Query 017095
Match_columns 377
No_of_seqs 209 out of 472
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 05:34:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017095.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017095hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2577 Transcription factor E 100.0 1.5E-66 3.2E-71 511.4 25.3 188 62-255 60-247 (354)
2 PF02319 E2F_TDP: E2F/DP famil 99.9 7.2E-23 1.6E-27 161.2 5.6 66 70-135 1-71 (71)
3 KOG2578 Transcription factor E 99.8 9.7E-20 2.1E-24 177.7 5.6 87 63-154 14-100 (388)
4 KOG2578 Transcription factor E 99.0 1.7E-10 3.7E-15 113.6 4.6 76 64-139 150-241 (388)
5 KOG2829 E2F-like protein [Tran 98.9 1.3E-08 2.8E-13 99.8 13.8 138 84-242 52-218 (326)
6 PF01978 TrmB: Sugar-specific 94.5 0.038 8.3E-07 42.3 3.2 45 90-134 19-63 (68)
7 PF08279 HTH_11: HTH domain; 92.6 0.21 4.6E-06 36.5 4.2 41 80-121 3-43 (55)
8 smart00420 HTH_DEOR helix_turn 91.9 0.23 5.1E-06 34.7 3.6 45 81-127 4-48 (53)
9 cd00092 HTH_CRP helix_turn_hel 91.6 0.42 9E-06 35.4 4.9 54 78-131 5-63 (67)
10 smart00550 Zalpha Z-DNA-bindin 90.4 0.43 9.3E-06 37.3 4.1 55 80-134 9-63 (68)
11 COG1378 Predicted transcriptio 90.2 0.83 1.8E-05 44.2 6.7 81 82-181 22-102 (247)
12 smart00346 HTH_ICLR helix_turn 89.4 0.67 1.5E-05 36.5 4.5 47 80-127 8-54 (91)
13 PF09339 HTH_IclR: IclR helix- 88.8 0.36 7.7E-06 35.4 2.4 45 81-126 7-51 (52)
14 PF13412 HTH_24: Winged helix- 87.8 0.76 1.6E-05 32.8 3.5 43 80-124 6-48 (48)
15 PF12802 MarR_2: MarR family; 87.6 0.74 1.6E-05 33.8 3.5 46 81-126 9-54 (62)
16 smart00418 HTH_ARSR helix_turn 86.3 0.86 1.9E-05 32.3 3.1 38 91-128 8-45 (66)
17 COG3355 Predicted transcriptio 84.6 4.9 0.00011 35.8 7.6 85 82-181 33-120 (126)
18 PF02082 Rrf2: Transcriptional 84.2 1.5 3.2E-05 35.0 3.9 49 78-126 9-58 (83)
19 TIGR02944 suf_reg_Xantho FeS a 83.5 1.2 2.7E-05 37.9 3.4 46 81-126 13-58 (130)
20 PF13730 HTH_36: Helix-turn-he 82.5 1.6 3.4E-05 31.8 3.1 29 95-123 27-55 (55)
21 PF01047 MarR: MarR family; I 80.8 1.5 3.3E-05 32.1 2.6 44 82-127 8-51 (59)
22 PF09079 Cdc6_C: CDC6, C termi 80.6 0.69 1.5E-05 36.9 0.7 30 97-126 26-58 (85)
23 cd00090 HTH_ARSR Arsenical Res 79.7 3 6.5E-05 30.2 3.8 47 80-129 10-56 (78)
24 PF13463 HTH_27: Winged helix 79.7 2.5 5.4E-05 31.5 3.4 38 89-126 14-51 (68)
25 PF14394 DUF4423: Domain of un 79.1 24 0.00052 32.4 10.3 45 88-132 34-80 (171)
26 cd08768 Cdc6_C Winged-helix do 79.1 1.2 2.5E-05 35.2 1.5 22 105-126 44-65 (87)
27 smart00345 HTH_GNTR helix_turn 79.0 2.9 6.4E-05 29.8 3.5 41 89-129 15-56 (60)
28 smart00419 HTH_CRP helix_turn_ 77.4 2.3 5.1E-05 29.4 2.5 38 93-131 8-45 (48)
29 PF00392 GntR: Bacterial regul 74.7 3.5 7.5E-05 31.2 3.1 50 80-129 7-60 (64)
30 PF08784 RPA_C: Replication pr 74.1 4 8.7E-05 33.6 3.5 50 74-123 44-95 (102)
31 cd00890 Prefoldin Prefoldin is 73.4 16 0.00035 30.6 7.1 55 127-181 68-122 (129)
32 PHA02943 hypothetical protein; 71.6 20 0.00042 33.5 7.6 47 80-129 14-60 (165)
33 PRK10163 DNA-binding transcrip 71.5 14 0.00031 35.6 7.1 54 81-135 29-82 (271)
34 TIGR00738 rrf2_super rrf2 fami 69.9 6.9 0.00015 33.1 4.1 37 90-126 22-58 (132)
35 TIGR00122 birA_repr_reg BirA b 69.6 5.6 0.00012 30.4 3.2 40 81-123 4-43 (69)
36 PF04182 B-block_TFIIIC: B-blo 69.3 5.7 0.00012 31.5 3.3 49 80-128 5-53 (75)
37 PF08220 HTH_DeoR: DeoR-like h 68.0 6.8 0.00015 29.5 3.3 45 80-126 3-47 (57)
38 TIGR02147 Fsuc_second hypothet 67.5 54 0.0012 32.5 10.3 40 90-129 134-175 (271)
39 PF01022 HTH_5: Bacterial regu 67.2 5.3 0.00012 28.7 2.5 42 81-125 6-47 (47)
40 TIGR02231 conserved hypothetic 64.2 50 0.0011 34.9 9.9 94 147-259 139-240 (525)
41 PRK09834 DNA-binding transcrip 64.1 9.3 0.0002 36.5 4.2 50 82-132 16-66 (263)
42 PF12840 HTH_20: Helix-turn-he 63.8 4.9 0.00011 30.1 1.8 45 81-127 14-58 (61)
43 PF09012 FeoC: FeoC like trans 63.6 4.5 9.8E-05 31.3 1.6 40 91-130 12-51 (69)
44 PF01325 Fe_dep_repress: Iron 63.5 14 0.0003 28.4 4.2 42 86-128 16-57 (60)
45 cd07377 WHTH_GntR Winged helix 62.7 13 0.00029 26.8 4.0 34 94-127 26-59 (66)
46 cd04766 HTH_HspR Helix-Turn-He 62.5 21 0.00045 28.9 5.4 27 94-124 2-28 (91)
47 smart00344 HTH_ASNC helix_turn 62.5 9.2 0.0002 31.2 3.4 47 78-126 4-50 (108)
48 TIGR01610 phage_O_Nterm phage 62.4 12 0.00026 30.9 4.0 45 90-136 44-88 (95)
49 smart00347 HTH_MARR helix_turn 62.0 14 0.00029 28.7 4.1 44 81-126 14-57 (101)
50 COG1474 CDC6 Cdc6-related prot 61.4 5.7 0.00012 40.6 2.3 29 96-124 304-332 (366)
51 cd00584 Prefoldin_alpha Prefol 60.8 33 0.00071 29.3 6.6 53 129-181 70-122 (129)
52 TIGR02702 SufR_cyano iron-sulf 60.6 59 0.0013 30.0 8.6 45 80-126 4-48 (203)
53 COG2739 Uncharacterized protei 59.8 7.7 0.00017 33.8 2.5 40 76-115 16-55 (105)
54 PRK10411 DNA-binding transcrip 59.8 38 0.00083 32.4 7.5 54 80-135 7-60 (240)
55 PRK09954 putative kinase; Prov 59.3 10 0.00022 37.5 3.6 46 79-126 5-50 (362)
56 TIGR01764 excise DNA binding d 59.1 6.3 0.00014 27.0 1.6 22 94-115 2-23 (49)
57 PRK05014 hscB co-chaperone Hsc 59.0 1E+02 0.0022 28.3 9.8 96 70-177 12-127 (171)
58 PF13518 HTH_28: Helix-turn-he 58.5 9.1 0.0002 27.0 2.4 38 81-122 4-41 (52)
59 PRK00888 ftsB cell division pr 58.5 26 0.00057 29.9 5.5 60 148-213 29-90 (105)
60 PRK11414 colanic acid/biofilm 58.3 23 0.00049 32.6 5.5 56 74-129 11-70 (221)
61 PF01726 LexA_DNA_bind: LexA D 58.2 8.7 0.00019 30.1 2.4 46 82-127 14-60 (65)
62 cd04770 HTH_HMRTR Helix-Turn-H 58.0 27 0.00058 29.6 5.5 38 94-135 1-40 (123)
63 PF12329 TMF_DNA_bd: TATA elem 57.9 26 0.00057 28.2 5.1 37 145-181 11-47 (74)
64 PRK03947 prefoldin subunit alp 57.9 40 0.00088 29.3 6.7 51 129-179 77-127 (140)
65 cd04775 HTH_Cfa-like Helix-Tur 57.7 33 0.00072 28.5 5.9 36 94-133 2-38 (102)
66 TIGR02337 HpaR homoprotocatech 57.4 8.3 0.00018 32.2 2.3 37 91-127 40-76 (118)
67 TIGR02716 C20_methyl_CrtF C-20 57.2 7.1 0.00015 37.8 2.1 40 91-131 21-60 (306)
68 PF04977 DivIC: Septum formati 56.9 28 0.0006 26.8 5.0 36 147-182 18-53 (80)
69 cd00632 Prefoldin_beta Prefold 56.8 19 0.00041 30.1 4.3 77 99-179 21-103 (105)
70 COG1414 IclR Transcriptional r 56.4 15 0.00033 35.2 4.1 50 81-131 8-58 (246)
71 COG1510 Predicted transcriptio 56.1 30 0.00064 32.7 5.8 39 90-128 38-76 (177)
72 PRK09413 IS2 repressor TnpA; R 56.1 96 0.0021 26.5 8.6 31 92-122 28-58 (121)
73 PRK11511 DNA-binding transcrip 55.4 19 0.00042 30.8 4.3 42 75-116 7-48 (127)
74 PF07106 TBPIP: Tat binding pr 55.2 1.3E+02 0.0028 27.1 9.7 96 82-179 6-105 (169)
75 PF14257 DUF4349: Domain of un 54.9 48 0.001 31.7 7.3 88 73-171 59-157 (262)
76 KOG3863 bZIP transcription fac 54.5 24 0.00052 38.8 5.7 69 111-182 479-554 (604)
77 smart00529 HTH_DTXR Helix-turn 54.0 9.8 0.00021 30.3 2.1 32 96-127 2-33 (96)
78 TIGR01889 Staph_reg_Sar staphy 53.5 17 0.00036 30.3 3.5 45 83-127 31-77 (109)
79 PF08280 HTH_Mga: M protein tr 53.4 13 0.00028 28.1 2.6 36 81-118 9-44 (59)
80 PF08781 DP: Transcription fac 53.4 39 0.00085 30.8 6.0 34 206-246 58-91 (142)
81 PRK00215 LexA repressor; Valid 53.2 16 0.00035 33.4 3.6 42 88-129 18-60 (205)
82 PF13545 HTH_Crp_2: Crp-like h 53.0 13 0.00028 28.3 2.6 51 78-128 3-63 (76)
83 cd04789 HTH_Cfa Helix-Turn-Hel 52.8 40 0.00087 28.1 5.7 37 94-134 2-39 (102)
84 PRK11569 transcriptional repre 52.1 63 0.0014 31.1 7.6 45 82-127 33-77 (274)
85 TIGR00293 prefoldin, archaeal 51.5 62 0.0013 27.5 6.7 54 128-181 68-121 (126)
86 PRK10870 transcriptional repre 51.1 72 0.0016 29.0 7.5 40 87-126 65-104 (176)
87 PRK03573 transcriptional regul 50.8 1.2E+02 0.0026 26.0 8.5 35 93-127 46-80 (144)
88 TIGR02431 pcaR_pcaU beta-ketoa 50.7 21 0.00045 33.7 4.0 44 82-126 14-57 (248)
89 TIGR02010 IscR iron-sulfur clu 50.5 25 0.00054 30.5 4.2 38 88-125 20-57 (135)
90 PRK10219 DNA-binding transcrip 50.3 24 0.00052 28.8 3.9 40 77-116 5-44 (107)
91 PRK15090 DNA-binding transcrip 49.9 67 0.0014 30.5 7.4 47 81-129 18-64 (257)
92 cd04784 HTH_CadR-PbrR Helix-Tu 49.9 46 0.00099 28.5 5.7 79 94-181 1-100 (127)
93 TIGR02297 HpaA 4-hydroxyphenyl 49.5 19 0.00042 33.8 3.6 43 77-119 186-228 (287)
94 TIGR02366 DHAK_reg probable di 49.5 20 0.00043 31.2 3.5 36 76-111 6-41 (176)
95 COG1777 Predicted transcriptio 48.5 1.2E+02 0.0026 29.6 8.7 43 80-125 18-60 (217)
96 COG4189 Predicted transcriptio 48.4 16 0.00035 36.4 2.9 52 73-126 18-70 (308)
97 PF09940 DUF2172: Domain of un 48.3 14 0.00031 38.6 2.7 48 73-124 339-386 (386)
98 TIGR02338 gimC_beta prefoldin, 48.1 42 0.0009 28.4 5.1 84 96-180 19-108 (110)
99 TIGR00498 lexA SOS regulatory 48.0 24 0.00052 32.1 3.9 48 80-127 9-60 (199)
100 PRK06474 hypothetical protein; 47.1 1.8E+02 0.0039 26.8 9.5 46 81-127 15-61 (178)
101 KOG1318 Helix loop helix trans 46.6 19 0.0004 38.0 3.3 76 104-181 239-318 (411)
102 PRK14165 winged helix-turn-hel 46.4 45 0.00097 32.1 5.6 48 81-128 8-56 (217)
103 COG1382 GimC Prefoldin, chaper 45.9 49 0.0011 29.4 5.3 70 112-182 38-113 (119)
104 cd01109 HTH_YyaN Helix-Turn-He 45.9 56 0.0012 27.4 5.6 35 95-133 2-38 (113)
105 TIGR01884 cas_HTH CRISPR locus 45.6 29 0.00063 32.0 4.1 45 81-127 147-191 (203)
106 PRK10857 DNA-binding transcrip 45.6 21 0.00045 32.6 3.1 39 88-126 20-58 (164)
107 PRK13626 transcriptional regul 45.1 48 0.001 35.1 6.1 48 77-124 5-54 (552)
108 TIGR02047 CadR-PbrR Cd(II)/Pb( 45.1 59 0.0013 28.1 5.7 81 94-181 1-100 (127)
109 COG1846 MarR Transcriptional r 44.9 26 0.00056 27.9 3.2 44 82-127 27-70 (126)
110 PRK11014 transcriptional repre 44.7 25 0.00055 30.6 3.4 42 87-128 19-60 (141)
111 cd04783 HTH_MerR1 Helix-Turn-H 44.2 1.1E+02 0.0023 26.3 7.1 37 95-135 2-40 (126)
112 PRK11050 manganese transport r 43.7 44 0.00095 29.8 4.8 54 75-128 31-86 (152)
113 PRK11534 DNA-binding transcrip 43.5 77 0.0017 29.1 6.5 46 89-134 26-71 (224)
114 PRK09802 DNA-binding transcrip 43.3 1.2E+02 0.0027 29.5 8.2 51 78-130 18-68 (269)
115 PRK09343 prefoldin subunit bet 42.8 58 0.0012 28.3 5.3 82 99-181 26-113 (121)
116 PRK13509 transcriptional repre 42.4 23 0.00049 34.0 3.0 44 81-126 9-52 (251)
117 PF05377 FlaC_arch: Flagella a 41.9 79 0.0017 24.7 5.3 39 143-181 4-42 (55)
118 TIGR03338 phnR_burk phosphonat 41.8 53 0.0012 29.8 5.1 41 89-129 30-70 (212)
119 COG2894 MinD Septum formation 41.5 9.8 0.00021 37.7 0.3 30 92-121 39-68 (272)
120 PF05732 RepL: Firmicute plasm 41.1 34 0.00073 31.4 3.7 39 93-131 75-113 (165)
121 KOG2577 Transcription factor E 40.9 2E+02 0.0043 30.1 9.5 34 314-349 318-351 (354)
122 PF05565 Sipho_Gp157: Siphovir 40.8 2.7E+02 0.0058 25.3 9.5 31 74-104 2-32 (162)
123 PRK10130 transcriptional regul 40.6 31 0.00066 35.0 3.7 40 76-115 239-278 (350)
124 PF10779 XhlA: Haemolysin XhlA 40.4 84 0.0018 24.8 5.4 35 147-181 14-48 (71)
125 COG1802 GntR Transcriptional r 40.3 51 0.0011 30.5 4.9 42 88-129 34-75 (230)
126 PRK09464 pdhR transcriptional 39.0 3E+02 0.0066 25.7 9.9 54 74-127 10-68 (254)
127 PF03444 HrcA_DNA-bdg: Winged 38.9 59 0.0013 26.9 4.4 47 79-126 10-56 (78)
128 PF05491 RuvB_C: Holliday junc 38.8 51 0.0011 27.2 4.0 58 74-131 5-64 (76)
129 PF12793 SgrR_N: Sugar transpo 38.7 1.3E+02 0.0028 26.0 6.8 47 78-124 2-50 (115)
130 cd04762 HTH_MerR-trunc Helix-T 38.7 29 0.00063 23.4 2.3 23 94-116 1-23 (49)
131 PF03374 ANT: Phage antirepres 38.4 32 0.0007 28.4 2.9 42 81-126 13-54 (111)
132 COG1522 Lrp Transcriptional re 38.2 42 0.0009 28.8 3.7 50 75-126 6-55 (154)
133 PF04111 APG6: Autophagy prote 37.2 69 0.0015 32.2 5.6 36 148-183 59-94 (314)
134 PRK09391 fixK transcriptional 36.0 68 0.0015 29.7 5.0 39 94-132 180-218 (230)
135 COG4519 Uncharacterized protei 35.7 51 0.0011 28.0 3.6 42 82-124 12-53 (95)
136 PF05930 Phage_AlpA: Prophage 35.5 24 0.00052 25.9 1.5 24 92-115 2-25 (51)
137 PRK10225 DNA-binding transcrip 35.3 1.9E+02 0.0042 27.1 8.0 51 78-128 14-68 (257)
138 PF01920 Prefoldin_2: Prefoldi 35.1 1.2E+02 0.0027 24.3 5.8 80 97-179 15-95 (106)
139 PF04297 UPF0122: Putative hel 35.0 30 0.00065 29.8 2.3 40 77-116 17-56 (101)
140 PF13384 HTH_23: Homeodomain-l 34.9 37 0.0008 24.0 2.4 36 82-121 10-45 (50)
141 PRK11512 DNA-binding transcrip 34.7 31 0.00067 29.8 2.3 37 91-127 52-88 (144)
142 PHA00738 putative HTH transcri 34.7 1.4E+02 0.0031 26.2 6.3 71 81-158 16-86 (108)
143 PRK00080 ruvB Holliday junctio 34.4 46 0.001 32.7 3.8 56 74-129 256-313 (328)
144 TIGR02043 ZntR Zn(II)-responsi 33.7 1.3E+02 0.0028 26.1 6.1 81 94-181 2-102 (131)
145 PF02954 HTH_8: Bacterial regu 33.5 51 0.0011 23.2 2.9 37 75-113 2-38 (42)
146 PF12728 HTH_17: Helix-turn-he 33.3 28 0.0006 24.9 1.5 22 94-115 2-23 (51)
147 cd07153 Fur_like Ferric uptake 33.3 55 0.0012 26.9 3.6 45 82-127 6-55 (116)
148 PF14947 HTH_45: Winged helix- 33.2 43 0.00093 26.5 2.8 42 91-133 17-58 (77)
149 PF01638 HxlR: HxlR-like helix 33.2 36 0.00078 27.5 2.4 40 88-127 13-53 (90)
150 PRK15121 right oriC-binding tr 32.7 53 0.0012 31.6 3.8 43 77-119 5-47 (289)
151 TIGR02928 orc1/cdc6 family rep 32.4 43 0.00094 32.7 3.2 30 98-127 319-351 (365)
152 PF01920 Prefoldin_2: Prefoldi 32.3 82 0.0018 25.4 4.3 79 101-180 22-103 (106)
153 PRK03837 transcriptional regul 32.2 35 0.00076 31.5 2.4 51 78-128 18-72 (241)
154 TIGR02044 CueR Cu(I)-responsiv 32.1 1.4E+02 0.003 25.7 5.9 81 94-181 1-107 (127)
155 PF15513 DUF4651: Domain of un 32.1 28 0.00061 27.7 1.5 23 240-262 16-38 (62)
156 PF13551 HTH_29: Winged helix- 31.8 39 0.00084 27.1 2.3 28 95-122 14-41 (112)
157 PF09756 DDRGK: DDRGK domain; 31.8 56 0.0012 31.0 3.7 47 78-126 100-146 (188)
158 PRK13503 transcriptional activ 31.7 60 0.0013 30.3 3.9 39 77-115 171-209 (278)
159 COG3093 VapI Plasmid maintenan 31.6 26 0.00057 30.5 1.4 33 77-115 13-45 (104)
160 PF04703 FaeA: FaeA-like prote 31.5 57 0.0012 25.6 3.1 44 82-126 5-48 (62)
161 PHA01750 hypothetical protein 31.3 1E+02 0.0022 25.2 4.6 31 146-176 42-72 (75)
162 PF01853 MOZ_SAS: MOZ/SAS fami 31.3 55 0.0012 31.2 3.5 59 70-131 120-185 (188)
163 cd04790 HTH_Cfa-like_unk Helix 31.2 86 0.0019 28.7 4.7 37 94-136 2-42 (172)
164 PRK03902 manganese transport t 31.0 96 0.0021 26.9 4.8 46 80-127 11-56 (142)
165 PF10779 XhlA: Haemolysin XhlA 30.8 1.4E+02 0.003 23.5 5.3 39 144-182 4-42 (71)
166 PRK11169 leucine-responsive tr 30.8 74 0.0016 28.4 4.2 52 72-125 9-60 (164)
167 cd04772 HTH_TioE_rpt1 First He 30.4 95 0.0021 25.7 4.5 35 95-135 2-40 (99)
168 cd01108 HTH_CueR Helix-Turn-He 30.3 1.7E+02 0.0036 25.3 6.1 81 94-181 1-107 (127)
169 PF04218 CENP-B_N: CENP-B N-te 30.3 42 0.00091 25.1 2.1 31 84-115 14-44 (53)
170 PF04977 DivIC: Septum formati 29.8 1.1E+02 0.0024 23.4 4.5 29 144-172 22-50 (80)
171 PF09904 HTH_43: Winged helix- 29.7 59 0.0013 27.7 3.1 30 95-124 23-52 (90)
172 PRK11886 bifunctional biotin-- 29.5 77 0.0017 31.2 4.4 52 80-133 7-59 (319)
173 PRK09514 zntR zinc-responsive 29.4 1.6E+02 0.0036 25.9 6.1 81 94-181 2-102 (140)
174 KOG3026 Splicing factor SPF30 29.3 1.9E+02 0.0042 28.8 6.9 89 156-249 26-124 (262)
175 KOG2747 Histone acetyltransfer 29.2 1.1E+02 0.0024 32.2 5.7 58 73-135 303-366 (396)
176 PRK13922 rod shape-determining 29.2 1.1E+02 0.0024 29.5 5.3 40 144-184 74-113 (276)
177 PRK00888 ftsB cell division pr 29.2 1.3E+02 0.0028 25.7 5.2 54 143-197 31-84 (105)
178 PRK09393 ftrA transcriptional 29.1 68 0.0015 31.2 3.9 41 77-117 218-258 (322)
179 PF02295 z-alpha: Adenosine de 29.1 93 0.002 24.5 4.0 57 78-134 5-61 (66)
180 PRK09975 DNA-binding transcrip 28.8 64 0.0014 28.8 3.4 37 76-112 14-50 (213)
181 smart00338 BRLZ basic region l 28.5 1.9E+02 0.0042 21.9 5.6 34 148-181 28-61 (65)
182 TIGR02338 gimC_beta prefoldin, 28.2 1.2E+02 0.0026 25.7 4.8 32 149-180 70-101 (110)
183 PF10018 Med4: Vitamin-D-recep 28.2 1.8E+02 0.0039 26.9 6.3 28 149-176 25-52 (188)
184 COG1321 TroR Mn-dependent tran 28.1 78 0.0017 28.7 3.8 42 90-131 21-62 (154)
185 PF13851 GAS: Growth-arrest sp 28.0 1.2E+02 0.0025 28.7 5.1 35 147-181 28-62 (201)
186 PRK13729 conjugal transfer pil 27.9 90 0.0019 33.7 4.8 22 160-181 97-118 (475)
187 PF01710 HTH_Tnp_IS630: Transp 27.8 75 0.0016 27.1 3.5 43 80-127 60-102 (119)
188 PRK04984 fatty acid metabolism 27.8 46 0.001 30.8 2.4 39 89-127 26-65 (239)
189 cd04785 HTH_CadR-PbrR-like Hel 27.7 1.6E+02 0.0035 25.3 5.6 81 94-181 1-100 (126)
190 TIGR00635 ruvB Holliday juncti 27.6 76 0.0017 30.3 3.9 51 79-129 240-292 (305)
191 PRK10572 DNA-binding transcrip 27.2 79 0.0017 30.0 3.9 38 78-115 184-221 (290)
192 PHA02047 phage lambda Rz1-like 27.0 36 0.00078 29.5 1.4 7 131-137 26-32 (101)
193 PRK10803 tol-pal system protei 26.9 1.2E+02 0.0025 29.7 5.1 33 150-182 58-90 (263)
194 PF02796 HTH_7: Helix-turn-hel 26.8 39 0.00084 24.2 1.4 32 80-115 12-43 (45)
195 TIGR02051 MerR Hg(II)-responsi 26.4 2.1E+02 0.0045 24.6 6.0 80 95-181 1-97 (124)
196 COG2919 Septum formation initi 25.9 61 0.0013 28.0 2.7 32 144-175 55-86 (117)
197 PRK11753 DNA-binding transcrip 25.7 96 0.0021 27.6 4.0 39 93-132 168-206 (211)
