confidence 4799999999777889999997553221 011235799999998777 5999988753
No 144
>PF02820 MBT: mbt repeat; InterPro: IPR004092 The function of the malignant brain tumor (MBT) repeat is unknown, but is found in a number of nuclear proteins involved in transcriptional repression. The repeat contains a completely conserved glutamate at its amino terminus that may be important for function. The crystal structure of the two MBT repeats of human SCM-like 2 protein has been reported. Each repeat consists of an extended "arm" and a globular core. The arm of the first repeat packs against the core of the second repeat and vice versa. The structure of the core-interacting part of each arm consists of an N-terminal alpha-helix and a turn of 310 helix connected by a short beta-strand. The core consists of an Src homology 3-like five-stranded beta-barrel followed by a C-terminal alpha-helix and another short beta-strand. Each arm interacts with its partner core in a similar way, with the orientation of the N-terminal helix relative to the barrel varying slightly. There are also extensive interactions between the two barrels [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P0K_A 3F70_B 3CEY_A 2VYT_A 2BIV_A 1OI1_A 3OQ5_A 2RJE_B 2RJD_A 2RI3_A ....
Probab=67.73 E-value=9 Score=30.89 Aligned_cols=43 Identities=14% Similarity=0.206 Sum_probs=34.8
Q ss_pred ceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccccCCcccc
Q 013121 78 KYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDSVETV 128 (449)
Q Consensus 78 ~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~~~~~ 128 (449)
....|.|+++... ...|||.|++.+-|.|+..+.-++.++...
T Consensus 13 ~~~vAtV~~v~g~--------~l~v~~dg~~~~~d~w~~~~S~~i~PvGw~ 55 (73)
T PF02820_consen 13 LICVATVVKVCGG--------RLLVRYDGWDDDYDFWCHIDSPRIFPVGWC 55 (73)
T ss_dssp EEEEEEEEEEETT--------EEEEEETTSTGGGEEEEETTSTTEEETTHH
T ss_pred eEEEEEEEEEeCC--------EEEEEEcCCCCCccEEEECCCCCeeecchH
Confidence 4578999998742 489999999999999999988777665543
No 145
>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=67.29 E-value=13 Score=27.62 Aligned_cols=37 Identities=22% Similarity=0.394 Sum_probs=28.2
Q ss_pred CCc-cHHHHHHhcCCCh---HHHHHHHHhcCceeeeCCeEE
Q 013121 377 GNI-SIKELSDMTAIKA---EDILTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 377 ~~i-si~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g~~~ 413 (449)
..+ |+++|++.++++. ...+..|++.|+|...+|..+
T Consensus 23 ~~~~~~~~la~~~~is~~~v~~~l~~L~~~G~i~~~~~~~~ 63 (66)
T cd07377 23 DRLPSERELAEELGVSRTTVREALRELEAEGLVERRPGRGT 63 (66)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCeE
Confidence 344 5999999999986 556778888899987665433
No 146
>PHA00738 putative HTH transcription regulator
Probab=67.23 E-value=19 Score=32.22 Aligned_cols=50 Identities=16% Similarity=0.303 Sum_probs=39.6
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee-eCCeEEEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY-RKGQHVIC 415 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~-~~g~~~i~ 415 (449)
+..|++.|.. .+.+++.+|++.++|+..-| +..|++.|||.. ..|.++++
T Consensus 14 Rr~IL~lL~~-~e~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY 67 (108)
T PHA00738 14 RRKILELIAE-NYILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYA 67 (108)
T ss_pred HHHHHHHHHH-cCCccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEE
Confidence 4678888876 34699999999999998877 567888999975 56776654
No 147
>PF12728 HTH_17: Helix-turn-helix domain
Probab=66.74 E-value=20 Score=26.36 Aligned_cols=48 Identities=17% Similarity=0.320 Sum_probs=35.7
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLKA 427 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~ 427 (449)
+|++|+++.+||+..-|-..+++-++=.+..|.. +.++.+.|++++++
T Consensus 2 lt~~e~a~~l~is~~tv~~~~~~g~i~~~~~g~~-~~~~~~~l~~~~~~ 49 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVYRWIRQGKIPPFKIGRK-WRIPKSDLDRWLER 49 (51)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHcCCCCeEEeCCE-EEEeHHHHHHHHHh
Confidence 6899999999999999877776655534433333 56788888888865
No 148
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=66.03 E-value=13 Score=27.15 Aligned_cols=36 Identities=25% Similarity=0.401 Sum_probs=27.7
Q ss_pred CCCc-cHHHHHHhcCCChH---HHHHHHHhcCceeeeCCe
Q 013121 376 KGNI-SIKELSDMTAIKAE---DILTTLQSLELIQYRKGQ 411 (449)
Q Consensus 376 ~~~i-si~~is~~Tgi~~~---DIi~tL~~l~ll~~~~g~ 411 (449)
+..+ |+.+||+..|++.. ..+..|+..|+|...+|.
T Consensus 17 ~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~~~~~~ 56 (60)
T smart00345 17 GDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGS 56 (60)
T ss_pred CCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCC
Confidence 3457 99999999999865 456677888999765543
No 149
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=65.64 E-value=22 Score=31.30 Aligned_cols=41 Identities=22% Similarity=0.383 Sum_probs=33.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~ 407 (449)
..||+.|.+.. .+|+.+||++.|++...| +.-|+..|+|+-
T Consensus 11 ~~IL~~L~~d~-r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 11 RRILRLLQEDA-RISNAELAERVGLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HHHHHHHHHhC-CCCHHHHHHHHCCCHHHHHHHHHHHHHCCceee
Confidence 46888888754 599999999999998665 567888999874
No 150
>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=65.52 E-value=12 Score=34.59 Aligned_cols=42 Identities=19% Similarity=0.306 Sum_probs=34.6
Q ss_pred HHHHHHHHhCCC-CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG-NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~-~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
..|-++|.++.+ ..||.+||++||++.+.|..-+.+-.|...
T Consensus 33 ~kV~~yLr~~p~~~ati~eV~e~tgVs~~~I~~~IreGRL~~~ 75 (137)
T TIGR03826 33 EKVYKFLRKHENRQATVSEIVEETGVSEKLILKFIREGRLQLK 75 (137)
T ss_pred HHHHHHHHHCCCCCCCHHHHHHHHCcCHHHHHHHHHcCCeecc
Confidence 356678887653 589999999999999999999988777653
No 151
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=65.52 E-value=14 Score=36.78 Aligned_cols=47 Identities=15% Similarity=0.311 Sum_probs=36.3
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEE
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~ 413 (449)
..|+++|.+++ .+++.||+++++++..=| +..|++.|++....|..+
T Consensus 20 ~~Il~~L~~~~-~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~r~~GGa~ 69 (269)
T PRK09802 20 EQIIQRLRQQG-SVQVNDLSALYGVSTVTIRNDLAFLEKQGIAVRAYGGAL 69 (269)
T ss_pred HHHHHHHHHcC-CEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeEEEeCCEE
Confidence 46778887754 599999999999997644 346888999987656554
No 152
>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=65.15 E-value=10 Score=30.03 Aligned_cols=38 Identities=13% Similarity=0.115 Sum_probs=27.5
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCce
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELI 405 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll 405 (449)
+-++-.+.+..-|..+||+.+||+.++|-.+|+..+-.
T Consensus 10 ~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~~~~~ 47 (78)
T PF04539_consen 10 RRELEQELGREPTDEEIAEELGISVEEVRELLQASRRP 47 (78)
T ss_dssp HHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHHHHSCC
T ss_pred HHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHHhCCCC
Confidence 33344456778999999999999999999999876543
No 153
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=65.15 E-value=18 Score=38.22 Aligned_cols=56 Identities=23% Similarity=0.435 Sum_probs=43.6
Q ss_pred HHHHHHH---hCCCCccHHHHHHhcCCChH---HHHHHHHhcCceeee-CCeEEEEeCHHHHH
Q 013121 367 VLLDILK---KHKGNISIKELSDMTAIKAE---DILTTLQSLELIQYR-KGQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~---~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~-~g~~~i~~~~~~i~ 422 (449)
.|+..+. +.+..+|.++|++.+++..+ ||+..|++.|+|... +|.|++..|++.+.
T Consensus 296 ~iL~~l~~~~~~g~~~t~~~La~~l~~~~~~v~~iL~~L~~agLI~~~~~g~~~l~rd~~~it 358 (412)
T PRK04214 296 RLLGRLDQARKHGKALDVDEIRRLEPMGYDELGELLCELARIGLLRRGERGQWVLARDLDSVP 358 (412)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCeEecCCCceEecCCHHhCc
Confidence 3455553 34568999999999998875 999999999999754 46799998887553
No 154
>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=64.18 E-value=9.1 Score=31.16 Aligned_cols=33 Identities=18% Similarity=0.427 Sum_probs=26.5
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQ 400 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~ 400 (449)
.|.++|.+ .+.+|+.+|++.|+++.+|+..+|-
T Consensus 12 ~Vw~~L~~-~~~~s~~el~k~~~l~~~~~~~AiG 44 (65)
T PF10771_consen 12 KVWQLLNE-NGEWSVSELKKATGLSDKEVYLAIG 44 (65)
T ss_dssp HHHHHHCC-SSSEEHHHHHHHCT-SCHHHHHHHH
T ss_pred HHHHHHhh-CCCcCHHHHHHHhCcCHHHHHHHHH
Confidence 45677766 5789999999999999999977753
No 155
>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=64.10 E-value=19 Score=32.38 Aligned_cols=45 Identities=22% Similarity=0.350 Sum_probs=34.8
Q ss_pred CccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEEEEeCHHHHHH
Q 013121 378 NISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHVICADPKVLDR 423 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~i~~~~~~i~~ 423 (449)
.+|-+|||++.|++.+-| +..|+..|+|...++. ++..|.+.+.+
T Consensus 143 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~~~~~-i~I~d~~~L~~ 190 (193)
T TIGR03697 143 RLSHQAIAEAIGSTRVTITRLLGDLRKKKLISIHKKK-ITVHDPIALGQ 190 (193)
T ss_pred CCCHHHHHHHhCCcHHHHHHHHHHHHHCCCEEecCCE-EEEeCHHHHHH
Confidence 579999999999998766 5567788999887765 66667766554
No 156
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=64.00 E-value=4.4 Score=33.24 Aligned_cols=47 Identities=13% Similarity=0.212 Sum_probs=33.9
Q ss_pred ceeeeeecccccCCCCceeeEEeecCcccccccchhhhhhchhhhhccCCC
Q 013121 295 CHMVGYFSKEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGKV 345 (449)
Q Consensus 295 ~h~vGYFSKEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~ 345 (449)
.-.+.| +. ..+...+-=..|-|.||++|+|+.|++..-..++.+|..
T Consensus 11 ~a~l~Y-~~---~~~~~~i~hT~V~~~~rGqGia~~L~~~~l~~a~~~~~k 57 (78)
T PF14542_consen 11 IAELTY-RE---DGGVIVITHTEVPPELRGQGIAKKLVEAALDYARENGLK 57 (78)
T ss_dssp EEEEEE-EE---SSSEEEEEEEEE-CSSSTTTHHHHHHHHHHHHHHHTT-E
T ss_pred EEEEEE-Ee---CCCEEEEEEEEECccccCCcHHHHHHHHHHHHHHHCCCE
Confidence 445566 33 122345777889999999999999999999999988763
No 157
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=63.57 E-value=17 Score=35.88 Aligned_cols=48 Identities=21% Similarity=0.403 Sum_probs=39.2
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~ 413 (449)
...|+++|.++ +.+++.||++..+++.+=| +..|++.|+|+...|.-+
T Consensus 7 ~~~Il~~l~~~-~~~~~~ela~~l~vS~~TiRRdL~~Le~~g~l~r~~GGa~ 57 (252)
T PRK10906 7 HDAIIELVKQQ-GYVSTEELVEHFSVSPQTIRRDLNDLAEQNKILRHHGGAA 57 (252)
T ss_pred HHHHHHHHHHc-CCEeHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecCCEE
Confidence 46788889764 5899999999999998777 458999999987766654
No 158
>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=63.38 E-value=11 Score=28.97 Aligned_cols=42 Identities=24% Similarity=0.436 Sum_probs=32.5
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY 407 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~ 407 (449)
+..|+..|.. .+.+|+.+|++.+||+..-+ +..|++.|+|.-
T Consensus 12 R~~Il~~L~~-~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 12 RLRILRLLAS-NGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHHHHHHHHH-CSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHhc-CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEE
Confidence 5678888833 46899999999999998877 456677788864
No 159
>PF02186 TFIIE_beta: TFIIE beta subunit core domain; InterPro: IPR003166 Initiation of eukaryotic mRNA transcription requires melting of promoter DNA with the help of the general transcription factors TFIIE and TFIIH. In higher eukaryotes, the general transcription factor TFIIE consists of two subunits: the large alpha subunit (IPR002853 from INTERPRO) and the small beta (IPR003166 from INTERPRO). TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The approximately 120-residue central core domain of TFIIE beta plays a role in double-stranded DNA binding of TFIIE []. The TFIIE beta central core DNA-binding domain consists of three helices with a beta hairpin at the C terminus, resembling the winged helix proteins. It shows a novel double-stranded DNA-binding activity where the DNA-binding surface locates on the opposite side to the previously reported winged helix motif by forming a positively charged furrow []. This entry represents the beta subunit of the transcription factor TFIIE.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005673 transcription factor TFIIE complex; PDB: 1D8K_A 1D8J_A.
Probab=63.27 E-value=13 Score=30.02 Aligned_cols=27 Identities=15% Similarity=0.341 Sum_probs=19.3
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAE 393 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~ 393 (449)
.++++|++....+|++||.+.|++...
T Consensus 9 ~~VeymK~r~~Plt~~eI~d~l~~d~~ 35 (65)
T PF02186_consen 9 KAVEYMKKRDHPLTLEEILDYLSLDIG 35 (65)
T ss_dssp HHHHHHHHH-S-B-HHHHHHHHTSSS-
T ss_pred HHHHHHHhcCCCcCHHHHHHHHcCCCC
Confidence 357889988889999999999996654
No 160
>PHA02943 hypothetical protein; Provisional
Probab=63.25 E-value=29 Score=33.08 Aligned_cols=52 Identities=15% Similarity=0.265 Sum_probs=39.1
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee-CCe-EEEEeCHH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR-KGQ-HVICADPK 419 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~-~g~-~~i~~~~~ 419 (449)
..||++| ..+..|..+|++.+|++. ..++..|+..|.|+.. .|. -+-+++++
T Consensus 14 ~eILE~L--k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~VkrV~~G~~tyw~l~~d 70 (165)
T PHA02943 14 IKTLRLL--ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLKVEIGRAAIWCLDED 70 (165)
T ss_pred HHHHHHH--hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEEEeecceEEEEEChH
Confidence 4677888 456789999999999995 6678899999999864 453 33455553
No 161
>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=63.13 E-value=8.8 Score=34.89 Aligned_cols=52 Identities=31% Similarity=0.632 Sum_probs=31.4
Q ss_pred eEEEEEEecCCC-ceeeeeec---------ccccCC-CCceeeEEe---ecCcccccccchhhhhh
Q 013121 283 LFYVLCECDDRG-CHMVGYFS---------KEKHSE-ESYNLACIL---TLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 283 lFYVl~e~d~~g-~h~vGYFS---------KEK~s~-~~~NLaCIl---~lP~yQrkGyG~~LI~f 334 (449)
.-|+|.+....| -.++|+.- .+.... +-..+-||| |-+..||+|+|+.|.+.
T Consensus 5 ~~Yll~d~~~~~~g~viG~LKVG~K~Lfl~d~~g~~~e~~~~~cvLDFyVhes~QR~G~Gk~LF~~ 70 (120)
T PF05301_consen 5 VLYLLKDSEAGGKGAVIGFLKVGYKKLFLLDERGQHREIEPLLCVLDFYVHESRQRRGYGKRLFDH 70 (120)
T ss_pred EEEEEEecCCCCCceEEEEEEEeeeeEEEEcCCCCEEEecccceeeeEEEEeceeccCchHHHHHH
Confidence 357887766533 34566531 111111 112356775 66899999999999875
No 162
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=62.53 E-value=23 Score=34.08 Aligned_cols=48 Identities=21% Similarity=0.358 Sum_probs=38.9
Q ss_pred CCCCccHHHHHHhcCCChHHHHHHHHhcCceeee-----CCeEEEE-eCHHHHH
Q 013121 375 HKGNISIKELSDMTAIKAEDILTTLQSLELIQYR-----KGQHVIC-ADPKVLD 422 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~-----~g~~~i~-~~~~~i~ 422 (449)
+...||-.+|.+.-|...+.+|.||+.+|+|+.. +|..++. .++..++
T Consensus 103 Y~QPiTR~eI~~iRGv~~~~~i~~L~e~glI~~~g~~~~~Grp~ly~tT~~Fl~ 156 (184)
T COG1386 103 YKQPVTRSEIEEIRGVAVSQVISTLLERGLIREVGRRDTPGRPYLYGTTEKFLD 156 (184)
T ss_pred HcCCccHHHHHHHhCccHHHHHHHHHHCCCeEecCCCCCCCCceeeeccHHHHH
Confidence 5678999999999999999999999999999864 5765554 4554444
No 163
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=62.49 E-value=21 Score=32.80 Aligned_cols=60 Identities=13% Similarity=0.104 Sum_probs=44.3
Q ss_pred HHHHHh-CCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEEEEeCHHHHH--HHHHHh
Q 013121 369 LDILKK-HKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHVICADPKVLD--RHLKAA 428 (449)
Q Consensus 369 l~~L~~-~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i~--~~~~~~ 428 (449)
+-+|.. ....+|+++||+..+|.. .-|+..|...|+|... +|.|.+.-+++.|. +.++..
T Consensus 14 L~~LA~~~~~~~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La~~p~eItl~dIi~av 82 (153)
T PRK11920 14 LMYCAANDGKLSRIPEIARAYGVSELFLFKILQPLVEAGLVETVRGRNGGVRLGRPAADISLFDVVRVT 82 (153)
T ss_pred HHHHHhCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeecCCCCCeeecCCHHHCcHHHHHHHH
Confidence 334543 344689999999999996 6888999999999875 46899988876443 444443
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=61.52 E-value=28 Score=24.35 Aligned_cols=47 Identities=19% Similarity=0.379 Sum_probs=33.4
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLK 426 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~ 426 (449)
+|++|+|+.+||+..-|-.-++.-.+-....|.. ..++.+.++++++
T Consensus 2 lt~~e~a~~lgis~~ti~~~~~~g~i~~~~~g~~-~~~~~~~l~~~~~ 48 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVYRLIHEGELPAYRVGRH-YRIPREDVDEYLE 48 (49)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHcCCCCeEEeCCe-EEEeHHHHHHHHh
Confidence 6899999999999998877766543333333543 4577778877764
No 165
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=61.00 E-value=14 Score=31.46 Aligned_cols=53 Identities=15% Similarity=0.182 Sum_probs=42.2
Q ss_pred CCCcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEeccc-ccccccccccccccccC
Q 013121 61 MLPLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTE-FNRRLDEWVKLEQLDLD 123 (449)
Q Consensus 61 ~~~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g-~nkRlDEWV~~~rl~l~ 123 (449)
.+-...|+.|.+.+++-...+|+|++... ..|-|.|.| ...| -||+..+|..-
T Consensus 4 ~pc~~p~dLVwAK~kGyp~WPAkV~~~~~--------~~~~V~FFG~t~~~--a~v~~~~i~~~ 57 (83)
T cd05841 4 EPCRPPHELVWAKLKGFPYWPAKVMRVED--------NQVDVRFFGGQHDR--AWIPSNNIQPI 57 (83)
T ss_pred cccCCCCCEEEEeCCCCCCCCEEEeecCC--------CeEEEEEcCCCCCe--EEEehHHeeeh
Confidence 34567899999999888889999996532 379999999 7777 49999888643
No 166
>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=60.64 E-value=16 Score=30.52 Aligned_cols=40 Identities=28% Similarity=0.390 Sum_probs=31.2
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHh---cCceee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQS---LELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~---l~ll~~ 407 (449)
+.|+..|... .+|+++|.+.|||+...+..+|.. -|+|..
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 4566666554 899999999999999999877654 577753
No 167
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=60.40 E-value=17 Score=33.39 Aligned_cols=71 Identities=21% Similarity=0.319 Sum_probs=50.4
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHH---HhcCceeeeCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCc
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDILTTL---QSLELIQYRKGQHVICADPKVLDRHLKAAGRGGLEVDVSKL 440 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL---~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L 440 (449)
+..|+++.+++ +.+|+.|++.+||.+..-+-.-| -.-|-| +..|.+=|+.+......+.++.++- +||..+
T Consensus 14 k~rIvElVRe~-GRiTi~ql~~~TGasR~Tvk~~lreLVa~G~l-~~~G~~GvF~seqA~~dw~~~~~~~---~~~~~~ 87 (127)
T PF06163_consen 14 KARIVELVREH-GRITIKQLVAKTGASRNTVKRYLRELVARGDL-YRHGRSGVFPSEQARKDWDKARKKL---VDPDLI 87 (127)
T ss_pred HHHHHHHHHHc-CCccHHHHHHHHCCCHHHHHHHHHHHHHcCCe-EeCCCccccccHHHHHHHHHhHHhh---ccchhh
Confidence 34677777775 68999999999999976555444 444555 4467767888988888887765442 676543
No 168
>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=59.62 E-value=16 Score=31.42 Aligned_cols=46 Identities=17% Similarity=0.251 Sum_probs=26.3
Q ss_pred eEEEEEEecCCCceeeeeecccccCC--CCceeeEEeecCcccccccchhhhhh
Q 013121 283 LFYVLCECDDRGCHMVGYFSKEKHSE--ESYNLACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 283 lFYVl~e~d~~g~h~vGYFSKEK~s~--~~~NLaCIl~lP~yQrkGyG~~LI~f 334 (449)
.+||+.+. -.+|||-+=..... ....+.+. +.|.+| +|||+.++..