198 cd01106 HTH_TipAL-Mta Helix-Tu 25.7 2.3E+02 0.0049 23.3 6.0 17 95-111 2-18 (103)
199 PRK03578 hscB co-chaperone Hsc 25.5 5.4E+02 0.012 23.8 9.2 51 70-122 17-84 (176)
200 COG1373 Predicted ATPase (AAA+ 25.5 85 0.0019 32.3 4.1 49 77-125 220-269 (398)
201 PRK10402 DNA-binding transcrip 25.5 60 0.0013 29.9 2.7 37 94-131 170-206 (226)
202 PRK09333 30S ribosomal protein 25.4 68 0.0015 29.6 3.0 37 91-127 65-115 (150)
203 PRK09685 DNA-binding transcrip 25.4 74 0.0016 30.2 3.4 37 79-115 199-236 (302)
204 PRK10869 recombination and rep 25.1 1.1E+02 0.0024 33.0 5.0 103 69-181 257-362 (553)
205 cd04777 HTH_MerR-like_sg1 Heli 24.9 2.2E+02 0.0048 23.5 5.8 25 95-125 2-28 (107)
206 PF09340 NuA4: Histone acetylt 24.8 1.2E+02 0.0025 24.9 4.0 28 153-180 2-29 (80)
207 PRK10371 DNA-binding transcrip 24.7 85 0.0018 30.7 3.7 39 78-116 192-230 (302)
208 PTZ00454 26S protease regulato 24.5 5.5E+02 0.012 26.7 9.7 35 147-181 23-57 (398)
209 PF10018 Med4: Vitamin-D-recep 24.0 1.9E+02 0.0041 26.8 5.7 55 144-198 27-88 (188)
210 PRK09990 DNA-binding transcrip 23.8 74 0.0016 29.8 3.0 40 89-128 26-66 (251)
211 PF08317 Spc7: Spc7 kinetochor 23.7 1.5E+02 0.0032 29.7 5.2 66 151-222 235-308 (325)
212 KOG0804 Cytoplasmic Zn-finger 23.7 1.3E+02 0.0028 32.5 5.0 59 109-181 390-449 (493)
213 PF01475 FUR: Ferric uptake re 23.6 74 0.0016 26.6 2.7 49 80-129 11-64 (120)
214 KOG0718 Molecular chaperone (D 23.4 2.2E+02 0.0047 31.2 6.5 46 71-116 19-79 (546)
215 PF00170 bZIP_1: bZIP transcri 23.4 3E+02 0.0065 20.9 5.8 34 148-181 28-61 (64)
216 PRK09863 putative frv operon r 22.9 3E+02 0.0065 29.5 7.7 52 81-137 8-65 (584)
217 COG2207 AraC AraC-type DNA-bin 22.7 1.1E+02 0.0024 24.2 3.5 43 81-123 24-66 (127)
218 KOG3501 Molecular chaperone Pr 22.7 1.9E+02 0.004 25.6 4.9 40 143-182 71-110 (114)
219 PRK04214 rbn ribonuclease BN/u 22.4 1.2E+02 0.0025 31.3 4.4 44 89-132 306-349 (412)
220 KOG3990 Uncharacterized conser 22.3 97 0.0021 31.2 3.6 40 147-186 226-265 (305)
221 PRK11179 DNA-binding transcrip 22.3 1.1E+02 0.0023 27.0 3.6 50 75-126 7-56 (153)
222 PF14782 BBS2_C: Ciliary BBSom 22.1 3.9E+02 0.0085 28.4 8.2 44 213-263 98-145 (431)
223 PRK11642 exoribonuclease R; Pr 22.0 1.1E+02 0.0023 35.0 4.3 51 81-132 23-77 (813)
224 TIGR02063 RNase_R ribonuclease 22.0 1.1E+02 0.0023 33.9 4.3 55 80-134 5-63 (709)
225 PF14712 Snapin_Pallidin: Snap 21.9 2.5E+02 0.0054 22.5 5.4 36 146-181 14-49 (92)
226 TIGR00373 conserved hypothetic 21.8 4.4E+02 0.0094 23.9 7.4 34 91-124 26-59 (158)
227 PF11853 DUF3373: Protein of u 21.7 60 0.0013 35.1 2.1 33 143-175 28-60 (489)
228 cd00890 Prefoldin Prefoldin is 21.7 2.2E+02 0.0048 23.7 5.2 25 156-180 90-114 (129)
229 PRK10421 DNA-binding transcrip 21.7 89 0.0019 29.4 3.1 39 89-127 21-60 (253)
230 COG2512 Predicted membrane-ass 21.6 1.2E+02 0.0026 30.0 4.0 60 73-133 191-250 (258)
231 PF00440 TetR_N: Bacterial reg 21.5 79 0.0017 22.4 2.1 29 83-111 6-34 (47)
232 PF11932 DUF3450: Protein of u 21.5 1.9E+02 0.0041 27.7 5.3 28 151-178 89-116 (251)
233 PF10046 BLOC1_2: Biogenesis o 21.2 1.9E+02 0.0041 24.2 4.7 34 146-179 66-99 (99)
234 smart00342 HTH_ARAC helix_turn 21.2 67 0.0015 23.6 1.8 26 94-119 2-27 (84)
235 PRK00411 cdc6 cell division co 21.2 56 0.0012 32.3 1.7 35 92-126 314-358 (394)
236 PF10805 DUF2730: Protein of u 21.2 5.2E+02 0.011 22.0 8.9 80 82-183 23-102 (106)
237 cd04787 HTH_HMRTR_unk Helix-Tu 21.2 5.4E+02 0.012 22.2 8.5 89 94-186 1-119 (133)
238 PF09107 SelB-wing_3: Elongati 21.1 1.2E+02 0.0026 22.8 3.1 39 90-128 7-45 (50)
239 PF06005 DUF904: Protein of un 21.1 3.3E+02 0.0072 22.0 5.8 38 146-183 18-55 (72)
240 PLN03239 histone acetyltransfe 21.0 2.3E+02 0.0049 29.6 6.0 53 70-125 253-313 (351)
241 cd01279 HTH_HspR-like Helix-Tu 21.0 3.3E+02 0.0071 22.5 6.0 28 94-125 2-29 (98)
242 PF13600 DUF4140: N-terminal d 20.6 2.5E+02 0.0055 23.0 5.3 35 145-179 69-103 (104)
243 cd04788 HTH_NolA-AlbR Helix-Tu 20.5 3.7E+02 0.0079 22.0 6.2 37 95-135 2-40 (96)
244 PRK06266 transcription initiat 20.5 4.8E+02 0.01 24.2 7.5 42 81-124 26-67 (178)
245 PRK13182 racA polar chromosome 20.5 2.5E+02 0.0055 26.2 5.7 28 155-182 87-114 (175)
246 PF05103 DivIVA: DivIVA protei 20.4 38 0.00083 28.6 0.3 48 131-181 13-60 (131)
247 PRK15185 transcriptional regul 20.3 1.2E+02 0.0025 30.9 3.8 39 77-115 206-244 (309)
248 PF13542 HTH_Tnp_ISL3: Helix-t 20.2 1E+02 0.0023 21.8 2.6 38 78-115 12-49 (52)
249 PRK01194 V-type ATP synthase s 20.1 5.2E+02 0.011 23.9 7.7 32 150-181 67-98 (185)
250 cd04782 HTH_BltR Helix-Turn-He 20.1 1.9E+02 0.0041 23.7 4.4 36 95-134 2-39 (97)
No 1
>KOG2577 consensus Transcription factor E2F/dimerization partner (TDP) [Transcription]
Probab=100.00 E-value=1.5e-66 Score=511.36 Aligned_cols=188 Identities=56% Similarity=0.834 Sum_probs=180.2
Q ss_pred CCCCCCCCCCCCcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCC
Q 017095 62 ALTPAGSCRYDSSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIP 141 (377)
Q Consensus 62 ~~tp~~~~R~d~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~ 141 (377)
...|..++|+++|||+||+|||.|++++|+|++|||.||++|+|||||||||||||||||||+|++||+|+|+|.+....
T Consensus 60 ~~s~~~~~R~d~SLglLTkKFv~Llq~s~dGvldLn~aA~~L~VqKRRIYDITNVLEGI~LIeKksKN~IqW~G~~~~~~ 139 (354)
T KOG2577|consen 60 SSSPSESTRSDTSLGLLTKKFVDLLQESPDGVLDLNKAAEVLNVQKRRIYDITNVLEGIGLIEKKSKNNIQWIGGDFNST 139 (354)
T ss_pred ccCCCCcccchhhHHHHHHHHHHHHHhCCCceeeHHHHHHHhccccceeeehhhhhhcccceeeccccceeeecCCCccc
Confidence 36677899999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHhhccCCCCceEEEEeCCCCceEEec
Q 017095 142 GEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIENENNRKWLFVTEEDIKNLHCFQNQTLIAIKAPQGTTLEVP 221 (377)
Q Consensus 142 ~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~~l~~f~~qTvIAIKAP~gT~LEVP 221 (377)
++..++...|++|++.|.++|+.||++|++|+++|+.|++|+.|++|+|||++||++|+.|++|||||||||++|+||||
T Consensus 140 ~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lted~~n~~laYVT~eDI~~i~~f~~q~vi~vkap~et~levp 219 (354)
T KOG2577|consen 140 GGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLTEDVENRRLAYVTYEDIRSIPGFDEQTVIAVKAPPETRLEVP 219 (354)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhcccceeeeHHHHhhccccCCceEEEEecCCcceEecc
Confidence 67888899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccCCCCCcEEEEEecCCCceEEEEecCccc
Q 017095 222 DPDEAVDYPQRRYRIILRSTMGPIDVYLVSRFEE 255 (377)
Q Consensus 222 dP~e~~~~~~~~yqI~LkS~~GPIdVyL~~~~~~ 255 (377)
+|++ .+|+|+|+|++||||||||++++.
T Consensus 220 ~~~~------~~~~i~L~s~~GpI~v~l~~~e~~ 247 (354)
T KOG2577|consen 220 DPDE------DRYQIRLKSNQGPIDVYLCSEEEG 247 (354)
T ss_pred cCCC------CceEEEeccCCCceeEEecccccc
Confidence 9984 479999999999999999998775
No 2
>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=99.87 E-value=7.2e-23 Score=161.21 Aligned_cols=66 Identities=52% Similarity=0.859 Sum_probs=63.0
Q ss_pred CCCCcHHHHHHHHHHHHhhCCCCcccHHHHHHHh---cc--ceehhhhhHHHhhhccchhhccCCeEEEec
Q 017095 70 RYDSSLGLLTKKFINLIKHAEDGILDLNKAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIRWKG 135 (377)
Q Consensus 70 R~d~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L---~V--qKRRIYDItNVLEgIGLIeK~sKN~i~W~G 135 (377)
|+++||+.||++||++|...+++.++|+++|+.| ++ +|||||||+||||++|||+|..|+.|+|+|
T Consensus 1 r~~~sL~~lt~~fi~~~~~~~~~~i~l~~ia~~l~~~~~k~~~RRlYDI~NVLealgli~K~~k~~~~W~G 71 (71)
T PF02319_consen 1 RKEKSLKLLTQRFIQLFESSPDKSISLNEIADKLISENVKTQRRRLYDIINVLEALGLIEKQSKNSYKWIG 71 (71)
T ss_dssp TTTTHHHHHHHHHHHHHHHCCCTEEEHHHHHHHCHHHCCHHHCHHHHHHHHHHHHCTSEEEEETTEEEE--
T ss_pred CCcCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHcccccccccchhhHHHHHHHHhCceeecCCCceEecC
Confidence 7899999999999999999999999999999999 99 999999999999999999999999999998
No 3
>KOG2578 consensus Transcription factor E2F/dimerization partner (TDP)-like proteins [Transcription]
Probab=99.78 E-value=9.7e-20 Score=177.71 Aligned_cols=87 Identities=37% Similarity=0.592 Sum_probs=78.3
Q ss_pred CCCCCCCCCCCcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCC
Q 017095 63 LTPAGSCRYDSSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPG 142 (377)
Q Consensus 63 ~tp~~~~R~d~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~ 142 (377)
..+.-++|+++|||+||.+|+.++....-..+-|+.||.+|||.|||||||+||||+||++.|.+||.|.|+|+..+
T Consensus 14 l~lqvysrkekslgvlv~nfl~lynr~dvdlvgLddaA~KlgVErRRIYDiVNvlEsig~var~~KnqYsWkGf~ai--- 90 (388)
T KOG2578|consen 14 LDLQVYSRKEKSLGVLVQNFLILYNRSDVDLVGLDDAARKLGVERRRIYDIVNVLESIGAVARRGKNQYSWKGFGAI--- 90 (388)
T ss_pred ccchhhccccchhhHHHHHHHHHhcCCCcceechhhHHHhcCchHHHHHHHHHHHHHHHHHHhcccCcccccchhhh---
Confidence 56778999999999999999999988888899999999999999999999999999999999999999999998754
Q ss_pred cchhHHHHHHHH
Q 017095 143 EVDADASILQAD 154 (377)
Q Consensus 143 ~~~~~~~~Lk~E 154 (377)
..-+..||+|
T Consensus 91 --Pral~eLqeE 100 (388)
T KOG2578|consen 91 --PRALFELQEE 100 (388)
T ss_pred --hHHHHHHHHH
Confidence 3446666654
No 4
>KOG2578 consensus Transcription factor E2F/dimerization partner (TDP)-like proteins [Transcription]
Probab=99.03 E-value=1.7e-10 Score=113.58 Aligned_cols=76 Identities=37% Similarity=0.612 Sum_probs=65.5
Q ss_pred CCCCCCCCCCcHHHHHHHHHHHHhhCCCC-cccHHHHHHHh----------ccceehhhhhHHHhhhccchhhc-----c
Q 017095 64 TPAGSCRYDSSLGLLTKKFINLIKHAEDG-ILDLNKAAETL----------EVQKRRIYDITNVLEGIGLIEKK-----L 127 (377)
Q Consensus 64 tp~~~~R~d~SLglLTkkFi~ll~~ap~g-~ldLn~aA~~L----------~VqKRRIYDItNVLEgIGLIeK~-----s 127 (377)
.+.-..|+++||++||++||.++-.+++- .|.|+.||..| ...-||+|||.|||-++|||+|. .
T Consensus 150 ~~k~DnrkekSL~lL~qnFvklflcs~~~~lvslD~Aak~Ll~ds~~~~~mRtkvRRLYDIANVlssm~LIeKtH~l~tr 229 (388)
T KOG2578|consen 150 SSKRDNRKEKSLWLLAQNFVKLFLCSDDDILVSLDSAAKALLKDSEDEPPMRTKVRRLYDIANVLSSMNLIEKTHYLFTR 229 (388)
T ss_pred CCcccchhhhHHHHHHHHHHHheeccccceEEeecHHHHHHhcCCCCCccHHHHHHHHHHHHHHHHHhhhhhhhcccccc
Confidence 34456789999999999999999888877 89999999988 23669999999999999999998 4
Q ss_pred CCeEEEeccCCC
Q 017095 128 KNRIRWKGLDNS 139 (377)
Q Consensus 128 KN~i~W~G~~~s 139 (377)
|..|+|.|....
T Consensus 230 kPafrwlG~~~~ 241 (388)
T KOG2578|consen 230 KPAFRWLGSKPI 241 (388)
T ss_pred cchhheeCCCcc
Confidence 889999997654
No 5
>KOG2829 consensus E2F-like protein [Transcription]
Probab=98.95 E-value=1.3e-08 Score=99.77 Aligned_cols=138 Identities=22% Similarity=0.359 Sum_probs=88.3
Q ss_pred HHH-hhCCCCcccHHHHHHHh----------------------ccceehhhhhHHHhhhccchhhccCCeEEEeccCCCC
Q 017095 84 NLI-KHAEDGILDLNKAAETL----------------------EVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSI 140 (377)
Q Consensus 84 ~ll-~~ap~g~ldLn~aA~~L----------------------~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~ 140 (377)
..| +....|....|++|+.| .-.|||+||..|||.++.+|.|. |..|+|+|.....
T Consensus 52 kVCeKve~Kg~TtYneVADelVaef~~~n~~~~i~~n~~~yd~KNIRRRVYDALNVlmAmnIIsKd-KKEIrW~GLP~~s 130 (326)
T KOG2829|consen 52 KVCEKVERKGTTTYNEVADELVAEFAGANNYSHICPNEQEYDQKNIRRRVYDALNVLMAMNIISKD-KKEIRWIGLPATS 130 (326)
T ss_pred HHHHHHHhcCCccHHHHHHHHHHHHhccccccccCccccccchHHHHHHHHHHHHHHHHHHHHhcc-cceeeeeccCccc
Confidence 344 34567888999999888 23699999999999999999999 6679999998653
Q ss_pred CCcchhHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHhhccCCC--CceEEEEeCCC
Q 017095 141 PGEVDADASILQADIDNLSM----EELRVDEQTRELRERLRELIENENNRKWLFVTEEDIKNLHCFQ--NQTLIAIKAPQ 214 (377)
Q Consensus 141 ~~~~~~~~~~Lk~El~~L~~----~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~~l~~f~--~qTvIAIKAP~ 214 (377)
. +++.+|+.|...+.. +-+.|.++|.. .-.+++|.+. |+ .++.+ +-+... --.+|.|..-+
T Consensus 131 s----~dv~~le~Er~k~~erI~kK~a~lqEl~~q-~~~fknLV~R--N~-~~e~~-----~~~P~~~i~LPFiiinT~k 197 (326)
T KOG2829|consen 131 S----QDVSELEEERKKRMERIKKKAAQLQELIEQ-VSAFKNLVQR--NR-HAESQ-----GQPPSENIHLPFIIINTSK 197 (326)
T ss_pred h----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHh--hh-hhhhc-----cCCCCcccccceEEEecCC
Confidence 3 345566655544433 33334444332 2345666552 22 33333 111111 13579999999
Q ss_pred CceEEecCCCcccCCCCCcEEEEEecCC
Q 017095 215 GTTLEVPDPDEAVDYPQRRYRIILRSTM 242 (377)
Q Consensus 215 gT~LEVPdP~e~~~~~~~~yqI~LkS~~ 242 (377)
.|.|++-..++ ....+++..+
T Consensus 198 ~a~IeceiseD-------ks~~~F~Fnk 218 (326)
T KOG2829|consen 198 KAVIECEISED-------KSEYLFKFNK 218 (326)
T ss_pred CceEEEEeccc-------ceeeeeecCC
Confidence 99999988754 2344566543
No 6
>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=94.54 E-value=0.038 Score=42.29 Aligned_cols=45 Identities=22% Similarity=0.397 Sum_probs=40.6
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEe
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWK 134 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~ 134 (377)
..+..+..++|+.+++.|..+|++++-|+.-|+|++...+.+.|.
T Consensus 19 ~~~~~t~~eIa~~l~i~~~~v~~~L~~L~~~GlV~~~~~~~~~Y~ 63 (68)
T PF01978_consen 19 KNGPATAEEIAEELGISRSTVYRALKSLEEKGLVEREEGRPKVYR 63 (68)
T ss_dssp HHCHEEHHHHHHHHTSSHHHHHHHHHHHHHTTSEEEEEECCEEEE
T ss_pred HcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEcCceEEEE
Confidence 467799999999999999999999999999999999977766664
No 7
>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=92.60 E-value=0.21 Score=36.46 Aligned_cols=41 Identities=24% Similarity=0.366 Sum_probs=35.1
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhcc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIG 121 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIG 121 (377)
.+.+.+|..+.+. +...++|+.|+|++|-||--++.|+..|
T Consensus 3 ~~il~~L~~~~~~-it~~eLa~~l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 3 KQILKLLLESKEP-ITAKELAEELGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHTTTS-BEHHHHHHHCTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCC-cCHHHHHHHhCCCHHHHHHHHHHHHHCC
Confidence 4677777666665 9999999999999999999999999988
No 8
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=91.91 E-value=0.23 Score=34.70 Aligned_cols=45 Identities=27% Similarity=0.372 Sum_probs=38.5
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.++.++... +.+.+.++|+.|++.++.+|-.+.-|+..|+|.+..
T Consensus 4 ~il~~l~~~--~~~s~~~l~~~l~~s~~tv~~~l~~L~~~g~i~~~~ 48 (53)
T smart00420 4 QILELLAQQ--GKVSVEELAELLGVSEMTIRRDLNKLEEQGLLTRVH 48 (53)
T ss_pred HHHHHHHHc--CCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEee
Confidence 466666553 458999999999999999999999999999998764
No 9
>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=91.62 E-value=0.42 Score=35.44 Aligned_cols=54 Identities=20% Similarity=0.233 Sum_probs=42.7
Q ss_pred HHHHHHHHHhhC-----CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 78 LTKKFINLIKHA-----EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 78 LTkkFi~ll~~a-----p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
+.+-|+.+.... ..+.+...++|+.+++.+.-++-+++.|+.-|+|++.....|
T Consensus 5 ia~~l~~l~~~~~~~~~~~~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~~~~~~ 63 (67)
T cd00092 5 LASFLLNLSLRYGAGDLVQLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRRGRGKY 63 (67)
T ss_pred HHHHHHHHHHHcCCCccccCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCeE
Confidence 444555555433 456789999999999999999999999999999998764444
No 10
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=90.37 E-value=0.43 Score=37.27 Aligned_cols=55 Identities=20% Similarity=0.306 Sum_probs=46.1
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEe
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWK 134 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~ 134 (377)
.+.+.+|+.+++..+.+.++|+.||+.|+-+.-++.-|+.-|+|++...+-=.|.
T Consensus 9 ~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~ 63 (68)
T smart00550 9 EKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQGGTPPLWK 63 (68)
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCceE
Confidence 5778888877554599999999999999999999999999999999764423563
No 11
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=90.19 E-value=0.83 Score=44.24 Aligned_cols=81 Identities=23% Similarity=0.374 Sum_probs=53.7
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHH
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPGEVDADASILQADIDNLSME 161 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~ 161 (377)
++.|+. -|...-.++|+..||.+=|+|||++.||+=|+++....+--+++-.+ | +. -+...
T Consensus 22 Y~aLl~---~g~~tA~eis~~sgvP~~kvY~vl~sLe~kG~v~~~~g~P~~y~av~---p---~~----------~i~~~ 82 (247)
T COG1378 22 YLALLC---LGEATAKEISEASGVPRPKVYDVLRSLEKKGLVEVIEGRPKKYRAVP---P---EE----------LIERI 82 (247)
T ss_pred HHHHHH---hCCccHHHHHHHcCCCchhHHHHHHHHHHCCCEEeeCCCCceEEeCC---H---HH----------HHHHH
Confidence 445553 35567789999999999999999999999999999855555554332 2 11 23334
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 017095 162 ELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 162 E~~LD~lI~~~~q~L~~Lte 181 (377)
+++|++.+......+.++..