T Consensus 52 ~~~~~~~~----g~~vG~~~~~~~~~~~~~~~~g~~-~~~~~~-~G~g~~~~~~ 99 (156)
T TIGR03585 52 RYWIVCQE----SRPIGVISFTDINLVHKSAFWGIY-ANPFCK-PGVGSVLEEA 99 (156)
T ss_pred eEEEEEEC----CEEEEEEEEEecChhhCeEEEEEE-eChhhh-cCchHHHHHH
Confidence 45666532 25677655433322 12234433 667777 9999988653
No 169
>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=59.25 E-value=3.1 Score=35.87 Aligned_cols=16 Identities=31% Similarity=0.590 Sum_probs=13.8
Q ss_pred eecCcccccccchhhh
Q 013121 317 LTLPPYQRKGYGKFLI 332 (449)
Q Consensus 317 l~lP~yQrkGyG~~LI 332 (449)
-|||.||||||.+.++
T Consensus 26 yTlPeyR~~G~~~~v~ 41 (89)
T PF08444_consen 26 YTLPEYRGQGLMSQVM 41 (89)
T ss_pred ccCHhHhcCCHHHHHH
Confidence 3899999999988765
No 170
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=59.17 E-value=8.6 Score=24.35 Aligned_cols=21 Identities=33% Similarity=0.771 Sum_probs=15.7
Q ss_pred EEeccccccccCHHHHHHHHhh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
|.|++|-.-.. +..|.+|++.
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 171
>PRK00215 LexA repressor; Validated
Probab=58.76 E-value=22 Score=33.46 Aligned_cols=44 Identities=18% Similarity=0.299 Sum_probs=34.7
Q ss_pred HHHHHHHH----hCCCCccHHHHHHhcCC-Ch---HHHHHHHHhcCceeeeC
Q 013121 366 RVLLDILK----KHKGNISIKELSDMTAI-KA---EDILTTLQSLELIQYRK 409 (449)
Q Consensus 366 ~~il~~L~----~~~~~isi~~is~~Tgi-~~---~DIi~tL~~l~ll~~~~ 409 (449)
..||++|. +++..+|+.|||+.+|+ +. ..++.+|+..|+|....
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 34566554 34567899999999999 54 89999999999998653
No 172
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=58.50 E-value=21 Score=35.20 Aligned_cols=48 Identities=25% Similarity=0.362 Sum_probs=36.6
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~ 413 (449)
+..|+++|.++ +.++++||++.++++.+=| +..|++.|+|....|.-+
T Consensus 7 ~~~Il~~L~~~-~~v~v~eLa~~l~VS~~TIRRDL~~Le~~g~l~r~~Gga~ 57 (256)
T PRK10434 7 QAAILEYLQKQ-GKTSVEELAQYFDTTGTTIRKDLVILEHAGTVIRTYGGVV 57 (256)
T ss_pred HHHHHHHHHHc-CCEEHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCEE
Confidence 35788888875 5799999999999996533 344888998877666544
No 173
>PRK15130 spermidine N1-acetyltransferase; Provisional
Probab=58.30 E-value=17 Score=32.80 Aligned_cols=38 Identities=18% Similarity=0.195 Sum_probs=24.0
Q ss_pred ceeeeeecccccCCC--CceeeEEeecCcccccccchhhhh
Q 013121 295 CHMVGYFSKEKHSEE--SYNLACILTLPPYQRKGYGKFLIA 333 (449)
Q Consensus 295 ~h~vGYFSKEK~s~~--~~NLaCIl~lP~yQrkGyG~~LI~ 333 (449)
-.++|+.+=-..... ...+ .+.+.|.||++|||+.++.
T Consensus 66 g~~iG~~~~~~~~~~~~~~~~-~~~v~~~~~g~G~g~~l~~ 105 (186)
T PRK15130 66 GEKAGLVELVEINHVHRRAEF-QIIISPEYQGKGLATRAAK 105 (186)
T ss_pred CEEEEEEEEEeecCCCCeEEE-EEEECHHHcCCCHHHHHHH
Confidence 367887653111111 1123 4899999999999987654
No 174
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=58.17 E-value=25 Score=35.48 Aligned_cols=62 Identities=23% Similarity=0.296 Sum_probs=46.3
Q ss_pred CCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCChH---HHHHHHHhcCceeee---CCeEEEEe
Q 013121 346 GTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIKAE---DILTTLQSLELIQYR---KGQHVICA 416 (449)
Q Consensus 346 G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~---~g~~~i~~ 416 (449)
=..+-||+|-= ..|+++|.++++.++-+||.+++|+... =++.=|+.+|+|+.. ++++++..
T Consensus 187 ~~~~~~L~~~e---------~~il~~i~~~GGri~Q~eL~r~lglsktTvsR~L~~LEk~GlIe~~K~G~~n~V~l~ 254 (258)
T COG2512 187 LVNEYDLNEDE---------KEILDLIRERGGRITQAELRRALGLSKTTVSRILRRLEKRGLIEKEKKGRTNIVELR 254 (258)
T ss_pred ccccCCCCHHH---------HHHHHHHHHhCCEEeHHHHHHhhCCChHHHHHHHHHHHhCCceEEEEeCCeeEEEEe
Confidence 34447777743 4678999999999999999999999865 456667889999753 34455443
No 175
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=57.15 E-value=35 Score=27.74 Aligned_cols=50 Identities=24% Similarity=0.377 Sum_probs=34.3
Q ss_pred HHHHHHHh-CCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCCeEEEEe
Q 013121 367 VLLDILKK-HKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKGQHVICA 416 (449)
Q Consensus 367 ~il~~L~~-~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g~~~i~~ 416 (449)
.|+++|.. ..+..+..+|+..+++.. ...+..|.+.|+|...++.|.|.-
T Consensus 7 Ii~~IL~~l~~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~~~~~Y~lTe 60 (77)
T PF14947_consen 7 IIFDILKILSKGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKKKDGKYRLTE 60 (77)
T ss_dssp HHHHHHHHH-TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEEETTEEEE-H
T ss_pred HHHHHHHHHHcCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeCCCCEEEECc
Confidence 34455543 267889999999999985 677888999999988888887653
No 176
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=57.12 E-value=23 Score=35.02 Aligned_cols=50 Identities=24% Similarity=0.444 Sum_probs=40.3
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHHH---HHHhcCceeeeCCeEEEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDILT---TLQSLELIQYRKGQHVIC 415 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~~~g~~~i~ 415 (449)
.+.|+++|.++ +.++++||++.++++.+=|-. .|++.|+|....|.-++.
T Consensus 7 ~~~Il~~l~~~-g~v~v~eLa~~~~VS~~TIRRDL~~Le~~g~l~R~hGGa~~~ 59 (253)
T COG1349 7 HQKILELLKEK-GKVSVEELAELFGVSEMTIRRDLNELEEQGLLLRVHGGAVLP 59 (253)
T ss_pred HHHHHHHHHHc-CcEEHHHHHHHhCCCHHHHHHhHHHHHHCCcEEEEeCCEecC
Confidence 36788888874 699999999999999987754 899999998766655543
No 177
>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=56.80 E-value=58 Score=30.35 Aligned_cols=50 Identities=10% Similarity=0.171 Sum_probs=38.6
Q ss_pred CCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCHHHHHHH
Q 013121 375 HKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADPKVLDRH 424 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~~~i~~~ 424 (449)
.+..++-.+||+..|++. -+.+..|+..|+|... +|-+|..++.+.+.+.
T Consensus 31 pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~~~~~G~~V~~~~~~~~~ei 85 (212)
T TIGR03338 31 PGAKLNESDIAARLGVSRGPVREAFRALEEAGLVRNEKNRGVFVREISLAEADEI 85 (212)
T ss_pred CCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEEecCCCeEEecCCHHHHHHH
Confidence 456789999999999985 5667778888999764 5667777787666544
No 178
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=56.75 E-value=26 Score=31.29 Aligned_cols=45 Identities=13% Similarity=0.214 Sum_probs=37.1
Q ss_pred CCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCC---eEEEEeCHHHH
Q 013121 377 GNISIKELSDMTAIKA---EDILTTLQSLELIQYRKG---QHVICADPKVL 421 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g---~~~i~~~~~~i 421 (449)
..+|+++||+..||+. ..|+..|+..|+|...+| .|.+..+++.+
T Consensus 24 ~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~~~i 74 (141)
T PRK11014 24 RMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPASTI 74 (141)
T ss_pred CccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCHHHC
Confidence 4689999999999996 788889999999987654 68887777654
No 179
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=56.27 E-value=24 Score=31.64 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=25.3
Q ss_pred CcEEEEEe-cCCceeeEEEEEEeccCCCCCCceeEEEec
Q 013121 67 GTRVMCRW-RDGKYHPVKVIERRKMHFGGPNDYEYYVHY 104 (449)
Q Consensus 67 GerVl~~~-~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY 104 (449)
|++|+|++ .||-+|+|.|.+.-.. -.|.|+|
T Consensus 1 g~~VlAR~~~DG~YY~GtV~~~~~~-------~~~lV~f 32 (124)
T PF15057_consen 1 GQKVLARREEDGFYYPGTVKKCVSS-------GQFLVEF 32 (124)
T ss_pred CCeEEEeeCCCCcEEeEEEEEccCC-------CEEEEEE
Confidence 78999998 5777899999987622 3799999
No 180
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=55.80 E-value=81 Score=30.39 Aligned_cols=55 Identities=11% Similarity=0.241 Sum_probs=41.1
Q ss_pred HHHH-HHHhCCCC-ccHHHHHHhcCCChHHHHHHHHhc---------Cc-eeeeCCeEEEEeCHHHH
Q 013121 367 VLLD-ILKKHKGN-ISIKELSDMTAIKAEDILTTLQSL---------EL-IQYRKGQHVICADPKVL 421 (449)
Q Consensus 367 ~il~-~L~~~~~~-isi~~is~~Tgi~~~DIi~tL~~l---------~l-l~~~~g~~~i~~~~~~i 421 (449)
.+++ +|...+.. +|+++|++.+++..++|..+|..| |+ |....|.|.+...++.-
T Consensus 7 ~~iEA~LF~sg~pgls~~~La~~l~~~~~~v~~~l~~L~~~y~~~~~gi~i~~~~~~y~l~tk~e~~ 73 (188)
T PRK00135 7 SIIEALLFVSGEEGLSLEQLAEILELEPTEVQQLLEELQEKYEGDDRGLKLIEFNDVYKLVTKEENA 73 (188)
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHhhCCCCEEEEEECCEEEEEEcHHHH
Confidence 3444 44556666 999999999999988888888777 33 34467889999888643
No 181
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=55.79 E-value=17 Score=29.21 Aligned_cols=39 Identities=21% Similarity=0.316 Sum_probs=24.0
Q ss_pred cccCcEEEEEec--CCceeeEEEEEEeccCCCCCCceeEEEeccc
Q 013121 64 LEVGTRVMCRWR--DGKYHPVKVIERRKMHFGGPNDYEYYVHYTE 106 (449)
Q Consensus 64 ~~vGerVl~~~~--dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g 106 (449)
-.+|+++.+.-. +...+.++|+++|-.. +.+-|-|+|.+
T Consensus 3 A~vGD~lvv~g~~vg~~~r~GeIveV~g~d----G~PPY~VRw~D 43 (58)
T PF08940_consen 3 ASVGDRLVVHGRTVGQPDRHGEIVEVRGPD----GSPPYLVRWDD 43 (58)
T ss_dssp --TTEEEEES-TTTS--EEEEEEEE-S-SS----S-S-EEEEETT
T ss_pred CCCCCEEEEcCCcCCCCCcEeEEEEEECCC----CCCCEEEEecC
Confidence 468999998532 2335999999999754 56789999865
No 182
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=55.16 E-value=30 Score=31.52 Aligned_cols=47 Identities=17% Similarity=0.111 Sum_probs=35.9
Q ss_pred CccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEEEEeCHHHHHHHH
Q 013121 378 NISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHVICADPKVLDRHL 425 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~i~~~~~~i~~~~ 425 (449)
.+|-++||...|++.+=| +..|+..|+|...+ .++...|.+.+++..
T Consensus 149 ~~t~~~iA~~lG~tretvsR~l~~l~~~g~I~~~~-~~i~I~d~~~L~~~~ 198 (202)
T PRK13918 149 YATHDELAAAVGSVRETVTKVIGELSREGYIRSGY-GKIQLLDLKGLEELA 198 (202)
T ss_pred cCCHHHHHHHhCccHHHHHHHHHHHHHCCCEEcCC-CEEEEECHHHHHHHH
Confidence 468999999999998765 55667779998544 456678888777654
No 183
>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=54.73 E-value=36 Score=32.20 Aligned_cols=43 Identities=21% Similarity=0.325 Sum_probs=34.5
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChH---HHHHHHHhcCceeeeC
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAE---DILTTLQSLELIQYRK 409 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~~ 409 (449)
..|+.+|.++ +.+++.+||+.++++.. -.+..|++.|+|...+
T Consensus 146 ~~IL~~l~~~-g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~ 191 (203)
T TIGR01884 146 LKVLEVLKAE-GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKG 191 (203)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 3788888765 46999999999999864 5567778889998764
No 184
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=53.93 E-value=86 Score=27.62 Aligned_cols=54 Identities=20% Similarity=0.176 Sum_probs=39.5
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee-----CCeEEEEeCHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR-----KGQHVICADPKV 420 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~-----~g~~~i~~~~~~ 420 (449)
.||..|....+.+|..+||+.++++. .-++..|+..|+|... +-...|.++++-
T Consensus 35 ~vL~~l~~~~~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G 96 (144)
T PRK03573 35 VTLHNIHQLPPEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKA 96 (144)
T ss_pred HHHHHHHHcCCCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHH
Confidence 35666655555789999999999986 4567778889999864 334667777743
No 185
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=53.68 E-value=59 Score=29.07 Aligned_cols=53 Identities=19% Similarity=0.321 Sum_probs=38.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee-eCCeEE-EEeCHH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY-RKGQHV-ICADPK 419 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~-~~g~~~-i~~~~~ 419 (449)
..|+..|.+. +++++.||++.++|+..-| +..|++.|+|.. ..|.++ ..++++
T Consensus 19 l~IL~~L~~~-~~~~v~ela~~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~~ 76 (117)
T PRK10141 19 LGIVLLLRES-GELCVCDLCTALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRLSPH 76 (117)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEECch
Confidence 4577777653 5799999999999998877 567888999964 455544 345553
No 186
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=53.36 E-value=41 Score=32.44 Aligned_cols=51 Identities=20% Similarity=0.297 Sum_probs=40.5
Q ss_pred HHHHHH--hCCCCccHHHHHHhcCCChHHHHHHHHhcCceeee-----CCeEEEEeCH
Q 013121 368 LLDILK--KHKGNISIKELSDMTAIKAEDILTTLQSLELIQYR-----KGQHVICADP 418 (449)
Q Consensus 368 il~~L~--~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~-----~g~~~i~~~~ 418 (449)
.++.|. .+...||-.+|.+.=|.....++.+|.++|||+-. .|..++..+.
T Consensus 89 aLEtLAIIAY~QPITr~eIe~IRGv~s~~~l~~L~ergLI~~~Gr~~~~Grp~ly~TT 146 (186)
T TIGR00281 89 SLEVLAIIAYKQPITRARINEIRGVKSYQIVDDLVEKGLVVELGRKDTPGRSFIYETT 146 (186)
T ss_pred HHHHHHHHHHcCCcCHHHHHHHcCCCHHHHHHHHHHCCCeEecCcCCCCCCCeeehhh
Confidence 344442 35679999999999999999999999999999864 5776655443
No 187
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=53.18 E-value=30 Score=31.39 Aligned_cols=46 Identities=20% Similarity=0.395 Sum_probs=29.1
Q ss_pred hcCCCCcccCcEEEEEecCCc-eeeEEEEEEeccCCCCCCceeEEEeccccc
Q 013121 58 RASMLPLEVGTRVMCRWRDGK-YHPVKVIERRKMHFGGPNDYEYYVHYTEFN 108 (449)
Q Consensus 58 ~~~~~~~~vGerVl~~~~dg~-~~~AeVIe~R~~~~~~~~~~~YYVHY~g~n 108 (449)
......|..|++|+|.+-+.+ +|+|+|++..... .-.|=+.|.|-+
T Consensus 66 ~~~~~~f~~g~~VLAlYP~TT~FY~A~V~~~p~~~-----~~~y~l~Fedd~ 112 (130)
T PF07039_consen 66 TDPLAEFPKGTKVLALYPDTTCFYPATVVSPPKKK-----SGEYKLKFEDDE 112 (130)
T ss_dssp T-GGGS--TT-EEEEE-TTSSEEEEEEEEEE-SST-----TS-EEEEECTTT
T ss_pred CCchhhCCCCCEEEEECCCCceEEEEEEEeCCCCC-----CCcEEEEEeCCC
Confidence 345678999999999995554 6999999985432 236888887754
No 188
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=52.45 E-value=23 Score=29.59 Aligned_cols=40 Identities=25% Similarity=0.454 Sum_probs=32.7
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCcee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQ 406 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~ 406 (449)
..|+..|..+ +.+|..+|++.+|++..-| +..|...|+|+
T Consensus 6 ~~il~~L~~~-~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 6 RKILEELQKD-ARISLAELAKKVGLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHh-CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 4678888775 4799999999999998766 56677789887
No 189
>PRK10809 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional
Probab=52.17 E-value=22 Score=32.31 Aligned_cols=48 Identities=13% Similarity=0.112 Sum_probs=27.7
Q ss_pred EEEEEEecCCCceeeeeecccccCC---CCceeeEEeecCcccccccchhhhhh
Q 013121 284 FYVLCECDDRGCHMVGYFSKEKHSE---ESYNLACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 284 FYVl~e~d~~g~h~vGYFSKEK~s~---~~~NLaCIl~lP~yQrkGyG~~LI~f 334 (449)
+|++...+ +-.++|+.+=-.... ....+. +.+-|+||++|||+.++..
T Consensus 77 ~~~i~~~~--~~~~iG~i~l~~~~~~~~~~~eig-~~i~~~~~G~G~~~ea~~~ 127 (194)
T PRK10809 77 YFALLDPD--EKEIIGVANFSNVVRGSFHACYLG-YSLGQKWQGQGLMFEALQA 127 (194)
T ss_pred EEEEEECC--CCeEEEEEEEEeecCCCeeeEEEE-EEECHHHcCCCHHHHHHHH
Confidence 45554322 236888766322211 111233 4578999999999988754
No 190
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=51.51 E-value=27 Score=29.49 Aligned_cols=51 Identities=12% Similarity=0.095 Sum_probs=38.9
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
|++|+.|-+...+-.+.+|+|.++... ...|-|-|.|-+ ---.|+..+.+.
T Consensus 1 f~~gdlVWaK~~g~P~WPa~I~~~~~~------~~k~~V~FfG~~-~~~a~~~~~~l~ 51 (80)
T cd06080 1 FEKNDLVWAKIQGYPWWPAVIKSISRK------KQKARVNFIGDN-MQSEKKGIRVVK 51 (80)
T ss_pred CCCCCEEEEeCCCCCCCCEEEeeecCC------CCEEEEEEeCCC-Cceeccchhhcc
Confidence 679999999997778999999988754 247889999887 223566655553
No 191
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=51.44 E-value=81 Score=29.80 Aligned_cols=62 Identities=8% Similarity=0.006 Sum_probs=42.3
Q ss_pred HHHHHHHHHhC----CCCccHHHHHHhcCCChHHHHH---HHHhcCceeeeCCeEEEEeCHHHHHHHHHH
Q 013121 365 TRVLLDILKKH----KGNISIKELSDMTAIKAEDILT---TLQSLELIQYRKGQHVICADPKVLDRHLKA 427 (449)
Q Consensus 365 ~~~il~~L~~~----~~~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~ 427 (449)
...|+.+|... .-.+|-++||+..|++.+=|-. -|++.|+|...++. +...|.+.+.+....
T Consensus 152 ~~Rla~~L~~~~~~~~~~~t~~~lA~~lG~sretvsR~L~~L~~~G~I~~~~~~-i~I~d~~~L~~~~~~ 220 (226)
T PRK10402 152 ENRLAAFILLTQEGDLYHEKHTQAAEYLGVSYRHLLYVLAQFIQDGYLKKSKRG-YLIKNRKQLSGLALE 220 (226)
T ss_pred HHHHHHHHHhcccCCcccchHHHHHHHHCCcHHHHHHHHHHHHHCCCEEeeCCE-EEEeCHHHHHHHHHH
Confidence 34555655431 1235889999999999887655 55667999887665 445688777766544
No 192
>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=50.35 E-value=23 Score=31.08 Aligned_cols=41 Identities=15% Similarity=0.330 Sum_probs=34.0
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|.+.+.+ ...+|+.||++..|++..-|...|+.||+..-
T Consensus 60 ~~L~~~v~~-~pd~tl~Ela~~l~Vs~~ti~~~Lkrlg~t~K 100 (119)
T PF01710_consen 60 DELKALVEE-NPDATLRELAERLGVSPSTIWRALKRLGITRK 100 (119)
T ss_pred HHHHHHHHH-CCCcCHHHHHHHcCCCHHHHHHHHHHcCchhc
Confidence 345555555 46899999999999999999999999999853
No 193
>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=50.28 E-value=25 Score=33.26 Aligned_cols=43 Identities=26% Similarity=0.418 Sum_probs=33.8
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHH---HHHHhcCceeee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDIL---TTLQSLELIQYR 408 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi---~tL~~l~ll~~~ 408 (449)
+..||..|..+ +.+|+.+|++.+||+..=|- ..|...|+|...
T Consensus 3 r~~IL~~L~~~-~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 3 KEDILSYLLKQ-GQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHHHc-CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 46788988876 45999999999999986654 556667999754
No 194
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=50.00 E-value=16 Score=35.27 Aligned_cols=40 Identities=15% Similarity=0.356 Sum_probs=29.6
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCChHHHHH---HHHhcCceee
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKAEDILT---TLQSLELIQY 407 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~ 407 (449)
|..+|.-+++++|+.||+++|||+..-|-. -|+..|+++.
T Consensus 31 iYgilyls~~Pmtl~Ei~E~lg~Sks~vS~~lkkL~~~~lV~~ 73 (177)
T COG1510 31 IYGILYLSRKPLTLDEIAEALGMSKSNVSMGLKKLQDWNLVKK 73 (177)
T ss_pred HhhhheecCCCccHHHHHHHHCCCcchHHHHHHHHHhcchHHh
Confidence 334444457899999999999999876654 5667788764
No 195
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=49.85 E-value=78 Score=28.18 Aligned_cols=51 Identities=16% Similarity=0.352 Sum_probs=34.8
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHH---HHHHhcCceeeeCCeEEEEeCHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDIL---TTLQSLELIQYRKGQHVICADPK 419 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi---~tL~~l~ll~~~~g~~~i~~~~~ 419 (449)
.|..++. ..+.+++++||+..+++..-|. ..|+..|+|.+.+.. .|.++++
T Consensus 12 ~I~~l~~-~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~~~~-~i~LT~~ 65 (142)
T PRK03902 12 QIYLLIE-EKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYEKYR-GLVLTPK 65 (142)
T ss_pred HHHHHHh-cCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEecCc-eEEECHH
Confidence 3444443 4568899999999999876554 556888999875533 2455554
No 196
>cd05839 BR140_related The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, BR140 is disrupted by chromosomal translocations, similar to translocations of WHSC1 in lymphoid multiple myeloma. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=49.84 E-value=23 Score=31.71 Aligned_cols=60 Identities=20% Similarity=0.226 Sum_probs=41.9
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCC-------------------CCCCceeEEEecccccccccccccccccccCC
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHF-------------------GGPNDYEYYVHYTEFNRRLDEWVKLEQLDLDS 124 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~-------------------~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l~~ 124 (449)
++.|+.|.+.+++-.+++|.|+.-..... ...+...|-|+|.+-. +==.||+.++|..-.
T Consensus 1 ~~pg~lVwaK~~g~P~wPa~iidp~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~lV~FFd~~-~s~~Wv~~~~l~pl~ 79 (111)
T cd05839 1 LEPLTLVWAKCRGYPSYPALIIDPKMPRDGVFHNGVPPDVLTLGEARAQNADERLYLVLFFDNK-RTWQWLPGDKLEPLG 79 (111)
T ss_pred CCCcCEeeeeecCCCCCCeEeeCCCCCCcccccCCCCchhhhHHHHHhccCCCcEEEEEEecCC-CcceecCHHHCcccc
Confidence 46899999999777899999997542110 1124567999996542 223799999987543
No 197
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=49.61 E-value=38 Score=27.42 Aligned_cols=41 Identities=15% Similarity=0.281 Sum_probs=32.6
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEeccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFN 108 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~n 108 (449)
.+++++|.|..++++.+++.|+.+..-. .+..|-|--.++.
T Consensus 1 MkvnD~VtVKTDG~~rR~G~ilavE~F~----EG~MYLvaL~dYP 41 (62)
T PF10781_consen 1 MKVNDRVTVKTDGGPRREGVILAVEPFN----EGTMYLVALEDYP 41 (62)
T ss_pred CccccEEEEecCCcccccceEEEEeecc----CcEEEEEEcCcCC
Confidence 3689999999866677999999998754 4578888876654
No 198
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=49.55 E-value=36 Score=33.08 Aligned_cols=46 Identities=15% Similarity=0.316 Sum_probs=38.2
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCC
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKG 410 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g 410 (449)
...|+.+|+.++..++-.+||++.||....| +..|+..++|.-.++
T Consensus 6 ~~~i~~~l~~~~~~~~a~~i~k~l~i~k~~vNr~LY~L~~~~~v~~~~~ 54 (183)
T PHA02701 6 ASLILTLLSSSGDKLPAKRIAKELGISKHEANRCLYRLLESDAVSCEDG 54 (183)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHhCccHHHHHHHHHHHhhcCcEecCCC
Confidence 3578999998876799999999999998776 678899999975444
No 199
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=49.52 E-value=20 Score=34.87 Aligned_cols=42 Identities=17% Similarity=0.265 Sum_probs=36.2
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|++++.++.. .+||.+||+++|+++.=|+...+.||+=-|
T Consensus 19 ~~Ia~yil~n~~~v~~~si~~lA~~~~vS~aTv~Rf~kklG~~gf 63 (284)
T PRK11302 19 RKVAEVILASPQTAIHSSIATLAKMANVSEPTVNRFCRSLDTKGF 63 (284)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHcCCCCH
Confidence 467888887654 479999999999999999999999998765
No 200
>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=49.24 E-value=37 Score=34.41 Aligned_cols=57 Identities=21% Similarity=0.373 Sum_probs=42.5
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC----CeEEEEeCHHHHH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK----GQHVICADPKVLD 422 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~----g~~~i~~~~~~i~ 422 (449)
..|++.|....+.++-.+||++.|++..=| +..|++.|+|.... |-++-.+++..++
T Consensus 186 ~~IL~~L~~~egrlse~eLAerlGVSRs~ireAlrkLE~aGvIe~r~LG~kGt~V~~l~~~~~~ 249 (251)
T TIGR02787 186 EHIFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNDKLIE 249 (251)
T ss_pred HHHHHHhccccccccHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCCCCccEeCCCChhhhh
Confidence 356666665567999999999999998655 55677889998765 5566667766654
No 201
>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=49.07 E-value=49 Score=22.88 Aligned_cols=47 Identities=15% Similarity=0.140 Sum_probs=29.2
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHL 425 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~ 425 (449)
+|+.|+|+.+||+..-|..-.++-.+-....+.-...++.+.|.+.+
T Consensus 1 ~s~~e~a~~lgvs~~tl~~~~~~g~~~~~~~~~~~~~~~~~ei~~~~ 47 (49)
T cd04762 1 LTTKEAAELLGVSPSTLRRWVKEGKLKAIRTPGGHRRFPEEDLERLL 47 (49)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHcCCCCceeCCCCceecCHHHHHHHH
Confidence 48899999999999888876665443222222122245665555543
No 202
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=49.06 E-value=9.1 Score=39.18 Aligned_cols=47 Identities=17% Similarity=0.294 Sum_probs=31.7
Q ss_pred EEecceeeecccCCCCCcCcCCCCcEEEeccccccccCHHHHHHHHhh
Q 013121 181 IELGRYEIETWYFSPFPPEYNDCLKLYFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 181 I~~G~y~i~tWY~SPYP~e~~~~~~lyiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
+.-|+=-=.+|..-=-- -...-++.|.|..|-|-|.++..|+.||+.
T Consensus 191 ~iCGKaFSRPWLLQGHi-RTHTGEKPF~C~hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 191 GICGKAFSRPWLLQGHI-RTHTGEKPFSCPHCGKAFADRSNLRAHMQT 237 (279)
T ss_pred ccccccccchHHhhccc-ccccCCCCccCCcccchhcchHHHHHHHHh
Confidence 33454444566532100 012458899999999999999999999973
No 203
>KOG3138 consensus Predicted N-acetyltransferase [General function prediction only]
Probab=48.82 E-value=5.8 Score=38.34 Aligned_cols=20 Identities=40% Similarity=0.733 Sum_probs=17.8
Q ss_pred EeecCcccccccchhhhhhc
Q 013121 316 ILTLPPYQRKGYGKFLIAFS 335 (449)
Q Consensus 316 Il~lP~yQrkGyG~~LI~fS 335 (449)
+-|||+||++|+|.+||++-
T Consensus 95 Lgvl~~yR~~gIGs~Ll~~~ 114 (187)
T KOG3138|consen 95 LGVLPRYRNKGIGSKLLEFV 114 (187)
T ss_pred ecccHHHHhcchHHHHHHHH
Confidence 56899999999999999864
No 204
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=48.74 E-value=14 Score=29.65 Aligned_cols=25 Identities=32% Similarity=0.707 Sum_probs=21.6
Q ss_pred EEEeccccccccCHHHHHHHHhhCC
Q 013121 206 LYFCEFCLNFMKRKEQLQRHMRKCD 230 (449)
Q Consensus 206 lyiCe~Cl~y~~~~~~l~~H~~~C~ 230 (449)
-+.|.+|.+-|.+...|..|++.-.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCcc
Confidence 5899999999999999999998643
No 205
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=48.68 E-value=73 Score=30.06 Aligned_cols=49 Identities=18% Similarity=0.208 Sum_probs=37.0
Q ss_pred CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCHHHHHHH
Q 013121 376 KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADPKVLDRH 424 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~~~i~~~ 424 (449)
+..++..+||+..|++. -+.+..|+..|+|... +|-+|..++.+.+.+.
T Consensus 28 G~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~~~~~G~~V~~~~~~~~~ei 81 (224)
T PRK11534 28 DEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVASMSEQELLDI 81 (224)
T ss_pred CCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEEeCCCceEeCCCCHHHHHHH
Confidence 56889999999999986 5566677788999764 5667766777666543
No 206
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=48.53 E-value=35 Score=31.89 Aligned_cols=42 Identities=29% Similarity=0.542 Sum_probs=32.0
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK 409 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~ 409 (449)
.||+.+.. .+.-||+|+++.+|=.+..| ++||..+|+|.+.+
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 34444444 46889999999999887665 67788899999865
No 207
>PRK10708 hypothetical protein; Provisional
Probab=47.59 E-value=45 Score=27.00 Aligned_cols=42 Identities=19% Similarity=0.332 Sum_probs=33.1
Q ss_pred cccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccc
Q 013121 64 LEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNR 109 (449)
Q Consensus 64 ~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nk 109 (449)
.+++++|.|..++++.+++.|+.+..-. .+..|-|--.++..
T Consensus 1 MkvnD~VtVKTDG~~rR~G~iLavE~F~----EG~MyLvaL~dYP~ 42 (62)
T PRK10708 1 MKVNDRVTVKTDGGPRRPGVVLAVEEFS----EGTMYLVSLEDYPL 42 (62)
T ss_pred CccccEEEEecCCCccccceEEEEeecc----CcEEEEEEcCcCCC
Confidence 3689999999866677999999998754 45788888766643
No 208
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=47.24 E-value=23 Score=33.73 Aligned_cols=42 Identities=24% Similarity=0.226 Sum_probs=31.8
Q ss_pred HhhhHHHHHHHHHhCC-CCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 361 RGYWTRVLLDILKKHK-GNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 361 ~sYW~~~il~~L~~~~-~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
|--+...|++.|.+.+ ..+|+.+||++.|+++.-|-.=|..+
T Consensus 14 r~~~~~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~~l 56 (213)
T PRK05472 14 RLPLYYRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLSYF 56 (213)
T ss_pred HhHHHHHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHHHH
Confidence 4567888999998864 58999999999999986443334333
No 209
>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=46.78 E-value=26 Score=38.71 Aligned_cols=26 Identities=27% Similarity=0.540 Sum_probs=23.0
Q ss_pred cCcccccccchhhhhhchhhhhccCC
Q 013121 319 LPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 319 lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
-|.||++|||+.|++..-++++.+|.
T Consensus 466 ~~~~rg~GiG~~Ll~~ae~~Ar~~G~ 491 (522)
T TIGR01211 466 DDEWQHRGYGRRLLEEAERIAAEEGS 491 (522)
T ss_pred ChhHhCcCHHHHHHHHHHHHHHHCCC
Confidence 48999999999999999999987654
No 210
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=46.69 E-value=74 Score=31.72 Aligned_cols=63 Identities=25% Similarity=0.406 Sum_probs=46.0
Q ss_pred CChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCC---hHHHHHHHHhcCceeeeCCeEE--EEeCHH
Q 013121 352 LSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIK---AEDILTTLQSLELIQYRKGQHV--ICADPK 419 (449)
Q Consensus 352 LSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~---~~DIi~tL~~l~ll~~~~g~~~--i~~~~~ 419 (449)
|.+||+-.|-+ .+.-.|... +..|-.|||+.+||. .-||+.-|...|++.-..|... -.++++
T Consensus 9 L~~lGlt~yEa----~vY~aLl~~-g~~tA~eis~~sgvP~~kvY~vl~sLe~kG~v~~~~g~P~~y~av~p~ 76 (247)
T COG1378 9 LQKLGLTEYEA----KVYLALLCL-GEATAKEISEASGVPRPKVYDVLRSLEKKGLVEVIEGRPKKYRAVPPE 76 (247)
T ss_pred HHHcCCCHHHH----HHHHHHHHh-CCccHHHHHHHcCCCchhHHHHHHHHHHCCCEEeeCCCCceEEeCCHH
Confidence 66778777765 333334343 689999999999996 5799999999999998766533 345654
No 211
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=46.67 E-value=1.2e+02 Score=26.83 Aligned_cols=55 Identities=13% Similarity=0.086 Sum_probs=39.8
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChH---HHHHHHHhcCceeee-----CCeEEEEeCHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAE---DILTTLQSLELIQYR-----KGQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~-----~g~~~i~~~~~~i~ 422 (449)
.||..|.. .+.+|..+||+.++|+.. -++..|+..|+|... +-...|.++++-.+
T Consensus 44 ~vL~~l~~-~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~ 106 (144)
T PRK11512 44 KVLCSIRC-AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAA 106 (144)
T ss_pred HHHHHHHH-cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHH
Confidence 34555544 457999999999999975 567778889999854 34577888875443
No 212
>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=45.40 E-value=23 Score=34.28 Aligned_cols=54 Identities=11% Similarity=0.382 Sum_probs=28.7
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHh---cCcee---eeCCeEEEEeCHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQS---LELIQ---YRKGQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~---l~ll~---~~~g~~~i~~~~~~i~ 422 (449)
..+++++.+ ..+.|.|||...||+..|+|.-+++ +|.|. -..|.|| .|+++-++
T Consensus 103 ~Fi~yIK~~-Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv~DdrGkfI-yIs~eE~~ 162 (188)
T PF09756_consen 103 EFINYIKEH-KVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGVIDDRGKFI-YISEEEME 162 (188)
T ss_dssp HHHHHHHH--SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EEE-TT--EE-E-------
T ss_pred HHHHHHHHc-ceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceeeEcCCCCeE-EecHHHHH
Confidence 345666664 5789999999999999999876655 45553 2467665 56655443
No 213
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=45.10 E-value=58 Score=30.56 Aligned_cols=45 Identities=9% Similarity=0.222 Sum_probs=34.4
Q ss_pred CccHHHHHHhcCCChHHHHH---HHHhcCceeeeCCeEEEEeCHHHHHH
Q 013121 378 NISIKELSDMTAIKAEDILT---TLQSLELIQYRKGQHVICADPKVLDR 423 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~~~g~~~i~~~~~~i~~ 423 (449)
.+|-++||...|++.+-|-. .|+..|+|...++. +...|.+.+++
T Consensus 184 ~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~~~~~~-i~i~d~~~L~~ 231 (235)
T PRK11161 184 TMTRGDIGNYLGLTVETISRLLGRFQKSGMLAVKGKY-ITIENNDALAQ 231 (235)
T ss_pred cccHHHHHHHhCCcHHHHHHHHHHHHHCCCEEecCCE-EEEcCHHHHHH
Confidence 47889999999999887655 66778999977664 55567766654
No 214
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=45.04 E-value=42 Score=33.05 Aligned_cols=48 Identities=13% Similarity=0.288 Sum_probs=36.4
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~ 413 (449)
...|+++|.+ .+.++++||++.+|++..=| +..|++.|+|....|.-+
T Consensus 7 ~~~Il~~l~~-~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~r~~gga~ 57 (251)
T PRK13509 7 HQILLELLAQ-LGFVTVEKVIERLGISPATARRDINKLDESGKLKKVRNGAE 57 (251)
T ss_pred HHHHHHHHHH-cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecCCcc
Confidence 3568888876 47999999999999997544 455788899987655543
No 215
>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=44.72 E-value=58 Score=29.33 Aligned_cols=58 Identities=21% Similarity=0.206 Sum_probs=45.1
Q ss_pred hHHHhhhHHHHHHH--HHhCC-------CCccHHHHHHhcCCChHHHHHH---HHhcCceeee-CCeEEEE
Q 013121 358 LSYRGYWTRVLLDI--LKKHK-------GNISIKELSDMTAIKAEDILTT---LQSLELIQYR-KGQHVIC 415 (449)
Q Consensus 358 ~sY~sYW~~~il~~--L~~~~-------~~isi~~is~~Tgi~~~DIi~t---L~~l~ll~~~-~g~~~i~ 415 (449)
..|.-.|-.-++.. +...+ -..+.++||..|+-..++|-.| |+.+|||... +|.+.|.
T Consensus 24 d~~~~i~lkLlllsgk~n~~G~L~~~~~ipy~~e~LA~~~~~~~~~V~~AL~~f~k~glIe~~ed~~i~i~ 94 (121)
T PF09681_consen 24 DTYTVIWLKLLLLSGKLNDEGKLYLSGNIPYTAEMLALEFDRPVDTVRLALAVFQKLGLIEIDEDGVIYIP 94 (121)
T ss_pred ceeHHHHHHHHHHhcccCCCCEEEECCCCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCeEEee
Confidence 57888999888887 75532 2569999999999999998655 5789999875 6666654
No 216
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=44.71 E-value=1.3e+02 Score=28.95 Aligned_cols=55 Identities=16% Similarity=0.149 Sum_probs=40.6
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee-----CCeEEEEeCHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR-----KGQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~-----~g~~~i~~~~~~i~ 422 (449)
.||..|..+ +.+|+.+||+.+++.. .-++..|+..|+|... +-...|.++++-.+
T Consensus 49 ~iL~~L~~~-~~itq~eLa~~l~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~ 111 (185)
T PRK13777 49 HILWIAYHL-KGASISEIAKFGVMHVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEE 111 (185)
T ss_pred HHHHHHHhC-CCcCHHHHHHHHCCCHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHH
Confidence 355556554 4799999999999984 5567789999999864 44677888875433
No 217
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=44.47 E-value=48 Score=30.84 Aligned_cols=44 Identities=20% Similarity=0.446 Sum_probs=34.4
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCe
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQ 411 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~ 411 (449)
+|..++. .++.+...|||+..++++.=| +.=|+.+|++.|.+-.
T Consensus 14 ~Iy~l~~-~~~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~~~y~ 60 (154)
T COG1321 14 TIYELLE-EKGFARTKDIAERLKVSPPSVTEMLKRLERLGLVEYEPYG 60 (154)
T ss_pred HHHHHHh-ccCcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEEecCC
Confidence 3333343 678999999999999998777 7888899999985433
No 218
>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=43.55 E-value=1.5e+02 Score=25.27 Aligned_cols=55 Identities=18% Similarity=0.311 Sum_probs=39.9
Q ss_pred HHHHHH--h-CCCCccHHHHHHhcCCChHH---HHHHHHhcCceeee-----CCeEEEEeCHHHHH
Q 013121 368 LLDILK--K-HKGNISIKELSDMTAIKAED---ILTTLQSLELIQYR-----KGQHVICADPKVLD 422 (449)
Q Consensus 368 il~~L~--~-~~~~isi~~is~~Tgi~~~D---Ii~tL~~l~ll~~~-----~g~~~i~~~~~~i~ 422 (449)
||..|. . ..+.+|+.+|++.++++..- ++..|...|+|... +-...|.++++-.+
T Consensus 30 vL~~l~~~~~~~~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~ 95 (109)
T TIGR01889 30 ILYYLGKLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRS 95 (109)
T ss_pred HHHHHHhhhccCCcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHH
Confidence 556555 2 34689999999999998754 57778889999753 33567788875444
No 219
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=43.34 E-value=17 Score=32.74 Aligned_cols=33 Identities=21% Similarity=0.454 Sum_probs=25.1
Q ss_pred CCCcCcCCCCcEEEeccccccccCHHHHHHHHhh
Q 013121 195 PFPPEYNDCLKLYFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 195 PYP~e~~~~~~lyiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
||-+++--...-|.| .|-+||-+...|..|.+-
T Consensus 45 p~Dp~lPGlGqhYCi-eCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 45 PYDPELPGLGQHYCI-ECARYFITEKALMEHKKG 77 (126)
T ss_pred CCCCCCCCCceeeee-hhHHHHHHHHHHHHHhcc
Confidence 666666555555544 599999999999999863
No 220
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=43.26 E-value=28 Score=34.33 Aligned_cols=42 Identities=14% Similarity=0.281 Sum_probs=35.6
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|++++.++.. .+||.+||+.+|++..=|+...+.||+=-|
T Consensus 31 ~~Ia~yil~~~~~v~~~si~~lA~~~~vS~aTi~Rf~kkLGf~gf 75 (292)
T PRK11337 31 SRVVEWLLKPGDLSEATALKDIAEALAVSEAMIVKVAKKLGFSGF 75 (292)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCChHHHHHHHHHcCCCCH
Confidence 467788877654 579999999999999999999999998654
No 221
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=42.92 E-value=53 Score=33.89 Aligned_cols=27 Identities=22% Similarity=0.276 Sum_probs=22.7
Q ss_pred CCccHHHHHHhcCCChHHHHHHHHhcC
Q 013121 377 GNISIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
..-|+++||+.+||+.++|...+....