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~ 102 (247)
T COG1378 83 KEELQELLRELESELEELER 102 (247)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 44555555555555555544
No 12
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=89.36 E-value=0.67 Score=36.48 Aligned_cols=47 Identities=23% Similarity=0.328 Sum_probs=39.6
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.+.++++...+ +.+.+.++|+.+++.+.-+|-+++.|+..|+|++..
T Consensus 8 ~~Il~~l~~~~-~~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~~ 54 (91)
T smart00346 8 LAVLRALAEEP-GGLTLAELAERLGLSKSTAHRLLNTLQELGYVEQDG 54 (91)
T ss_pred HHHHHHHHhCC-CCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeecC
Confidence 34556665543 479999999999999999999999999999999863
No 13
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=88.77 E-value=0.36 Score=35.40 Aligned_cols=45 Identities=18% Similarity=0.342 Sum_probs=36.7
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
+.++++..++.+ +.+.++|+++++.|=-+|-+.+.|+..|+++|.
T Consensus 7 ~iL~~l~~~~~~-~t~~eia~~~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 7 RILEALAESGGP-LTLSEIARALGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHCHHCTBSC-EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHcCCCC-CCHHHHHHHHCcCHHHHHHHHHHHHHCcCeecC
Confidence 345555555444 799999999999999999999999999999874
No 14
>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=87.85 E-value=0.76 Score=32.81 Aligned_cols=43 Identities=26% Similarity=0.440 Sum_probs=35.8
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
++.+.++.+.|. +...++|+++++.+..++.+++-|+.-|+|+
T Consensus 6 ~~Il~~l~~~~~--~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 6 RKILNYLRENPR--ITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHCTT--S-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHcCC--CCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 567778877444 9999999999999999999999999999985
No 15
>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=87.58 E-value=0.74 Score=33.83 Aligned_cols=46 Identities=24% Similarity=0.351 Sum_probs=40.3
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
..+.++...++..+.+.++|+.|++.|=.+--+++-||.-|+|+|.
T Consensus 9 ~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 9 RVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 4455667788888999999999999999999999999999999987
No 16
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=86.30 E-value=0.86 Score=32.31 Aligned_cols=38 Identities=24% Similarity=0.336 Sum_probs=34.3
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
.+.+.++++++.|++.+..++.+++.|+.-|+|.+..+
T Consensus 8 ~~~~~~~~i~~~l~is~~~v~~~l~~L~~~g~i~~~~~ 45 (66)
T smart00418 8 EGELCVCELAEILGLSQSTVSHHLKKLREAGLVESRRE 45 (66)
T ss_pred cCCccHHHHHHHHCCCHHHHHHHHHHHHHCCCeeeeec
Confidence 56689999999999999999999999999999997653
No 17
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=84.57 E-value=4.9 Score=35.83 Aligned_cols=85 Identities=24% Similarity=0.356 Sum_probs=56.9
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCC---CCCcchhHHHHHHHHHHHH
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNS---IPGEVDADASILQADIDNL 158 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s---~~~~~~~~~~~Lk~El~~L 158 (377)
|..|++ +.+.++.+++|+.|+..|=.+|=.+|=|...|||+|..-+. .|..-- .+ . .-.+++.
T Consensus 33 ~~~LL~--~~~~~tvdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~---~~Ggy~yiY~~--i--~~ee~k~----- 98 (126)
T COG3355 33 YKALLE--ENGPLTVDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNL---KGGGYYYLYKP--I--DPEEIKK----- 98 (126)
T ss_pred HHHHHh--hcCCcCHHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeecc---CCCceeEEEec--C--CHHHHHH-----
Confidence 555554 68889999999999999999999999999999999985442 332210 01 0 1222322
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 017095 159 SMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 159 ~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
..++.|+++-..+.+-|.++..
T Consensus 99 -~i~~~l~~w~~~~~~~i~~~~~ 120 (126)
T COG3355 99 -KILKDLDEWYDKMKQLIEEFEK 120 (126)
T ss_pred -HHHHHHHHHHHHHHHHHHHHhc
Confidence 2344566666666666666544
No 18
>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=84.24 E-value=1.5 Score=35.02 Aligned_cols=49 Identities=22% Similarity=0.331 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhCCCC-cccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 78 LTKKFINLIKHAEDG-ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 78 LTkkFi~ll~~ap~g-~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.+-+++.++...+++ .+.+.++|+++++..+.+..|++-|+.-|+|+..
T Consensus 9 ~Al~~l~~la~~~~~~~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~ 58 (83)
T PF02082_consen 9 YALRILLYLARHPDGKPVSSKEIAERLGISPSYLRKILQKLKKAGLIESS 58 (83)
T ss_dssp HHHHHHHHHHCTTTSC-BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHhCCCCCCCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEec
Confidence 445666666555554 5999999999999999999999999999999865
No 19
>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=83.55 E-value=1.2 Score=37.94 Aligned_cols=46 Identities=13% Similarity=0.187 Sum_probs=40.2
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
+.+.++...+++.+++.++|+++++.+..++.+++.|+.-|+|+..
T Consensus 13 ~~l~~la~~~~~~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~ 58 (130)
T TIGR02944 13 LVLTTLAQNDSQPYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSK 58 (130)
T ss_pred HHHHHHHhCCCCCccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 4555666667788999999999999999999999999999999864
No 20
>PF13730 HTH_36: Helix-turn-helix domain
Probab=82.48 E-value=1.6 Score=31.80 Aligned_cols=29 Identities=31% Similarity=0.394 Sum_probs=27.9
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccch
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLI 123 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLI 123 (377)
....+|+.+|+.+|.|+-.++.||..|+|
T Consensus 27 S~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 79999999999999999999999999986
No 21
>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=80.76 E-value=1.5 Score=32.07 Aligned_cols=44 Identities=23% Similarity=0.391 Sum_probs=36.0
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
++.++.+.++ +.+.++|+.+++.+-.+-.+++-|+.-|+|+|..
T Consensus 8 iL~~l~~~~~--~~~~~la~~~~~~~~~~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 8 ILRILYENGG--ITQSELAEKLGISRSTVTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHHHHSS--EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHcCC--CCHHHHHHHHCCChhHHHHHHHHHHHCCCEEecc
Confidence 3344445444 8999999999999999999999999999999873
No 22
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.
Probab=80.56 E-value=0.69 Score=36.89 Aligned_cols=30 Identities=40% Similarity=0.532 Sum_probs=23.9
Q ss_pred HHHHHHhcc---ceehhhhhHHHhhhccchhhc
Q 017095 97 NKAAETLEV---QKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 97 n~aA~~L~V---qKRRIYDItNVLEgIGLIeK~ 126 (377)
..+|+.+++ ..|||||+++-|+.+|+|+..
T Consensus 26 ~~lc~~~~~~pls~~r~~~~l~eL~~~gli~~~ 58 (85)
T PF09079_consen 26 EELCESLGVDPLSYRRFSDYLSELEMLGLIESE 58 (85)
T ss_dssp HHHHHHTTS----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence 345666665 789999999999999999866
No 23
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=79.69 E-value=3 Score=30.19 Aligned_cols=47 Identities=21% Similarity=0.360 Sum_probs=38.6
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
.+++..+...+ +...++++.|++.+.-++-+++.|+.-|+|.+....
T Consensus 10 ~~il~~l~~~~---~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~~~ 56 (78)
T cd00090 10 LRILRLLLEGP---LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRREG 56 (78)
T ss_pred HHHHHHHHHCC---cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEEec
Confidence 34555555543 899999999999999999999999999999976433
No 24
>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=79.67 E-value=2.5 Score=31.51 Aligned_cols=38 Identities=34% Similarity=0.478 Sum_probs=31.9
Q ss_pred CCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 89 AEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 89 ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
..++.+.+.++|+.+++.+--+..+++-|+..|+|+|.
T Consensus 14 ~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~ 51 (68)
T PF13463_consen 14 HSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKE 51 (68)
T ss_dssp --TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEE
T ss_pred ccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEec
Confidence 47888999999999999999999999999999999887
No 25
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=79.14 E-value=24 Score=32.41 Aligned_cols=45 Identities=22% Similarity=0.203 Sum_probs=38.7
Q ss_pred hCCCCcccHHHHHHHh--ccceehhhhhHHHhhhccchhhccCCeEE
Q 017095 88 HAEDGILDLNKAAETL--EVQKRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L--~VqKRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
.-.++.-|...+|.+| +|.--.+=+.++.|+-+|||+|...+.|.
T Consensus 34 ~l~~~~~d~~~iak~l~p~is~~ev~~sL~~L~~~gli~k~~~g~y~ 80 (171)
T PF14394_consen 34 PLMPFAPDPEWIAKRLRPKISAEEVRDSLEFLEKLGLIKKDGDGKYV 80 (171)
T ss_pred hcCCCCCCHHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEECCCCcEE
Confidence 3456666999999999 99999999999999999999999774443
No 26
>cd08768 Cdc6_C Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding. This model characterizes the winged-helix, C-terminal domain of the Cell division control protein (Cdc6_C). Cdc6 (also known as Cell division cycle 6 or Cdc18) functions as a regulator at the early stages of DNA replication, by helping to recruit and load the Minichromosome Maintenance Complex (MCM) onto DNA and may have additional roles in the control of mitotic entry. Precise duplication of chromosomal DNA is required for genomic stability during replication. Cdc6 has an essential role in DNA replication and irregular expression of Cdc6 may lead to genomic instability. Cdc6 over-expression is observed in many cancerous lesions. DNA replication begins when an origin recognition complex (ORC) binds to a replication origin site on the chromatin. Studies indicate that Cdc6 interacts with ORC through the Orc1 subunit, and that this association increases
Probab=79.06 E-value=1.2 Score=35.21 Aligned_cols=22 Identities=41% Similarity=0.685 Sum_probs=20.0
Q ss_pred cceehhhhhHHHhhhccchhhc
Q 017095 105 VQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 105 VqKRRIYDItNVLEgIGLIeK~ 126 (377)
...|||+|++|-||..|||+-.
T Consensus 44 l~~~~~~~~l~~L~~~gli~~~ 65 (87)
T cd08768 44 LTQRRISDLLSELEMLGLLETE 65 (87)
T ss_pred CcHHHHHHHHHHHHHcCCeEEE
Confidence 4789999999999999999865
No 27
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=78.95 E-value=2.9 Score=29.79 Aligned_cols=41 Identities=20% Similarity=0.286 Sum_probs=35.7
Q ss_pred CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 89 AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 89 ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
.++..+ ...++|+.++|.+=-+...++.|+.-|+|.+....
T Consensus 15 ~~~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~~~~~~ 56 (60)
T smart00345 15 RPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRRPGS 56 (60)
T ss_pred CCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCC
Confidence 356667 89999999999999999999999999999876543
No 28
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=77.38 E-value=2.3 Score=29.37 Aligned_cols=38 Identities=29% Similarity=0.334 Sum_probs=33.3
Q ss_pred cccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 93 ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 93 ~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
.+...++|+.+++.+..++.+++.|+.-|+|++.. +.|
T Consensus 8 ~~s~~~la~~l~~s~~tv~~~l~~L~~~g~l~~~~-~~~ 45 (48)
T smart00419 8 PLTRQEIAELLGLTRETVSRTLKRLEKEGLISREG-GRI 45 (48)
T ss_pred ccCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC-CEE
Confidence 46788999999999999999999999999998764 444
No 29
>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=74.74 E-value=3.5 Score=31.20 Aligned_cols=50 Identities=22% Similarity=0.264 Sum_probs=38.3
Q ss_pred HHHHHHHhh---CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 80 KKFINLIKH---AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 80 kkFi~ll~~---ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
..+.+.+.. .++..+ ...++|++++|+|.=+...++.|+.-|+|++..+.
T Consensus 7 ~~l~~~I~~g~~~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~~~~~ 60 (64)
T PF00392_consen 7 DQLRQAILSGRLPPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIERRPGR 60 (64)
T ss_dssp HHHHHHHHTTSS-TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETTT
T ss_pred HHHHHHHHcCCCCCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEEECCc
Confidence 344444433 356688 99999999999999999999999999999987554
No 30
>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=74.09 E-value=4 Score=33.59 Aligned_cols=50 Identities=22% Similarity=0.367 Sum_probs=40.4
Q ss_pred cHHHHHHHHHHHHhhC--CCCcccHHHHHHHhccceehhhhhHHHhhhccch
Q 017095 74 SLGLLTKKFINLIKHA--EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLI 123 (377)
Q Consensus 74 SLglLTkkFi~ll~~a--p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLI 123 (377)
+|..+.++.+++|++. ...-+.+++++++|++....|.+++.-|..-|+|
T Consensus 44 ~~~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~I 95 (102)
T PF08784_consen 44 GLSPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHI 95 (102)
T ss_dssp -S-HHHHHHHHHHHC----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSE
T ss_pred CCCHHHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeE
Confidence 6888999999999872 2334899999999999999999999999998887
No 31
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=73.38 E-value=16 Score=30.62 Aligned_cols=55 Identities=15% Similarity=0.239 Sum_probs=31.6
Q ss_pred cCCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 127 LKNRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 127 sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
...-+.|.|.+..-....++-..-++..++.|..+-..|++.|..+++++..+..
T Consensus 68 ~~~v~v~iG~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~ 122 (129)
T cd00890 68 DDKVLVDLGTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQE 122 (129)
T ss_pred CCEEEEEecCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788886543222233344555566666666666666666666666665543
No 32
>PHA02943 hypothetical protein; Provisional
Probab=71.59 E-value=20 Score=33.49 Aligned_cols=47 Identities=21% Similarity=0.206 Sum_probs=41.5
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
..+++++ ..|.....++|+.||++--....++-|||.-|.|++....
T Consensus 14 ~eILE~L---k~G~~TtseIAkaLGlS~~qa~~~LyvLErEG~VkrV~~G 60 (165)
T PHA02943 14 IKTLRLL---ADGCKTTSRIANKLGVSHSMARNALYQLAKEGMVLKVEIG 60 (165)
T ss_pred HHHHHHH---hcCCccHHHHHHHHCCCHHHHHHHHHHHHHcCceEEEeec
Confidence 4578888 6788899999999999999999999999999999997544
No 33
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=71.48 E-value=14 Score=35.58 Aligned_cols=54 Identities=9% Similarity=0.216 Sum_probs=41.6
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEec
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKG 135 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G 135 (377)
..++++.... ..+.+.++|+.|++.|=.+|-+++-|+..|++++.....--..|
T Consensus 29 ~IL~~~~~~~-~~~tl~eIa~~lglpkStv~RlL~tL~~~G~l~~~~~~~~Y~lG 82 (271)
T PRK10163 29 AILQYLEKSG-GSSSVSDISLNLDLPLSTTFRLLKVLQAADFVYQDSQLGWWHIG 82 (271)
T ss_pred HHHHHHHhCC-CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCCCCeEEec
Confidence 3455565443 45899999999999999999999999999999886443332344
No 34
>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=69.86 E-value=6.9 Score=33.07 Aligned_cols=37 Identities=22% Similarity=0.398 Sum_probs=33.8
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
..+.+...++|+.+++.++.+++|+..|..-|+|...
T Consensus 22 ~~~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~ 58 (132)
T TIGR00738 22 DEGPVSVKEIAERQGISRSYLEKILRTLRRAGLVESV 58 (132)
T ss_pred CCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEec
Confidence 3458999999999999999999999999999999864
No 35
>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=69.64 E-value=5.6 Score=30.44 Aligned_cols=40 Identities=15% Similarity=0.253 Sum_probs=32.9
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccch
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLI 123 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLI 123 (377)
+.+.++.+. .+..+++|+.|+|+++-++--++.|+.-|++
T Consensus 4 ~il~~L~~~---~~~~~eLa~~l~vS~~tv~~~l~~L~~~g~~ 43 (69)
T TIGR00122 4 RLLALLADN---PFSGEKLGEALGMSRTAVNKHIQTLREWGVD 43 (69)
T ss_pred HHHHHHHcC---CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCe
Confidence 455665543 4569999999999999999999999888883
No 36
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=69.30 E-value=5.7 Score=31.46 Aligned_cols=49 Identities=20% Similarity=0.210 Sum_probs=41.0
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
.++++.+-.+...-+.-.+++..+++..|-++=++++|+..|||.|+.-
T Consensus 5 ~~~Le~I~rsR~~Gi~q~~L~~~~~~D~r~i~~~~k~L~~~gLI~k~~~ 53 (75)
T PF04182_consen 5 YCLLERIARSRYNGITQSDLSKLLGIDPRSIFYRLKKLEKKGLIVKQSV 53 (75)
T ss_pred HHHHHHHHhcCCCCEehhHHHHHhCCCchHHHHHHHHHHHCCCEEEEEe
Confidence 4567777666555566778889999999999999999999999999865
No 37
>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=68.03 E-value=6.8 Score=29.49 Aligned_cols=45 Identities=29% Similarity=0.446 Sum_probs=38.6
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.+.++++++ .+.+.+.++|+.|+|+..-|.==+|.|+.-|+|.|.
T Consensus 3 ~~Il~~l~~--~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 3 QQILELLKE--KGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHHHHH--cCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEE
Confidence 356677765 578999999999999998888888999999999887
No 38
>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=67.54 E-value=54 Score=32.49 Aligned_cols=40 Identities=20% Similarity=0.213 Sum_probs=35.6
Q ss_pred CCCcccHHHHHHHhc--cceehhhhhHHHhhhccchhhccCC
Q 017095 90 EDGILDLNKAAETLE--VQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 90 p~g~ldLn~aA~~L~--VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
.++.-|...+|.+|+ |.--.+=+.+..|+-+|||+|..-+
T Consensus 134 ~~~~~~~~~ia~~l~p~is~~ev~~sL~~L~~~glikk~~~g 175 (271)
T TIGR02147 134 MPFADDPEELAKRCFPKISAEQVKESLDLLERLGLIKKNEDG 175 (271)
T ss_pred CCCCCCHHHHHHHhCCCCCHHHHHHHHHHHHHCCCeeECCCC
Confidence 567778999999998 8889999999999999999998654
No 39
>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=67.19 E-value=5.3 Score=28.68 Aligned_cols=42 Identities=26% Similarity=0.461 Sum_probs=34.9
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
+.+.++.. +...+.++|+.|++.+--++==+++|+..|+|+|
T Consensus 6 ~Il~~L~~---~~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~~ 47 (47)
T PF01022_consen 6 RILKLLSE---GPLTVSELAEELGLSQSTVSHHLKKLREAGLVEK 47 (47)
T ss_dssp HHHHHHTT---SSEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHh---CCCchhhHHHhccccchHHHHHHHHHHHCcCeeC
Confidence 34445533 7799999999999999999999999999999975
No 40
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=64.18 E-value=50 Score=34.87 Aligned_cols=94 Identities=14% Similarity=0.241 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHhhccCCCCceEEEEeCCCCce--EEecC--
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIENENNRKWLFVTEEDIKNLHCFQNQTLIAIKAPQGTT--LEVPD-- 222 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~~l~~f~~qTvIAIKAP~gT~--LEVPd-- 222 (377)
++..+..++..|..+.++|++.|..++++|..+...... ......+.|.+|.+.. |+|--
T Consensus 139 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~~~~----------------~~~~v~v~l~~~~~g~~~l~lsY~v 202 (525)
T TIGR02231 139 EIERLLTEDREAERRIRELEKQLSELQNELNALLTGKSQ----------------RSHTVLVRLEAPEDAEAELNLTYQV 202 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcc----------------ceEEEEEEEeccCCceEEEEEEEEe
Confidence 445555666666666666666666666666666442111 1123456667665543 44422
Q ss_pred CCcccCCCCCcEEEEEecCCCceEEEE----ecCccccccc
Q 017095 223 PDEAVDYPQRRYRIILRSTMGPIDVYL----VSRFEEKFEE 259 (377)
Q Consensus 223 P~e~~~~~~~~yqI~LkS~~GPIdVyL----~~~~~~~~e~ 259 (377)
+.... +..|.|+|.+..+++++-. .....+.+.+
T Consensus 203 ~~a~W---~P~Ydlrl~~~~~~~~l~~~A~V~Q~TGeDW~~ 240 (525)
T TIGR02231 203 GNASW---TPSYDARLDTGAPTVELTYLAEIRQSTGEDWSD 240 (525)
T ss_pred CCCcE---eeeeEEEecCCCceEEEEEEEEEEeCCCCCCCC
Confidence 22112 3479999999999887643 4455555544
No 41
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=64.13 E-value=9.3 Score=36.52 Aligned_cols=50 Identities=14% Similarity=0.288 Sum_probs=39.7
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc-CCeEE
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL-KNRIR 132 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s-KN~i~ 132 (377)
.++++... ++.+.+.++|+.|++.|=-+|-+++-|+..|++++.. .+.|.
T Consensus 16 iL~~l~~~-~~~ls~~eia~~lgl~kstv~RlL~tL~~~g~v~~~~~~~~Y~ 66 (263)
T PRK09834 16 VLRALNRL-DGGATVGLLAELTGLHRTTVRRLLETLQEEGYVRRSASDDSFR 66 (263)
T ss_pred HHHHHHhc-CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecCCCcEE
Confidence 34445444 3349999999999999999999999999999999863 34443
No 42
>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=63.80 E-value=4.9 Score=30.14 Aligned_cols=45 Identities=27% Similarity=0.423 Sum_probs=37.5
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.+.++ ..++...+.++|+.|++.+--+|-=+++|+..|||+...
T Consensus 14 ~Il~~L--~~~~~~t~~ela~~l~~~~~t~s~hL~~L~~aGli~~~~ 58 (61)
T PF12840_consen 14 RILRLL--ASNGPMTVSELAEELGISQSTVSYHLKKLEEAGLIEVER 58 (61)
T ss_dssp HHHHHH--HHCSTBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHH--hcCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCeEEec
Confidence 455555 356779999999999999999999999999999998763
No 43
>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=63.59 E-value=4.5 Score=31.29 Aligned_cols=40 Identities=18% Similarity=0.194 Sum_probs=33.7
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCe
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNR 130 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~ 130 (377)
.+.+++.++|.+|++...-+=.++.+|+.-|.|+|...+.
T Consensus 12 ~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~ 51 (69)
T PF09012_consen 12 RGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSS 51 (69)
T ss_dssp S-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE-
T ss_pred cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCC
Confidence 6789999999999999999999999999999999986543
No 44
>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=63.50 E-value=14 Score=28.40 Aligned_cols=42 Identities=24% Similarity=0.316 Sum_probs=36.7
Q ss_pred HhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 86 IKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 86 l~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
+.. .++.+...++|+.|+|.+=-+.+.++-|+.-|||++...
T Consensus 16 l~~-~~~~v~~~~iA~~L~vs~~tvt~ml~~L~~~GlV~~~~y 57 (60)
T PF01325_consen 16 LSE-EGGPVRTKDIAERLGVSPPTVTEMLKRLAEKGLVEYEPY 57 (60)
T ss_dssp HHH-CTSSBBHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred HHc-CCCCccHHHHHHHHCCChHHHHHHHHHHHHCCCEEecCC
Confidence 344 889999999999999999999999999999999987643
No 45
>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=62.72 E-value=13 Score=26.83 Aligned_cols=34 Identities=26% Similarity=0.362 Sum_probs=31.2
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
....++|+.+++.+=.+...++-|+.-|+|++..
T Consensus 26 ~~~~~la~~~~is~~~v~~~l~~L~~~G~i~~~~ 59 (66)
T cd07377 26 PSERELAEELGVSRTTVREALRELEAEGLVERRP 59 (66)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 4599999999999999999999999999998764
No 46
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=62.52 E-value=21 Score=28.94 Aligned_cols=27 Identities=22% Similarity=0.274 Sum_probs=21.6
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
+.+.++|+.+||+.+-|.-. |..|+|.
T Consensus 2 ~~i~e~A~~~gvs~~tLr~y----e~~Gli~ 28 (91)
T cd04766 2 YVISVAAELSGMHPQTLRLY----ERLGLLS 28 (91)
T ss_pred cCHHHHHHHHCcCHHHHHHH----HHCCCcC
Confidence 46889999999998877665 5568886
No 47
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=62.50 E-value=9.2 Score=31.18 Aligned_cols=47 Identities=15% Similarity=0.285 Sum_probs=40.9
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
+=++.+.+++.. +.+...++|+.+++.+.-++..++-|+.-|+|.+.