T Consensus 188 r~pt~~EiA~~lgi~~~~v~~~~~~~~ 214 (324)
T PRK07921 188 REATDEELAEESGIPEEKIADLLEHSR 214 (324)
T ss_pred CCCCHHHHHHHhCcCHHHHHHHHHHcC
Confidence 356899999999999999999876543
No 222
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=42.72 E-value=38 Score=30.67 Aligned_cols=40 Identities=18% Similarity=0.295 Sum_probs=33.8
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHH---HHHHhcCcee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDIL---TTLQSLELIQ 406 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi---~tL~~l~ll~ 406 (449)
..||+.|..+ +.+|..+||+.+|++...|. ..|++.|+|+
T Consensus 12 ~~Il~~Lq~d-~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 12 RGILEALMEN-ARTPYAELAKQFGVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHc-CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCee
Confidence 4688888775 78999999999999998885 5677889997
No 223
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=42.36 E-value=74 Score=31.22 Aligned_cols=47 Identities=21% Similarity=0.363 Sum_probs=35.1
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHH---HHHhcCceeeeCCeEE
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILT---TLQSLELIQYRKGQHV 413 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~~~g~~~ 413 (449)
..|+++|.++ +.++++||+++.+++..-|-. .|+..|+|+...|.-+
T Consensus 7 ~~Il~~l~~~-~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r~~Gga~ 56 (240)
T PRK10411 7 QAIVDLLLNH-TSLTTEALAEQLNVSKETIRRDLNELQTQGKILRNHGRAK 56 (240)
T ss_pred HHHHHHHHHc-CCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecCeEE
Confidence 4588888875 589999999999999876644 4445688876555543
No 224
>PRK15482 transcriptional regulator MurR; Provisional
Probab=42.32 E-value=27 Score=34.49 Aligned_cols=42 Identities=17% Similarity=0.305 Sum_probs=35.7
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|++++.++.. .+||.|||+.+|+++.=|+..-+.||+=.|
T Consensus 19 ~~Ia~yIl~n~~~v~~~si~elA~~~~vS~aTv~Rf~kkLGf~Gf 63 (285)
T PRK15482 19 QKIADFLRANVSELKSVSSRKMAKQLGISQSSIVKFAQKLGAQGF 63 (285)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHhCCCCH
Confidence 467788877654 579999999999999999999999998654
No 225
>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=42.25 E-value=83 Score=24.26 Aligned_cols=35 Identities=26% Similarity=0.410 Sum_probs=26.5
Q ss_pred CCCc-cHHHHHHhcCCCh---HHHHHHHHhcCceeeeCC
Q 013121 376 KGNI-SIKELSDMTAIKA---EDILTTLQSLELIQYRKG 410 (449)
Q Consensus 376 ~~~i-si~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g 410 (449)
+..+ |..+|++..+++. .+.+..|+..|+|...++
T Consensus 21 g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~~~~ 59 (64)
T PF00392_consen 21 GDRLPSERELAERYGVSRTTVREALRRLEAEGLIERRPG 59 (64)
T ss_dssp TSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred CCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEEECC
Confidence 4678 9999999999986 566677888899986544
No 226
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=42.17 E-value=15 Score=29.74 Aligned_cols=28 Identities=25% Similarity=0.488 Sum_probs=24.9
Q ss_pred CCCcEEEeccccccccCHHHHHHHHhhC
Q 013121 202 DCLKLYFCEFCLNFMKRKEQLQRHMRKC 229 (449)
Q Consensus 202 ~~~~lyiCe~Cl~y~~~~~~l~~H~~~C 229 (449)
+-+.++-|..|...|+...+|.||..+-
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 4577899999999999999999998764
No 227
>PHA00732 hypothetical protein
Probab=41.94 E-value=15 Score=30.68 Aligned_cols=21 Identities=24% Similarity=0.380 Sum_probs=20.0
Q ss_pred EEeccccccccCHHHHHHHHh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~ 227 (449)
|.|+.|.+-|.+...|.+|++
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 228
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=41.61 E-value=33 Score=33.53 Aligned_cols=42 Identities=19% Similarity=0.300 Sum_probs=36.1
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|++++.++.. .+||.+||+.+++++.=|+...+.||+=.|
T Consensus 15 ~~ia~yil~n~~~v~~~si~elA~~~~vS~aTv~Rf~kklG~~Gf 59 (278)
T PRK11557 15 RKLADYLLLQPDTARHLSSQQLANEAGVSQSSVVKFAQKLGYKGF 59 (278)
T ss_pred HHHHHHHHhCHHHHHhcCHHHHHHHhCCCHHHHHHHHHHcCCCCH
Confidence 467788877654 579999999999999999999999998755
No 229
>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=41.40 E-value=45 Score=29.76 Aligned_cols=52 Identities=17% Similarity=0.323 Sum_probs=30.8
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADP 418 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~ 418 (449)
..|+..+...=..|+++++++.+|+..+++..-++..|+..-..+. +|..++
T Consensus 85 ~~i~~~i~~aY~sIs~~~la~~Lg~~~~el~~~~~~~gW~~d~~~~-~~~~~~ 136 (143)
T PF10075_consen 85 ERIAHLISKAYSSISLSDLAEMLGLSEEELEKFIKSRGWTVDGDGV-LFPPNP 136 (143)
T ss_dssp HHHHHHHHHH-SEE-HHHHHHHTTS-HHHHHHHHHHHT-EE------EE---H
T ss_pred HHHHHHHHHHHhHcCHHHHHHHhCCCHHHHHHHHHHcCCEECCCcc-EEecCC
Confidence 3344444443468999999999999999999999999998653333 344444
No 230
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=41.06 E-value=54 Score=24.04 Aligned_cols=22 Identities=18% Similarity=0.336 Sum_probs=16.0
Q ss_pred ccHHHHHHhcCCChHHHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQ 400 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~ 400 (449)
+|+.+||+.+||+..-|-..|.
T Consensus 22 ~si~~IA~~~gvsr~TvyR~l~ 43 (45)
T PF02796_consen 22 MSIAEIAKQFGVSRSTVYRYLN 43 (45)
T ss_dssp --HHHHHHHTTS-HHHHHHHHC
T ss_pred CCHHHHHHHHCcCHHHHHHHHh
Confidence 9999999999999987766553
No 231
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=40.72 E-value=82 Score=31.83 Aligned_cols=47 Identities=28% Similarity=0.238 Sum_probs=36.3
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCc-eeeeCC-eEE
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLEL-IQYRKG-QHV 413 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~l-l~~~~g-~~~ 413 (449)
..|++.|.+ ...++.++||+..||+..=| +.+|++.|+ |...+| .|.
T Consensus 7 ~~il~~L~~-~~~~s~~~LA~~lgvsr~tV~~~l~~L~~~G~~i~~~~~~Gy~ 58 (319)
T PRK11886 7 LQLLSLLAD-GDFHSGEQLGEELGISRAAIWKHIQTLEEWGLDIFSVKGKGYR 58 (319)
T ss_pred HHHHHHHHc-CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCceEEecCCeEE
Confidence 357777765 46799999999999998887 888888999 655444 354
No 232
>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=40.25 E-value=45 Score=28.51 Aligned_cols=53 Identities=23% Similarity=0.359 Sum_probs=39.5
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeee-----CCeEEEEeCHHHH
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYR-----KGQHVICADPKVL 421 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~-----~g~~~i~~~~~~i 421 (449)
||..|..+ +.+|+.+||+.++|+...| +..|+..|+|... +....+.++++-.
T Consensus 33 iL~~l~~~-~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~ 93 (118)
T TIGR02337 33 ILRILAEQ-GSMEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQ 93 (118)
T ss_pred HHHHHHHc-CCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHH
Confidence 77777664 5799999999999987655 5667788999763 3456788887533
No 233
>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=39.49 E-value=17 Score=26.27 Aligned_cols=34 Identities=29% Similarity=0.579 Sum_probs=20.8
Q ss_pred cCCCCCcCcCCCCcEEEeccccccccCH----HHHHHHH-hhC
Q 013121 192 YFSPFPPEYNDCLKLYFCEFCLNFMKRK----EQLQRHM-RKC 229 (449)
Q Consensus 192 Y~SPYP~e~~~~~~lyiCe~Cl~y~~~~----~~l~~H~-~~C 229 (449)
||.+.+ .......|-+|.+-++.. ..|.+|+ ++|
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 455544 346678999999988875 8999999 455
No 234
>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=39.17 E-value=34 Score=29.03 Aligned_cols=59 Identities=24% Similarity=0.396 Sum_probs=34.6
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeee------CC--eEEEEeCHHHHHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYR------KG--QHVICADPKVLDRHLK 426 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~------~g--~~~i~~~~~~i~~~~~ 426 (449)
.|++.|..+ +.++=+||++.|||...+| +..|.+.|++.+. +| .|.-.++.+.+...++
T Consensus 17 ~Il~~L~~~-~~l~de~la~~~~l~~~~vRkiL~~L~~~~lv~~~~~~d~~~~~~~~yw~i~~~~~~~~ik 86 (105)
T PF02002_consen 17 RILDALLRK-GELTDEDLAKKLGLKPKEVRKILYKLYEDGLVSYRRRKDDERGWTRYYWYIDYDQIIDVIK 86 (105)
T ss_dssp HHHHHHHHH---B-HHHHHHTT-S-HHHHHHHHHHHHHHSS-EEEEE--------EEEEE-THHHH-----
T ss_pred HHHHHHHHc-CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeEEEEEEcCCCcEEEEEEEEcHHHHHHHHH
Confidence 567777764 5799999999999998875 5667788999764 12 2566788877666654
No 235
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=38.80 E-value=73 Score=27.61 Aligned_cols=46 Identities=24% Similarity=0.355 Sum_probs=33.8
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~ 413 (449)
.||..|...+ .=...-||+.|+|..++| +..|++||+|....|..+
T Consensus 11 ~IL~hl~~~~-~Dy~k~ia~~l~~~~~~v~~~l~~Le~~GLler~~g~~i 59 (92)
T PF10007_consen 11 KILQHLKKAG-PDYAKSIARRLKIPLEEVREALEKLEEMGLLERVEGKTI 59 (92)
T ss_pred HHHHHHHHHC-CCcHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEecCccc
Confidence 4677776642 345677899999997665 556789999999887733
No 236
>PF02513 Spin-Ssty: Spin/Ssty Family; InterPro: IPR003671 Spindlin (Spin) and Ssty were first identified for their involvement in gametogenesis. Spindlin was identified as a maternal transcript present in the unfertilised egg and early embryo, and was subsequently shown to interact with the spindle apparatus during oogenesis, and may therefore be important for mitosis []. In addition, spindlin appears to be a target for cell cycle-dependent phosphorylation, and as such may play a role in cell cycle regulation during the transition from gamete to embryo []. Ssty is a multi-copy, Y-linked spermatogenesis-specific transcript that appears to be required for normal spermatogenesis []. Ssty may play an analogous role to spindlin in sperm cells, namely during the transition from sperm cells to early embryo, and in mitosis.; GO: 0007276 gamete generation; PDB: 2NS2_A.
Probab=38.45 E-value=1.1e+02 Score=23.99 Aligned_cols=38 Identities=29% Similarity=0.496 Sum_probs=28.3
Q ss_pred cCcEEEEEecCC----ceeeEEEEEEeccCCCCCCceeEEEeccccc
Q 013121 66 VGTRVMCRWRDG----KYHPVKVIERRKMHFGGPNDYEYYVHYTEFN 108 (449)
Q Consensus 66 vGerVl~~~~dg----~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~n 108 (449)
+|.+|.-.|++| ..+.+.||.--... .--|||-|.+.+
T Consensus 1 vGk~Veh~~~~g~g~~s~w~G~Vl~Qvp~~-----ps~y~Ikyd~d~ 42 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSKWKGMVLHQVPAK-----PSLYYIKYDGDD 42 (50)
T ss_dssp TT-EEEEEECTSTS-EEEEEEEEEEE-TTS-----TTEEEEEETTES
T ss_pred CCceEEEEEccCCCcccEEEEEEEEEeecC-----CcEEEEEECCCc
Confidence 688999888888 67899999766543 248999998764
No 237
>COG3153 Predicted acetyltransferase [General function prediction only]
Probab=38.40 E-value=21 Score=34.04 Aligned_cols=50 Identities=28% Similarity=0.307 Sum_probs=36.4
Q ss_pred ceeeee--ecccccC---CCCceeeEEeecCcccccccchhhhhhchhhhhccCC
Q 013121 295 CHMVGY--FSKEKHS---EESYNLACILTLPPYQRKGYGKFLIAFSYELSKKEGK 344 (449)
Q Consensus 295 ~h~vGY--FSKEK~s---~~~~NLaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~ 344 (449)
-++||+ ||.=... ....-|+=.-|.|.||++|+|+-||...=+-.+.-|-
T Consensus 55 g~vvG~Il~s~v~~~g~~~~~~~LaPLaV~p~~qg~GIG~~Lvr~~le~a~~~G~ 109 (171)
T COG3153 55 GEVVGHILFSPVTVGGEELGWLGLAPLAVDPEYQGQGIGSALVREGLEALRLAGA 109 (171)
T ss_pred CEEEEEEEEeEEEecCcccceEEEEeEEEchhhcCCcHHHHHHHHHHHHHHHCCC
Confidence 456773 5543333 1223478889999999999999999998887776654
No 238
>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]
Probab=38.32 E-value=8.6 Score=40.56 Aligned_cols=34 Identities=18% Similarity=0.510 Sum_probs=28.4
Q ss_pred EEEEeccCCCCCCceeEEEecccccccccccccccccc
Q 013121 84 VIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLD 121 (449)
Q Consensus 84 VIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~ 121 (449)
||+.|... |..+|||-+.||+.+..-|=|.+.|.
T Consensus 16 IlkkRirK----GrvEYlVKWkGWs~kyNTWEPEENIL 49 (369)
T KOG2748|consen 16 ILKKRIRK----GRVEYLVKWKGWSQKYNTWEPEENIL 49 (369)
T ss_pred HHHHHhhc----cceEEEEEecccccccCccCcccccc
Confidence 44445443 77899999999999999999999995
No 239
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=37.81 E-value=60 Score=25.78 Aligned_cols=54 Identities=20% Similarity=0.309 Sum_probs=38.0
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCC-----eEEEEeCHHH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKG-----QHVICADPKV 420 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g-----~~~i~~~~~~ 420 (449)
..|+..|... +.++..+|++.++++. ..++..|.+.|+|....+ ...+.++++-
T Consensus 13 ~~il~~l~~~-~~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g 74 (101)
T smart00347 13 FLVLRILYEE-GPLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEG 74 (101)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhH
Confidence 3566777664 4799999999999885 456777888899975432 2345666643
No 240
>PF13730 HTH_36: Helix-turn-helix domain
Probab=37.72 E-value=32 Score=25.47 Aligned_cols=24 Identities=13% Similarity=0.196 Sum_probs=20.3
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhc
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
.|++.|++.+|++..-|..+|+.|
T Consensus 26 pS~~~la~~~g~s~~Tv~~~i~~L 49 (55)
T PF13730_consen 26 PSQETLAKDLGVSRRTVQRAIKEL 49 (55)
T ss_pred cCHHHHHHHHCcCHHHHHHHHHHH
Confidence 499999999999998887776654
No 241
>PRK00441 argR arginine repressor; Provisional
Probab=37.06 E-value=1e+02 Score=28.54 Aligned_cols=50 Identities=18% Similarity=0.319 Sum_probs=40.6
Q ss_pred HHHHHHHHhCCCCccHHHHHHhc-----CCChHHHHHHHHhcCceee--eCCeEEEEe
Q 013121 366 RVLLDILKKHKGNISIKELSDMT-----AIKAEDILTTLQSLELIQY--RKGQHVICA 416 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~T-----gi~~~DIi~tL~~l~ll~~--~~g~~~i~~ 416 (449)
..|+++|.+ .+..|..||++.. +++..=|-.-|++||+++- .+|++..++
T Consensus 7 ~~I~~ll~~-~~~~~q~eL~~~L~~~G~~vSqaTisRDl~~L~lvKv~~~~G~~~Y~l 63 (149)
T PRK00441 7 AKILEIINS-KEIETQEELAEELKKMGFDVTQATVSRDIKELKLIKVLSNDGKYKYAT 63 (149)
T ss_pred HHHHHHHHH-cCCCcHHHHHHHHHhcCCCcCHHHHHHHHHHcCcEEeECCCCCEEEEe
Confidence 456777766 4578999999997 9999999999999999985 567766655
No 242
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=36.81 E-value=1.8e+02 Score=23.53 Aligned_cols=53 Identities=17% Similarity=0.295 Sum_probs=35.0
Q ss_pred CCCcccCcEEEEEe-cCCceeeEEEEEEeccCCCCCCceeEEEeccccccccccccccccccc
Q 013121 61 MLPLEVGTRVMCRW-RDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQLDL 122 (449)
Q Consensus 61 ~~~~~vGerVl~~~-~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~rl~l 122 (449)
.....+|+.++|.. .+|.|++|+|. ... ....+-|.|.++-.. ++|+.++|..
T Consensus 49 ~~~~~~~~~~~~~~~~~~~w~Ra~I~-~~~------~~~~~~V~~iD~G~~--~~v~~~~l~~ 102 (121)
T PF00567_consen 49 SPESNPGEGCLCVVSEDGRWYRAVIT-VDI------DENQYKVFLIDYGNT--EKVSASDLRP 102 (121)
T ss_dssp CST--TTEEEEEEETTTSEEEEEEEE-EEE------CTTEEEEEETTTTEE--EEEEGGGEEE
T ss_pred ccccccCCEEEEEEecCCceeeEEEE-Eec------ccceeEEEEEecCce--EEEcHHHhhh
Confidence 55677888888765 58899999992 222 224789999888655 3566666643
No 243
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=36.64 E-value=2.4e+02 Score=27.23 Aligned_cols=54 Identities=11% Similarity=0.142 Sum_probs=35.6
Q ss_pred HHHHHHhCCCC-ccHHHHHHhcCCChH-HHHHHHHhc---------Cc-eeeeCCeEEEEeCHHHH
Q 013121 368 LLDILKKHKGN-ISIKELSDMTAIKAE-DILTTLQSL---------EL-IQYRKGQHVICADPKVL 421 (449)
Q Consensus 368 il~~L~~~~~~-isi~~is~~Tgi~~~-DIi~tL~~l---------~l-l~~~~g~~~i~~~~~~i 421 (449)
|=.+|...+.. +|+++|++.+++... ++-..|+.+ |+ |....|.|.+...++.-
T Consensus 6 iEAlLF~sg~pgls~~~La~il~~~~~~~~~~~l~~l~~~~~~~~~gl~l~~~~~~y~l~tk~e~~ 71 (186)
T TIGR00281 6 IEALLFVSGEPGVTLAELVRILGKEKAEKLNAIMELLEDYLSRDTAGIEIIKFGQSYSLVTKPAFA 71 (186)
T ss_pred HHHHHHHcCCCCCCHHHHHHHhCCCchHHHHHHHHHHHHHHhcCCCCEEEEEECCEEEEEEhHHHH
Confidence 33455566777 999999999999844 333333322 23 33568899999887544
No 244
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=36.40 E-value=25 Score=26.40 Aligned_cols=27 Identities=30% Similarity=0.599 Sum_probs=21.6
Q ss_pred cEEEeccccccccCH-----HHHHHHHh-hCCC
Q 013121 205 KLYFCEFCLNFMKRK-----EQLQRHMR-KCDL 231 (449)
Q Consensus 205 ~lyiCe~Cl~y~~~~-----~~l~~H~~-~C~~ 231 (449)
.-=+|.+|.+-+... ..|.+|+. .|+.
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~~ 49 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHCcC
Confidence 356899999988766 69999998 7764
No 245
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=36.33 E-value=52 Score=32.66 Aligned_cols=42 Identities=26% Similarity=0.425 Sum_probs=33.3
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHH---HHhcCceee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDILTT---LQSLELIQY 407 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~t---L~~l~ll~~ 407 (449)
++.|+.+|+++ +.+|+.|||+..||++.-|-.- |+..|++..
T Consensus 13 r~~il~lL~~~-g~~sa~elA~~Lgis~~avR~HL~~Le~~Glv~~ 57 (218)
T COG2345 13 RERILELLKKS-GPVSADELAEELGISPMAVRRHLDDLEAEGLVEV 57 (218)
T ss_pred HHHHHHHHhcc-CCccHHHHHHHhCCCHHHHHHHHHHHHhCcceee
Confidence 46788888775 6899999999999999888654 555677764
No 246
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=36.07 E-value=2e+02 Score=23.64 Aligned_cols=55 Identities=15% Similarity=0.234 Sum_probs=38.1
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceeeeC------CeEEEEeCHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQYRK------GQHVICADPKVLD 422 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~------g~~~i~~~~~~i~ 422 (449)
.|+.+|.. .+.++..+|.+.+||+...+ +.+|++.|+|...+ ....+.++++-.+
T Consensus 4 ~Il~~L~~-~~~~~f~~L~~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~ 67 (80)
T PF13601_consen 4 AILALLYA-NEEATFSELKEELGLTDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGRE 67 (80)
T ss_dssp HHHHHHHH-HSEEEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHH
T ss_pred HHHHHHhh-cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHH
Confidence 57777776 46899999999999998776 56678889997542 2556778875433
No 247
>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=36.01 E-value=66 Score=30.18 Aligned_cols=56 Identities=21% Similarity=0.389 Sum_probs=37.6
Q ss_pred HHHHHHH--hCCCCccHHHHHHhcCCChHHHHHHHHhcCceeee-----CCeEEEE-eCHHHHH
Q 013121 367 VLLDILK--KHKGNISIKELSDMTAIKAEDILTTLQSLELIQYR-----KGQHVIC-ADPKVLD 422 (449)
Q Consensus 367 ~il~~L~--~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~-----~g~~~i~-~~~~~i~ 422 (449)
..++.|. .+...||-.||.+.=|...+.++.+|.++|+|+-. +|..++. .++..++
T Consensus 83 aalEtLAiIAY~QPiTr~eIe~IRGv~s~~~i~~L~e~glI~~~gr~~~~Grp~ly~tT~~Fl~ 146 (159)
T PF04079_consen 83 AALETLAIIAYKQPITRAEIEEIRGVNSDSVIKTLLERGLIEEVGRKDTPGRPILYGTTDKFLE 146 (159)
T ss_dssp HHHHHHHHHHHH-SEEHHHHHHHHTS--HCHHHHHHHTTSEEEEEE-TTTT--EEEEE-HHHHH
T ss_pred HHHHHHHHHHhcCCcCHHHHHHHcCCChHHHHHHHHHCCCEEecCcCCCCCCCeEeehhHHHHH
Confidence 3445542 34569999999999999999999999999999853 5765554 4554443
No 248
>PHA00733 hypothetical protein
Probab=35.79 E-value=25 Score=31.64 Aligned_cols=24 Identities=29% Similarity=0.696 Sum_probs=17.6
Q ss_pred CcEEEeccccccccCHHHHHHHHh
Q 013121 204 LKLYFCEFCLNFMKRKEQLQRHMR 227 (449)
Q Consensus 204 ~~lyiCe~Cl~y~~~~~~l~~H~~ 227 (449)
...|.|+.|.+-|.+...|.+|++
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r 94 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIR 94 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHh
Confidence 445777777777777777777775
No 249
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=35.58 E-value=50 Score=30.31 Aligned_cols=40 Identities=33% Similarity=0.419 Sum_probs=32.5
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCcee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQ 406 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~ 406 (449)
..||+.|.+ .+.+|..+||+..|++..-| +.-|++.|+|+
T Consensus 17 ~~IL~~Lq~-d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 17 RNILNELQK-DGRISNVELSKRVGLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHhcc-CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeE
Confidence 467887766 46899999999999998776 45677889996
No 250
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=35.32 E-value=65 Score=31.17 Aligned_cols=39 Identities=18% Similarity=0.240 Sum_probs=32.6
Q ss_pred HHHHhcCCChHHHHHHHHhcCceee-eCCeEEEEeCHHHH
Q 013121 383 ELSDMTAIKAEDILTTLQSLELIQY-RKGQHVICADPKVL 421 (449)
Q Consensus 383 ~is~~Tgi~~~DIi~tL~~l~ll~~-~~g~~~i~~~~~~i 421 (449)
-+|-.||+.++||+.-+.+.|++.. ..|.+++.-+++..