T Consensus 4 ~D~~il~~L~~~--~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~i~~~ 50 (108)
T smart00344 4 IDRKILEELQKD--ARISLAELAKKVGLSPSTVHNRVKRLEEEGVIKGY 50 (108)
T ss_pred HHHHHHHHHHHh--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeece
Confidence 346788888764 56899999999999999999999999999999854
No 48
>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=62.35 E-value=12 Score=30.90 Aligned_cols=45 Identities=13% Similarity=0.133 Sum_probs=37.2
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEecc
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGL 136 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~ 136 (377)
....+.-.++|+.+++.|--+.-+++.||.-|+|++..+ ..|.|.
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r~~~--~~~~~~ 88 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFRQGM--MGIVGV 88 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeecC--Cceeec
Confidence 455788899999999999999999999999999997643 334454
No 49
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=62.02 E-value=14 Score=28.74 Aligned_cols=44 Identities=20% Similarity=0.311 Sum_probs=37.1
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
+.+.++...+ .+...++|+.+++.+.-|+-+++-|+.-|+|++.
T Consensus 14 ~il~~l~~~~--~~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~ 57 (101)
T smart00347 14 LVLRILYEEG--PLSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRL 57 (101)
T ss_pred HHHHHHHHcC--CcCHHHHHHHHCCCchhHHHHHHHHHHCCCeEec
Confidence 4445555433 5889999999999999999999999999999976
No 50
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=61.42 E-value=5.7 Score=40.58 Aligned_cols=29 Identities=34% Similarity=0.634 Sum_probs=26.7
Q ss_pred HHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 96 LNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 96 Ln~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
+..+++.+++++||+|||+|-|+.+|+|.
T Consensus 304 y~~~~~~~~~~~~~~~~ii~~L~~lgiv~ 332 (366)
T COG1474 304 YESLCERLRTSQRRFSDIISELEGLGIVS 332 (366)
T ss_pred HHHHHhhhCchHHHHHHHHHHHHhcCeEE
Confidence 46788888899999999999999999998
No 51
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=60.85 E-value=33 Score=29.32 Aligned_cols=53 Identities=11% Similarity=0.246 Sum_probs=29.7
Q ss_pred CeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 129 NRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 129 N~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
.-+.|.|.+..-...+.+-+.-++..++.|+..-..|.+.|..+++++..+.+
T Consensus 70 ~v~v~iG~g~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~ 122 (129)
T cd00584 70 KVLVDLGTGYYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEA 122 (129)
T ss_pred EEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34777886643222233344555566666666666666666666666655543
No 52
>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=60.62 E-value=59 Score=30.00 Aligned_cols=45 Identities=22% Similarity=0.287 Sum_probs=38.3
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
++.+.++... +.+...++|+.|++.+=-+.-.++.|+.-|+|++.
T Consensus 4 ~~IL~~L~~~--~~~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~ 48 (203)
T TIGR02702 4 EDILSYLLKQ--GQATAAALAEALAISPQAVRRHLKDLETEGLIEYE 48 (203)
T ss_pred HHHHHHHHHc--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEe
Confidence 3566666654 34999999999999999999999999999999876
No 53
>COG2739 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.77 E-value=7.7 Score=33.76 Aligned_cols=40 Identities=35% Similarity=0.381 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 76 GLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 76 glLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
++||.|=..++.--=..-++|.++|+.++|+|-.|||=++
T Consensus 16 sLLT~KQ~~Y~~lyy~dDlSl~EIAee~~VSRqAIyDnIK 55 (105)
T COG2739 16 SLLTKKQKNYLELYYLDDLSLSEIAEEFNVSRQAIYDNIK 55 (105)
T ss_pred HHHhHHHHHHHHHHHHhhccHHHHHHHhCccHHHHHHHHH
Confidence 4678776665554444458999999999999999999765
No 54
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=59.75 E-value=38 Score=32.36 Aligned_cols=54 Identities=22% Similarity=0.199 Sum_probs=43.3
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEec
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKG 135 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G 135 (377)
++.++++++ .+.+...++|+.|+|+.+.|.--++.|+.-|++.+....-+.+.+
T Consensus 7 ~~Il~~l~~--~~~~~~~eLa~~l~VS~~TiRRdL~~L~~~~~l~r~~Gga~~~~~ 60 (240)
T PRK10411 7 QAIVDLLLN--HTSLTTEALAEQLNVSKETIRRDLNELQTQGKILRNHGRAKYIHR 60 (240)
T ss_pred HHHHHHHHH--cCCCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEecCeEEEecC
Confidence 345667764 568999999999999999999999999999999887555554443
No 55
>PRK09954 putative kinase; Provisional
Probab=59.26 E-value=10 Score=37.46 Aligned_cols=46 Identities=20% Similarity=0.356 Sum_probs=40.5
Q ss_pred HHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 79 TKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 79 TkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
-++.++++++.+ .+...++|+.|+|.|..++-.++-|+.-|+|++.
T Consensus 5 ~~~il~~l~~~~--~~s~~~la~~l~~s~~~v~~~i~~L~~~g~i~~~ 50 (362)
T PRK09954 5 EKEILAILRRNP--LIQQNEIADILQISRSRVAAHIMDLMRKGRIKGK 50 (362)
T ss_pred HHHHHHHHHHCC--CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCcCCc
Confidence 457888887654 7999999999999999999999999999999755
No 56
>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=59.14 E-value=6.3 Score=27.02 Aligned_cols=22 Identities=36% Similarity=0.575 Sum_probs=20.1
Q ss_pred ccHHHHHHHhccceehhhhhHH
Q 017095 94 LDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItN 115 (377)
+++.++|+.|||.++.||-.++
T Consensus 2 lt~~e~a~~lgis~~ti~~~~~ 23 (49)
T TIGR01764 2 LTVEEAAEYLGVSKDTVYRLIH 23 (49)
T ss_pred CCHHHHHHHHCCCHHHHHHHHH
Confidence 5789999999999999999985
No 57
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=58.99 E-value=1e+02 Score=28.29 Aligned_cols=96 Identities=20% Similarity=0.331 Sum_probs=55.3
Q ss_pred CCCCcHHHHHHHHHHHH-hhCCCCcc---------------cHHHHHHHhcc-ceehhhhhHHHhhhccchhhccCCeEE
Q 017095 70 RYDSSLGLLTKKFINLI-KHAEDGIL---------------DLNKAAETLEV-QKRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 70 R~d~SLglLTkkFi~ll-~~ap~g~l---------------dLn~aA~~L~V-qKRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
+++-+...|.++|..+. +-+||... -||+|-+.|.= .+|+.|++ -|.|+.+......
T Consensus 12 ~~~~d~~~L~~~yr~l~~~~HPDk~~~~~~~~~~~a~~~s~~iN~AY~~L~dp~~Ra~Yll--~l~g~~~~~~~~~---- 85 (171)
T PRK05014 12 RYDIDTQLLASRYQELQRQFHPDKFANASERERLLAVQQAATINDAYQTLKHPLKRAEYLL--SLHGFDLAHEQHT---- 85 (171)
T ss_pred CCCCCHHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHCChhHHHHHHH--HhcCCccccccCC----
Confidence 45677889999999986 44676532 37777788876 78999985 4556665443210
Q ss_pred EeccCCCCCCcchhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 017095 133 WKGLDNSIPGEVDADASILQADIDNLSM---EELRVDEQTRELRERLR 177 (377)
Q Consensus 133 W~G~~~s~~~~~~~~~~~Lk~El~~L~~---~E~~LD~lI~~~~q~L~ 177 (377)
...+ ++--.+-.++++++.+.. .+..|+++..++++.++
T Consensus 86 -----~~d~-efLme~me~rE~le~~~~~~d~~~~l~~l~~~~~~~~~ 127 (171)
T PRK05014 86 -----VRDT-AFLMEQMELREELEDIEQSKDPEAALESFIKRVKKMFK 127 (171)
T ss_pred -----cCCH-HHHHHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHH
Confidence 1122 333345556666665432 13334444444444433
No 58
>PF13518 HTH_28: Helix-turn-helix domain
Probab=58.53 E-value=9.1 Score=27.05 Aligned_cols=38 Identities=13% Similarity=0.317 Sum_probs=30.7
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGL 122 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGL 122 (377)
+.|.++.+ |. .+.++|..++|.++.||.+++-++.-|+
T Consensus 4 ~iv~~~~~---g~-s~~~~a~~~gis~~tv~~w~~~y~~~G~ 41 (52)
T PF13518_consen 4 QIVELYLE---GE-SVREIAREFGISRSTVYRWIKRYREGGI 41 (52)
T ss_pred HHHHHHHc---CC-CHHHHHHHHCCCHhHHHHHHHHHHhcCH
Confidence 34555542 44 9999999999999999999999988664
No 59
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=58.49 E-value=26 Score=29.89 Aligned_cols=60 Identities=12% Similarity=0.151 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHhh-cc-CCCCceEEEEeCC
Q 017095 148 ASILQADIDNLSMEELRVDEQTRELRERLRELIENENNRKWLFVTEEDIKN-LH-CFQNQTLIAIKAP 213 (377)
Q Consensus 148 ~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~~-l~-~f~~qTvIAIKAP 213 (377)
...++++++.++.+-++|.+....++.++..|.++. .|+.+. .+. +- .-.|+++|-|.-|
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~-----dyiEe~-AR~~Lg~vk~gEivy~~~~~ 90 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQ-----EAIEER-ARNELGMVKPGETFYRIVPD 90 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcH-----HHHHHH-HHHHcCCCCCCCEEEEeCCC
Confidence 444555555555555555555555555555554432 233322 121 10 1257777666555
No 60
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=58.31 E-value=23 Score=32.59 Aligned_cols=56 Identities=14% Similarity=0.105 Sum_probs=43.4
Q ss_pred cHHH-HHHHHHHHHhh---CCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 74 SLGL-LTKKFINLIKH---AEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 74 SLgl-LTkkFi~ll~~---ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
++.. +..++.+.+.. .|+..+.-.++|++|||+|=-+=+.+..|+..|||+.....
T Consensus 11 ~~~e~v~~~l~~~I~~g~l~pG~~L~e~~La~~lgVSRtpVREAL~~L~~eGLV~~~~~~ 70 (221)
T PRK11414 11 SLTLQVENDLKHQLSIGALKPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQ 70 (221)
T ss_pred CHHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHCCCchhHHHHHHHHHHCCCEEecCCC
Confidence 4443 33444444432 57888999999999999999999999999999999976544
No 61
>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=58.18 E-value=8.7 Score=30.08 Aligned_cols=46 Identities=20% Similarity=0.208 Sum_probs=35.1
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccc-eehhhhhHHHhhhccchhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQ-KRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~Vq-KRRIYDItNVLEgIGLIeK~s 127 (377)
||.-+....+-.-.+.++|+.||+. ..-++.-+..||.-|+|++..
T Consensus 14 ~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~~ 60 (65)
T PF01726_consen 14 FIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRRDP 60 (65)
T ss_dssp HHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEGC
T ss_pred HHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccCCC
Confidence 4443334456677999999999996 999999999999999999874
No 62
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal 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=58.01 E-value=27 Score=29.59 Aligned_cols=38 Identities=26% Similarity=0.420 Sum_probs=27.3
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEec
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKG 135 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G 135 (377)
+.+.++|+.+||..|-| --.|..|||. +...|.|+|-.
T Consensus 1 ~~I~eva~~~gvs~~tL----RyYe~~GLl~p~~r~~~gyR~Y~ 40 (123)
T cd04770 1 MKIGELAKAAGVSPDTI----RYYERIGLLPPPQRSENGYRLYG 40 (123)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCCCCCCCCccCC
Confidence 35789999999988855 2367788886 34567777743
No 63
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=57.88 E-value=26 Score=28.18 Aligned_cols=37 Identities=27% Similarity=0.507 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 145 DADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 145 ~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
+..+..|..|.+.|...|..+...|+.++.++.++-.
T Consensus 11 De~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~ 47 (74)
T PF12329_consen 11 DEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEK 47 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 4568899999999999999999999999888877643
No 64
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=57.86 E-value=40 Score=29.28 Aligned_cols=51 Identities=22% Similarity=0.281 Sum_probs=24.4
Q ss_pred CeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 129 NRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLREL 179 (377)
Q Consensus 129 N~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~L 179 (377)
.-+.|.|.+..-...+.+-+.-|++.++.|...-..|.+.|.++++++..+
T Consensus 77 kV~v~lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~ 127 (140)
T PRK03947 77 KVIVSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQL 127 (140)
T ss_pred eEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677765432222333344455555555555555555555554444443
No 65
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, 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 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 dissimil
Probab=57.73 E-value=33 Score=28.51 Aligned_cols=36 Identities=19% Similarity=0.355 Sum_probs=24.6
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh-hccCCeEEE
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE-KKLKNRIRW 133 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe-K~sKN~i~W 133 (377)
+.+.++|+.+||+.+-| -..|-.||+. +...|.++.
T Consensus 2 ~~i~eva~~~gvs~~tL----R~ye~~Gll~~~r~~~g~R~ 38 (102)
T cd04775 2 YTIGQMSRKFGVSRSTL----LYYESIGLIPSARSEANYRL 38 (102)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCCCCCCCee
Confidence 56889999999988876 4456678883 333444544
No 66
>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=57.35 E-value=8.3 Score=32.17 Aligned_cols=37 Identities=19% Similarity=0.294 Sum_probs=34.0
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.+.+.+.++|+.+++.+--++=+++-||.-|+|++..
T Consensus 40 ~~~~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~ 76 (118)
T TIGR02337 40 QGSMEFTQLANQACILRPSLTGILARLERDGLVTRLK 76 (118)
T ss_pred cCCcCHHHHHHHhCCCchhHHHHHHHHHHCCCEEecc
Confidence 4568899999999999999999999999999999973
No 67
>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=57.17 E-value=7.1 Score=37.80 Aligned_cols=40 Identities=18% Similarity=0.172 Sum_probs=35.6
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
.+..++.++|+++++..|+++-+.+.|.++|++++.. +.|
T Consensus 21 ~gp~t~~eLA~~~~~~~~~~~~lL~~L~~lgll~~~~-~~y 60 (306)
T TIGR02716 21 EGPKDLATLAADTGSVPPRLEMLLETLRQMRVINLED-GKW 60 (306)
T ss_pred cCCCCHHHHHHHcCCChHHHHHHHHHHHhCCCeEecC-CcE
Confidence 3688999999999999999999999999999999863 443
No 68
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=56.85 E-value=28 Score=26.79 Aligned_cols=36 Identities=22% Similarity=0.333 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
....++.++..|+.+-+.|.+.+..+++++..|..|
T Consensus 18 ~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~ 53 (80)
T PF04977_consen 18 RYYQLNQEIAELQKEIEELKKENEELKEEIERLKND 53 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 356777888888888888888888888888888333
No 69
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=56.85 E-value=19 Score=30.15 Aligned_cols=77 Identities=17% Similarity=0.193 Sum_probs=42.6
Q ss_pred HHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCC------cchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 99 AAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPG------EVDADASILQADIDNLSMEELRVDEQTREL 172 (377)
Q Consensus 99 aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~------~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~ 172 (377)
.-..|..+++...++.+-|+.+. ...+.|+=+|.-..... .+..++..+..+++.|..+...+...+..+
T Consensus 21 ~~~~l~~~~~E~~~v~~EL~~l~----~d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~el 96 (105)
T cd00632 21 QRQKVEAQLNENKKALEELEKLA----DDAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKEL 96 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCC----CcchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455568888888888888775 22333434453222110 123344555556666666666666666666
Q ss_pred HHHHHHH
Q 017095 173 RERLREL 179 (377)
Q Consensus 173 ~q~L~~L 179 (377)
+..|+++
T Consensus 97 k~~l~~~ 103 (105)
T cd00632 97 QEKIQQA 103 (105)
T ss_pred HHHHHHH
Confidence 6666554
No 70
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=56.44 E-value=15 Score=35.20 Aligned_cols=50 Identities=24% Similarity=0.454 Sum_probs=42.6
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC-eE
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN-RI 131 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN-~i 131 (377)
..++++...|.+ +.+.++|+++|+.|=-.|=+.+.|+..|++++...+ +|
T Consensus 8 ~iL~~l~~~~~~-l~l~ela~~~glpksT~~RlL~tL~~~G~v~~d~~~g~Y 58 (246)
T COG1414 8 AILDLLAEGPGG-LSLAELAERLGLPKSTVHRLLQTLVELGYVEQDPEDGRY 58 (246)
T ss_pred HHHHHHHhCCCC-CCHHHHHHHhCcCHHHHHHHHHHHHHCCCEEEcCCCCcE
Confidence 466777664444 899999999999999999999999999999999765 44
No 71
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=56.10 E-value=30 Score=32.74 Aligned_cols=39 Identities=23% Similarity=0.263 Sum_probs=35.8
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
...++.|.++++.||++|=++-=.+-+|++.||++|+-+
T Consensus 38 s~~Pmtl~Ei~E~lg~Sks~vS~~lkkL~~~~lV~~~~~ 76 (177)
T COG1510 38 SRKPLTLDEIAEALGMSKSNVSMGLKKLQDWNLVKKVFE 76 (177)
T ss_pred cCCCccHHHHHHHHCCCcchHHHHHHHHHhcchHHhhhc
Confidence 367899999999999999999999999999999999843
No 72
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=56.06 E-value=96 Score=26.50 Aligned_cols=31 Identities=10% Similarity=0.041 Sum_probs=26.3
Q ss_pred CcccHHHHHHHhccceehhhhhHHHhhhccc
Q 017095 92 GILDLNKAAETLEVQKRRIYDITNVLEGIGL 122 (377)
Q Consensus 92 g~ldLn~aA~~L~VqKRRIYDItNVLEgIGL 122 (377)
+-..+.++|.+|||+.--||-+.+-+..-|+
T Consensus 28 ~g~sv~evA~e~gIs~~tl~~W~r~y~~~~~ 58 (121)
T PRK09413 28 PGMTVSLVARQHGVAASQLFLWRKQYQEGSL 58 (121)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHhhccc
Confidence 3458999999999999999999999875444
No 73
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=55.43 E-value=19 Score=30.82 Aligned_cols=42 Identities=14% Similarity=0.178 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHH
Q 017095 75 LGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNV 116 (377)
Q Consensus 75 LglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNV 116 (377)
-.....++++++.......++|.++|+.+|+.+|.|.-+..-
T Consensus 7 ~~~~i~~~~~~I~~~~~~~~sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 7 DAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred cHHHHHHHHHHHHHhcCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 355668999999999999999999999999999988766543
No 74
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=55.21 E-value=1.3e+02 Score=27.06 Aligned_cols=96 Identities=21% Similarity=0.272 Sum_probs=46.1
Q ss_pred HHHHHhhCCCCcccHHHHHHHhc--cceehhhhhHHHhhhccch-hhc-cCCeEEEeccCCCCCCcchhHHHHHHHHHHH
Q 017095 82 FINLIKHAEDGILDLNKAAETLE--VQKRRIYDITNVLEGIGLI-EKK-LKNRIRWKGLDNSIPGEVDADASILQADIDN 157 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~--VqKRRIYDItNVLEgIGLI-eK~-sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~ 157 (377)
.++||+. .+.+++.+.+..-|+ |.|=-+==+..-|..=|.| .|. +|-.|-|.-.+.... .....+..+..++..
T Consensus 6 Il~y~~~-qNRPys~~di~~nL~~~~~K~~v~k~Ld~L~~~g~i~~K~~GKqkiY~~~Q~~~~~-~s~eel~~ld~ei~~ 83 (169)
T PF07106_consen 6 ILEYMKE-QNRPYSAQDIFDNLHNKVGKTAVQKALDSLVEEGKIVEKEYGKQKIYFANQDELEV-PSPEELAELDAEIKE 83 (169)
T ss_pred HHHHHHH-cCCCCcHHHHHHHHHhhccHHHHHHHHHHHHhCCCeeeeeecceEEEeeCccccCC-CCchhHHHHHHHHHH
Confidence 3456654 477888888888884 5553333333333333433 343 566666654333210 011234444444444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 017095 158 LSMEELRVDEQTRELRERLREL 179 (377)
Q Consensus 158 L~~~E~~LD~lI~~~~q~L~~L 179 (377)
|..+-..|...++.+..+|..|
T Consensus 84 L~~el~~l~~~~k~l~~eL~~L 105 (169)
T PF07106_consen 84 LREELAELKKEVKSLEAELASL 105 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444
No 75
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=54.86 E-value=48 Score=31.71 Aligned_cols=88 Identities=22% Similarity=0.223 Sum_probs=58.0
Q ss_pred CcHHHHHHHHHHHHhhCCCCcccHHH-----------HHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCC
Q 017095 73 SSLGLLTKKFINLIKHAEDGILDLNK-----------AAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIP 141 (377)
Q Consensus 73 ~SLglLTkkFi~ll~~ap~g~ldLn~-----------aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~ 141 (377)
+.+....++..+++....+.+..-+. +.-.+.|..-++-+.++-|+++|-+....-+ .
T Consensus 59 ~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~g~v~~~~~~-----------~ 127 (262)
T PF14257_consen 59 KDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSELGKVTSRNIS-----------S 127 (262)
T ss_pred CCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhccCceeeeecc-----------c
Confidence 34556666777777776655544443 2345678889999999999999876544221 2
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 142 GEVDADASILQADIDNLSMEELRVDEQTRE 171 (377)
Q Consensus 142 ~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~ 171 (377)
.++..+...+++.++.|+.++++|-++++.
T Consensus 128 ~DvT~~y~D~~arl~~l~~~~~rl~~ll~k 157 (262)
T PF14257_consen 128 EDVTEQYVDLEARLKNLEAEEERLLELLEK 157 (262)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 244555666777777777777777776653
No 76
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=54.51 E-value=24 Score=38.84 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=50.6
Q ss_pred hhhH-HHhhhccchhhccCCeEEEeccCCCCCC------cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 111 YDIT-NVLEGIGLIEKKLKNRIRWKGLDNSIPG------EVDADASILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 111 YDIt-NVLEgIGLIeK~sKN~i~W~G~~~s~~~------~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
|+.+ +-|..|.=|.|.+||++ -..+.+.+ .++..+..|+.|-+.|..+...+|.-+..+.++|..|..+
T Consensus 479 ~~lte~QLslIrDIRRRgKNkv---AAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~~~d~~L~~~kqqls~L~~~ 554 (604)
T KOG3863|consen 479 YKLTEEQLSLIRDIRRRGKNKV---AAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERDELDSTLGVMKQQLSELYQE 554 (604)
T ss_pred cccCHHHHHHhhccccccccch---hccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444 67888888999999987 33333322 2455677788888888888889999999999998877554
No 77
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=54.00 E-value=9.8 Score=30.27 Aligned_cols=32 Identities=28% Similarity=0.333 Sum_probs=30.1
Q ss_pred HHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 96 LNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 96 Ln~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.++|+.|++.+=-++-++..|+.-|+|.+..
T Consensus 2 ~~ela~~l~is~stvs~~l~~L~~~glI~r~~ 33 (96)
T smart00529 2 TSEIAERLNVSPPTVTQMLKKLEKDGLVEYEP 33 (96)
T ss_pred HHHHHHHhCCChHHHHHHHHHHHHCCCEEEcC
Confidence 57899999999999999999999999999985
No 78
>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=53.55 E-value=17 Score=30.33 Aligned_cols=45 Identities=16% Similarity=0.324 Sum_probs=39.5
Q ss_pred HHHHh--hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 83 INLIK--HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 83 i~ll~--~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.++. .++.+.+.+.++|+.+++.+=.+-=+++-||.-|+|.|..
T Consensus 31 L~~l~~~~~~~~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~ 77 (109)
T TIGR01889 31 LYYLGKLENNEGKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKER 77 (109)
T ss_pred HHHHHhhhccCCcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccC
Confidence 44444 5677899999999999999999999999999999999873
No 79
>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=53.41 E-value=13 Score=28.10 Aligned_cols=36 Identities=25% Similarity=0.420 Sum_probs=27.8
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhh
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLE 118 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLE 118 (377)
+.++++-. .+.+.+.++|+.|+++.|-|.--++-|.
T Consensus 9 ~Ll~~L~~--~~~~~~~ela~~l~~S~rti~~~i~~L~ 44 (59)
T PF08280_consen 9 KLLELLLK--NKWITLKELAKKLNISERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHH--HTSBBHHHHHHHCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHc--CCCCcHHHHHHHHCCCHHHHHHHHHHHH
Confidence 46676656 6778999999999999999876666665
No 80
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=53.36 E-value=39 Score=30.81 Aligned_cols=34 Identities=9% Similarity=0.218 Sum_probs=19.0
Q ss_pred eEEEEeCCCCceEEecCCCcccCCCCCcEEEEEecCCCceE
Q 017095 206 TLIAIKAPQGTTLEVPDPDEAVDYPQRRYRIILRSTMGPID 246 (377)
Q Consensus 206 TvIAIKAP~gT~LEVPdP~e~~~~~~~~yqI~LkS~~GPId 246 (377)
.+|.|+.-+.|+|++-..++. ..++.+-..-|..