T Consensus 147 ~~s~~~g~~p~evie~~~e~Gll~~~E~~k~~L~~~~~~a 186 (190)
T PF09840_consen 147 AVSYATGLDPEEVIEELLEKGLLEEGEDGKIELRKDWEQA 186 (190)
T ss_pred HHHHHhCCCHHHHHHHHHhCcccccCCCceEEEecCHHHH
Confidence 4577899999999999999999987 56678888777543
No 251
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=34.85 E-value=27 Score=28.49 Aligned_cols=27 Identities=26% Similarity=0.303 Sum_probs=22.2
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCce
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELI 405 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll 405 (449)
....+.+..|.....||..+|+.+|+-
T Consensus 48 ~~~a~~agR~~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 48 HSYAELAGRTEPNLGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence 355567778889999999999999984
No 252
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=33.76 E-value=96 Score=22.62 Aligned_cols=33 Identities=12% Similarity=0.288 Sum_probs=24.2
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHh
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQS 401 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~ 401 (449)
..|++.|.+ ..|+++||+.+|++..=|...+.+
T Consensus 18 ~~i~~~~~~---~~s~~~vA~~~~vs~~TV~ri~~~ 50 (52)
T PF13542_consen 18 QYILKLLRE---SRSFKDVARELGVSWSTVRRIFDR 50 (52)
T ss_pred HHHHHHHhh---cCCHHHHHHHHCCCHHHHHHHHHh
Confidence 344454433 379999999999999888776653
No 253
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=33.71 E-value=44 Score=33.33 Aligned_cols=42 Identities=17% Similarity=0.311 Sum_probs=35.8
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|.+++.++.. ..||+|||+.+|+++.=|+...+.||+=-|
T Consensus 21 r~iA~yil~~~~~~~~~si~elA~~a~VS~aTv~Rf~~kLGf~Gf 65 (281)
T COG1737 21 RKIADYILANPDEVALLSIAELAERAGVSPATVVRFARKLGFEGF 65 (281)
T ss_pred HHHHHHHHhCHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCCCH
Confidence 457788877655 469999999999999999999999998765
No 254
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=33.71 E-value=73 Score=31.68 Aligned_cols=38 Identities=24% Similarity=0.380 Sum_probs=31.4
Q ss_pred CCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCCeEEE
Q 013121 377 GNISIKELSDMTAIKA---EDILTTLQSLELIQYRKGQHVI 414 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g~~~i 414 (449)
+..|+++||+++|+.+ .-++.+|-.+|++....+.|.+
T Consensus 22 gp~t~~eLA~~~~~~~~~~~~lL~~L~~lgll~~~~~~y~~ 62 (306)
T TIGR02716 22 GPKDLATLAADTGSVPPRLEMLLETLRQMRVINLEDGKWSL 62 (306)
T ss_pred CCCCHHHHHHHcCCChHHHHHHHHHHHhCCCeEecCCcEec
Confidence 5889999999999886 5668888999999876666554
No 255
>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=33.70 E-value=77 Score=26.78 Aligned_cols=43 Identities=19% Similarity=0.357 Sum_probs=33.5
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhc-----CCChH---HHHHHHHhcCceee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMT-----AIKAE---DILTTLQSLELIQY 407 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~T-----gi~~~---DIi~tL~~l~ll~~ 407 (449)
+..|+++|.+....+|..||.+.. +|... -.+.+|.+.|+|..
T Consensus 3 R~~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~ 53 (116)
T cd07153 3 RLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVRE 53 (116)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEE
Confidence 467899998877789999998887 45554 45667888999863
No 256
>PRK07405 RNA polymerase sigma factor SigD; Validated
Probab=33.43 E-value=89 Score=31.96 Aligned_cols=27 Identities=15% Similarity=0.222 Sum_probs=23.2
Q ss_pred CCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 376 KGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
+..-|+.+||+.+||+.++|...++..
T Consensus 182 gr~pt~~eiA~~~~~~~~~v~~~~~~~ 208 (317)
T PRK07405 182 GRAATIGELAEELELTPKQVREYLERA 208 (317)
T ss_pred CCCCCHHHHHHHhCcCHHHHHHHHHHc
Confidence 446789999999999999999998754
No 257
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=33.26 E-value=21 Score=23.53 Aligned_cols=16 Identities=25% Similarity=0.497 Sum_probs=13.0
Q ss_pred CCcEEEeccccccccC
Q 013121 203 CLKLYFCEFCLNFMKR 218 (449)
Q Consensus 203 ~~~lyiCe~Cl~y~~~ 218 (449)
.++.|.|+.|.+-|.+
T Consensus 11 ~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFSN 26 (26)
T ss_dssp SSSSEEESSSSEEESS
T ss_pred CCCCCCCCCCcCeeCc
Confidence 3678999999998863
No 258
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=32.80 E-value=30 Score=26.32 Aligned_cols=21 Identities=19% Similarity=0.483 Sum_probs=17.6
Q ss_pred EEeccccccccCHHHHHHHHhh
Q 013121 207 YFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 207 yiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
|.|.||.+ --+...|..|...
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~ 23 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCED 23 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHh
Confidence 78999999 5667899999754
No 259
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=32.73 E-value=41 Score=32.04 Aligned_cols=60 Identities=22% Similarity=0.284 Sum_probs=37.8
Q ss_pred cCChhhhhHHHhhhH--------HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEE
Q 013121 351 PLSDLGLLSYRGYWT--------RVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHV 413 (449)
Q Consensus 351 PLSDLG~~sY~sYW~--------~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~ 413 (449)
+|+||+.+-|.++=. +.|.+.+. .+.+||.+||+.+|+++-=|-..-+...-|. -+||-+
T Consensus 88 s~~DLsdii~i~f~~deel~~~~e~i~~~v~--~Gn~Sl~~lsr~l~~sp~firglAKRs~~L~-VkGq~l 155 (160)
T PF09824_consen 88 SMEDLSDIIYIAFMSDEELRDYVEKIEKEVE--AGNTSLSDLSRKLGISPVFIRGLAKRSPKLD-VKGQRL 155 (160)
T ss_pred eHHHHHHHHheeecCHHHHHHHHHHHHHHHH--cCCCcHHHHHHHhCCCHHHHHHHHHhccCcc-eecceE
Confidence 567777776665533 33333333 3789999999999999876655554443332 345544
No 260
>PF03801 Ndc80_HEC: HEC/Ndc80p family; InterPro: IPR005550 Members of this family are components of the mitotic spindle. It has been shown that Ndc80 from yeast is part of a complex called the Ndc80p complex []. This complex is thought to bind to the microtubules of the spindle.; PDB: 3IZ0_E 2VE7_B 2IGP_A.
Probab=32.64 E-value=62 Score=30.09 Aligned_cols=49 Identities=31% Similarity=0.388 Sum_probs=28.2
Q ss_pred CCCccCChhhhhHHHhhhHHHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHh
Q 013121 347 TPERPLSDLGLLSYRGYWTRVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQS 401 (449)
Q Consensus 347 ~PErPLSDLG~~sY~sYW~~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~ 401 (449)
..-|||+| .+|.+-..+.|+++|.+++. .+|.+.| ...+..|++..++.
T Consensus 27 ~d~Rpl~D---k~~q~~~~~~I~~fL~~~~~~~~~is~k~l---~~Pt~kdf~~I~~f 78 (157)
T PF03801_consen 27 KDPRPLSD---KSYQQECIRKIYEFLSEHGFESHPISPKTL---KSPTQKDFVEIFNF 78 (157)
T ss_dssp S--S-TT----HHHHHHHHHHHHHHHHHTT--SS---TTTT---SS--HHHHHHHHHH
T ss_pred CCCCCCCC---HHHHHHHHHHHHHHHHHcCCCCcccccccc---CCCCHHHHHHHHHH
Confidence 67899999 99999999999999987554 4444322 33445565555544
No 261
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=32.32 E-value=84 Score=29.31 Aligned_cols=50 Identities=16% Similarity=0.306 Sum_probs=39.7
Q ss_pred HHHHHHHHh---CCCCc---cHHHHHHhcCCChHHHHHHHHhcCceeee-CCeEEEE
Q 013121 366 RVLLDILKK---HKGNI---SIKELSDMTAIKAEDILTTLQSLELIQYR-KGQHVIC 415 (449)
Q Consensus 366 ~~il~~L~~---~~~~i---si~~is~~Tgi~~~DIi~tL~~l~ll~~~-~g~~~i~ 415 (449)
..|+.+|.. ..+-| .++.||+.+||...+|-.+.....++... +|.|+|.
T Consensus 23 ~~li~~L~~vQ~~~G~Ip~e~~~~iA~~l~v~~~~V~~vatFY~~f~~~p~Gk~~I~ 79 (156)
T PRK05988 23 GALLPILHAIQDEFGYVPEDAVPVIAEALNLSRAEVHGVITFYHDFRTHPPGRHVLK 79 (156)
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHHHHHHHhhccCCCCCCCEEEE
Confidence 466666643 33445 67899999999999999999999999875 6888874
No 262
>PF13880 Acetyltransf_13: ESCO1/2 acetyl-transferase
Probab=32.31 E-value=25 Score=29.12 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=20.2
Q ss_pred eeEEeecCcccccccchhhhhh
Q 013121 313 LACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~f 334 (449)
++=|-|.|.+||+|+++-|+|.
T Consensus 8 I~RIWV~~~~RR~GIAt~Lld~ 29 (70)
T PF13880_consen 8 ISRIWVSPSHRRKGIATRLLDA 29 (70)
T ss_pred eEEEEeChhhhhhhHHHHHHHH
Confidence 5679999999999999999986
No 263
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=32.02 E-value=1.1e+02 Score=25.41 Aligned_cols=39 Identities=23% Similarity=0.365 Sum_probs=29.3
Q ss_pred HHHHHHHhCC-CCccHHHHHHhcC-CChHHHH-HHHHhcCce
Q 013121 367 VLLDILKKHK-GNISIKELSDMTA-IKAEDIL-TTLQSLELI 405 (449)
Q Consensus 367 ~il~~L~~~~-~~isi~~is~~Tg-i~~~DIi-~tL~~l~ll 405 (449)
.|+++|++.. ..+|++||-..|+ +...+-+ ..|+...++
T Consensus 13 ~aV~ymK~r~~~Plt~~EIl~~ls~~d~~~~~~~~L~~~~~~ 54 (75)
T cd07977 13 KIVDYMKKRHQHPLTLDEILDYLSLLDIGPKLKEWLKSEALV 54 (75)
T ss_pred HHHHHHHhcCCCCccHHHHHHHHhccCccHHHHHHHHhhhhc
Confidence 3678999887 8999999999999 6665543 555555555
No 264
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=31.60 E-value=2.1e+02 Score=26.95 Aligned_cols=49 Identities=16% Similarity=0.201 Sum_probs=35.9
Q ss_pred CCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCHHHHHHH
Q 013121 376 KGNISIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADPKVLDRH 424 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~~~i~~~ 424 (449)
+..++-.+||+..|++. -+-+..|+..|+|... +|-++..++.+.+.+.
T Consensus 32 G~~L~e~~La~~lgVSRtpVREAL~~L~~eGLV~~~~~~g~~v~~~~~~~~~ei 85 (221)
T PRK11414 32 GARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDEI 85 (221)
T ss_pred CCccCHHHHHHHHCCCchhHHHHHHHHHHCCCEEecCCCceeecCCCHHHHHHH
Confidence 56788899999999985 5667777888999865 4545555676655543
No 265
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=31.40 E-value=76 Score=25.60 Aligned_cols=26 Identities=23% Similarity=0.561 Sum_probs=21.3
Q ss_pred HHHHhCCCCccHHHHHHhcCCChHHH
Q 013121 370 DILKKHKGNISIKELSDMTAIKAEDI 395 (449)
Q Consensus 370 ~~L~~~~~~isi~~is~~Tgi~~~DI 395 (449)
++-.++.+.|++.|||++.|++..-|
T Consensus 14 e~y~~~~g~i~lkdIA~~Lgvs~~tI 39 (60)
T PF10668_consen 14 EIYKESNGKIKLKDIAEKLGVSESTI 39 (60)
T ss_pred HHHHHhCCCccHHHHHHHHCCCHHHH
Confidence 44456788999999999999987655
No 266
>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=31.28 E-value=75 Score=25.57 Aligned_cols=31 Identities=13% Similarity=0.234 Sum_probs=22.8
Q ss_pred CCCccHHHHHHhcCCChHHHHHHHHh---cCcee
Q 013121 376 KGNISIKELSDMTAIKAEDILTTLQS---LELIQ 406 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~DIi~tL~~---l~ll~ 406 (449)
-..|++++||+..++..++|-..+.. .|.|.
T Consensus 22 y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~ 55 (88)
T smart00088 22 YSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEIS 55 (88)
T ss_pred hceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeE
Confidence 46899999999999988765555444 45543
No 267
>smart00753 PAM PCI/PINT associated module.
Probab=31.28 E-value=75 Score=25.57 Aligned_cols=31 Identities=13% Similarity=0.234 Sum_probs=22.8
Q ss_pred CCCccHHHHHHhcCCChHHHHHHHHh---cCcee
Q 013121 376 KGNISIKELSDMTAIKAEDILTTLQS---LELIQ 406 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~DIi~tL~~---l~ll~ 406 (449)
-..|++++||+..++..++|-..+.. .|.|.
T Consensus 22 y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~ 55 (88)
T smart00753 22 YSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEIS 55 (88)
T ss_pred hceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeE
Confidence 46899999999999988765555444 45543
No 268
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=31.24 E-value=1.6e+02 Score=24.01 Aligned_cols=46 Identities=24% Similarity=0.363 Sum_probs=31.7
Q ss_pred CccHHHHHHhcCCChHHHHHHH---HhcCceeee----CCeEEEEeCHHHHHH
Q 013121 378 NISIKELSDMTAIKAEDILTTL---QSLELIQYR----KGQHVICADPKVLDR 423 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DIi~tL---~~l~ll~~~----~g~~~i~~~~~~i~~ 423 (449)
.++-..||+..||+..-|+.+| ++.|+|... +|-|+-.+++..+++
T Consensus 4 ~lvas~iAd~~GiTRSvIVNALRKleSaGvIesrSlGmKGT~ikvlN~~~~~e 56 (61)
T PF08222_consen 4 RLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNDYFLDE 56 (61)
T ss_dssp EE-HHHHHHHHT--HHHHHHHHHHHHHTTSEEEEETTSS-EEEEE--THHHHH
T ss_pred eehHHHHHHHhCccHHHHHHHHHHHHhcCceeecccCCCceeeeeecHHHHHH
Confidence 3566789999999999999886 467888753 789998888876654
No 269
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=30.91 E-value=46 Score=27.49 Aligned_cols=34 Identities=24% Similarity=0.413 Sum_probs=28.0
Q ss_pred HHhcCCChHHHHHHHHhcCcee-eeCCeEEEEeCH
Q 013121 385 SDMTAIKAEDILTTLQSLELIQ-YRKGQHVICADP 418 (449)
Q Consensus 385 s~~Tgi~~~DIi~tL~~l~ll~-~~~g~~~i~~~~ 418 (449)
|+.-.|...||+.+|+.+|+.. .++|.|++...+
T Consensus 2 s~lp~~~~ke~ik~Le~~Gf~~vrqkGSH~q~kHp 36 (66)
T COG1724 2 SKLPRMKAKEVIKALEKDGFQLVRQKGSHRQYKHP 36 (66)
T ss_pred CcCCcCCHHHHHHHHHhCCcEEEEeecceeEEEcC
Confidence 5667899999999999999965 578888877654
No 270
>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=30.88 E-value=35 Score=27.57 Aligned_cols=25 Identities=16% Similarity=0.234 Sum_probs=21.7
Q ss_pred cHHHHHHhcCCChHHHHHHHHhcCc
Q 013121 380 SIKELSDMTAIKAEDILTTLQSLEL 404 (449)
Q Consensus 380 si~~is~~Tgi~~~DIi~tL~~l~l 404 (449)
...+.+.+|.....||..+|++||+
T Consensus 49 ~~ae~~gRt~~~~~Dv~~al~~~gi 73 (77)
T PF07524_consen 49 RYAEHAGRTEPNLQDVEQALEEMGI 73 (77)
T ss_pred HHHHHcCCCCCCHHHHHHHHHHhCC
Confidence 4457778888999999999999998
No 271
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=30.63 E-value=78 Score=31.17 Aligned_cols=31 Identities=19% Similarity=0.340 Sum_probs=25.2
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHH
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDIL 396 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi 396 (449)
...|+++|.++ +.+++.|||+++|++.+=|-
T Consensus 9 ~~~I~~~l~~~-~~v~v~eLa~~~~VS~~TIR 39 (252)
T PRK10681 9 IGQLLQALKRS-DKLHLKDAAALLGVSEMTIR 39 (252)
T ss_pred HHHHHHHHHHc-CCCcHHHHHHHhCCCHHHHH
Confidence 35788888875 58999999999999976443
No 272
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=30.61 E-value=1.2e+02 Score=27.74 Aligned_cols=37 Identities=27% Similarity=0.591 Sum_probs=27.6
Q ss_pred cCcEEEEEecCCce-eeEEEEEEeccCCCCCCceeEEEecccccc
Q 013121 66 VGTRVMCRWRDGKY-HPVKVIERRKMHFGGPNDYEYYVHYTEFNR 109 (449)
Q Consensus 66 vGerVl~~~~dg~~-~~AeVIe~R~~~~~~~~~~~YYVHY~g~nk 109 (449)
+|-+|+++|+++.. |+++|..-+. .-.|.|-|.+-.+
T Consensus 5 iG~rV~AkWS~n~yyY~G~I~~~~~-------~~kykv~FdDG~~ 42 (122)
T PF09038_consen 5 IGLRVFAKWSDNGYYYPGKITSDKG-------KNKYKVLFDDGYE 42 (122)
T ss_dssp TT-EEEEESSTTSEEEEEEEEEEET-------TTEEEEEETTS-E
T ss_pred cccEEEEEEccCCcccCceEeecCC-------CCeEEEEecCCcc
Confidence 78999999988876 8999987532 2379999977754
No 273
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=30.59 E-value=96 Score=26.14 Aligned_cols=56 Identities=18% Similarity=0.182 Sum_probs=35.7
Q ss_pred hHHHHHHHHHhCCCCccHHHHHHhcCCChHHHHH---HHHhcCc-eeeeCC-eEEEEeCHH
Q 013121 364 WTRVLLDILKKHKGNISIKELSDMTAIKAEDILT---TLQSLEL-IQYRKG-QHVICADPK 419 (449)
Q Consensus 364 W~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~---tL~~l~l-l~~~~g-~~~i~~~~~ 419 (449)
|...++-.+......+|=++|++++||+...|.. +|++-|+ |...++ .|.+.-.++
T Consensus 5 ~~~~~~ll~~~~~~~~SGe~La~~LgiSRtaVwK~Iq~Lr~~G~~I~s~~~kGY~L~~~~~ 65 (79)
T COG1654 5 SQMLLLLLLLLTGNFVSGEKLAEELGISRTAVWKHIQQLREEGVDIESVRGKGYLLPQLPD 65 (79)
T ss_pred HHHHHHHHHHcCCCcccHHHHHHHHCccHHHHHHHHHHHHHhCCceEecCCCceeccCccc
Confidence 4444444444456689999999999999998854 5555666 333344 455544333
No 274
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=30.52 E-value=1e+02 Score=28.22 Aligned_cols=37 Identities=22% Similarity=0.299 Sum_probs=29.0
Q ss_pred CccHHHHHHhcCCChHHH---HHHHHhcCceeeeCCeEEE
Q 013121 378 NISIKELSDMTAIKAEDI---LTTLQSLELIQYRKGQHVI 414 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~~~g~~~i 414 (449)
.+|.++||..+|++.+=| +..|++.|+|+..++..+|
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~~~~~~i~i 207 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLISAHGKTIVV 207 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEecCCEEEE
Confidence 578899999999998755 5677888999876665443
No 275
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=30.43 E-value=1.1e+02 Score=23.15 Aligned_cols=31 Identities=10% Similarity=0.215 Sum_probs=23.0
Q ss_pred HHHHHHhCCCCccHHHHHHhcCC-ChHHHHHHHH
Q 013121 368 LLDILKKHKGNISIKELSDMTAI-KAEDILTTLQ 400 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi-~~~DIi~tL~ 400 (449)
++++|..+ .++|++||...|+ +..-.....+
T Consensus 42 a~~~l~~~--~~~~~~ia~~~g~~s~~~f~r~Fk 73 (84)
T smart00342 42 ARRLLRDT--DLSVTEIALRVGFSSQSYFSRAFK 73 (84)
T ss_pred HHHHHHcC--CCCHHHHHHHhCCCChHHHHHHHH
Confidence 44555544 8999999999999 7776666653
No 276
>COG4519 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.35 E-value=81 Score=27.35 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=36.3
Q ss_pred hhhHHHHHHHHHhCCCCccHHHHHHhcCCC---hHHHHHHHHhcCce
Q 013121 362 GYWTRVLLDILKKHKGNISIKELSDMTAIK---AEDILTTLQSLELI 405 (449)
Q Consensus 362 sYW~~~il~~L~~~~~~isi~~is~~Tgi~---~~DIi~tL~~l~ll 405 (449)
.|-++--+.+|.+..+..++-+|-.+||+- ..|+|.+|..+|+.