T Consensus 58 PFIlV~T~~~a~I~ceiS~D~-------~~~~F~Fn~~pFe 91 (142)
T PF08781_consen 58 PFILVNTSKKAVIECEISEDK-------SEYHFDFNSTPFE 91 (142)
T ss_dssp S-EEEEEESS--EEEEE-TTS-------SEEEEEESS--EE
T ss_pred CEEEEEecCCcEEEEEEcCCc-------cEEEEEcCCCcee
Confidence 469999999999999776542 3345555544444
No 81
>PRK00215 LexA repressor; Validated
Probab=53.23 E-value=16 Score=33.41 Aligned_cols=42 Identities=14% Similarity=0.150 Sum_probs=36.9
Q ss_pred hCCCCcccHHHHHHHhcc-ceehhhhhHHHhhhccchhhccCC
Q 017095 88 HAEDGILDLNKAAETLEV-QKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L~V-qKRRIYDItNVLEgIGLIeK~sKN 129 (377)
...+....+.++|+.+++ .|=-++.+++-||.-|+|++....
T Consensus 18 ~~~~~~~s~~ela~~~~~~~~~tv~~~l~~L~~~g~i~~~~~~ 60 (205)
T PRK00215 18 EETGYPPSRREIADALGLRSPSAVHEHLKALERKGFIRRDPGR 60 (205)
T ss_pred HHhCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCCCEEeCCCC
Confidence 445667899999999999 999999999999999999987544
No 82
>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=52.98 E-value=13 Score=28.27 Aligned_cols=51 Identities=24% Similarity=0.276 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhCC----------CCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 78 LTKKFINLIKHAE----------DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 78 LTkkFi~ll~~ap----------~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
++.-|+.++...+ ...+...++|+.+|+.++.+--+++-|+.-|+|+...+
T Consensus 3 la~~Ll~l~~~~~~~~~~~~~~~~~~lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~~ 63 (76)
T PF13545_consen 3 LARFLLELAERFGRRQDGDGIRIPLPLTQEEIADMLGVSRETVSRILKRLKDEGIIEVKRG 63 (76)
T ss_dssp HHHHHHHHHHHHEEEEETTEEEEEEESSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETT
T ss_pred HHHHHHHHHHHHCCCCCCCCceEEecCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCC
Confidence 5556666664432 12577899999999999999999999999999997644
No 83
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. 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 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=52.85 E-value=40 Score=28.09 Aligned_cols=37 Identities=22% Similarity=0.346 Sum_probs=23.7
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh-hccCCeEEEe
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE-KKLKNRIRWK 134 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe-K~sKN~i~W~ 134 (377)
+.+.++|+.+||..+-|- -.|-.|||. ....|.+++-
T Consensus 2 ~~i~eva~~~gvs~~tlR----~ye~~Gll~~~r~~~g~R~Y 39 (102)
T cd04789 2 YTISELAEKAGISRSTLL----YYEKLGLITGTRNANGYRLY 39 (102)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCCCCCcCCCCCeeC
Confidence 578899999999887442 335567775 2233555554
No 84
>PRK11569 transcriptional repressor IclR; Provisional
Probab=52.08 E-value=63 Score=31.15 Aligned_cols=45 Identities=11% Similarity=0.256 Sum_probs=37.8
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.++++.. ....+.|.++|+.+|+.|=.+|=+++-|+..|++++..
T Consensus 33 IL~~l~~-~~~~~~lseia~~lglpksTv~RlL~tL~~~G~l~~~~ 77 (274)
T PRK11569 33 LLEWIAE-SNGSVALTELAQQAGLPNSTTHRLLTTMQQQGFVRQVG 77 (274)
T ss_pred HHHHHHh-CCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcC
Confidence 3444544 35568999999999999999999999999999999754
No 85
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=51.53 E-value=62 Score=27.50 Aligned_cols=54 Identities=17% Similarity=0.228 Sum_probs=34.5
Q ss_pred CCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 128 KNRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 128 KN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
..-+.|.|.+-.--...++-+.-|+..++.|...-..|.+.|.++++++..+.+
T Consensus 68 ~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~ 121 (126)
T TIGR00293 68 DKVLVSIGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQ 121 (126)
T ss_pred CEEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445778886654222344456666777777777777777777777777766544
No 86
>PRK10870 transcriptional repressor MprA; Provisional
Probab=51.12 E-value=72 Score=29.04 Aligned_cols=40 Identities=20% Similarity=0.289 Sum_probs=36.1
Q ss_pred hhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 87 KHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 87 ~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
...+++.+...++|+.|++.+=-+-=+++-||.-|+|+|.
T Consensus 65 ~~~~~~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~ 104 (176)
T PRK10870 65 ESQENHSIQPSELSCALGSSRTNATRIADELEKRGWIERR 104 (176)
T ss_pred hcCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 3445778999999999999999999999999999999997
No 87
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=50.82 E-value=1.2e+02 Score=25.98 Aligned_cols=35 Identities=17% Similarity=0.250 Sum_probs=32.4
Q ss_pred cccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 93 ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 93 ~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.+...++|+.+++.+--+--+++.||.-|+|+|..
T Consensus 46 ~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~ 80 (144)
T PRK03573 46 EQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQT 80 (144)
T ss_pred CCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeec
Confidence 35789999999999999999999999999999983
No 88
>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=50.69 E-value=21 Score=33.68 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=37.3
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.++++..+ ...+.+.++|+.+++.|=.+|-+++-|+..|++++.
T Consensus 14 IL~~l~~~-~~~~~l~eia~~lglpksT~~RlL~tL~~~G~l~~~ 57 (248)
T TIGR02431 14 VIEAFGAE-RPRLTLTDVAEATGLTRAAARRFLLTLVELGYVTSD 57 (248)
T ss_pred HHHHHhcC-CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 44445443 456899999999999999999999999999999975
No 89
>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=50.51 E-value=25 Score=30.47 Aligned_cols=38 Identities=21% Similarity=0.307 Sum_probs=34.1
Q ss_pred hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 88 HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
+..++.+.+.++|+++++..+-+..|+..|.--|||.-
T Consensus 20 ~~~~~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s 57 (135)
T TIGR02010 20 NAETGPVTLADISERQGISLSYLEQLFAKLRKAGLVKS 57 (135)
T ss_pred CCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEE
Confidence 33456899999999999999999999999999999974
No 90
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=50.33 E-value=24 Score=28.84 Aligned_cols=40 Identities=15% Similarity=0.168 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHH
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNV 116 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNV 116 (377)
.+..+++.++.......+++.++|+.+++++|.+.=+..=
T Consensus 5 ~~~~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~f~~ 44 (107)
T PRK10219 5 KIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRT 44 (107)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 3567888999888889999999999999999998776543
No 91
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=49.93 E-value=67 Score=30.49 Aligned_cols=47 Identities=6% Similarity=0.309 Sum_probs=38.9
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
..++++.. .+.+.+.++|+.|++.|=-+|-+++.|+..|++++...+
T Consensus 18 ~IL~~l~~--~~~l~l~eia~~lgl~kstv~Rll~tL~~~G~l~~~~~~ 64 (257)
T PRK15090 18 GILQALGE--EREIGITELSQRVMMSKSTVYRFLQTMKTLGYVAQEGES 64 (257)
T ss_pred HHHHHhhc--CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEcCCC
Confidence 34555543 346899999999999999999999999999999987543
No 92
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=49.86 E-value=46 Score=28.54 Aligned_cols=79 Identities=22% Similarity=0.241 Sum_probs=0.0
Q ss_pred ccHHHHHHHhcccee--hhhhhHHHhhhccchh--hccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHHHHH--
Q 017095 94 LDLNKAAETLEVQKR--RIYDITNVLEGIGLIE--KKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNLSME-- 161 (377)
Q Consensus 94 ldLn~aA~~L~VqKR--RIYDItNVLEgIGLIe--K~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L~~~-- 161 (377)
+.+.++|+.+||++| |.| |.+|||. +...|.|++-..+.. .--..+..|+ +|+..+-..
T Consensus 1 m~IgevA~~~gvs~~tLRyY------e~~GLl~p~~r~~~gyR~Y~~~~l---~~l~~I~~lr~~G~sL~eI~~~l~~~~ 71 (127)
T cd04784 1 MKIGELAKKTGCSVETIRYY------EKEGLLPAPARSANNYRLYDEEHL---ERLLFIRRCRSLDMSLDEIRTLLQLQD 71 (127)
T ss_pred CCHHHHHHHHCcCHHHHHHH------HHCCCCCCCCcCCCCCeecCHHHH---HHHHHHHHHHHcCCCHHHHHHHHHhhh
Q ss_pred ---------HHHHHHHHHHHHHHHHHHhh
Q 017095 162 ---------ELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 162 ---------E~~LD~lI~~~~q~L~~Lte 181 (377)
...|.+++..+.+++.+|..
T Consensus 72 ~~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T cd04784 72 DPEASCAEVNALIDEHLAHVRARIAELQA 100 (127)
T ss_pred cCCCcHHHHHHHHHHHHHHHHHHHHHHHH
No 93
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=49.49 E-value=19 Score=33.79 Aligned_cols=43 Identities=26% Similarity=0.341 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhh
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEG 119 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEg 119 (377)
.+..+|+.++.+.....++|.++|+.+++++|.+..+..-..|
T Consensus 186 ~~~~~~~~~I~~~~~~~~sl~~lA~~~~~S~~~l~r~Fk~~~G 228 (287)
T TIGR02297 186 YLFNRFNFLIEENYKQHLRLPEYADRLGISESRLNDICRRFSA 228 (287)
T ss_pred HHHHHHHHHHHHhhccCCCHHHHHHHHCCCHHHHHHHHHHHhC
Confidence 4568899999988888999999999999999999988754443
No 94
>TIGR02366 DHAK_reg probable dihydroxyacetone kinase regulator. The seed alignment for this family was built from a set of closely related uncharacterized proteins associated with operons for the type of bacterial dihydroxyacetone kinase that transfers PEP-derived phosphate from a phosphoprotein, as in phosphotransferase system transport, rather than from ATP. Members have a TetR transcriptional regulator domain (pfam00440) at the N-terminus and sequence homology throughout.
Probab=49.45 E-value=20 Score=31.25 Aligned_cols=36 Identities=14% Similarity=0.325 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhh
Q 017095 76 GLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIY 111 (377)
Q Consensus 76 glLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIY 111 (377)
..+..-|++|++..+=..+.++++|++-||.|.-+|
T Consensus 6 ~~I~~a~~~Ll~~k~~~~ITV~~I~~~AgvsR~TFY 41 (176)
T TIGR02366 6 KKIAKAFKDLMEVQAFSKISVSDIMSTAQIRRQTFY 41 (176)
T ss_pred HHHHHHHHHHHHHCCCccCCHHHHHHHhCCCHHHHH
Confidence 356778999999999999999999999999999887
No 95
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=48.49 E-value=1.2e+02 Score=29.65 Aligned_cols=43 Identities=19% Similarity=0.417 Sum_probs=33.4
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
++.+.++-+.| .=..+++..|||..-.|-+=.-.||--|||+-
T Consensus 18 R~Il~lLt~~p---~yvsEiS~~lgvsqkAVl~HL~~LE~AGlveS 60 (217)
T COG1777 18 RRILQLLTRRP---CYVSEISRELGVSQKAVLKHLRILERAGLVES 60 (217)
T ss_pred HHHHHHHhcCc---hHHHHHHhhcCcCHHHHHHHHHHHHHcCCchh
Confidence 46777777766 44567788899988888888888888888774
No 96
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=48.38 E-value=16 Score=36.43 Aligned_cols=52 Identities=27% Similarity=0.440 Sum_probs=41.6
Q ss_pred CcHHHHHH-HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 73 SSLGLLTK-KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 73 ~SLglLTk-kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
++|+..++ +.++++. ..+.+++|++|+.||...--+--=+.|||-.|||+-.
T Consensus 18 kalaS~vRv~Il~lL~--~k~plNvneiAe~lgLpqst~s~~ik~Le~aGlirT~ 70 (308)
T COG4189 18 KALASKVRVAILQLLH--RKGPLNVNEIAEALGLPQSTMSANIKVLEKAGLIRTE 70 (308)
T ss_pred HHHHHHHHHHHHHHHH--HhCCCCHHHHHHHhCCchhhhhhhHHHHHhcCceeee
Confidence 45666664 4555663 4677999999999999999999899999999999854
No 97
>PF09940 DUF2172: Domain of unknown function (DUF2172); InterPro: IPR012353 The proteins in this entry are encoded by genes located in polysaccharide biosynthesis gene clusters, and are therefore believed to be involved in polysaccharide biosynthesis. The ste gene cluster (for Streptomyces eps) is involved in exopolysaccharide EPS 139A biosynthesis in Streptomyces sp. 139 []. Members of this group exhibit distant sequence similarity to aminopeptidases (IPR007484 from INTERPRO, MEROPS peptidase family M28).; PDB: 3K9T_A.
Probab=48.32 E-value=14 Score=38.56 Aligned_cols=48 Identities=21% Similarity=0.213 Sum_probs=35.0
Q ss_pred CcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 73 SSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 73 ~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
.....+...|+.++ ||..+|-++|+++++.-++++|+.+.|...|||+
T Consensus 339 ~~~~~~~l~~L~~~----DG~~slldIA~~~~~~~~~~~~~~~~l~~~~Llk 386 (386)
T PF09940_consen 339 KAQQMAMLWVLNYS----DGKNSLLDIAERIGLPFDELADAARKLLEAGLLK 386 (386)
T ss_dssp ---HHHHHHHHHH-----EEEEEHHHHHHHHT--HHHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHHHHHhc----cCCCcHHHHHHHHCcCHHHHHHHHHHHHHcCCCC
Confidence 33444445566554 8889999999999999999999999999999985
No 98
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=48.13 E-value=42 Score=28.42 Aligned_cols=84 Identities=19% Similarity=0.239 Sum_probs=45.5
Q ss_pred HHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCC------cchhHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 96 LNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPG------EVDADASILQADIDNLSMEELRVDEQT 169 (377)
Q Consensus 96 Ln~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~------~~~~~~~~Lk~El~~L~~~E~~LD~lI 169 (377)
+..++..+..-.+.+=..-.|++.|.-+. .+...|+=.|.=..... ++..++..+...++.|..+...|...+
T Consensus 19 ~~~l~~q~~~le~~~~E~~~v~~eL~~l~-~d~~vyk~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l 97 (110)
T TIGR02338 19 LQAVATQKQQVEAQLKEAEKALEELERLP-DDTPVYKSVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQL 97 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CcchhHHHhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444443344445555666655554 33445555554222110 233445556666677777777777777
Q ss_pred HHHHHHHHHHh
Q 017095 170 RELRERLRELI 180 (377)
Q Consensus 170 ~~~~q~L~~Lt 180 (377)
.+++++|+.+.
T Consensus 98 ~e~q~~l~~~~ 108 (110)
T TIGR02338 98 KELQEKIQEAL 108 (110)
T ss_pred HHHHHHHHHHh
Confidence 77777777653
No 99
>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=47.96 E-value=24 Score=32.14 Aligned_cols=48 Identities=17% Similarity=0.263 Sum_probs=38.9
Q ss_pred HHHHHHHh---hCCCCcccHHHHHHHhccc-eehhhhhHHHhhhccchhhcc
Q 017095 80 KKFINLIK---HAEDGILDLNKAAETLEVQ-KRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 80 kkFi~ll~---~ap~g~ldLn~aA~~L~Vq-KRRIYDItNVLEgIGLIeK~s 127 (377)
++.+.++. ...+....+.++|+.|++. +=-++..++.||..|+|++..
T Consensus 9 ~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~~~ 60 (199)
T TIGR00498 9 QEVLDLIRAHIESTGYPPSIREIARAVGLRSPSAAEEHLKALERKGYIERDP 60 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHHHHHHHHHHHHCCCEecCC
Confidence 34555554 3345568899999999998 999999999999999999974
No 100
>PRK06474 hypothetical protein; Provisional
Probab=47.09 E-value=1.8e+02 Score=26.76 Aligned_cols=46 Identities=15% Similarity=0.303 Sum_probs=38.6
Q ss_pred HHHHHHhhCCCCcccHHHHHHHh-ccceehhhhhHHHhhhccchhhcc
Q 017095 81 KFINLIKHAEDGILDLNKAAETL-EVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L-~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.+.++...+.. +...++++.| ++.+=-+|=.+++|+-.|||++..
T Consensus 15 ~Il~~L~~~~~~-~ta~el~~~l~~is~aTvYrhL~~L~e~GLI~~~~ 61 (178)
T PRK06474 15 KICQVLMRNKEG-LTPLELVKILKDVPQATLYRHLQTMVDSGILHVVK 61 (178)
T ss_pred HHHHHHHhCCCC-CCHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEEee
Confidence 566677665443 9999999999 789999999999999999999754
No 101
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=46.65 E-value=19 Score=38.01 Aligned_cols=76 Identities=22% Similarity=0.316 Sum_probs=48.8
Q ss_pred ccceehhhhhHHHhhhcc-chhhccCCeEEEeccCCCCCCcchhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 017095 104 EVQKRRIYDITNVLEGIG-LIEKKLKNRIRWKGLDNSIPGEVDADASILQADID---NLSMEELRVDEQTRELRERLREL 179 (377)
Q Consensus 104 ~VqKRRIYDItNVLEgIG-LIeK~sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~---~L~~~E~~LD~lI~~~~q~L~~L 179 (377)
.|.|||=|-|=+-.--+| ||-|.+-+..+|. ...+-. ...+-+..||++.+ ++....+.|+.-++.+.+++++|
T Consensus 239 eVERRRR~nIN~~IkeLg~liP~~~~~~~~~n-KgtILk-~s~dYIr~Lqq~~q~~~E~~~rqk~le~~n~~L~~rieeL 316 (411)
T KOG1318|consen 239 EVERRRRENINDRIKELGQLIPKCNSEDMKSN-KGTILK-ASCDYIRELQQTLQRARELENRQKKLESTNQELALRIEEL 316 (411)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCcchhhcc-cchhhH-HHHHHHHHHHHHHHHHHHHHhhhhHHHhHHHHHHHHHHHH
Confidence 478888776655444443 6788888888895 333322 22334666665544 56667777887788888887777
Q ss_pred hh
Q 017095 180 IE 181 (377)
Q Consensus 180 te 181 (377)
..
T Consensus 317 k~ 318 (411)
T KOG1318|consen 317 KS 318 (411)
T ss_pred HH
Confidence 54
No 102
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=46.42 E-value=45 Score=32.09 Aligned_cols=48 Identities=17% Similarity=0.169 Sum_probs=38.8
Q ss_pred HHHHHHh-hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 81 KFINLIK-HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 81 kFi~ll~-~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
|-|.++. ......+...++|+.|++.+..+.-+++-||.-|+|+|...
T Consensus 8 k~iallg~l~~~~~IS~~eLA~~L~iS~~Tvsr~Lk~LEe~GlI~R~~~ 56 (217)
T PRK14165 8 KKLALLGAVNNTVKISSSEFANHTGTSSKTAARILKQLEDEGYITRTIV 56 (217)
T ss_pred HHHHHHhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEEc
Confidence 3344333 34455688999999999999999999999999999999853
No 103
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=45.93 E-value=49 Score=29.44 Aligned_cols=70 Identities=17% Similarity=0.265 Sum_probs=42.3
Q ss_pred hhHHHhhhccchhhccCCeEEEeccCCCCC------CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 112 DITNVLEGIGLIEKKLKNRIRWKGLDNSIP------GEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 112 DItNVLEgIGLIeK~sKN~i~W~G~~~s~~------~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
+|.-||+-+..+.--. .-|+=.|.=.... .++..+...|.-+++.|+.+|+.|++.+..++..|+.+..+
T Consensus 38 E~~~al~Ele~l~eD~-~vYk~VG~llvk~~k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~ 113 (119)
T COG1382 38 EIEKALEELEKLDEDA-PVYKKVGNLLVKVSKEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGD 113 (119)
T ss_pred HHHHHHHHHhcCCccc-HHHHHhhhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4667777776665432 2333344222111 13444556666667777888888888888888888776554
No 104
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; 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 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=45.91 E-value=56 Score=27.41 Aligned_cols=35 Identities=26% Similarity=0.284 Sum_probs=22.9
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEE
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRW 133 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W 133 (377)
.+.++|+.+||..|-|.-. |..|||. ....|.+++
T Consensus 2 ~i~e~a~~~gvs~~tlr~y----e~~gll~~~~r~~~gyR~ 38 (113)
T cd01109 2 TIKEVAEKTGLSADTLRYY----EKEGLLPPVKRDENGIRD 38 (113)
T ss_pred CHHHHHHHHCcCHHHHHHH----HHCCCCCCCCcCCCCCcc
Confidence 5788999999988865322 5678883 233454544
No 105
>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=45.59 E-value=29 Score=32.00 Aligned_cols=45 Identities=27% Similarity=0.302 Sum_probs=38.0
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.+.++.+. +.+.+.++|+.|++.+-.++-.++-|+..|+|++..
T Consensus 147 ~IL~~l~~~--g~~s~~eia~~l~is~stv~r~L~~Le~~GlI~r~~ 191 (203)
T TIGR01884 147 KVLEVLKAE--GEKSVKNIAKKLGKSLSTISRHLRELEKKGLVEQKG 191 (203)
T ss_pred HHHHHHHHc--CCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 344445443 568999999999999999999999999999999986
No 106
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=45.56 E-value=21 Score=32.59 Aligned_cols=39 Identities=18% Similarity=0.247 Sum_probs=35.0
Q ss_pred hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 88 HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
...++.+.+.++|+++++.++-+..|++-|.--|||.-.
T Consensus 20 ~~~~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~ 58 (164)
T PRK10857 20 NSEAGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSV 58 (164)
T ss_pred CCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 344568999999999999999999999999999999953
No 107
>PRK13626 transcriptional regulator SgrR; Provisional
Probab=45.10 E-value=48 Score=35.13 Aligned_cols=48 Identities=27% Similarity=0.414 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhhCC--CCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 77 LLTKKFINLIKHAE--DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 77 lLTkkFi~ll~~ap--~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
.|-+.|+.|++... ...+.|.++|+.|++++|-.==|+|-|+..|.|+
T Consensus 5 ~~~~~~~~L~~~~~~~~~~~~l~~la~~l~cs~R~~~~~l~~~~~~gwl~ 54 (552)
T PRK13626 5 RLQQQFIRLWQCCEGKSQETTLNELAELLNCSRRHMRTLLNTMQQRGWLT 54 (552)
T ss_pred HHHHHHHHHHHhcCCCcceeeHHHHHHHhcCChhHHHHHHHHHHHCCCee
Confidence 57788999987643 5578999999999999999999999999988876
No 108
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=45.07 E-value=59 Score=28.14 Aligned_cols=81 Identities=22% Similarity=0.229 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHH-------
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNL------- 158 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L------- 158 (377)
+.+.++|+.+||..| -+-..|.+||+. +...|.|++-..+.. .--..+..|+ +|+..+
T Consensus 1 m~I~e~a~~~gvs~~----tlR~Ye~~GLl~~~~r~~~gyR~Y~~~~l---~~l~~I~~lr~lG~sL~eI~~~l~~~~~~ 73 (127)
T TIGR02047 1 MKIGELAQKTGVSVE----TIRFYEKQGLLPPPARTDNNYRVYTVGHV---ERLAFIRNCRTLDMSLAEIRQLLRYQDKP 73 (127)
T ss_pred CcHHHHHHHHCcCHH----HHHHHHHCCCCCCCCcCCCCCCcCCHHHH---HHHHHHHHHHHcCCCHHHHHHHHHhhhCC
Q ss_pred ----HHHHHHHHHHHHHHHHHHHHHhh
Q 017095 159 ----SMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 159 ----~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
......|++++..+.+++.+|..
T Consensus 74 ~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (127)
T TIGR02047 74 EKSCSDVNALLDEHISHVRARIIKLQA 100 (127)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
No 109
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=44.91 E-value=26 Score=27.87 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=35.9
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
++..+...++... .++|+.|++.+=-+--+++-||.-|+|+|..
T Consensus 27 ~L~~l~~~~~~~~--~~la~~l~i~~~~vt~~l~~Le~~glv~r~~ 70 (126)
T COG1846 27 VLLALYEAGGITV--KELAERLGLDRSTVTRLLKRLEDKGLIERLR 70 (126)
T ss_pred HHHHHHHhCCCcH--HHHHHHHCCCHHHHHHHHHHHHHCCCeeecC
Confidence 3444455555444 9999999999999999999999999999883
No 110
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=44.75 E-value=25 Score=30.60 Aligned_cols=42 Identities=17% Similarity=0.261 Sum_probs=36.6
Q ss_pred hhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 87 KHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 87 ~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
...++..+...++|++++|.+.-+-.|+..|..-|||+....
T Consensus 19 ~~~~g~~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G 60 (141)
T PRK11014 19 SLPEGRMTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRG 60 (141)
T ss_pred cCCCCCccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecC
Confidence 344666899999999999999999999999999999986643
No 111
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=44.22 E-value=1.1e+02 Score=26.33 Aligned_cols=37 Identities=16% Similarity=0.196 Sum_probs=26.5
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEec
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKG 135 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G 135 (377)
.+.++|..+||..|-| =-.|.+|||. +...|.|++-+
T Consensus 2 ~I~e~a~~~gvs~~tl----R~Ye~~GLl~~~~r~~~gyR~Y~ 40 (126)
T cd04783 2 TIGELAKAAGVNVETI----RYYQRRGLLPEPPRPEGGYRRYP 40 (126)
T ss_pred CHHHHHHHHCcCHHHH----HHHHHCCCCCCCCcCCCCCeecC
Confidence 5788999999988754 3448899997 34456677643
No 112
>PRK11050 manganese transport regulator MntR; Provisional
Probab=43.73 E-value=44 Score=29.76 Aligned_cols=54 Identities=24% Similarity=0.244 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHh--hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 75 LGLLTKKFINLIK--HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 75 LglLTkkFi~ll~--~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
...+...++..+. -..++.+.+.++|+.|+|.+--+..+++-||.-|+|.+...
T Consensus 31 ~~~~~e~~l~~I~~~l~~~~~~t~~eLA~~l~is~stVsr~l~~Le~~GlI~r~~~ 86 (152)
T PRK11050 31 RRELIEDYVELIADLIAEVGEARQVDIAARLGVSQPTVAKMLKRLARDGLVEMRPY 86 (152)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecC
Confidence 3444444444322 11245689999999999999999999999999999998643
No 113
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=43.54 E-value=77 Score=29.12 Aligned_cols=46 Identities=11% Similarity=0.044 Sum_probs=39.6
Q ss_pred CCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEe
Q 017095 89 AEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWK 134 (377)
Q Consensus 89 ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~ 134 (377)
.|+..+...++|++|||+|==|=+.+..|+.-|||+...+.-+.-.
T Consensus 26 ~pG~~L~e~eLae~lgVSRtpVREAL~~L~~eGlv~~~~~~G~~V~ 71 (224)
T PRK11534 26 QPDEKLRMSLLTSRYALGVGPLREALSQLVAERLVTVVNQKGYRVA 71 (224)
T ss_pred CCCCcCCHHHHHHHHCCChHHHHHHHHHHHHCCCEEEeCCCceEeC
Confidence 5788999999999999999999999999999999997755544443
No 114
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=43.32 E-value=1.2e+02 Score=29.45 Aligned_cols=51 Identities=16% Similarity=0.228 Sum_probs=39.2
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCe
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNR 130 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~ 130 (377)
--.+.++++++. +.+.+.++|+.|+|+.+-|.==+..||.-|++.|.....
T Consensus 18 R~~~Il~~L~~~--~~vtv~eLa~~l~VS~~TIRRDL~~Le~~G~l~r~~GGa 68 (269)
T PRK09802 18 RREQIIQRLRQQ--GSVQVNDLSALYGVSTVTIRNDLAFLEKQGIAVRAYGGA 68 (269)
T ss_pred HHHHHHHHHHHc--CCEeHHHHHHHHCCCHHHHHHHHHHHHhCCCeEEEeCCE
Confidence 334567777664 349999999999998877765566789999999886544
No 115
>PRK09343 prefoldin subunit beta; Provisional
Probab=42.80 E-value=58 Score=28.33 Aligned_cols=82 Identities=15% Similarity=0.203 Sum_probs=48.5
Q ss_pred HHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCC------CcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 99 AAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIP------GEVDADASILQADIDNLSMEELRVDEQTREL 172 (377)
Q Consensus 99 aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~------~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~ 172 (377)
+......-.+.+=..-.|++.+..+.-- -.-|+=.|.=.... .++..++..+..+++.|+.++..|.+.+.++
T Consensus 26 ~~~q~~~le~q~~e~~~~~~EL~~L~~d-~~VYk~VG~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~ 104 (121)
T PRK09343 26 LLQQKSQIDLELREINKALEELEKLPDD-TPIYKIVGNLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKEL 104 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCc-chhHHHhhHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333334444566677776666522 22233334222211 1234556667788888888888999999999
Q ss_pred HHHHHHHhh
Q 017095 173 RERLRELIE 181 (377)
Q Consensus 173 ~q~L~~Lte 181 (377)
+.+|+.+..
T Consensus 105 q~~l~~ll~ 113 (121)
T PRK09343 105 QAKINEMLS 113 (121)
T ss_pred HHHHHHHHH
Confidence 999988765
No 116
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=42.35 E-value=23 Score=34.02 Aligned_cols=44 Identities=20% Similarity=0.302 Sum_probs=37.5
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
+.+++++ ..+.+.+.++|+.|+|++.-|+=-++.||..|+|.|.
T Consensus 9 ~Il~~l~--~~~~~~~~ela~~l~vS~~TirRdL~~Le~~g~i~r~ 52 (251)
T PRK13509 9 ILLELLA--QLGFVTVEKVIERLGISPATARRDINKLDESGKLKKV 52 (251)
T ss_pred HHHHHHH--HcCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 4556665 4688999999999999998888789999999999885
No 117
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=41.86 E-value=79 Score=24.68 Aligned_cols=39 Identities=15% Similarity=0.454 Sum_probs=28.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 143 EVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 143 ~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
+++.++.++...+..++.+-+.|-+-|..+.+.++.|..
T Consensus 4 elEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll~ 42 (55)
T PF05377_consen 4 ELENELPRIESSINTVKKENEEISESVEKIEENVKDLLS 42 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777777777777777777777777777654
No 118
>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=41.76 E-value=53 Score=29.76 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=37.3
Q ss_pred CCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 89 AEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 89 ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
.|+..+.-.++|++|||+|=-+=+.+..|+.-|||+...+.
T Consensus 30 ~pG~~L~e~~La~~lgVSRtpVReAL~~L~~eGlv~~~~~~ 70 (212)
T TIGR03338 30 PPGAKLNESDIAARLGVSRGPVREAFRALEEAGLVRNEKNR 70 (212)
T ss_pred CCCCEecHHHHHHHhCCChHHHHHHHHHHHHCCCEEEecCC
Confidence 57889999999999999999999999999999999976543
No 119
>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
Probab=41.54 E-value=9.8 Score=37.70 Aligned_cols=30 Identities=23% Similarity=0.418 Sum_probs=23.6
Q ss_pred CcccHHHHHHHhccceehhhhhHHHhhhcc
Q 017095 92 GILDLNKAAETLEVQKRRIYDITNVLEGIG 121 (377)
Q Consensus 92 g~ldLn~aA~~L~VqKRRIYDItNVLEgIG 121 (377)
.-+-|..+=--||..+|=+||.+||+||=-
T Consensus 39 ~DiGLRNLDlimGlE~RiVYd~vdVi~g~~ 68 (272)
T COG2894 39 FDIGLRNLDLIMGLENRIVYDLVDVIEGEA 68 (272)
T ss_pred cCcCchhhhhhhcccceeeeeehhhhcCcc
Confidence 334455555678999999999999999854
No 120
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=41.06 E-value=34 Score=31.40 Aligned_cols=39 Identities=21% Similarity=0.228 Sum_probs=35.2
Q ss_pred cccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 93 ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 93 ~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
.++..++|+.++++++-++-.+..|+--++|.|...+.|
T Consensus 75 ~~t~~~ia~~l~iS~~Tv~r~ik~L~e~~iI~k~~~G~Y 113 (165)
T PF05732_consen 75 VATQKEIAEKLGISKPTVSRAIKELEEKNIIKKIRNGAY 113 (165)
T ss_pred EeeHHHHHHHhCCCHHHHHHHHHHHHhCCcEEEccCCeE
Confidence 678899999999999999999999999999999865544
No 121
>KOG2577 consensus Transcription factor E2F/dimerization partner (TDP) [Transcription]
Probab=40.93 E-value=2e+02 Score=30.07 Aligned_cols=34 Identities=15% Similarity=0.363 Sum_probs=26.3
Q ss_pred cccCCceeecCCCCCCCCCeeeecCCCCcchhcccc
Q 017095 314 EVVGGMMKIVPSDVDNDADYWLLSDADVSITDMWKT 349 (377)
Q Consensus 314 ~~~~g~~ki~p~d~~~d~Dywl~sd~~vsitd~w~~ 349 (377)
+..++...+.|+. .+.||-|.++.+.+|.|+|..
T Consensus 318 ~~~~~~i~l~~~~--~~~dy~~~l~~~egi~~lfd~ 351 (354)
T KOG2577|consen 318 DLSEPLISLSPPP--RQEDYGFGLKSQEGICDLFDV 351 (354)
T ss_pred cccCCcccCCCCc--ccccccccccCCCCccccccc
Confidence 4456788888877 356888888888888888874
No 122
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=40.79 E-value=2.7e+02 Score=25.27 Aligned_cols=31 Identities=39% Similarity=0.529 Sum_probs=22.2
Q ss_pred cHHHHHHHHHHHHhhCCCCcccHHHHHHHhc
Q 017095 74 SLGLLTKKFINLIKHAEDGILDLNKAAETLE 104 (377)
Q Consensus 74 SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~ 104 (377)
+|..|+..|.+++.-...+..|-..+++.|.
T Consensus 2 ~LYel~~~~~~l~~~~e~~~~d~e~~~dtLe 32 (162)
T PF05565_consen 2 KLYELTDEYLELLELLEEGDLDEEAIADTLE 32 (162)
T ss_pred CHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 5788999999988766655577766655544
No 123
>PRK10130 transcriptional regulator EutR; Provisional
Probab=40.57 E-value=31 Score=35.02 Aligned_cols=40 Identities=10% Similarity=0.108 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 76 GLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 76 glLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
..+.++.++++.+..+..+++.++|+.++|++|.|+-...
T Consensus 239 ~~~v~~~~~~i~~~~~~~ltv~~lA~~~gvS~r~L~r~Fk 278 (350)
T PRK10130 239 RRLLSRAREYVLENMSEPVTVLDLCNQLHVSRRTLQNAFH 278 (350)
T ss_pred HHHHHHHHHHHHhhhcCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 4577888899988888899999999999999999987664
No 124
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=40.43 E-value=84 Score=24.77 Aligned_cols=35 Identities=14% Similarity=0.280 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
++..+...+..|+.....++..|..+..+|..+.+
T Consensus 14 ~l~~~~~~i~~lE~~~~~~e~~i~~~~~~l~~I~~ 48 (71)
T PF10779_consen 14 KLDNHEERIDKLEKRDAANEKDIKNLNKQLEKIKS 48 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666777777777777788888877765
No 125
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=40.31 E-value=51 Score=30.55 Aligned_cols=42 Identities=26% Similarity=0.276 Sum_probs=38.5
Q ss_pred hCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCC
Q 017095 88 HAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
=.|+..++.+++|+.|||+|--|=+.+..|++-|||+.....
T Consensus 34 l~pG~~l~e~~La~~~gvSrtPVReAL~rL~~eGlv~~~p~r 75 (230)
T COG1802 34 LAPGERLSEEELAEELGVSRTPVREALRRLEAEGLVEIEPNR 75 (230)
T ss_pred CCCCCCccHHHHHHHhCCCCccHHHHHHHHHHCCCeEecCCC
Confidence 358999999999999999999999999999999999998443
No 126
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=38.96 E-value=3e+02 Score=25.72 Aligned_cols=54 Identities=19% Similarity=0.252 Sum_probs=42.8
Q ss_pred cHHH-HHHHHHHHHhh---CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 74 SLGL-LTKKFINLIKH---AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 74 SLgl-LTkkFi~ll~~---ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
++.. +...+.+.+.. .|+..+ .-.++|++|||+|=-+-+.+..|+..|||+...
T Consensus 10 ~~~~~v~~~l~~~I~~g~l~pG~~LpsE~eLa~~lgVSRtpVREAL~~L~~eGlv~~~~ 68 (254)
T PRK09464 10 KLSDVIEQQLEFLILEGTLRPGEKLPPERELAKQFDVSRPSLREAIQRLEAKGLLLRRQ 68 (254)
T ss_pred cHHHHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEec
Confidence 4543 44555555533 467778 899999999999999999999999999998664
No 127
>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=38.90 E-value=59 Score=26.94 Aligned_cols=47 Identities=23% Similarity=0.275 Sum_probs=37.9
Q ss_pred HHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 79 TKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 79 TkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.+..|+++... +..|-=..+|+.|++.-=-|..+.-.||.+|||+++
T Consensus 10 L~alV~~Y~~~-~~PVgSk~ia~~l~~s~aTIRN~M~~Le~lGlve~~ 56 (78)
T PF03444_consen 10 LKALVELYIET-GEPVGSKTIAEELGRSPATIRNEMADLEELGLVESQ 56 (78)
T ss_pred HHHHHHHHHhc-CCCcCHHHHHHHHCCChHHHHHHHHHHHHCCCccCC
Confidence 34456655443 777888889999999888899999999999999975
No 128
>PF05491 RuvB_C: Holliday junction DNA helicase ruvB C-terminus; InterPro: IPR008823 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the C-terminal region of the proteins; it is thought to be a helicase DNA-binding domain.; GO: 0003677 DNA binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 3PFI_B 1IXR_C 1HQC_B 1IXS_B 1IN8_A 1IN4_A 1IN5_A 1J7K_A 1IN6_A 1IN7_A.
Probab=38.79 E-value=51 Score=27.20 Aligned_cols=58 Identities=24% Similarity=0.452 Sum_probs=44.7
Q ss_pred cHHHHHHHHHHHHhhC-CCCcccHHHHHHHhccceehhhhhHH-HhhhccchhhccCCeE
Q 017095 74 SLGLLTKKFINLIKHA-EDGILDLNKAAETLEVQKRRIYDITN-VLEGIGLIEKKLKNRI 131 (377)
Q Consensus 74 SLglLTkkFi~ll~~a-p~g~ldLn~aA~~L~VqKRRIYDItN-VLEgIGLIeK~sKN~i 131 (377)
-|..+=++++..+... .+|++-|+.+|..|+..+.-|=|++- -|--.|+|+|+.+.++
T Consensus 5 GLd~~D~~yL~~l~~~f~ggPvGl~tlA~~l~ed~~Tie~v~EPyLiq~G~I~RT~rGR~ 64 (76)
T PF05491_consen 5 GLDELDRRYLKTLIENFKGGPVGLDTLAAALGEDKETIEDVIEPYLIQIGFIQRTPRGRV 64 (76)
T ss_dssp S-BHHHHHHHHHHHHCSTTS-B-HHHHHHHTTS-HHHHHHTTHHHHHHTTSEEEETTEEE
T ss_pred cCCHHHHHHHHHHHHHcCCCCeeHHHHHHHHCCCHhHHHHHhhHHHHHhhhHhhCccHHH
Confidence 4556778899977554 89999999999999999999888775 5778999999988664
No 129
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=38.66 E-value=1.3e+02 Score=26.03 Aligned_cols=47 Identities=21% Similarity=0.296 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhCCCC--cccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 78 LTKKFINLIKHAEDG--ILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 78 LTkkFi~ll~~ap~g--~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
|...|..|++.-+++ .+.|.++|+.|.+++|-.==|++-|+..|.|+
T Consensus 2 l~~~y~~L~~~~~~~~~~vtl~elA~~l~cS~Rn~r~lLkkm~~~gWi~ 50 (115)
T PF12793_consen 2 LLEQYQRLWQHYGGQPVEVTLDELAELLFCSRRNARTLLKKMQEEGWIT 50 (115)
T ss_pred HHHHHHHHHHHcCCCCcceeHHHHHHHhCCCHHHHHHHHHHHHHCCCee
Confidence 456788888776644 58999999999999999999999999888765
No 130
>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=38.65 E-value=29 Score=23.38 Aligned_cols=23 Identities=26% Similarity=0.225 Sum_probs=19.9
Q ss_pred ccHHHHHHHhccceehhhhhHHH
Q 017095 94 LDLNKAAETLEVQKRRIYDITNV 116 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNV 116 (377)
+++.++|+.|+|.++-||..+.-
T Consensus 1 ~s~~e~a~~lgvs~~tl~~~~~~ 23 (49)
T cd04762 1 LTTKEAAELLGVSPSTLRRWVKE 23 (49)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHc
Confidence 46789999999999999988763
No 131
>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=38.39 E-value=32 Score=28.44 Aligned_cols=42 Identities=19% Similarity=0.503 Sum_probs=33.2
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.|.+-+-++ ++.+.+.++|..|++.+++++++ |...|++-|.
T Consensus 13 ~~~d~~~~~-~~~~ti~~~AK~L~i~~~~l~~~---Lr~~g~l~~~ 54 (111)
T PF03374_consen 13 EFYDAFVDS-DGLYTIREAAKLLGIGRNKLFQW---LREKGWLYRR 54 (111)
T ss_pred HHHHHHHcC-CCCccHHHHHHHhCCCHHHHHHH---HHhCCceEEC
Confidence 355555443 59999999999999999999876 5668888884
No 132
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=38.22 E-value=42 Score=28.79 Aligned_cols=50 Identities=18% Similarity=0.300 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 75 LGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 75 LglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
|-.+=++.+++++. ++...+.++|+++|++...+...+.-||.-|+|.+.
T Consensus 6 lD~~D~~IL~~L~~--d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 6 LDDIDRRILRLLQE--DARISNAELAERVGLSPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred ccHHHHHHHHHHHH--hCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCceeeE
Confidence 34455778888865 445999999999999999999999999999999987
No 133
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=37.23 E-value=69 Score=32.18 Aligned_cols=36 Identities=33% Similarity=0.469 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 017095 148 ASILQADIDNLSMEELRVDEQTRELRERLRELIENE 183 (377)
Q Consensus 148 ~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~ 183 (377)
...|.+|++.|+.++..|++.|..++.++..+.+.+
T Consensus 59 e~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE 94 (314)
T PF04111_consen 59 EEELLQELEELEKEREELDQELEELEEELEELDEEE 94 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556777777888888888888887777765543
No 134
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=36.01 E-value=68 Score=29.73 Aligned_cols=39 Identities=18% Similarity=0.192 Sum_probs=33.8
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEE
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
+.-.++|..||++|..+.=+++-|+--|+|++...++|.
T Consensus 180 lt~~~IA~~lGisretlsR~L~~L~~~GlI~~~~~~~i~ 218 (230)
T PRK09391 180 MSRRDIADYLGLTIETVSRALSQLQDRGLIGLSGARQIE 218 (230)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHCCcEEecCCceEE
Confidence 455899999999999999999999999999877555554
No 135
>COG4519 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.67 E-value=51 Score=27.95 Aligned_cols=42 Identities=12% Similarity=0.318 Sum_probs=34.4
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
++.++-+ ..+..++-++.+.-|-.||-+-|++..|+|||+.-
T Consensus 12 Yla~Li~-S~e~~nVP~lm~~TGwPRRT~QDvikAlpglgi~l 53 (95)
T COG4519 12 YLAYLID-SGETANVPELMAATGWPRRTAQDVIKALPGLGIVL 53 (95)
T ss_pred HHHHHHh-ccccCChHHHHHHcCCchhHHHHHHHhCcCCCeEE
Confidence 3444433 46678889999999999999999999999999863
No 136
>PF05930 Phage_AlpA: Prophage CP4-57 regulatory protein (AlpA); InterPro: IPR010260 This entry is represents phage P4, Orf88. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. In Escherichia coli phage P4 Orf 88 is similar to AlpA of the CP4-57 cryptic prophage []. AlpA acts as a positive transcriptional regulator of slpA, a gene linked to alpA and necessary for suppression of lon mutants [, ]. The sequence of slpA suggests that it encodes an integrase gene closely related to phage P4 int and that both alpA and slpA are part of a cryptic P4-like prophage. Increase in alpA expression increases SlpA synthesis. Increased SlpA leads, in turn, to the excision and loss of the cryptic prophage. ; PDB: 1Z4H_A.
Probab=35.53 E-value=24 Score=25.87 Aligned_cols=24 Identities=29% Similarity=0.538 Sum_probs=19.7
Q ss_pred CcccHHHHHHHhccceehhhhhHH
Q 017095 92 GILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 92 g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
..++++++++.+|+.|.-||..++
T Consensus 2 rll~~~ev~~~~g~s~~ti~~~~k 25 (51)
T PF05930_consen 2 RLLRIKEVAELLGVSRSTIYRLIK 25 (51)
T ss_dssp -EE-HHHHHHHHSS-HHHHHHHHH
T ss_pred ccccHHHHHHHHCCCHHHHHHHHh
Confidence 468899999999999999999987
No 137
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=35.28 E-value=1.9e+02 Score=27.11 Aligned_cols=51 Identities=24% Similarity=0.220 Sum_probs=40.8
Q ss_pred HHHHHHHHHh---hCCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 78 LTKKFINLIK---HAEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 78 LTkkFi~ll~---~ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
+...+.+.+. =.|+..+ .-.++|++|||+|==+=+.+..|+.-|||+....
T Consensus 14 v~~~l~~~I~~g~l~pG~~LpsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~~ 68 (257)
T PRK10225 14 VGAMIRDLIIKTPYNPGERLPPEREIAEMLDVTRTVVREALIMLEIKGLVEVRRG 68 (257)
T ss_pred HHHHHHHHHHhCCCCCCCcCcCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecC
Confidence 3444444442 3578889 6999999999999999999999999999986643
No 138
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=35.07 E-value=1.2e+02 Score=24.33 Aligned_cols=80 Identities=18% Similarity=0.354 Sum_probs=34.5
Q ss_pred HHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCC-CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 97 NKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIP-GEVDADASILQADIDNLSMEELRVDEQTRELRER 175 (377)
Q Consensus 97 n~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~-~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~ 175 (377)
..+...+.--++.+-.+.-|++-|..+. .+.-.|+..+..-. .....-...|+++++.+..+-..|...++.+..+
T Consensus 15 ~~~~~q~~~l~~~~~~~~~~~~eL~~l~---~~~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~ 91 (106)
T PF01920_consen 15 QQLEQQIQQLERQLRELELTLEELEKLD---DDRKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKK 91 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTSS---TT-EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCC---CcchhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444433333444444555554443 33556665543211 1122233444444444444444444444444444
Q ss_pred HHHH
Q 017095 176 LREL 179 (377)
Q Consensus 176 L~~L 179 (377)
|.++
T Consensus 92 l~~~ 95 (106)
T PF01920_consen 92 LKEL 95 (106)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 4444
No 139
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=35.03 E-value=30 Score=29.77 Aligned_cols=40 Identities=28% Similarity=0.390 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHH
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNV 116 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNV 116 (377)
+||.|=-.++.--=..-++|.++|+.++|+|=-+||.+.-
T Consensus 17 LLT~kQ~~~l~lyy~eDlSlsEIAe~~~iSRqaV~d~ikr 56 (101)
T PF04297_consen 17 LLTEKQREILELYYEEDLSLSEIAEELGISRQAVYDSIKR 56 (101)
T ss_dssp GS-HHHHHHHHHHCTS---HHHHHHHCTS-HHHHHHHHHH
T ss_pred HCCHHHHHHHHHHHccCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4665544444444556699999999999999999998764
No 140
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=34.93 E-value=37 Score=24.01 Aligned_cols=36 Identities=19% Similarity=0.344 Sum_probs=22.2
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIG 121 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIG 121 (377)
.+.++.+ -....++|+.|||.++-+|-|++=.+.-|
T Consensus 10 ii~l~~~----G~s~~~ia~~lgvs~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 10 IIRLLRE----GWSIREIAKRLGVSRSTVYRWIKRYREEG 45 (50)
T ss_dssp HHHHHHH----T--HHHHHHHHTS-HHHHHHHHT------
T ss_pred HHHHHHC----CCCHHHHHHHHCcCHHHHHHHHHHccccc
Confidence 4455544 47889999999999999999988765433
No 141
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=34.66 E-value=31 Score=29.84 Aligned_cols=37 Identities=14% Similarity=0.127 Sum_probs=34.3
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.+.+...++|+.+++.|=-+--+++-||.-|+|+|..