T Consensus 6 vFaRRLYla~Li~S~e~~nVP~lm~~TGwPRRT~QDvikAlpglgi~ 52 (95)
T COG4519 6 VFARRLYLAYLIDSGETANVPELMAATGWPRRTAQDVIKALPGLGIV 52 (95)
T ss_pred HHHHHHHHHHHHhccccCChHHHHHHcCCchhHHHHHHHhCcCCCeE
Confidence 344455577888888899999999999985 68999999999986
No 277
>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=30.21 E-value=1.7e+02 Score=22.40 Aligned_cols=49 Identities=18% Similarity=0.224 Sum_probs=33.2
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHH----HHHHHhcCceeeeCCeEEE
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDI----LTTLQSLELIQYRKGQHVI 414 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DI----i~tL~~l~ll~~~~g~~~i 414 (449)
.+.|+.-|.- ...|++.++.+.+|+...+. +.-|++.|++...++...+
T Consensus 8 ~e~i~~~LR~-~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~~~~~l~l 60 (66)
T PF06969_consen 8 REYIMLGLRC-NEGIDLSEFEQRFGIDFAEEFQKELEELQEDGLLEIDGGRLRL 60 (66)
T ss_dssp HHHHHHHHHH-HSEEEHHHHHHHTT--THHH-HHHHHHHHHTTSEEE-SSEEEE
T ss_pred HHHHHHHHHh-HCCcCHHHHHHHHCcCHHHHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 3444444443 34799999999999876554 7889999999887776554
No 278
>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=30.05 E-value=1.2e+02 Score=27.37 Aligned_cols=57 Identities=26% Similarity=0.317 Sum_probs=43.2
Q ss_pred hHHHhhhHHHHHHHHHhCC-------CCccHHHHHHhcCCChHHHHH---HHHhcCceeeeC-CeEEE
Q 013121 358 LSYRGYWTRVLLDILKKHK-------GNISIKELSDMTAIKAEDILT---TLQSLELIQYRK-GQHVI 414 (449)
Q Consensus 358 ~sY~sYW~~~il~~L~~~~-------~~isi~~is~~Tgi~~~DIi~---tL~~l~ll~~~~-g~~~i 414 (449)
..|.-.|-.-++..+...+ -..+.+.||..|+-..++|-. +|+.+|||.... |.+.|
T Consensus 24 d~~~~I~lkLll~s~n~~G~L~~~~~ipy~~e~LA~~~~~~~~~V~~Al~~f~k~glIe~~d~g~i~i 91 (119)
T TIGR01714 24 DTHTIIWLKLLLLSLNDGGCIYLNELAPYNAEMLATMFNRNVGDIRITLQTLESLGLIEKKNNGDIFL 91 (119)
T ss_pred cEeHHHHHHHHHHHhcCCCEEEEcCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCcEEe
Confidence 5678888888888865532 245999999999999999865 567899998764 64443
No 279
>KOG3396 consensus Glucosamine-phosphate N-acetyltransferase [Cell wall/membrane/envelope biogenesis]
Probab=29.84 E-value=76 Score=29.92 Aligned_cols=68 Identities=21% Similarity=0.236 Sum_probs=45.4
Q ss_pred hhhhcccccceecCCCceEEEEEEecCCCceeeeeec--------ccccCCCCceeeEEeecCcccccccchhhhhhchh
Q 013121 266 AKLFLDHKTLYYDVDLFLFYVLCECDDRGCHMVGYFS--------KEKHSEESYNLACILTLPPYQRKGYGKFLIAFSYE 337 (449)
Q Consensus 266 aKLFLdhKTlyyDV~~FlFYVl~e~d~~g~h~vGYFS--------KEK~s~~~~NLaCIl~lP~yQrkGyG~~LI~fSYe 337 (449)
-|.|..-|.---+ |||+.-.|.+-.+++|==| .+..+. --+-=++|=+.||||++|++||++=-.
T Consensus 40 ~krf~~mk~~~~~-----Y~i~Vied~~s~~vigtatL~IE~KfIh~~g~r--GhiEDVVV~~~~rgk~LGkllv~~Lv~ 112 (150)
T KOG3396|consen 40 EKRFEAMKKSGDW-----YYIVVIEDKESEKVIGTATLFIERKFIHGCGSR--GHIEDVVVDSEYRGKQLGKLLVETLVD 112 (150)
T ss_pred HHHHHHHHhcCCc-----EEEEEEEeCCcCeEEEEEEEEEehhhhhccccc--CceeEEEeChhhhhhHHhHHHHHHHHH
Confidence 4667666654322 8888888887777777321 222221 124458899999999999999998666
Q ss_pred hhh
Q 013121 338 LSK 340 (449)
Q Consensus 338 LSr 340 (449)
|++
T Consensus 113 l~k 115 (150)
T KOG3396|consen 113 LAK 115 (150)
T ss_pred HHH
Confidence 665
No 280
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=29.80 E-value=2.1e+02 Score=27.44 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=33.2
Q ss_pred CCCc-cHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCHH
Q 013121 376 KGNI-SIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADPK 419 (449)
Q Consensus 376 ~~~i-si~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~~ 419 (449)
+..+ |-.+||+..|++. -+-+..|+..|+|... +|-+|..++..
T Consensus 28 G~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~~~G~~V~~~~~~ 77 (251)
T PRK09990 28 GQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQGRGSFVARLNRV 77 (251)
T ss_pred CCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCCCeeEEecCCcc
Confidence 5678 9999999999986 5667778888999764 45566555543
No 281
>PRK10736 hypothetical protein; Provisional
Probab=29.63 E-value=1e+02 Score=32.85 Aligned_cols=49 Identities=14% Similarity=0.112 Sum_probs=36.8
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHH---HHhcCceeeeCCeEEEEe
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTT---LQSLELIQYRKGQHVICA 416 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~t---L~~l~ll~~~~g~~~i~~ 416 (449)
..|++.|.. ..++|++|+..||+...+|..+ |+-.|++....|+++...
T Consensus 311 ~~v~~~l~~--~~~~iD~L~~~~~l~~~~v~~~L~~LEl~G~v~~~~g~~~~~~ 362 (374)
T PRK10736 311 PELLANVGD--EVTPVDVVAERAGQPVPEVVTQLLELELAGWIAAVPGGYVRLR 362 (374)
T ss_pred HHHHHhcCC--CCCCHHHHHHHHCcCHHHHHHHHHHHHhCCcEEEcCCcEEEEe
Confidence 356666643 4689999999999999997655 556677888888877654
No 282
>PRK11050 manganese transport regulator MntR; Provisional
Probab=29.20 E-value=1.2e+02 Score=27.82 Aligned_cols=43 Identities=14% Similarity=0.288 Sum_probs=31.5
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeeeCC
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYRKG 410 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~~g 410 (449)
.|+.++.. .+.+++.+||+.++|+. ...+..|+..|+|....+
T Consensus 41 ~I~~~l~~-~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~~~ 86 (152)
T PRK11050 41 LIADLIAE-VGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMRPY 86 (152)
T ss_pred HHHHHHHh-cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecC
Confidence 34445544 46799999999999975 556677788899976543
No 283
>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=29.08 E-value=84 Score=27.43 Aligned_cols=33 Identities=18% Similarity=0.266 Sum_probs=26.4
Q ss_pred CCccHHHHHHhcCCChHHHHHH---HHhcCceeeeC
Q 013121 377 GNISIKELSDMTAIKAEDILTT---LQSLELIQYRK 409 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DIi~t---L~~l~ll~~~~ 409 (449)
..||...|+++||++...|..+ |..+|+|....
T Consensus 53 d~Is~sq~~e~tg~~~~~V~~al~~Li~~~vI~~~g 88 (100)
T PF04492_consen 53 DRISNSQIAEMTGLSRDHVSKALNELIRRGVIIRDG 88 (100)
T ss_pred ceeeHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCC
Confidence 4799999999999998887655 55679995444
No 284
>PF01498 HTH_Tnp_Tc3_2: Transposase; InterPro: IPR002492 Transposase proteins are necessary for efficient DNA transposition. This family includes the amino-terminal region of Tc1, Tc1A, Tc1B and Tc2B transposases of Caenorhabditis elegans. The region encompasses the specific DNA binding and second DNA recognition domains as well as an amino-terminal region of the catalytic domain of Tc3 as described in []. Tc3 is a member of the Tc1/mariner family of transposable elements. This entry also includes histone-lysine N-methyltransferase SETMAR, which is a SET domain and mariner transposase fusion gene-containing protein. This histone methyltransferase has sequence-specific DNA-binding activity and recognises the 19-mer core of the 5'-terminal inverted repeats (TIRs) of the Hsmar1 element. This protein has DNA nicking activity, and has in vivo end joining activity and may mediate genomic integration of foreign DNA [, , , ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated, 0015074 DNA integration; PDB: 3K9K_B 3F2K_B 3K9J_B 1U78_A.
Probab=28.74 E-value=1.8e+02 Score=22.73 Aligned_cols=58 Identities=19% Similarity=0.333 Sum_probs=31.1
Q ss_pred HHHHHHHhCCCCccHHHHHHhc-----CCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHH
Q 013121 367 VLLDILKKHKGNISIKELSDMT-----AIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLK 426 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~T-----gi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~ 426 (449)
.|+..... ...+|..+|+... .|+..=|..+|...|+-. +.......+++...+.-++
T Consensus 3 ~I~~~v~~-~p~~s~~~i~~~l~~~~~~vS~~TI~r~L~~~g~~~-~~~~~kP~Ls~~~~~~Rl~ 65 (72)
T PF01498_consen 3 RIVRMVRR-NPRISAREIAQELQEAGISVSKSTIRRRLREAGLKK-RKARKKPFLSPKHKKKRLE 65 (72)
T ss_dssp --------------HHHHHHHT---T--S-HHHHHHHHHHT-EEE-ETTEEEES--HHHHHHHHH
T ss_pred HHHHHHHH-CCCCCHHHHHHHHHHccCCcCHHHHHHHHHHcCccc-cccccCCCCCHHHHHHHHH
Confidence 45555544 3469999999977 788999999999999866 5555666777766655443
No 285
>PF10410 DnaB_bind: DnaB-helicase binding domain of primase; InterPro: IPR019475 This entry represents the C-terminal region three-helical domain of DNA primase []. Primases synthesise short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Primases are recruited to single-stranded DNA by helicases - this domain binds DnaB-helicase []. It is associated with the Toprim domain IPR006171 from INTERPRO, which is the central catalytic core. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=28.51 E-value=48 Score=24.85 Aligned_cols=54 Identities=20% Similarity=0.219 Sum_probs=31.0
Q ss_pred hhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCC----CccHHHHHHhcCCChHH
Q 013121 331 LIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKG----NISIKELSDMTAIKAED 394 (449)
Q Consensus 331 LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~----~isi~~is~~Tgi~~~D 394 (449)
|++|-++-.+.+.-.++| -|+..|.+ .++..|..-.. ..-+++||+.+||..+.
T Consensus 1 L~ef~~~~l~~~~dl~~~------egk~~~~~----~~~~~i~~i~~~i~r~~y~~~la~~~~i~~~~ 58 (59)
T PF10410_consen 1 LSEFLIERLSKGYDLDTP------EGKAEAVR----EAAPLIAQIPDPIERELYIRELAERLGISEDA 58 (59)
T ss_dssp HHHHHHHHHGGGS-TTSH------HHHHHHHH----HHHHHHTT--SHHHHHHHHHHHHHHCT-SSTT
T ss_pred CHHHHHHHHHhcCCCCCH------HHHHHHHH----HHHHHHHHCCCHHHHHHHHHHHHHHhCcCccc
Confidence 445555544443334433 47777765 45555554333 45899999999998764
No 286
>PF12746 GNAT_acetyltran: GNAT acetyltransferase; PDB: 3G3S_B.
Probab=28.31 E-value=29 Score=35.18 Aligned_cols=19 Identities=32% Similarity=0.333 Sum_probs=15.2
Q ss_pred eeE--EeecCcccccccchhh
Q 013121 313 LAC--ILTLPPYQRKGYGKFL 331 (449)
Q Consensus 313 LaC--Il~lP~yQrkGyG~~L 331 (449)
-.+ |-|.|.|||||+++.+
T Consensus 189 ~~EI~I~T~~~yR~kGLA~~~ 209 (265)
T PF12746_consen 189 GIEIDIETHPEYRGKGLATAV 209 (265)
T ss_dssp EEEEEEEE-CCCTTSSHHHHH
T ss_pred EEEEEEEECHHhhcCCHHHHH
Confidence 456 8999999999998765
No 287
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=28.13 E-value=81 Score=25.28 Aligned_cols=41 Identities=20% Similarity=0.370 Sum_probs=34.3
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH--------HHHHHhcCceee
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI--------LTTLQSLELIQY 407 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI--------i~tL~~l~ll~~ 407 (449)
.||++|.++...++-..|++.....-.|+ +..|+..|+++.
T Consensus 2 ~IL~~L~~~~~P~g~~~l~~~L~~~g~~~se~avRrrLr~me~~Glt~~ 50 (66)
T PF08461_consen 2 FILRILAESDKPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRK 50 (66)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCccc
Confidence 48999999989999999999998887777 667888887764
No 288
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=28.10 E-value=55 Score=23.27 Aligned_cols=25 Identities=16% Similarity=0.377 Sum_probs=18.0
Q ss_pred CccHHHHHHhcCCChHHHHHHHHhc
Q 013121 378 NISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 378 ~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
.+|-+||++.+|.+.|=|-.+|..+
T Consensus 2 ~mtr~diA~~lG~t~ETVSR~l~~l 26 (32)
T PF00325_consen 2 PMTRQDIADYLGLTRETVSRILKKL 26 (32)
T ss_dssp E--HHHHHHHHTS-HHHHHHHHHHH
T ss_pred CcCHHHHHHHhCCcHHHHHHHHHHH
Confidence 3678999999999999887776654
No 289
>PHA02763 hypothetical protein; Provisional
Probab=28.02 E-value=14 Score=32.29 Aligned_cols=52 Identities=23% Similarity=0.466 Sum_probs=39.1
Q ss_pred CcccCcEEEEEecCCceeeEEEEEEeccCCCCCCceeEEEecccccccccccccccc
Q 013121 63 PLEVGTRVMCRWRDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVKLEQ 119 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~~~r 119 (449)
-+++|++|..+. +...-.|+||.+..-.. ....-||.|.||++ ..||+...|
T Consensus 27 ~YK~gqkv~l~v-~dr~f~gKvIa~ap~t~---~~LsKYv~~SGFe~-VEeWl~eAr 78 (102)
T PHA02763 27 FYKIGQKVILKV-GDKRFPGKVIAKAPVTE---YCLSKYVKFSGFEN-VEEWLNEAR 78 (102)
T ss_pred hhccCcEEEEEe-cCccccceEEEecCchH---HHHHHHhhhcchhh-HHHHHHHHH
Confidence 578999999887 44457899998876432 34566999999965 689998654
No 290
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=27.77 E-value=1e+02 Score=30.08 Aligned_cols=33 Identities=9% Similarity=0.373 Sum_probs=26.8
Q ss_pred HHHhCCCCccHHHHHHhcCCChHHHHHHHHhcC
Q 013121 371 ILKKHKGNISIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 371 ~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
+..+.+..-|+++||+.+||++++|...++...
T Consensus 129 l~~~l~~~pt~~elA~~l~~~~e~v~~~~~~~~ 161 (254)
T TIGR02850 129 LISENSKEPTVSEIAKELKVPQEEVVFALDAIQ 161 (254)
T ss_pred HHHHhCCCCCHHHHHHHHCcCHHHHHHHHHhcC
Confidence 334456678999999999999999998887664
No 291
>COG2442 Uncharacterized conserved protein [Function unknown]
Probab=27.68 E-value=1.2e+02 Score=25.61 Aligned_cols=33 Identities=27% Similarity=0.332 Sum_probs=27.2
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcC-CChHHHHHHHHh
Q 013121 366 RVLLDILKKHKGNISIKELSDMTA-IKAEDILTTLQS 401 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tg-i~~~DIi~tL~~ 401 (449)
+.|++.|. ..+|++||.+... ++.+||..+|..
T Consensus 34 ~~Il~~l~---~G~s~eeil~dyp~Lt~~dI~aal~y 67 (79)
T COG2442 34 WDILEMLA---AGESIEEILADYPDLTLEDIRAALRY 67 (79)
T ss_pred HHHHHHHH---CCCCHHHHHHhCCCCCHHHHHHHHHH
Confidence 56777775 4689999999999 999999999874
No 292
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=27.64 E-value=66 Score=25.15 Aligned_cols=30 Identities=17% Similarity=0.262 Sum_probs=25.0
Q ss_pred CccHHHHHHhcC--CChHHHHHHHHhcCceee
Q 013121 378 NISIKELSDMTA--IKAEDILTTLQSLELIQY 407 (449)
Q Consensus 378 ~isi~~is~~Tg--i~~~DIi~tL~~l~ll~~ 407 (449)
.++.+.|.+.+| ++.++|...|+.||+-..
T Consensus 5 ~~~~~~i~~llG~~i~~~ei~~~L~~lg~~~~ 36 (71)
T smart00874 5 TLRRERINRLLGLDLSAEEIEEILKRLGFEVE 36 (71)
T ss_pred EecHHHHHHHHCCCCCHHHHHHHHHHCCCeEE
Confidence 468889999999 556899999999998643
No 293
>PRK03837 transcriptional regulator NanR; Provisional
Probab=27.60 E-value=1.9e+02 Score=27.45 Aligned_cols=43 Identities=19% Similarity=0.244 Sum_probs=33.2
Q ss_pred CCCc-cHHHHHHhcCCCh---HHHHHHHHhcCceeee--CCeEEEEeCH
Q 013121 376 KGNI-SIKELSDMTAIKA---EDILTTLQSLELIQYR--KGQHVICADP 418 (449)
Q Consensus 376 ~~~i-si~~is~~Tgi~~---~DIi~tL~~l~ll~~~--~g~~~i~~~~ 418 (449)
+..+ +..+||+..|++. -+.+..|+..|+|... +|-+|...+.
T Consensus 34 G~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~~~~~G~~V~~~~~ 82 (241)
T PRK03837 34 GDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHGERARVSRPSA 82 (241)
T ss_pred CCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecCCceeEecCCc
Confidence 5578 9999999999985 6778888999999875 4555555543
No 294
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=27.18 E-value=1.7e+02 Score=24.32 Aligned_cols=45 Identities=22% Similarity=0.221 Sum_probs=31.7
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRH 424 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~ 424 (449)
||++++++.+||.++-| ..|-+.|+|.....+-.-.++...+.+.
T Consensus 1 is~~e~~~~~~i~~~~l-~~lve~Gli~p~~~~~~~~f~~~~l~rl 45 (84)
T PF13591_consen 1 ISLEEFCEACGIEPEFL-RELVEEGLIEPEGEEEEWYFSEEDLARL 45 (84)
T ss_pred CCHHHHHHHHCcCHHHH-HHHHHCCCeeecCCCCeeeECHHHHHHH
Confidence 68999999999887655 5688999998754332223566555543
No 295
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=26.96 E-value=1.1e+02 Score=24.43 Aligned_cols=31 Identities=19% Similarity=0.432 Sum_probs=24.5
Q ss_pred CccHHHHHHhcC--CChHHHHHHHHhcCceeee
Q 013121 378 NISIKELSDMTA--IKAEDILTTLQSLELIQYR 408 (449)
Q Consensus 378 ~isi~~is~~Tg--i~~~DIi~tL~~l~ll~~~ 408 (449)
.++++.|.+.+| ++.++|...|+.||+-...
T Consensus 5 ~~~~~~i~~~lG~~i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 5 TLSLDKINKLLGIDISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp EEEHHHHHHHHTS---HHHHHHHHHHTT-EEEE
T ss_pred EecHHHHHHHhCCCCCHHHHHHHHHHCCCEEEE
Confidence 468899999999 5789999999999997654
No 296
>PRK07406 RNA polymerase sigma factor RpoD; Validated
Probab=26.87 E-value=1.3e+02 Score=31.84 Aligned_cols=27 Identities=11% Similarity=0.151 Sum_probs=22.3
Q ss_pred CCccHHHHHHhcCCChHHHHHHHHhcC
Q 013121 377 GNISIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
..-|+++||+.+||+.++|...+....
T Consensus 238 r~Pt~~EIA~~lg~~~e~v~~~~~~~~ 264 (373)
T PRK07406 238 RKPTEEEIAESMEMTIEKLRFIAKSAQ 264 (373)
T ss_pred CCCCHHHHHHHhCCCHHHHHHHHHhcC
Confidence 355899999999999999988776543
No 297
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=26.23 E-value=2.7e+02 Score=26.94 Aligned_cols=57 Identities=25% Similarity=0.333 Sum_probs=40.1
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHH---HHHHHHhcCceeeeCC--------eEEEEeCHHHHHH
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAED---ILTTLQSLELIQYRKG--------QHVICADPKVLDR 423 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~D---Ii~tL~~l~ll~~~~g--------~~~i~~~~~~i~~ 423 (449)
-.|++.|.+.+ .+|=++||..|||...+ |+..|-+.|++.|.+. .|...++.+.+..
T Consensus 21 ~~v~~~l~~kg-e~tDeela~~l~i~~~~vrriL~~L~e~~li~~~k~rd~~~~~~~y~w~~~~~~v~~ 88 (176)
T COG1675 21 VLVVDALLEKG-ELTDEELAELLGIKKNEVRRILYALYEDGLISYRKKRDEESGWEEYTWYINYEKVLE 88 (176)
T ss_pred hHHHHHHHhcC-CcChHHHHHHhCccHHHHHHHHHHHHhCCceEEEeecccCCCcEEEEEEechHHHHH
Confidence 45667776644 89999999999999765 5777888899987532 2445566544443
No 298
>PRK07571 bidirectional hydrogenase complex protein HoxE; Reviewed
Probab=26.04 E-value=1.3e+02 Score=28.66 Aligned_cols=52 Identities=13% Similarity=0.254 Sum_probs=40.4
Q ss_pred HHHHHHHHHh---CCCCc---cHHHHHHhcCCChHHHHHHHHhcCceeee-CCeEEEEe
Q 013121 365 TRVLLDILKK---HKGNI---SIKELSDMTAIKAEDILTTLQSLELIQYR-KGQHVICA 416 (449)
Q Consensus 365 ~~~il~~L~~---~~~~i---si~~is~~Tgi~~~DIi~tL~~l~ll~~~-~g~~~i~~ 416 (449)
+..|+..|.. .-+-| .++.||+.+||...+|-.......++... +|.|+|.+
T Consensus 35 ~~~li~~L~~iQ~~~GyIp~e~~~~iA~~l~v~~a~V~gVatFY~~f~~~P~Gk~~I~V 93 (169)
T PRK07571 35 QDALIEVLHKAQELFGYLERDLLLYVARQLKLPLSRVYGVATFYHLFSLKPSGEHTCVV 93 (169)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCcCHHHHHHHHHHccccCcCCCCCEEEEE
Confidence 3566666643 23444 67889999999999999999999999876 49998753
No 299
>COG1247 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]
Probab=25.98 E-value=1.2e+02 Score=28.91 Aligned_cols=28 Identities=25% Similarity=0.236 Sum_probs=21.8
Q ss_pred eeEEeecCcccccccchhhhhhchhhhh
Q 013121 313 LACILTLPPYQRKGYGKFLIAFSYELSK 340 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~fSYeLSr 340 (449)
-.-|-+.|..|+||+|+.|.+--=..++
T Consensus 84 e~SiYv~~~~~g~GiG~~Ll~~Li~~~~ 111 (169)
T COG1247 84 ELSIYLDPAARGKGLGKKLLQALITEAR 111 (169)
T ss_pred EEEEEECcccccccHHHHHHHHHHHHHH
Confidence 5568999999999999998765444443
No 300
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=25.90 E-value=1.4e+02 Score=18.93 Aligned_cols=25 Identities=32% Similarity=0.357 Sum_probs=19.3
Q ss_pred CcccCcEEEEEecCCce--eeEEEEEEec
Q 013121 63 PLEVGTRVMCRWRDGKY--HPVKVIERRK 89 (449)
Q Consensus 63 ~~~vGerVl~~~~dg~~--~~AeVIe~R~ 89 (449)
.+++|+.|.+.. |.+ ..|+|+++..
T Consensus 1 ~~~~G~~V~I~~--G~~~g~~g~i~~i~~ 27 (28)
T smart00739 1 KFEVGDTVRVIA--GPFKGKVGKVLEVDG 27 (28)
T ss_pred CCCCCCEEEEeE--CCCCCcEEEEEEEcC
Confidence 368999999986 554 7899998763
No 301
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=25.59 E-value=81 Score=28.76 Aligned_cols=39 Identities=31% Similarity=0.548 Sum_probs=28.0
Q ss_pred HHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHh--cCceee
Q 013121 368 LLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQS--LELIQY 407 (449)
Q Consensus 368 il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~--l~ll~~ 407 (449)
|+..|..+ +.+|-+|||+.+||...+| +..|.+ +.+..+
T Consensus 6 v~d~L~~~-~~~~dedLa~~l~i~~n~vRkiL~~L~ed~~~~~~~ 49 (147)
T smart00531 6 VLDALMRN-GCVTEEDLAELLGIKQKQLRKILYLLYDEKLIKIDY 49 (147)
T ss_pred ehHHHHhc-CCcCHHHHHHHhCCCHHHHHHHHHHHHhhhcchhhe
Confidence 56666664 4899999999999998876 455566 444443
No 302
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=25.57 E-value=1.6e+02 Score=27.96 Aligned_cols=50 Identities=16% Similarity=0.198 Sum_probs=40.2
Q ss_pred CCCCccHHHHHHhcCCCh---HHHHHHHHhcCceee--eCCeEEEEeCHHHHHHH
Q 013121 375 HKGNISIKELSDMTAIKA---EDILTTLQSLELIQY--RKGQHVICADPKVLDRH 424 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~--~~g~~~i~~~~~~i~~~ 424 (449)
-+..++..+|++..|++. -+.+.-|...|+|.. .+|-+|..++.+.+.+.
T Consensus 36 pG~~l~e~~La~~~gvSrtPVReAL~rL~~eGlv~~~p~rG~~V~~~~~~~~~ei 90 (230)
T COG1802 36 PGERLSEEELAEELGVSRTPVREALRRLEAEGLVEIEPNRGAFVAPLSLAEAREI 90 (230)
T ss_pred CCCCccHHHHHHHhCCCCccHHHHHHHHHHCCCeEecCCCCCeeCCCCHHHHHHH
Confidence 467899999999999885 667777888899986 46777878888777664
No 303
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=25.54 E-value=35 Score=37.20 Aligned_cols=31 Identities=16% Similarity=0.364 Sum_probs=26.8
Q ss_pred CCCcEEEeccccccccCHHHHHHHHhhCCCC
Q 013121 202 DCLKLYFCEFCLNFMKRKEQLQRHMRKCDLK 232 (449)
Q Consensus 202 ~~~~lyiCe~Cl~y~~~~~~l~~H~~~C~~~ 232 (449)
..+.||.|..|+|-|+.+.-|+.|+..|.+.
T Consensus 352 ss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 352 SSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred ccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 3466999999999999999999999887643
No 304
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=25.27 E-value=75 Score=35.39 Aligned_cols=42 Identities=17% Similarity=0.221 Sum_probs=35.6
Q ss_pred HHHHHHHHhCCC---CccHHHHHHhcCCChHHHHHHHHhcCceee
Q 013121 366 RVLLDILKKHKG---NISIKELSDMTAIKAEDILTTLQSLELIQY 407 (449)
Q Consensus 366 ~~il~~L~~~~~---~isi~~is~~Tgi~~~DIi~tL~~l~ll~~ 407 (449)
+.|++++.++.. .+||.+||+.+++++.=|+...+.||+=-|
T Consensus 359 ~~IA~yIl~n~~~v~~~si~eLA~~~~vS~aTV~Rf~kkLGf~Gf 403 (638)
T PRK14101 359 RRVADLALNHPRSIINDPIVDIARKADVSQPTVIRFCRSLGCQGL 403 (638)
T ss_pred HHHHHHHHhCHHHHHhccHHHHHHHhCCCHHHHHHHHHHhCCCCH
Confidence 567777777654 569999999999999999999999998655
No 305
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=25.14 E-value=1.7e+02 Score=30.01 Aligned_cols=54 Identities=24% Similarity=0.522 Sum_probs=37.9
Q ss_pred hhhHHHHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCceee-----eCCeEEEEe
Q 013121 362 GYWTRVLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQY-----RKGQHVICA 416 (449)
Q Consensus 362 sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~~-----~~g~~~i~~ 416 (449)
|==+=.||+.|.. ++.++++||+++.|+...-+ |..|+..|+|+- .+|.-.||+
T Consensus 22 S~vRv~Il~lL~~-k~plNvneiAe~lgLpqst~s~~ik~Le~aGlirT~t~karkG~QKiC~ 83 (308)
T COG4189 22 SKVRVAILQLLHR-KGPLNVNEIAEALGLPQSTMSANIKVLEKAGLIRTETVKARKGSQKICI 83 (308)
T ss_pred HHHHHHHHHHHHH-hCCCCHHHHHHHhCCchhhhhhhHHHHHhcCceeeeeeccccCceeEeE
Confidence 3334566776655 56899999999999876554 456888899974 356555553
No 306
>TIGR01958 nuoE_fam NADH-quinone oxidoreductase, E subunit. This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria.
Probab=25.13 E-value=1.2e+02 Score=27.75 Aligned_cols=50 Identities=14% Similarity=0.205 Sum_probs=38.8
Q ss_pred HHHHHHHHh---CCCCc---cHHHHHHhcCCChHHHHHHHHhcCceeee-CCeEEEE
Q 013121 366 RVLLDILKK---HKGNI---SIKELSDMTAIKAEDILTTLQSLELIQYR-KGQHVIC 415 (449)
Q Consensus 366 ~~il~~L~~---~~~~i---si~~is~~Tgi~~~DIi~tL~~l~ll~~~-~g~~~i~ 415 (449)
..|+..|+. .-+-| .++.||+.+||...+|-.+.....++... .|.|.|.
T Consensus 16 ~~li~~L~~vQ~~~G~i~~~~~~~iA~~l~~~~~~v~~v~tFY~~f~~~p~gk~~I~ 72 (148)
T TIGR01958 16 SAIMPALMIAQEQKGWVTPEAIAAVAEMLGIPPVWVYEVATFYSMFDTEPVGRYHLQ 72 (148)
T ss_pred hHHHHHHHHHHHHhCCCCHHHHHHHHHHhCcCHHHHHHHHhHHhhcCcCCCCCEEEE
Confidence 456666644 33344 78899999999999999999999999876 6777664
No 307
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=25.03 E-value=1.1e+02 Score=29.02 Aligned_cols=40 Identities=20% Similarity=0.271 Sum_probs=29.3
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHH---HHhcCce
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDILTT---LQSLELI 405 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~t---L~~l~ll 405 (449)
...|+++|.++ +.+++.+|++.++++..=|-.= |...|++
T Consensus 9 ~~~Il~~l~~~-~~~~~~~La~~~~vS~~TiRRDl~~L~~~g~~ 51 (185)
T PRK04424 9 QKALQELIEEN-PFITDEELAEKFGVSIQTIRLDRMELGIPELR 51 (185)
T ss_pred HHHHHHHHHHC-CCEEHHHHHHHHCcCHHHHHHHHHHHhcchHH
Confidence 35678888775 5899999999999998766443 4444544
No 308
>PRK11426 hypothetical protein; Provisional
Probab=24.86 E-value=95 Score=28.74 Aligned_cols=44 Identities=11% Similarity=0.197 Sum_probs=33.0
Q ss_pred CCC--CCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 344 KVG--TPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 344 ~~G--~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
.+| +|..|+|. +-|...-+.=+|++||+.||+.++++...|.+.
T Consensus 51 Wvg~g~~N~pIs~---------------~ql~~~lG~d~i~~lA~q~Gl~~~~~~~~LA~~ 96 (132)
T PRK11426 51 WLSNQQGNQSVSG---------------EQLESALGTNAVSDLGQKLGVDTSTASSLLAEQ 96 (132)
T ss_pred hhcCCCCCCCCCH---------------HHHHHHhChHHHHHHHHHHCcCHHHHHHHHHHH
Confidence 355 47899997 333332345689999999999999999998763
No 309
>KOG3766 consensus Polycomb group protein SCM/L(3)MBT (tumor-supressor in Drosophila and humans) [Transcription]
Probab=24.85 E-value=1.4e+02 Score=32.90 Aligned_cols=61 Identities=18% Similarity=0.259 Sum_probs=49.0
Q ss_pred CCCCcccCcEEEEEe--cCCceeeEEEEEEeccCCCCCCceeEEEeccccccc-ccccccccccccCCccc
Q 013121 60 SMLPLEVGTRVMCRW--RDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRR-LDEWVKLEQLDLDSVET 127 (449)
Q Consensus 60 ~~~~~~vGerVl~~~--~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkR-lDEWV~~~rl~l~~~~~ 127 (449)
....|+||.+|.+-- +-.....|+|.++-... +.-||+.+|+.- +|.|+..+.+.+-++..
T Consensus 197 ~~~~F~vgmkLEavd~~np~~IcvATV~~V~~~~-------~i~v~~d~~~~~~~d~~~~~~s~~I~Pv~~ 260 (478)
T KOG3766|consen 197 PPSRFQVGMKLEAVDDLNPSAICVATVVEVFDSR-------EILVHFDGWDKSELDYWCDHDSPKIFPVGW 260 (478)
T ss_pred CCCcceeccEEEEeccCCCcceeeeehheecccc-------eEEEEeccCCCcccceeEecCCCceeeeeE
Confidence 347899999999853 34456899999997642 589999999999 99999999987766554
No 310
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=24.41 E-value=1e+02 Score=34.11 Aligned_cols=43 Identities=14% Similarity=0.254 Sum_probs=34.7
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHH---HhcCceeee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTL---QSLELIQYR 408 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL---~~l~ll~~~ 408 (449)
..||..|.+....++..+||+.+|+..++|+.++ +..|++...
T Consensus 9 ~~iL~~l~~~~~~~~~~~la~~~~~~~~~v~~~~~~L~~kg~v~~~ 54 (494)
T PTZ00326 9 NTILSKLESENEIVNSLALAESLNIDHQKVVGAIKSLESANYITTE 54 (494)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHcCCCHHHHHHHHHHHHhCCCEEEE
Confidence 4678888775567999999999999999998875 566788754
No 311
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=24.14 E-value=1.4e+02 Score=26.19 Aligned_cols=41 Identities=10% Similarity=0.184 Sum_probs=31.0
Q ss_pred hHHHHHHHHHhC-CCCccHHHHHHhcCCChHHHHHHHHhc-Cc
Q 013121 364 WTRVLLDILKKH-KGNISIKELSDMTAIKAEDILTTLQSL-EL 404 (449)
Q Consensus 364 W~~~il~~L~~~-~~~isi~~is~~Tgi~~~DIi~tL~~l-~l 404 (449)
.-..++++|.++ ...+|+++||+.+||++.-+-..++.. |+
T Consensus 10 ~i~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~~~G~ 52 (127)
T PRK11511 10 TIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGH 52 (127)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHHHHCc
Confidence 345677888664 457999999999999988887777654 54
No 312
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=23.84 E-value=2.7e+02 Score=26.78 Aligned_cols=41 Identities=17% Similarity=0.293 Sum_probs=30.9
Q ss_pred CCCCc-cHHHHHHhcCCCh---HHHHHHHHhcCceeeeC--CeEEEE
Q 013121 375 HKGNI-SIKELSDMTAIKA---EDILTTLQSLELIQYRK--GQHVIC 415 (449)
Q Consensus 375 ~~~~i-si~~is~~Tgi~~---~DIi~tL~~l~ll~~~~--g~~~i~ 415 (449)
.+..+ |..+||+..|++. -+.+..|+..|+|...+ |-+|..
T Consensus 30 pG~~LpsE~eLa~~lgVSRtpVREAL~~L~~eGlv~~~~~~G~~V~~ 76 (254)
T PRK09464 30 PGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQGGGTFVQS 76 (254)
T ss_pred CCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecCceeEEec
Confidence 35678 9999999999986 56677778889998654 445544
No 313
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=23.84 E-value=1.2e+02 Score=25.06 Aligned_cols=42 Identities=26% Similarity=0.456 Sum_probs=34.1
Q ss_pred hHHHHHHHHHhCCCCccHHHHHHhc-CCChH---HHHHHHHhcCceee
Q 013121 364 WTRVLLDILKKHKGNISIKELSDMT-AIKAE---DILTTLQSLELIQY 407 (449)
Q Consensus 364 W~~~il~~L~~~~~~isi~~is~~T-gi~~~---DIi~tL~~l~ll~~ 407 (449)
|+-.|+..|.. +.....||.+.. ||+.. +-+..|++.|+|..
T Consensus 6 W~~~IL~~l~~--g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r 51 (90)
T PF01638_consen 6 WTLLILRALFQ--GPMRFSELQRRLPGISPKVLSQRLKELEEAGLVER 51 (90)
T ss_dssp THHHHHHHHTT--SSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CHHHHHHHHHh--CCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhc
Confidence 88899998877 689999999999 89875 45667788899964
No 314
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=23.61 E-value=62 Score=30.44 Aligned_cols=45 Identities=16% Similarity=0.301 Sum_probs=38.8
Q ss_pred hHHHHHHHHHh-CCCCccHHHHHHhcC-CChHHHHHHHHhcCceeee
Q 013121 364 WTRVLLDILKK-HKGNISIKELSDMTA-IKAEDILTTLQSLELIQYR 408 (449)
Q Consensus 364 W~~~il~~L~~-~~~~isi~~is~~Tg-i~~~DIi~tL~~l~ll~~~ 408 (449)
|.+.-++.|++ ...-+|..+|++..| ++..=||.-+..|||....
T Consensus 3 Wtde~~~~L~~lw~~G~SasqIA~~lg~vsRnAViGk~hRlgL~~~~ 49 (162)
T PF07750_consen 3 WTDERVERLRKLWAEGLSASQIARQLGGVSRNAVIGKAHRLGLSGRA 49 (162)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHhCCcchhhhhhhhhcccccccc
Confidence 78877887776 456799999999999 9999999999999998754
No 315
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=23.28 E-value=3.7e+02 Score=26.55 Aligned_cols=46 Identities=24% Similarity=0.244 Sum_probs=34.2
Q ss_pred CCCccHHHHHHhcCCChH---HHHHHHHhcCceeee--CCeEEEEeCHHHH
Q 013121 376 KGNISIKELSDMTAIKAE---DILTTLQSLELIQYR--KGQHVICADPKVL 421 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~---DIi~tL~~l~ll~~~--~g~~~i~~~~~~i 421 (449)
...+|..+||+.++++.. -++..|+..|+|... +....+.++++-.
T Consensus 19 ~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~ 69 (217)
T PRK14165 19 TVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIVPRGQLITITEKGL 69 (217)
T ss_pred CCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHHHH
Confidence 346999999999999874 556677788999764 3456777777543
No 316
>COG4226 HicB Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]
Probab=22.96 E-value=1.2e+02 Score=27.49 Aligned_cols=54 Identities=20% Similarity=0.259 Sum_probs=44.1
Q ss_pred cHHHHHHhcCCChHHHHHHHHhcCcee--eeCCeEEEEeCHHHHHHHHHHhcCCCc
Q 013121 380 SIKELSDMTAIKAEDILTTLQSLELIQ--YRKGQHVICADPKVLDRHLKAAGRGGL 433 (449)
Q Consensus 380 si~~is~~Tgi~~~DIi~tL~~l~ll~--~~~g~~~i~~~~~~i~~~~~~~~~~~~ 433 (449)
|+++|-+.+-++.+|++..-+..|.=- .+.|++-+.+++++-++...++.+.++
T Consensus 39 sv~~lk~~~~~s~~~yle~C~~~g~EP~k~~SGkf~~Ri~p~lH~~a~~aAa~qgi 94 (111)
T COG4226 39 SVKGLKKEGELSLDDYLEFCKERGIEPRKPYSGKFNLRIDPELHEAAALAAAAQGI 94 (111)
T ss_pred hHHHHHHHHHhhHHHHHHHHHHcCCCCccccCceeeEecCHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999864 467999999999887776544433333
No 317
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=22.76 E-value=1.2e+02 Score=25.97 Aligned_cols=43 Identities=23% Similarity=0.336 Sum_probs=32.6
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhc-----CCC---hHHHHHHHHhcCceee
Q 013121 365 TRVLLDILKKHKGNISIKELSDMT-----AIK---AEDILTTLQSLELIQY 407 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~T-----gi~---~~DIi~tL~~l~ll~~ 407 (449)
+..|+++|.+....+|.++|-+.. .|. +=-.+..|.+.|+|..
T Consensus 10 R~~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~ 60 (120)
T PF01475_consen 10 RLAILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRK 60 (120)
T ss_dssp HHHHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEE
Confidence 568899999877799999988765 343 4566788899999963
No 318
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=22.32 E-value=54 Score=23.87 Aligned_cols=20 Identities=20% Similarity=0.909 Sum_probs=8.6
Q ss_pred EEeccccccccCH--HHHHHHH
Q 013121 207 YFCEFCLNFMKRK--EQLQRHM 226 (449)
Q Consensus 207 yiCe~Cl~y~~~~--~~l~~H~ 226 (449)
|-||||-.|+..- ..-..|.
T Consensus 4 yyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 4 YYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -B-TTT--B-S--SHHHHHHHT
T ss_pred eecccccceecCCChHHHHHhh
Confidence 7899999999432 3435554
No 319
>COG1670 RimL Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]
Probab=22.23 E-value=1.6e+02 Score=25.37 Aligned_cols=21 Identities=29% Similarity=0.401 Sum_probs=15.2
Q ss_pred eeEEeecCcccccccchhhhhh
Q 013121 313 LACILTLPPYQRKGYGKFLIAF 334 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~f 334 (449)
+...+ -|.||++|||.-.+..
T Consensus 99 ig~~l-~~~~~g~G~~tea~~~ 119 (187)
T COG1670 99 IGYWL-DPEYWGKGYATEALRA 119 (187)
T ss_pred EEEEE-ChHHhcCchHHHHHHH
Confidence 44444 6999999999866543
No 320
>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=21.83 E-value=86 Score=33.65 Aligned_cols=67 Identities=18% Similarity=0.212 Sum_probs=42.7
Q ss_pred hhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhc
Q 013121 330 FLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSL 402 (449)
Q Consensus 330 ~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l 402 (449)
--+.+.+.||..+=....+.+. ..--.+-....||-.+.+ ...+|+++|++.|||..+++...|+.+
T Consensus 492 R~L~w~~~l~~~~i~~~~~~~~-----~~l~~s~~q~~iLl~Fn~-~~~~t~~ei~~~~~~~~~~l~~~L~~l 558 (588)
T PF00888_consen 492 RKLTWLPSLSSVEIEFNFNNGK-----YELTVSTLQAAILLLFND-NDSLTVEEISEKTGISEEELKRALKSL 558 (588)
T ss_dssp EEEEEEGGGEEEEEEEESSSSE-----EEEEEEHHHHHHHHGGGS-SSEEEHHHHHHHC---HHHHHHHHHCC
T ss_pred cEEEEecccCcEEEEEEecCCc-----eeEEeeHHHHHHHHHHcc-CCCccHHHHHHHHCcCHHHHHHHHHHH
Confidence 3455677777766554444443 112244555566665555 568999999999999999999999844
No 321
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=21.81 E-value=1.5e+02 Score=23.89 Aligned_cols=32 Identities=31% Similarity=0.417 Sum_probs=23.1
Q ss_pred CCCCccHHHHHHhcCCChHHH---HHHHHhcCcee
Q 013121 375 HKGNISIKELSDMTAIKAEDI---LTTLQSLELIQ 406 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~ 406 (449)
.-..|++++||++.++..++| +..|-..|.|.
T Consensus 57 ~y~~i~~~~ia~~l~~~~~~vE~~l~~~I~~~~i~ 91 (105)
T PF01399_consen 57 PYSSISISEIAKALQLSEEEVESILIDLISNGLIK 91 (105)
T ss_dssp C-SEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSE
T ss_pred HhcccchHHHHHHhccchHHHHHHHHHHHHCCCEE
Confidence 456899999999999997555 44445556664
No 322
>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=21.80 E-value=2.2e+02 Score=24.23 Aligned_cols=40 Identities=13% Similarity=0.292 Sum_probs=30.5
Q ss_pred hCCCCccHHHHHHhcCCCh---HHHHHHHHhcCceeee---CCeEE
Q 013121 374 KHKGNISIKELSDMTAIKA---EDILTTLQSLELIQYR---KGQHV 413 (449)
Q Consensus 374 ~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~ll~~~---~g~~~ 413 (449)
+.+..|.=++|++..++++ -.++..|++||+|... .|.++
T Consensus 19 ~~~~PVgSk~ia~~l~~s~aTIRN~M~~Le~lGlve~~p~~s~Gri 64 (78)
T PF03444_consen 19 ETGEPVGSKTIAEELGRSPATIRNEMADLEELGLVESQPHPSGGRI 64 (78)
T ss_pred hcCCCcCHHHHHHHHCCChHHHHHHHHHHHHCCCccCCCCCCCCCC
Confidence 3577898889999888875 5678899999999642 35554
No 323
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=21.71 E-value=1.7e+02 Score=22.78 Aligned_cols=47 Identities=15% Similarity=0.135 Sum_probs=31.4
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHH---HHHHHhcCcee-eeCCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDI---LTTLQSLELIQ-YRKGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DI---i~tL~~l~ll~-~~~g~~~i~ 415 (449)
.|++.|.+. .+|+++|++.+|++..=| +..|++.|+.. ..+..|.+.