T Consensus 52 ~~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~ 88 (144)
T PRK11512 52 AACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLP 88 (144)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecc
Confidence 4568999999999999999999999999999999983
No 142
>PHA00738 putative HTH transcription regulator
Probab=34.65 E-value=1.4e+02 Score=26.21 Aligned_cols=71 Identities=20% Similarity=0.320 Sum_probs=49.2
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCCcchhHHHHHHHHHHHH
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPGEVDADASILQADIDNL 158 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L 158 (377)
+.+.++... +.+...++++.|++.+=.|-==+.||+..|||+.....+..+--...- ....+.|..|++..
T Consensus 16 ~IL~lL~~~--e~~~V~eLae~l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~-----~~~~~l~~~~~~~~ 86 (108)
T PHA00738 16 KILELIAEN--YILSASLISHTLLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIREN-----SKEIQILNSELEGF 86 (108)
T ss_pred HHHHHHHHc--CCccHHHHHHhhCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCC-----ccHHHHHhhHHHHH
Confidence 566667553 347888999999999999999999999999999776555444433221 12355555555544
No 143
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=34.44 E-value=46 Score=32.67 Aligned_cols=56 Identities=21% Similarity=0.398 Sum_probs=46.3
Q ss_pred cHHHHHHHHHH-HHhhCCCCcccHHHHHHHhccceehhhhhHH-HhhhccchhhccCC
Q 017095 74 SLGLLTKKFIN-LIKHAEDGILDLNKAAETLEVQKRRIYDITN-VLEGIGLIEKKLKN 129 (377)
Q Consensus 74 SLglLTkkFi~-ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN-VLEgIGLIeK~sKN 129 (377)
.|...-++++. +++.-.++.+.+..+|..||.....+=|++- .|-..|||++..+.
T Consensus 256 ~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~~~g 313 (328)
T PRK00080 256 GLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRG 313 (328)
T ss_pred CCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccCCch
Confidence 45556677886 6677788899999999999999999998888 88899999877543
No 144
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=33.67 E-value=1.3e+02 Score=26.14 Aligned_cols=81 Identities=17% Similarity=0.162 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHHHHHH---
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNLSMEE--- 162 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L~~~E--- 162 (377)
+.+.++|+.+||+.+ -+-.-|..|||. +...|.|++-+.+.. ..-..+..|+ +|+..+-...
T Consensus 2 ~~I~e~a~~~gvs~~----tlR~Ye~~GLl~p~~r~~~gyR~Y~~~~l---~~l~~I~~lr~~G~sl~eI~~~l~~~~~~ 74 (131)
T TIGR02043 2 FQIGELAKLCGVTSD----TLRFYEKNGLIKPAGRTDSGYRLYTDEDQ---KRLRFILKAKELGFTLDEIKELLSIKLDA 74 (131)
T ss_pred CCHHHHHHHHCcCHH----HHHHHHHCCCCCCCCcCCCCceecCHHHH---HHHHHHHHHHHcCCCHHHHHHHHHhhccC
Q ss_pred ---------HHHHHHHHHHHHHHHHHhh
Q 017095 163 ---------LRVDEQTRELRERLRELIE 181 (377)
Q Consensus 163 ---------~~LD~lI~~~~q~L~~Lte 181 (377)
..|++.+..+++++.+|..
T Consensus 75 ~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 102 (131)
T TIGR02043 75 TEHSCAEVKAIVDAKLELVDEKINELTK 102 (131)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHH
No 145
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=33.52 E-value=51 Score=23.25 Aligned_cols=37 Identities=27% Similarity=0.417 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhh
Q 017095 75 LGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDI 113 (377)
Q Consensus 75 LglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDI 113 (377)
|..+=+.+|.-.-...+| ++..||+.||+.|+-||-=
T Consensus 2 l~~~E~~~i~~aL~~~~g--n~~~aA~~Lgisr~tL~~k 38 (42)
T PF02954_consen 2 LEEFEKQLIRQALERCGG--NVSKAARLLGISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHHHHTTT---HHHHHHHHTS-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCC--CHHHHHHHHCCCHHHHHHH
Confidence 444455666643332333 4689999999999998853
No 146
>PF12728 HTH_17: Helix-turn-helix domain
Probab=33.32 E-value=28 Score=24.91 Aligned_cols=22 Identities=27% Similarity=0.489 Sum_probs=20.1
Q ss_pred ccHHHHHHHhccceehhhhhHH
Q 017095 94 LDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItN 115 (377)
+++.++|+.|+|.+..||.+++
T Consensus 2 lt~~e~a~~l~is~~tv~~~~~ 23 (51)
T PF12728_consen 2 LTVKEAAELLGISRSTVYRWIR 23 (51)
T ss_pred CCHHHHHHHHCcCHHHHHHHHH
Confidence 5789999999999999999985
No 147
>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=33.30 E-value=55 Score=26.92 Aligned_cols=45 Identities=22% Similarity=0.412 Sum_probs=37.8
Q ss_pred HHHHHhhCCCCcccHHHHHHHh-----ccceehhhhhHHHhhhccchhhcc
Q 017095 82 FINLIKHAEDGILDLNKAAETL-----EVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L-----~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.++++..+ ++.++..++.+.| .+.+=-+|=+++.|+..|+|.|..
T Consensus 6 Il~~l~~~-~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~ 55 (116)
T cd07153 6 ILEVLLES-DGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIE 55 (116)
T ss_pred HHHHHHhC-CCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEE
Confidence 45666655 5778999999998 588999999999999999999874
No 148
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=33.25 E-value=43 Score=26.54 Aligned_cols=42 Identities=19% Similarity=0.190 Sum_probs=32.4
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEE
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRW 133 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W 133 (377)
.+.....+++...++.-+++..+++-|+.-|||++ ..+.|.-
T Consensus 17 ~~~~~~t~i~~~~~L~~~~~~~yL~~L~~~gLI~~-~~~~Y~l 58 (77)
T PF14947_consen 17 KGGAKKTEIMYKANLNYSTLKKYLKELEEKGLIKK-KDGKYRL 58 (77)
T ss_dssp TT-B-HHHHHTTST--HHHHHHHHHHHHHTTSEEE-ETTEEEE
T ss_pred cCCCCHHHHHHHhCcCHHHHHHHHHHHHHCcCeeC-CCCEEEE
Confidence 67778899999999999999999999999999955 4555544
No 149
>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=33.24 E-value=36 Score=27.48 Aligned_cols=40 Identities=18% Similarity=0.322 Sum_probs=34.8
Q ss_pred hCCCCcccHHHHHHHh-ccceehhhhhHHHhhhccchhhcc
Q 017095 88 HAEDGILDLNKAAETL-EVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 88 ~ap~g~ldLn~aA~~L-~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.-..|....+++.+.+ ++.++=+.+=...|+..|||+|..
T Consensus 13 ~l~~g~~rf~el~~~l~~is~~~L~~~L~~L~~~GLv~r~~ 53 (90)
T PF01638_consen 13 ALFQGPMRFSELQRRLPGISPKVLSQRLKELEEAGLVERRV 53 (90)
T ss_dssp HHTTSSEEHHHHHHHSTTS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHhCCCcHHHHHHhcchhHHHHHHHHHHHHHHcchhhccc
Confidence 3344889999999999 999999999999999999999973
No 150
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=32.67 E-value=53 Score=31.58 Aligned_cols=43 Identities=14% Similarity=0.181 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhh
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEG 119 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEg 119 (377)
.+..+.+.++.......++|.++|+.+++++|.|.=+..-.-|
T Consensus 5 ~~i~~~~~~i~~~~~~~~~l~~lA~~~~~S~~~l~r~F~~~~g 47 (289)
T PRK15121 5 GIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTG 47 (289)
T ss_pred HHHHHHHHHHHhcccCCCCHHHHHHHHCcCHHHHHHHHHHHHC
Confidence 3567889999999999999999999999999998877654433
No 151
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=32.37 E-value=43 Score=32.68 Aligned_cols=30 Identities=33% Similarity=0.574 Sum_probs=25.5
Q ss_pred HHHHHhc---cceehhhhhHHHhhhccchhhcc
Q 017095 98 KAAETLE---VQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 98 ~aA~~L~---VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.+|+.++ +..|++|++++-||.+|||+-..
T Consensus 319 ~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~~ 351 (365)
T TIGR02928 319 EVCEDIGVDPLTQRRISDLLNELDMLGLVEAEE 351 (365)
T ss_pred HHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEEE
Confidence 5667666 57799999999999999999764
No 152
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=32.31 E-value=82 Score=25.42 Aligned_cols=79 Identities=22% Similarity=0.296 Sum_probs=50.0
Q ss_pred HHhccceehhhhhHHHhhhcc---chhhccCCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 101 ETLEVQKRRIYDITNVLEGIG---LIEKKLKNRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLR 177 (377)
Q Consensus 101 ~~L~VqKRRIYDItNVLEgIG---LIeK~sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~ 177 (377)
..|.-+++++=+++.-|+.+. -|=+.-.+.|.=...+... ..+...+..++++++.|..+...+...+..++..|+
T Consensus 22 ~~l~~~~~~~~~~~~eL~~l~~~~~~y~~vG~~fv~~~~~~~~-~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~ 100 (106)
T PF01920_consen 22 QQLERQLRELELTLEELEKLDDDRKVYKSVGKMFVKQDKEEAI-EELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLY 100 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHTSSTT-EEEEEETTEEEEEEHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcchhHHHHhHHHHHhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555544432 2222223334333333221 246678899999999999999999999999999998
Q ss_pred HHh
Q 017095 178 ELI 180 (377)
Q Consensus 178 ~Lt 180 (377)
.+.
T Consensus 101 ~~~ 103 (106)
T PF01920_consen 101 ELF 103 (106)
T ss_dssp CCC
T ss_pred HHh
Confidence 764
No 153
>PRK03837 transcriptional regulator NanR; Provisional
Probab=32.23 E-value=35 Score=31.50 Aligned_cols=51 Identities=12% Similarity=0.213 Sum_probs=41.4
Q ss_pred HHHHHHHHHhh---CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 78 LTKKFINLIKH---AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 78 LTkkFi~ll~~---ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
+-+.+.+.+.. .|+..+ ...++|++|||+|--+=+.+..|+.-|||+...+
T Consensus 18 v~~~l~~~I~~g~l~pG~~Lp~E~~Lae~~gVSRt~VREAL~~L~~eGlv~~~~~ 72 (241)
T PRK03837 18 VEERLEQMIRSGEFGPGDQLPSERELMAFFGVGRPAVREALQALKRKGLVQISHG 72 (241)
T ss_pred HHHHHHHHHHhCCCCCCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEecC
Confidence 44455555433 477788 8999999999999999999999999999997643
No 154
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=32.14 E-value=1.4e+02 Score=25.71 Aligned_cols=81 Identities=14% Similarity=0.083 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhh--ccCCeEEEeccCCCCCCcchhHHHHHH-------------------
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEK--KLKNRIRWKGLDNSIPGEVDADASILQ------------------- 152 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK--~sKN~i~W~G~~~s~~~~~~~~~~~Lk------------------- 152 (377)
+.+.++|+.+||..+-|. ..|-.|||.. ...|.|++-..+.. .--..+..++
T Consensus 1 m~I~e~a~~~gvs~~tlR----yYe~~GLl~p~~r~~~gyR~Y~~~~l---~~l~~I~~lr~~G~sL~eI~~~l~~~~~~ 73 (127)
T TIGR02044 1 MNIGQVAKLTGLSSKMIR----YYEEKGLIPPPLRSEGGYRTYTQQHL---DELRLISRARQVGFSLEECKELLNLWNDP 73 (127)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCCCCCCcCCCCCeecCHHHH---HHHHHHHHHHHCCCCHHHHHHHHHhhccC
Q ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 153 -----ADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 153 -----~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
.-.+-|..+.+.|++.|.+++..+..|..
T Consensus 74 ~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02044 74 NRTSADVKARTLEKVAEIERKISELQSMRDQLEA 107 (127)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 155
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=32.06 E-value=28 Score=27.73 Aligned_cols=23 Identities=26% Similarity=0.433 Sum_probs=19.0
Q ss_pred cCCCceEEEEecCcccccccCCC
Q 017095 240 STMGPIDVYLVSRFEEKFEETNS 262 (377)
Q Consensus 240 S~~GPIdVyL~~~~~~~~e~~~~ 262 (377)
|..|+|.|+.+..++.....+.|
T Consensus 16 s~lG~I~vLYvn~~eS~~~~~~G 38 (62)
T PF15513_consen 16 SQLGEIAVLYVNPYESDEDRLTG 38 (62)
T ss_pred HhcCcEEEEEEcccccCCCeEec
Confidence 68999999999988877666655
No 156
>PF13551 HTH_29: Winged helix-turn helix
Probab=31.83 E-value=39 Score=27.07 Aligned_cols=28 Identities=18% Similarity=0.358 Sum_probs=26.1
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccc
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGL 122 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGL 122 (377)
.+.++|..||+.+|-+|.+++-++.=|+
T Consensus 14 ~~~~ia~~lg~s~~Tv~r~~~~~~~~G~ 41 (112)
T PF13551_consen 14 TIAEIARRLGISRRTVYRWLKRYREGGI 41 (112)
T ss_pred cHHHHHHHHCcCHHHHHHHHHHHHcccH
Confidence 7999999999999999999999988883
No 157
>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=31.77 E-value=56 Score=30.95 Aligned_cols=47 Identities=23% Similarity=0.394 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
|...||+|++.+ .++.|+++|..|++.-==+-+-++-|+.-|.|.=.
T Consensus 100 lL~~Fi~yIK~~--Kvv~ledla~~f~l~t~~~i~ri~~L~~~g~ltGv 146 (188)
T PF09756_consen 100 LLQEFINYIKEH--KVVNLEDLAAEFGLRTQDVINRIQELEAEGRLTGV 146 (188)
T ss_dssp HHHHHHHHHHH---SEE-HHHHHHHH-S-HHHHHHHHHHHHHHSSS-EE
T ss_pred HHHHHHHHHHHc--ceeeHHHHHHHcCCCHHHHHHHHHHHHHCCCceee
Confidence 778999999884 67999999999999666556667777777766533
No 158
>PRK13503 transcriptional activator RhaS; Provisional
Probab=31.73 E-value=60 Score=30.25 Aligned_cols=39 Identities=5% Similarity=0.083 Sum_probs=32.8
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
...+++++++.+.....++|.++|+.+++.++.+.-+..
T Consensus 171 ~~i~~~~~~I~~~~~~~~tl~~lA~~~~lS~~~l~r~Fk 209 (278)
T PRK13503 171 ARLNQLLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLK 209 (278)
T ss_pred HHHHHHHHHHHHhhcCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 347788888888888899999999999999999876653
No 159
>COG3093 VapI Plasmid maintenance system antidote protein [General function prediction only]
Probab=31.55 E-value=26 Score=30.46 Aligned_cols=33 Identities=27% Similarity=0.460 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
.|..+|++.+ -++.+.+|+.|||.+.+|-.|+|
T Consensus 13 iL~eeflep~------glt~~~lA~~lgV~r~~is~lin 45 (104)
T COG3093 13 ILREEFLEPL------GLTQTELAEALGVTRNTISELIN 45 (104)
T ss_pred HHHHHHhccc------cCCHHHHHHHhCCCHHHHHHHHc
Confidence 3556777643 37899999999999999999998
No 160
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=31.52 E-value=57 Score=25.62 Aligned_cols=44 Identities=23% Similarity=0.307 Sum_probs=34.5
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
.+++++.. .+.+.-.++|+.+++.+-..-=+.+.||.-|.|++.
T Consensus 5 Il~~i~~~-~~p~~T~eiA~~~gls~~~aR~yL~~Le~eG~V~~~ 48 (62)
T PF04703_consen 5 ILEYIKEQ-NGPLKTREIADALGLSIYQARYYLEKLEKEGKVERS 48 (62)
T ss_dssp HHHHHHHH-TS-EEHHHHHHHHTS-HHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHHHHc-CCCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 45556553 556888999999999888888899999999999963
No 161
>PHA01750 hypothetical protein
Probab=31.27 E-value=1e+02 Score=25.19 Aligned_cols=31 Identities=19% Similarity=0.481 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 146 ADASILQADIDNLSMEELRVDEQTRELRERL 176 (377)
Q Consensus 146 ~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L 176 (377)
+.+..|+.|++++..+.++|.+++.++...+
T Consensus 42 ~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 42 SELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 3455666666666666666666666555443
No 162
>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=31.25 E-value=55 Score=31.17 Aligned_cols=59 Identities=17% Similarity=0.303 Sum_probs=41.0
Q ss_pred CCCCcHHHHH------HHHHHHHhhCCCC-cccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 70 RYDSSLGLLT------KKFINLIKHAEDG-ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 70 R~d~SLglLT------kkFi~ll~~ap~g-~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
|--+-||.++ ...++++....+. .+++++++++.++.+ -||+..|+.+|++.....+++
T Consensus 120 rPLSdlG~~sY~sYW~~~i~~~L~~~~~~~~isi~~is~~Tgi~~---~DIi~tL~~l~~l~~~~~~~~ 185 (188)
T PF01853_consen 120 RPLSDLGRLSYRSYWRRVILEYLLEFKGKKSISIKDISQETGIRP---EDIISTLQQLGMLKYYKGQHI 185 (188)
T ss_dssp SS--HHHHHHHHHHHHHHHHHHHHHTSSE--EEHHHHHHHH-BTH---HHHHHHHHHTT-EEEETTEEE
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHhcCCCCeEEHHHHHHHHCCCH---HHHHHHHHHCCCEEEECCcEE
Confidence 3344677766 3366666666554 899999999999965 699999999999988755544
No 163
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, 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 distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=31.16 E-value=86 Score=28.70 Aligned_cols=37 Identities=22% Similarity=0.436 Sum_probs=26.8
Q ss_pred ccHHHHHHHhcccee--hhhhhHHHhhhccchh--hccCCeEEEecc
Q 017095 94 LDLNKAAETLEVQKR--RIYDITNVLEGIGLIE--KKLKNRIRWKGL 136 (377)
Q Consensus 94 ldLn~aA~~L~VqKR--RIYDItNVLEgIGLIe--K~sKN~i~W~G~ 136 (377)
+.+.++|+.+||.++ |.|| .+|||. +...|.|++-+.
T Consensus 2 ~~I~evA~~~gvs~~tLRyYe------~~GLl~p~~r~~~gyR~Y~~ 42 (172)
T cd04790 2 LTISQLARQFGLSRSTLLYYE------RIGLLSPSARSESNYRLYGE 42 (172)
T ss_pred CCHHHHHHHHCcCHHHHHHHH------HCCCCCCCccCCCCCccCCH
Confidence 568899999999988 5665 567775 345677777543
No 164
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=31.02 E-value=96 Score=26.89 Aligned_cols=46 Identities=20% Similarity=0.261 Sum_probs=37.2
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
+.|..++. ..+...+.++|+.|+|.+=-+--+++-|+.-|+|.+..
T Consensus 11 ~~I~~l~~--~~~~~~~~ela~~l~vs~~svs~~l~~L~~~Gli~~~~ 56 (142)
T PRK03902 11 EQIYLLIE--EKGYARVSDIAEALSVHPSSVTKMVQKLDKDEYLIYEK 56 (142)
T ss_pred HHHHHHHh--cCCCcCHHHHHHHhCCChhHHHHHHHHHHHCCCEEEec
Confidence 33444443 35667899999999999999999999999999998663
No 165
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=30.79 E-value=1.4e+02 Score=23.49 Aligned_cols=39 Identities=8% Similarity=0.219 Sum_probs=31.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
+.+++.+++..++++....+.|+........++.++.++
T Consensus 4 i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e~~i~~~~~~ 42 (71)
T PF10779_consen 4 IKEKLNRIETKLDNHEERIDKLEKRDAANEKDIKNLNKQ 42 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888888888888888888887665
No 166
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=30.76 E-value=74 Score=28.44 Aligned_cols=52 Identities=15% Similarity=0.286 Sum_probs=44.9
Q ss_pred CCcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 72 DSSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 72 d~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
...|-.+=++.+.+|+. ++.+...++|+++|++.--++.=++=|+.-|+|++
T Consensus 9 ~~~lD~~D~~IL~~Lq~--d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 9 GKDLDRIDRNILNELQK--DGRISNVELSKRVGLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred hhhHHHHHHHHHHHhcc--CCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEE
Confidence 34567777889998854 77889999999999999999999999999999986
No 167
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=30.35 E-value=95 Score=25.75 Aligned_cols=35 Identities=26% Similarity=0.367 Sum_probs=23.8
Q ss_pred cHHHHHHHhcccee--hhhhhHHHhhhccchh--hccCCeEEEec
Q 017095 95 DLNKAAETLEVQKR--RIYDITNVLEGIGLIE--KKLKNRIRWKG 135 (377)
Q Consensus 95 dLn~aA~~L~VqKR--RIYDItNVLEgIGLIe--K~sKN~i~W~G 135 (377)
.+.++|+.+||+.+ |.| |-.||+. +...|.+++-.
T Consensus 2 ~i~e~A~~~gvs~~tlR~Y------e~~Gll~~~~r~~~g~R~Y~ 40 (99)
T cd04772 2 RTVDLARAIGLSPQTVRNY------ESLGLIPPAERTANGYRIYT 40 (99)
T ss_pred CHHHHHHHHCcCHHHHHHH------HHcCCCCCCCcCCCCCeecC
Confidence 46788999999776 345 6778875 34556666643
No 168
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=30.32 E-value=1.7e+02 Score=25.26 Aligned_cols=81 Identities=19% Similarity=0.126 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccch--hhccCCeEEEeccCCCCCCcchhHHHHHH-------------------
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLI--EKKLKNRIRWKGLDNSIPGEVDADASILQ------------------- 152 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLI--eK~sKN~i~W~G~~~s~~~~~~~~~~~Lk------------------- 152 (377)
+.+.++|+.+||..+-|- -.|-.||+ .+...|.|++-..... +.-..+..|+
T Consensus 1 m~I~e~a~~~gvs~~tlR----yYe~~GLl~~~~r~~~g~R~Y~~~~~---~~l~~I~~lr~~G~sL~eI~~~l~~~~~~ 73 (127)
T cd01108 1 MNIGEAAKLTGLSAKMIR----YYEEIGLIPPPSRSDNGYRVYNQRDI---EELRFIRRARDLGFSLEEIRELLALWRDP 73 (127)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCCCCCCcCCCCceecCHHHH---HHHHHHHHHHHcCCCHHHHHHHHHHHhCC
Q ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 153 -----ADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 153 -----~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
.-.+-|..+.+.+++.|..++.....|..
T Consensus 74 ~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~ 107 (127)
T cd01108 74 SRASADVKALALEHIAELERKIAELQAMRRTLQQ 107 (127)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 169
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=30.31 E-value=42 Score=25.08 Aligned_cols=31 Identities=23% Similarity=0.360 Sum_probs=21.3
Q ss_pred HHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 84 NLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 84 ~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
++++....|. ...++|..+||.+.-|++|..
T Consensus 14 ~iI~~~e~g~-s~~~ia~~fgv~~sTv~~I~K 44 (53)
T PF04218_consen 14 EIIKRLEEGE-SKRDIAREFGVSRSTVSTILK 44 (53)
T ss_dssp HHHHHHHCTT--HHHHHHHHT--CCHHHHHHH
T ss_pred HHHHHHHcCC-CHHHHHHHhCCCHHHHHHHHH
Confidence 3343334444 899999999999999999985
No 170
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=29.84 E-value=1.1e+02 Score=23.39 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=24.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTREL 172 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~ 172 (377)
....+..|+.+++.|+.+.+.|.+.|..+
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45567888888888888888888888888
No 171
>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=29.66 E-value=59 Score=27.70 Aligned_cols=30 Identities=20% Similarity=0.306 Sum_probs=23.1
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
++..+.+..|..||-+.|.++.|.++|+.-
T Consensus 23 nvp~L~~~TGmPrRT~Qd~i~aL~~~~I~~ 52 (90)
T PF09904_consen 23 NVPALMEATGMPRRTIQDTIKALPELGIEC 52 (90)
T ss_dssp -HHHHHHHH---HHHHHHHHHGGGGGT-EE
T ss_pred cHHHHHHHhCCCHhHHHHHHHHhhcCCeEE
Confidence 889999999999999999999999999754
No 172
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=29.54 E-value=77 Score=31.18 Aligned_cols=52 Identities=19% Similarity=0.264 Sum_probs=40.2
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccc-hhhccCCeEEE
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGL-IEKKLKNRIRW 133 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGL-IeK~sKN~i~W 133 (377)
.+.+.++.+ +..+...++|++|+|+|.-++-.+..|+.-|+ |.......|..