T Consensus 4 ~il~~L~~~--~~~~~eLa~~l~vS~~tv~~~l~~L~~~g~~i~~~~~g~~l~ 54 (69)
T TIGR00122 4 RLLALLADN--PFSGEKLGEALGMSRTAVNKHIQTLREWGVDVLTVGKGYRLP 54 (69)
T ss_pred HHHHHHHcC--CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEecCCceEec
Confidence 567777643 578999999999997655 44556667743 334445554
No 324
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=21.66 E-value=75 Score=32.32 Aligned_cols=29 Identities=21% Similarity=0.337 Sum_probs=25.1
Q ss_pred CCcccCcEEEEEec-CCceeeEEEEEEecc
Q 013121 62 LPLEVGTRVMCRWR-DGKYHPVKVIERRKM 90 (449)
Q Consensus 62 ~~~~vGerVl~~~~-dg~~~~AeVIe~R~~ 90 (449)
..+.||++|+|-|. ||++|.|+|=.+...
T Consensus 89 ~~w~vg~K~~A~~~ddg~~y~AtIe~ita~ 118 (262)
T KOG3026|consen 89 VGWKVGDKVQAVFSDDGQIYDATIEHITAM 118 (262)
T ss_pred cccccCCEEEEeecCCCceEEeehhhccCC
Confidence 37999999999995 889999999888763
No 325
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=21.65 E-value=2.1e+02 Score=26.98 Aligned_cols=29 Identities=14% Similarity=0.287 Sum_probs=23.9
Q ss_pred CCCccHHHHHHhcCCChHHHHHHHHhcCc
Q 013121 376 KGNISIKELSDMTAIKAEDILTTLQSLEL 404 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~DIi~tL~~l~l 404 (449)
+...|..+||+.+|++.++|...+...+.
T Consensus 104 ~~~p~~~ela~~l~~~~~~v~~~~~~~~~ 132 (227)
T TIGR02980 104 GRSPTIAEIAEELGVSEEEVVEALEAGNS 132 (227)
T ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHhhcc
Confidence 34678999999999999999988775543
No 326
>PRK12423 LexA repressor; Provisional
Probab=21.59 E-value=1.9e+02 Score=27.57 Aligned_cols=46 Identities=13% Similarity=0.203 Sum_probs=34.9
Q ss_pred HHHHHHHHHh----CCCCccHHHHHHhcCC-Ch---HHHHHHHHhcCceeeeCC
Q 013121 365 TRVLLDILKK----HKGNISIKELSDMTAI-KA---EDILTTLQSLELIQYRKG 410 (449)
Q Consensus 365 ~~~il~~L~~----~~~~isi~~is~~Tgi-~~---~DIi~tL~~l~ll~~~~g 410 (449)
++.|++.|.+ ++-.-|+.||++..|+ +. ..-+..|+..|+|...++
T Consensus 8 q~~il~~l~~~i~~~g~~Ps~~eia~~~g~~s~~~v~~~l~~L~~~G~l~~~~~ 61 (202)
T PRK12423 8 RAAILAFIRERIAQAGQPPSLAEIAQAFGFASRSVARKHVQALAEAGLIEVVPN 61 (202)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEecCC
Confidence 4566776654 3334699999999996 44 577899999999997655
No 327
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=21.32 E-value=1.1e+02 Score=30.39 Aligned_cols=47 Identities=26% Similarity=0.429 Sum_probs=32.0
Q ss_pred hhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcC
Q 013121 337 ELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTA 389 (449)
Q Consensus 337 eLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tg 389 (449)
.+.++++..-+|+||+|. |.-| +...-+.+.+....+++.+|++..|
T Consensus 60 ~~~r~k~dpN~PKRp~sa-----yf~y-~~~~R~ei~~~~p~l~~~e~~k~~~ 106 (211)
T COG5648 60 RLVRKKKDPNGPKRPLSA-----YFLY-SAENRDEIRKENPKLTFGEVGKLLS 106 (211)
T ss_pred HHHHHhcCCCCCCCchhH-----HHHH-HHHHHHHHHHhCCCCChHHHHHHHH
Confidence 456788889999999986 3322 2333345555566789999887654
No 328
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=21.13 E-value=96 Score=23.38 Aligned_cols=24 Identities=13% Similarity=0.282 Sum_probs=20.9
Q ss_pred cHHHHHHhcCCChHHHHHHHHhcC
Q 013121 380 SIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 380 si~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
||+|||++.|++..=|-..|..-+
T Consensus 1 Ti~dIA~~agvS~~TVSr~ln~~~ 24 (46)
T PF00356_consen 1 TIKDIAREAGVSKSTVSRVLNGPP 24 (46)
T ss_dssp CHHHHHHHHTSSHHHHHHHHTTCS
T ss_pred CHHHHHHHHCcCHHHHHHHHhCCC
Confidence 799999999999999988887653
No 329
>PF09497 Med12: Transcription mediator complex subunit Med12; InterPro: IPR019035 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med12 is a component of the evolutionarily conserved Mediator complex []. The Med12 subunit may specifically regulate transcription of targets of the Wnt signaling pathway and SHH signaling pathway. Med12 is a negative regulator of the Gli3-dependent sonic hedgehog signaling pathway via its interaction with Gli3 within the Mediator. A complex is formed between Med12, Med13, CDK8 and CycC which is responsible for suppression of transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.10 E-value=65 Score=26.23 Aligned_cols=31 Identities=26% Similarity=0.293 Sum_probs=23.0
Q ss_pred CCCCCccCChhhhhHHHhhhHHHHHHHHHhC
Q 013121 345 VGTPERPLSDLGLLSYRGYWTRVLLDILKKH 375 (449)
Q Consensus 345 ~G~PErPLSDLG~~sY~sYW~~~il~~L~~~ 375 (449)
..+|..||+.|++..=..+.++.|++.|.++
T Consensus 22 La~~~~pL~~Lsk~iPhg~k~~~ll~~l~~~ 52 (64)
T PF09497_consen 22 LANPNVPLRKLSKKIPHGIKKEELLEQLCEY 52 (64)
T ss_pred HcCCCCCHHHHHHHCCCcccHHHHHHHHHHc
Confidence 3567888888887777777777887777654
No 330
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=21.00 E-value=1.9e+02 Score=33.86 Aligned_cols=50 Identities=20% Similarity=0.328 Sum_probs=37.2
Q ss_pred CCCccHHHHHHhcCCChHHHHHHHHhcCceeeeCCeEEEEeCHHHHHHHHHHhc
Q 013121 376 KGNISIKELSDMTAIKAEDILTTLQSLELIQYRKGQHVICADPKVLDRHLKAAG 429 (449)
Q Consensus 376 ~~~isi~~is~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~~~~~i~~~~~~~~ 429 (449)
...|||.|||.+.++...|||..|-.||+.... . . .++.+.++......+
T Consensus 220 ~~~itv~ela~~~~~~~~~ii~~l~~~g~~~~~-n-~--~l~~~~~~~i~~e~g 269 (787)
T PRK05306 220 PETITVAELAEKMAVKAAEVIKKLFKLGVMATI-N-Q--SLDQETAELLAEEFG 269 (787)
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHHcCCeecC-C-C--ccCHHHHHHHHHHcC
Confidence 468999999999999999999999999985321 1 2 356666555544443
No 331
>PRK00110 hypothetical protein; Validated
Probab=20.94 E-value=2.4e+02 Score=28.37 Aligned_cols=40 Identities=15% Similarity=0.260 Sum_probs=30.2
Q ss_pred eCCeEEEEeCHHHHHHHHHHhcCCCceeeCCCceEecCCC
Q 013121 408 RKGQHVICADPKVLDRHLKAAGRGGLEVDVSKLIWTPYKE 447 (449)
Q Consensus 408 ~~g~~~i~~~~~~i~~~~~~~~~~~~~id~~~L~W~P~~~ 447 (449)
..|.+.|..+++.+....+.....++.+..+.|.|.|...
T Consensus 165 e~~~~~i~~~p~~~~~v~~~L~~~g~~~~~sei~~~P~~~ 204 (245)
T PRK00110 165 DDESFEVITAPEDFEAVRDALEAAGLEAESAEVTMIPQNT 204 (245)
T ss_pred cCCeEEEEECHHHHHHHHHHHHHcCCCeeeeEEEEecCCC
Confidence 4567888888887777666655566778889999999754
No 332
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family. This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393).
Probab=20.89 E-value=2.1e+02 Score=28.67 Aligned_cols=27 Identities=19% Similarity=0.227 Sum_probs=22.9
Q ss_pred CCccHHHHHHhcCCChHHHHHHHHhcC
Q 013121 377 GNISIKELSDMTAIKAEDILTTLQSLE 403 (449)
Q Consensus 377 ~~isi~~is~~Tgi~~~DIi~tL~~l~ 403 (449)
...|+.+|++.+||+.++|...++...
T Consensus 176 ~~pt~~eia~~l~~~~~~v~~~~~~~~ 202 (298)
T TIGR02997 176 RTPSEAEIAEALELEPEQVRELLQRAR 202 (298)
T ss_pred CCCCHHHHHHHhCCCHHHHHHHHHHcc
Confidence 456899999999999999998887543
No 333
>KOG3139 consensus N-acetyltransferase [General function prediction only]
Probab=20.87 E-value=2e+02 Score=27.75 Aligned_cols=57 Identities=21% Similarity=0.307 Sum_probs=38.5
Q ss_pred eeEEeecCcccccccchhhhhhchhhhhccCCCCCCCccCChhhhhHHHhhhHHHHHHHHHhCCCCccHHHHHHhcCCCh
Q 013121 313 LACILTLPPYQRKGYGKFLIAFSYELSKKEGKVGTPERPLSDLGLLSYRGYWTRVLLDILKKHKGNISIKELSDMTAIKA 392 (449)
Q Consensus 313 LaCIl~lP~yQrkGyG~~LI~fSYeLSr~E~~~G~PErPLSDLG~~sY~sYW~~~il~~L~~~~~~isi~~is~~Tgi~~ 392 (449)
++=.-|=+.|||+|+|+.|..-+ ++...+.+ -++|+-.|.++.
T Consensus 87 i~mLaV~~e~Rg~GIg~aLvr~a---------------------------------Id~m~~~g----~~eVvLeTe~~n 129 (165)
T KOG3139|consen 87 IAMLAVDSEYRGQGIGKALVRKA---------------------------------IDAMRSRG----YSEVVLETEVTN 129 (165)
T ss_pred EEEEEechhhccccHHHHHHHHH---------------------------------HHHHHHCC----CcEEEEeccccc
Confidence 66677889999999999887543 34443321 123444566666
Q ss_pred HHHHHHHHhcCcee
Q 013121 393 EDILTTLQSLELIQ 406 (449)
Q Consensus 393 ~DIi~tL~~l~ll~ 406 (449)
.--+..-+.||+++
T Consensus 130 ~~A~~LY~sLGF~r 143 (165)
T KOG3139|consen 130 LSALRLYESLGFKR 143 (165)
T ss_pred hHHHHHHHhcCceE
Confidence 66777788888887
No 334
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=20.84 E-value=93 Score=24.82 Aligned_cols=27 Identities=19% Similarity=0.459 Sum_probs=19.2
Q ss_pred CCCcEEEeccccccccCHHHHHHHHhh
Q 013121 202 DCLKLYFCEFCLNFMKRKEQLQRHMRK 228 (449)
Q Consensus 202 ~~~~lyiCe~Cl~y~~~~~~l~~H~~~ 228 (449)
.....-.|.-|-..+.....|.||+..
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~ 46 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEI 46 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHH
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHH
Confidence 346788999999999999999999963
No 335
>cd04780 HTH_MerR-like_sg5 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 5), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.81 E-value=98 Score=26.29 Aligned_cols=43 Identities=12% Similarity=0.146 Sum_probs=30.2
Q ss_pred ccHHHHHHhcCCChHHHHHHHHhcCceeee---CCeEEEEeCHHHHHH
Q 013121 379 ISIKELSDMTAIKAEDILTTLQSLELIQYR---KGQHVICADPKVLDR 423 (449)
Q Consensus 379 isi~~is~~Tgi~~~DIi~tL~~l~ll~~~---~g~~~i~~~~~~i~~ 423 (449)
++|.++|++|||++. -|.-....|+|... .++|.. .+.+.+++
T Consensus 1 m~I~eva~~~gvs~~-tlR~Ye~~GLl~p~~r~~~g~r~-Y~~~dv~~ 46 (95)
T cd04780 1 MRMSELSKRSGVSVA-TIKYYLREGLLPEGRRLAPNQAE-YSEAHVER 46 (95)
T ss_pred CCHHHHHHHHCcCHH-HHHHHHHCCCCCCCcCCCCCCee-cCHHHHHH
Confidence 589999999999988 45567789998652 334443 46655554
No 336
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=20.68 E-value=2.4e+02 Score=22.01 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=21.3
Q ss_pred CCCCccHHHHHHhcCCChHHHHHHHH
Q 013121 375 HKGNISIKELSDMTAIKAEDILTTLQ 400 (449)
Q Consensus 375 ~~~~isi~~is~~Tgi~~~DIi~tL~ 400 (449)
....+|++|||+..||+..-+..-|.
T Consensus 20 ~PR~~tl~elA~~lgis~st~~~~LR 45 (53)
T PF04967_consen 20 VPRRITLEELAEELGISKSTVSEHLR 45 (53)
T ss_pred CCCcCCHHHHHHHhCCCHHHHHHHHH
Confidence 35689999999999999887766554
No 337
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=20.51 E-value=2.7e+02 Score=23.66 Aligned_cols=51 Identities=12% Similarity=0.196 Sum_probs=38.3
Q ss_pred HHHHHHHHhCCCCccHHHHH----------------HhcCCChHHHHHHHHhcCceeeeCCeEEEEe
Q 013121 366 RVLLDILKKHKGNISIKELS----------------DMTAIKAEDILTTLQSLELIQYRKGQHVICA 416 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is----------------~~Tgi~~~DIi~tL~~l~ll~~~~g~~~i~~ 416 (449)
..||+.|.+.+..+|..+|. ...+|+.+.++.-|...|=+....+.+.+..
T Consensus 7 HeVL~mmi~~~~~~t~~~L~~ai~~~FG~~arFhTCSae~m~a~eLv~FL~~rgKfi~~~~g~t~~~ 73 (78)
T PF10678_consen 7 HEVLNMMIESGNPYTKEELKAAIIEKFGEDARFHTCSAEGMTADELVDFLEERGKFIPSDDGFTVNA 73 (78)
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHHHHhCCCceEEecCCCCCCHHHHHHHHHHcCCEeecCCCEEEch
Confidence 46788888888888888883 3456888999988888887766666666543
No 338
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=20.49 E-value=1.4e+02 Score=33.14 Aligned_cols=43 Identities=7% Similarity=0.239 Sum_probs=34.0
Q ss_pred HHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHH---HhcCceeee
Q 013121 366 RVLLDILKKHKGNISIKELSDMTAIKAEDILTTL---QSLELIQYR 408 (449)
Q Consensus 366 ~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL---~~l~ll~~~ 408 (449)
..||..|......++..+||+.+|+..++|+.++ +..|++...
T Consensus 6 ~~iL~~l~~~~~~~~~~~la~~~g~~~~~v~~~~~~L~~kg~v~~~ 51 (492)
T PLN02853 6 EALLGALSNNEEISDSGQFAASHGLDHNEVVGVIKSLHGFRYVDAQ 51 (492)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHcCCCHHHHHHHHHHHHhCCCEEEE
Confidence 4677888775445899999999999999998875 566788754
No 339
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=20.48 E-value=1.6e+02 Score=27.13 Aligned_cols=51 Identities=24% Similarity=0.360 Sum_probs=39.1
Q ss_pred HHHHHHHHHh---CCCCc---cHHHHHHhcCCChHHHHHHHHhcCceeee-CCeEEEE
Q 013121 365 TRVLLDILKK---HKGNI---SIKELSDMTAIKAEDILTTLQSLELIQYR-KGQHVIC 415 (449)
Q Consensus 365 ~~~il~~L~~---~~~~i---si~~is~~Tgi~~~DIi~tL~~l~ll~~~-~g~~~i~ 415 (449)
+..|+.+|.. .-+-| .+..||+.+++...+|-..+....++... +|.|.|.
T Consensus 21 ~~~ll~~L~~vQ~~~g~ip~~~~~~iA~~l~v~~~~v~~v~tFY~~f~~~p~gk~~I~ 78 (154)
T PRK07539 21 RSAVIPALKIVQEQRGWVPDEAIEAVADYLGMPAIDVEEVATFYSMIFRQPVGRHVIQ 78 (154)
T ss_pred HHHHHHHHHHHHHHhCCCCHHHHHHHHHHhCcCHHHHHHHHHHHhhhCcCCCCCEEEE
Confidence 3456666643 23344 78899999999999999999999999876 4787763
No 340
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=20.26 E-value=2.8e+02 Score=28.47 Aligned_cols=49 Identities=18% Similarity=0.314 Sum_probs=36.9
Q ss_pred HHHHHHHhCCCCccHHHHHHhcCCChHHHHHHHHhc---Cceeee-CCeEEEE
Q 013121 367 VLLDILKKHKGNISIKELSDMTAIKAEDILTTLQSL---ELIQYR-KGQHVIC 415 (449)
Q Consensus 367 ~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL~~l---~ll~~~-~g~~~i~ 415 (449)
.||-.|..+...+.-+|||+..||+..-|..-+++| |++... +|.|.|.
T Consensus 14 qIL~ei~~~qp~v~q~eIA~~lgiT~QaVsehiK~Lv~eG~i~~~gR~~Y~iT 66 (260)
T COG1497 14 QILSEIAVRQPRVKQKEIAKKLGITLQAVSEHIKELVKEGLIEKEGRGEYEIT 66 (260)
T ss_pred HHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHHHhccceeecCCeeEEEe
Confidence 455555555678999999999999999888777665 888764 4467754
No 341
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=20.23 E-value=4.4e+02 Score=26.99 Aligned_cols=58 Identities=19% Similarity=0.298 Sum_probs=45.3
Q ss_pred HHHHHHHHHhCCCCccHHHHHHhcCCChHHHHHHH---HhcCceeeeCCeEEEEeCHHHHHHH
Q 013121 365 TRVLLDILKKHKGNISIKELSDMTAIKAEDILTTL---QSLELIQYRKGQHVICADPKVLDRH 424 (449)
Q Consensus 365 ~~~il~~L~~~~~~isi~~is~~Tgi~~~DIi~tL---~~l~ll~~~~g~~~i~~~~~~i~~~ 424 (449)
|..||-.|.+ +.-||+||....+++..-|+..| ...|+|...++.|.+..--+++-..
T Consensus 15 Rk~lLllL~e--gPkti~EI~~~l~vs~~ai~pqiKkL~~~~LV~~~~~~Y~LS~~G~iiv~k 75 (260)
T COG4742 15 RKDLLLLLKE--GPKTIEEIKNELNVSSSAILPQIKKLKDKGLVVQEGDRYSLSSLGKIIVEK 75 (260)
T ss_pred HHHHHHHHHh--CCCCHHHHHHHhCCCcHHHHHHHHHHhhCCCEEecCCEEEecchHHHHHHH
Confidence 4566777766 68999999999999998887665 5678999999999987665555443
No 342
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=20.13 E-value=2.5e+02 Score=25.74 Aligned_cols=48 Identities=23% Similarity=0.187 Sum_probs=34.2
Q ss_pred CCCcccCcEEEEEecCCce--eeEEEEEEeccCCCCCCceeEEEeccccccccccccc
Q 013121 61 MLPLEVGTRVMCRWRDGKY--HPVKVIERRKMHFGGPNDYEYYVHYTEFNRRLDEWVK 116 (449)
Q Consensus 61 ~~~~~vGerVl~~~~dg~~--~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkRlDEWV~ 116 (449)
...+++|++|.+. +|.+ ++|+|++++... ....|...-+++..-=.|+
T Consensus 124 ~~~~~~Gd~VrI~--~GPf~G~~g~v~~i~~~~------~r~~v~l~~~G~~~~v~l~ 173 (181)
T PRK05609 124 KVDFEVGEMVRVI--DGPFADFNGTVEEVDYEK------SKLKVLVSIFGRETPVELE 173 (181)
T ss_pred ccCCCCCCEEEEe--ccCCCCCEEEEEEEeCCC------CEEEEEEEECCCceEEEEc
Confidence 4668999999997 4776 899999987432 2677777777666433333
No 343
>KOG4327 consensus mRNA splicing protein SMN (survival motor neuron) [RNA processing and modification]
Probab=20.11 E-value=1.2e+02 Score=30.24 Aligned_cols=57 Identities=19% Similarity=0.243 Sum_probs=39.1
Q ss_pred hhhhHHHHHhhcCCCCcccCcEEEEEe-cCCceeeEEEEEEeccCCCCCCceeEEEeccccccc
Q 013121 48 AQESEATRKRRASMLPLEVGTRVMCRW-RDGKYHPVKVIERRKMHFGGPNDYEYYVHYTEFNRR 110 (449)
Q Consensus 48 ~~e~~~~~~~~~~~~~~~vGerVl~~~-~dg~~~~AeVIe~R~~~~~~~~~~~YYVHY~g~nkR 110 (449)
|+-+.......+.+..|+||++.++.+ ++|-.|+|.|..+....+ .+- |.|.++-.|
T Consensus 52 k~~s~~~k~ts~~~~~wKVgdkc~A~Y~e~g~~ypatidsi~~~~~-----tcv-v~ylgygnr 109 (218)
T KOG4327|consen 52 KKNSSQKKNTSASLQQWKVGDKCSAIYSEDGCIYPATIDSIDFKRE-----TCV-VVYLGYGNR 109 (218)
T ss_pred hhhhhhccCCccchhhheecceeeeeeecCcccccceecccccccC-----ceE-EEEEeecch
Confidence 333333444456788999999999966 455668999999885432 233 777777776
Done!