T Consensus 7 ~~il~~L~~--~~~~s~~~LA~~lgvsr~tV~~~l~~L~~~G~~i~~~~~~Gy~L 59 (319)
T PRK11886 7 LQLLSLLAD--GDFHSGEQLGEELGISRAAIWKHIQTLEEWGLDIFSVKGKGYRL 59 (319)
T ss_pred HHHHHHHHc--CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCceEEecCCeEEe
Confidence 466777754 46788889999999999999999999999999 54433234554
No 173
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=29.42 E-value=1.6e+02 Score=25.90 Aligned_cols=81 Identities=20% Similarity=0.156 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccch--hhccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHHHH-----
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLI--EKKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNLSM----- 160 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLI--eK~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L~~----- 160 (377)
+.+.++|+.+||+.|-|--. |-.||| .+...|.|++-..... ..-..+..|+ +|+..+-.
T Consensus 2 ~~I~e~a~~~gvs~~tlR~Y----e~~GLl~p~~r~~~gyR~Y~~~~l---~~l~~I~~lr~~G~sL~eI~~~l~~~~~~ 74 (140)
T PRK09514 2 YRIGELAKLAEVTPDTLRFY----EKQGLMDPEVRTEGGYRLYTEQDL---QRLRFIRRAKQLGFTLEEIRELLSIRLDP 74 (140)
T ss_pred CcHHHHHHHHCcCHHHHHHH----HHCCCCCCcccCCCCCeeeCHHHH---HHHHHHHHHHHcCCCHHHHHHHHHhcccC
Q ss_pred -------HHHHHHHHHHHHHHHHHHHhh
Q 017095 161 -------EELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 161 -------~E~~LD~lI~~~~q~L~~Lte 181 (377)
....|++++..+.+++.+|..
T Consensus 75 ~~~~~~~~~~~l~~~~~~l~~~i~~L~~ 102 (140)
T PRK09514 75 EHHTCQEVKGIVDEKLAEVEAKIAELQH 102 (140)
T ss_pred CcCCHHHHHHHHHHHHHHHHHHHHHHHH
No 174
>KOG3026 consensus Splicing factor SPF30 [RNA processing and modification]
Probab=29.26 E-value=1.9e+02 Score=28.85 Aligned_cols=89 Identities=15% Similarity=0.155 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHhhcc---------CCCCceEEEEeCCCCceEEecCCCcc
Q 017095 156 DNLSMEELRVDEQTRELRERLRELIENENNRKWLFVTEEDIKNLH---------CFQNQTLIAIKAPQGTTLEVPDPDEA 226 (377)
Q Consensus 156 ~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~~l~---------~f~~qTvIAIKAP~gT~LEVPdP~e~ 226 (377)
++|...|..|++.|.--.+-|..-.++..+..+++|+.+-+++-+ .|.+..+-|++=+.|+.+.++-++..
T Consensus 26 eEllkLe~DLkEvIsLTedLlqT~~ee~~sss~a~~ssq~~h~s~~~~~~~~~~l~~~~~i~a~~w~vg~K~~A~~~ddg 105 (262)
T KOG3026|consen 26 EELLKLEKDLKEVISLTEDLLQTQKEEDKSSSDAFVSSQPTHSSFTPRWVSGDYLFYPSRITAVGWKVGDKVQAVFSDDG 105 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccccCccccCCCchhhhhhhhccccccchhcccccCCEEEEeecCCC
Confidence 456778888999997555555555555556778999877666522 25678888899999999999988642
Q ss_pred cCCCCCcEEEEEecCCC-ceEEEE
Q 017095 227 VDYPQRRYRIILRSTMG-PIDVYL 249 (377)
Q Consensus 227 ~~~~~~~yqI~LkS~~G-PIdVyL 249 (377)
+ -|...|..-.- ++.|-+
T Consensus 106 -~----~y~AtIe~ita~~~~~ai 124 (262)
T KOG3026|consen 106 -Q----IYDATIEHITAMEGTVAI 124 (262)
T ss_pred -c----eEEeehhhccCCCCceeE
Confidence 2 46666665433 444433
No 175
>KOG2747 consensus Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=29.25 E-value=1.1e+02 Score=32.25 Aligned_cols=58 Identities=17% Similarity=0.310 Sum_probs=45.7
Q ss_pred CcHHHHHHH------HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEec
Q 017095 73 SSLGLLTKK------FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKG 135 (377)
Q Consensus 73 ~SLglLTkk------Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G 135 (377)
+-||+|+-+ .+++|....+..|.|+++|..-++. .-||++.|+.+++|.... . +.|..
T Consensus 303 SDLGllsYrsYW~~~ll~~L~~~~~~~isI~~iS~~Tgi~---~~DIisTL~~L~m~~y~k-~-~~~~~ 366 (396)
T KOG2747|consen 303 SDLGLLSYRSYWRCVLLELLRKHRGEHISIKEISKETGIR---PDDIISTLQSLNMIKYYK-G-YIISI 366 (396)
T ss_pred chhhHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHhhCCC---HHHHHHHHHhhCCccccC-C-eeEEE
Confidence 357888744 6777777666669999999999984 579999999999998763 3 66654
No 176
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=29.24 E-value=1.1e+02 Score=29.46 Aligned_cols=40 Identities=18% Similarity=0.279 Sum_probs=25.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTRELRERLRELIENEN 184 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~ 184 (377)
+.++.++|++|++.|+.+...++++.+ -.++|+++.+-..
T Consensus 74 l~~en~~L~~e~~~l~~~~~~~~~l~~-en~~L~~lL~~~~ 113 (276)
T PRK13922 74 LREENEELKKELLELESRLQELEQLEA-ENARLRELLNLKE 113 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCcc
Confidence 344566777777777777777765544 3566777655433
No 177
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=29.17 E-value=1.3e+02 Score=25.70 Aligned_cols=54 Identities=15% Similarity=0.139 Sum_probs=38.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccHHHHh
Q 017095 143 EVDADASILQADIDNLSMEELRVDEQTRELRERLRELIENENNRKWLFVTEEDIK 197 (377)
Q Consensus 143 ~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~~~aYVT~~DI~ 197 (377)
++.+++..+++|++.|+++.+.|.+.|..++... ...+...-..+.||-..++.
T Consensus 31 ~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~-dyiEe~AR~~Lg~vk~gEiv 84 (105)
T PRK00888 31 RVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQ-EAIEERARNELGMVKPGETF 84 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcH-HHHHHHHHHHcCCCCCCCEE
Confidence 4667888999999999999999999999997742 23333333356666665553
No 178
>PRK09393 ftrA transcriptional activator FtrA; Provisional
Probab=29.10 E-value=68 Score=31.21 Aligned_cols=41 Identities=7% Similarity=-0.026 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHh
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVL 117 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVL 117 (377)
....++++++.......++|.++|+.+++++|.|+-..+-.
T Consensus 218 ~~~~~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~~ 258 (322)
T PRK09393 218 DRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAA 258 (322)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 34578999999999999999999999999999998776543
No 179
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=29.07 E-value=93 Score=24.51 Aligned_cols=57 Identities=21% Similarity=0.286 Sum_probs=47.0
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEe
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWK 134 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~ 134 (377)
+-.+.+++|....+....--..+..|.+.|+.|==+..=|+.=|.|.|.+-+--.|.
T Consensus 5 ~ee~Il~~L~~~g~~~a~~ia~~~~L~~~kk~VN~~LY~L~k~g~v~k~~~~PP~W~ 61 (66)
T PF02295_consen 5 LEEKILDFLKELGGSTATAIAKALGLSVPKKEVNRVLYRLEKQGKVCKEGGTPPKWS 61 (66)
T ss_dssp HHHHHHHHHHHHTSSEEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEECSSSTEEE
T ss_pred HHHHHHHHHHhcCCccHHHHHHHhCcchhHHHHHHHHHHHHHCCCEeeCCCCCCceE
Confidence 446777888777777777778888999999999999999999999999888888885
No 180
>PRK09975 DNA-binding transcriptional regulator EnvR; Provisional
Probab=28.83 E-value=64 Score=28.84 Aligned_cols=37 Identities=22% Similarity=0.141 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhh
Q 017095 76 GLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYD 112 (377)
Q Consensus 76 glLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYD 112 (377)
..|...+++++.+..-..+.++++|++.||.|+-||-
T Consensus 14 ~~Il~aa~~lf~~~G~~~~ti~~Ia~~agvsk~t~Y~ 50 (213)
T PRK09975 14 QELIETAIAQFALRGVSNTTLNDIADAANVTRGAIYW 50 (213)
T ss_pred HHHHHHHHHHHHHcCcccCCHHHHHHHcCCCHHHHHH
Confidence 4567778889988777789999999999999999995
No 181
>smart00338 BRLZ basic region leucin zipper.
Probab=28.53 E-value=1.9e+02 Score=21.94 Aligned_cols=34 Identities=24% Similarity=0.406 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 148 ASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 148 ~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
+..|+.++..|..+-..|-..+..+..++..|.+
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~ 61 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKLKS 61 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666777777777777666666666665543
No 182
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=28.21 E-value=1.2e+02 Score=25.66 Aligned_cols=32 Identities=28% Similarity=0.423 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 017095 149 SILQADIDNLSMEELRVDEQTRELRERLRELI 180 (377)
Q Consensus 149 ~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lt 180 (377)
..|+..++.++..-..|++.+..++.++.++-
T Consensus 70 ~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q 101 (110)
T TIGR02338 70 QELKEKKETLELRVKTLQRQEERLREQLKELQ 101 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566666666666666666666553
No 183
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 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. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=28.19 E-value=1.8e+02 Score=26.88 Aligned_cols=28 Identities=36% Similarity=0.399 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 149 SILQADIDNLSMEELRVDEQTRELRERL 176 (377)
Q Consensus 149 ~~Lk~El~~L~~~E~~LD~lI~~~~q~L 176 (377)
+.++++|..|.++-..||+.|+.+..+|
T Consensus 25 q~~~~~I~~L~~e~~~ld~~i~~~~~~L 52 (188)
T PF10018_consen 25 QENQARIQQLRAEIEELDEQIRDILKQL 52 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555444444
No 184
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=28.08 E-value=78 Score=28.73 Aligned_cols=42 Identities=26% Similarity=0.399 Sum_probs=37.7
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
.++.+...++|+.|+|..--.-..+|=|+..|||++.....|
T Consensus 21 ~~~~~~~~diA~~L~Vsp~sVt~ml~rL~~~GlV~~~~y~gi 62 (154)
T COG1321 21 EKGFARTKDIAERLKVSPPSVTEMLKRLERLGLVEYEPYGGV 62 (154)
T ss_pred ccCcccHHHHHHHhCCCcHHHHHHHHHHHHCCCeEEecCCCe
Confidence 788999999999999999999999999999999998744433
No 185
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=28.04 E-value=1.2e+02 Score=28.70 Aligned_cols=35 Identities=20% Similarity=0.265 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
-+..|++|+..+...+...+..+.++.++.+.|++
T Consensus 28 lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~e 62 (201)
T PF13851_consen 28 LIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSE 62 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 47889999999999999988888888877766655
No 186
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=27.92 E-value=90 Score=33.66 Aligned_cols=22 Identities=14% Similarity=0.071 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 017095 160 MEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 160 ~~E~~LD~lI~~~~q~L~~Lte 181 (377)
.+.+.+++.|+.+++.++.|.+
T Consensus 97 aq~~dle~KIkeLEaE~~~Lk~ 118 (475)
T PRK13729 97 KQRGDDQRRIEKLGQDNAALAE 118 (475)
T ss_pred hhhhhHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555543
No 187
>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=27.81 E-value=75 Score=27.13 Aligned_cols=43 Identities=28% Similarity=0.448 Sum_probs=34.2
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
..|..++...|+ +.|.++|+.|+|....|+ ..|.-+|+.-|+.
T Consensus 60 ~~L~~~v~~~pd--~tl~Ela~~l~Vs~~ti~---~~Lkrlg~t~KK~ 102 (119)
T PF01710_consen 60 DELKALVEENPD--ATLRELAERLGVSPSTIW---RALKRLGITRKKK 102 (119)
T ss_pred HHHHHHHHHCCC--cCHHHHHHHcCCCHHHHH---HHHHHcCchhccC
Confidence 457778888777 456799999999777766 6788889998883
No 188
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=27.77 E-value=46 Score=30.81 Aligned_cols=39 Identities=15% Similarity=0.225 Sum_probs=35.5
Q ss_pred CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 89 AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 89 ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.|+..+ .-.++|++|||+|=-+-+-+..|+.-|||+...
T Consensus 26 ~pG~~LPsE~eLae~~gVSRt~VReAL~~L~~eGlv~~~~ 65 (239)
T PRK04984 26 PPGSILPAERELSELIGVTRTTLREVLQRLARDGWLTIQH 65 (239)
T ss_pred CCCCcCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 477788 799999999999999999999999999999763
No 189
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=27.66 E-value=1.6e+02 Score=25.29 Aligned_cols=81 Identities=20% Similarity=0.217 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHHHHH----
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNLSME---- 161 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L~~~---- 161 (377)
+.+.++|+.+||+.+-|- -.|..||+. +...|.|++-..+.. ..-..+..|+ +|+..+-..
T Consensus 1 ~~I~e~a~~~gvs~~tlR----~Ye~~Gll~~~~r~~~g~R~Y~~~~l---~~l~~I~~lr~~G~sL~eI~~~l~~~~~~ 73 (126)
T cd04785 1 LSIGELARRTGVNVETIR----YYESIGLLPEPARTAGGYRLYGAAHV---ERLRFIRRARDLGFSLEEIRALLALSDRP 73 (126)
T ss_pred CCHHHHHHHHCcCHHHHH----HHHHCCCCCCCCcCCCCccccCHHHH---HHHHHHHHHHHCCCCHHHHHHHHhhhhcC
Q ss_pred -------HHHHHHHHHHHHHHHHHHhh
Q 017095 162 -------ELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 162 -------E~~LD~lI~~~~q~L~~Lte 181 (377)
...|.+++..+++++++|..
T Consensus 74 ~~~~~~~~~~l~~~~~~l~~~i~~L~~ 100 (126)
T cd04785 74 DRSCAEADAIARAHLADVRARIADLRR 100 (126)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
No 190
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=27.57 E-value=76 Score=30.30 Aligned_cols=51 Identities=24% Similarity=0.415 Sum_probs=39.8
Q ss_pred HHHHHH-HHhhCCCCcccHHHHHHHhccceehhhhhHH-HhhhccchhhccCC
Q 017095 79 TKKFIN-LIKHAEDGILDLNKAAETLEVQKRRIYDITN-VLEGIGLIEKKLKN 129 (377)
Q Consensus 79 TkkFi~-ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN-VLEgIGLIeK~sKN 129 (377)
-+.++. +++.-.++.+.+.++|..||+..+.+..++- .|--.|||++....
T Consensus 240 ~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g 292 (305)
T TIGR00635 240 DRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRG 292 (305)
T ss_pred HHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCch
Confidence 344555 5565566678899999999999999999887 78889999766443
No 191
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=27.23 E-value=79 Score=29.96 Aligned_cols=38 Identities=11% Similarity=0.162 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
...+++.++..+..+.+.|.++|+.+++++++|.-+..
T Consensus 184 ~i~~~~~~i~~~~~~~isl~~lA~~~~lS~~~l~r~Fk 221 (290)
T PRK10572 184 RVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFR 221 (290)
T ss_pred HHHHHHHHHHhcccCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 46678888888888999999999999999998876653
No 192
>PHA02047 phage lambda Rz1-like protein
Probab=27.02 E-value=36 Score=29.48 Aligned_cols=7 Identities=29% Similarity=0.354 Sum_probs=4.3
Q ss_pred EEEeccC
Q 017095 131 IRWKGLD 137 (377)
Q Consensus 131 i~W~G~~ 137 (377)
|+|.|..
T Consensus 26 ~r~~g~~ 32 (101)
T PHA02047 26 YRALGIA 32 (101)
T ss_pred HHHHHHH
Confidence 6677743
No 193
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=26.90 E-value=1.2e+02 Score=29.69 Aligned_cols=33 Identities=18% Similarity=0.230 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 150 ILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 150 ~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
.|+..++.|+.+-.+|-.+|+..+.+|+.+.+.
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~r 90 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVER 90 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 445555555555555555666666666655553
No 194
>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=26.80 E-value=39 Score=24.18 Aligned_cols=32 Identities=19% Similarity=0.432 Sum_probs=22.0
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
...++|+.+ | +.+.++|+.++|.|.-||=+.+
T Consensus 12 ~~i~~l~~~---G-~si~~IA~~~gvsr~TvyR~l~ 43 (45)
T PF02796_consen 12 EEIKELYAE---G-MSIAEIAKQFGVSRSTVYRYLN 43 (45)
T ss_dssp HHHHHHHHT---T---HHHHHHHTTS-HHHHHHHHC
T ss_pred HHHHHHHHC---C-CCHHHHHHHHCcCHHHHHHHHh
Confidence 345556533 4 8999999999999999997654
No 195
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=26.38 E-value=2.1e+02 Score=24.59 Aligned_cols=80 Identities=14% Similarity=0.112 Sum_probs=0.0
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchh--hccCCeEEEeccCCCCCCcchhHHHHHH------HHHHHHHH------
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIE--KKLKNRIRWKGLDNSIPGEVDADASILQ------ADIDNLSM------ 160 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIe--K~sKN~i~W~G~~~s~~~~~~~~~~~Lk------~El~~L~~------ 160 (377)
.+.++|+.+||..+-|--- |.+|||. +...|.|++-+.... +.-..+..|+ +|+..+-.
T Consensus 1 ~I~e~a~~~gvs~~tlR~Y----e~~GLl~~~~r~~~g~R~Y~~~~l---~~l~~I~~l~~~G~sl~eI~~~l~~~~~~~ 73 (124)
T TIGR02051 1 TIGELAKAAGVNVETIRYY----ERKGLLPEPDRPEGGYRRYPEETV---KRLRFIKRAQELGFSLEEIGGLLGLVDGTH 73 (124)
T ss_pred CHHHHHHHHCcCHHHHHHH----HHCCCCCCCccCCCCCEeECHHHH---HHHHHHHHHHHCCCCHHHHHHHHhcccCCC
Q ss_pred ---HHHHHHHHHHHHHHHHHHHhh
Q 017095 161 ---EELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 161 ---~E~~LD~lI~~~~q~L~~Lte 181 (377)
....|.+++..+++++.+|..
T Consensus 74 ~~~~~~~l~~~~~~l~~~i~~L~~ 97 (124)
T TIGR02051 74 CREMYELASRKLKSVQAKMADLLR 97 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
No 196
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=25.88 E-value=61 Score=28.01 Aligned_cols=32 Identities=16% Similarity=0.411 Sum_probs=25.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTRELRER 175 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~ 175 (377)
+..++..+++|++.|.+++..|...|+.+++.
T Consensus 55 l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 55 LQRQIAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34456677888888888888888888888777
No 197
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=25.71 E-value=96 Score=27.57 Aligned_cols=39 Identities=15% Similarity=0.211 Sum_probs=33.4
Q ss_pred cccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEE
Q 017095 93 ILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 93 ~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
.+.-.++|..||+.|+.+.=+.+-|+.-|+|++.. ++|.
T Consensus 168 ~~t~~~lA~~lG~tr~tvsR~l~~l~~~gii~~~~-~~i~ 206 (211)
T PRK11753 168 KITRQEIGRIVGCSREMVGRVLKMLEDQGLISAHG-KTIV 206 (211)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEecC-CEEE
Confidence 46669999999999999999999999999998764 4443
No 198
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=25.69 E-value=2.3e+02 Score=23.33 Aligned_cols=17 Identities=18% Similarity=0.212 Sum_probs=11.6
Q ss_pred cHHHHHHHhccceehhh
Q 017095 95 DLNKAAETLEVQKRRIY 111 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIY 111 (377)
.+.++|+.+||..+-|-
T Consensus 2 ti~eva~~~gvs~~tlR 18 (103)
T cd01106 2 TVGEVAKLTGVSVRTLH 18 (103)
T ss_pred CHHHHHHHHCcCHHHHH
Confidence 46677888887766554
No 199
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=25.54 E-value=5.4e+02 Score=23.81 Aligned_cols=51 Identities=24% Similarity=0.300 Sum_probs=36.3
Q ss_pred CCCCcHHHHHHHHHHHH-hhCCCCc---------------ccHHHHHHHhcc-ceehhhhhHHHhhhccc
Q 017095 70 RYDSSLGLLTKKFINLI-KHAEDGI---------------LDLNKAAETLEV-QKRRIYDITNVLEGIGL 122 (377)
Q Consensus 70 R~d~SLglLTkkFi~ll-~~ap~g~---------------ldLn~aA~~L~V-qKRRIYDItNVLEgIGL 122 (377)
+++-+...|-++|..+- +-+||.. --||.|=..|.- .+|..|++ .|.|+.+
T Consensus 17 ~f~~d~~~L~~~yr~lq~~~HPD~~~~~~~~e~~~a~~~s~~iN~AY~tL~~p~~Ra~Yll--~l~G~~~ 84 (176)
T PRK03578 17 RFALDEAALDAAYRTVQAQVHPDRFAAAGDAEKRVAMQWATRANEAYQTLRDPLKRARYLL--HLRGVDV 84 (176)
T ss_pred CCCCCHHHHHHHHHHHHHHHCcCCCCCCCHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHH--HhcCCCC
Confidence 45667788999999986 4466642 356777777776 57889988 5556655
No 200
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=25.51 E-value=85 Score=32.33 Aligned_cols=49 Identities=18% Similarity=0.182 Sum_probs=45.7
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHh-ccceehhhhhHHHhhhccchhh
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETL-EVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L-~VqKRRIYDItNVLEgIGLIeK 125 (377)
.+.++|+.++-...+..++.+.+|..+ ++.++-++.=++.||..-++-.
T Consensus 220 ~~~k~i~~~l~~~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~ 269 (398)
T COG1373 220 DLMKRILRFLASNIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLFL 269 (398)
T ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheEE
Confidence 577889999999999999999999999 8999999999999999999983
No 201
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=25.51 E-value=60 Score=29.85 Aligned_cols=37 Identities=22% Similarity=0.175 Sum_probs=32.9
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeE
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRI 131 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i 131 (377)
+.-.++|+.||++|+-+.=+++-|+--|+|++.. ++|
T Consensus 170 ~t~~~lA~~lG~sretvsR~L~~L~~~G~I~~~~-~~i 206 (226)
T PRK10402 170 EKHTQAAEYLGVSYRHLLYVLAQFIQDGYLKKSK-RGY 206 (226)
T ss_pred chHHHHHHHHCCcHHHHHHHHHHHHHCCCEEeeC-CEE
Confidence 5679999999999999999999999999999874 344
No 202
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=25.43 E-value=68 Score=29.57 Aligned_cols=37 Identities=32% Similarity=0.443 Sum_probs=30.6
Q ss_pred CCcccHHHHHHHhccceeh--------------hhhhHHHhhhccchhhcc
Q 017095 91 DGILDLNKAAETLEVQKRR--------------IYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRR--------------IYDItNVLEgIGLIeK~s 127 (377)
.+.+-+..++..+|-.||| |=-|+..||.+|||+|..
T Consensus 65 ~gpvGV~~L~~~yGg~k~~G~~P~h~~~~sg~iiR~~LqqLE~~glVek~~ 115 (150)
T PRK09333 65 DGPVGVERLRTAYGGRKNRGVRPEHFVKGSGSIIRKILQQLEKAGLVEKTK 115 (150)
T ss_pred cCCccHHHHHHHHCCCcCCCCCCCccccCccHHHHHHHHHHHHCCCeeeCC
Confidence 4567778888999996664 778999999999999864
No 203
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=25.36 E-value=74 Score=30.21 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=29.6
Q ss_pred HHHHHHHHhhCCCCc-ccHHHHHHHhccceehhhhhHH
Q 017095 79 TKKFINLIKHAEDGI-LDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 79 TkkFi~ll~~ap~g~-ldLn~aA~~L~VqKRRIYDItN 115 (377)
.++.+.++.+.-... +++.++|+.+|+++|.||-+..
T Consensus 199 l~~~~~~I~~~l~~~~ls~~~lA~~~giS~r~L~r~Fk 236 (302)
T PRK09685 199 FQKVVALIDQSIQEEILRPEWIAGELGISVRSLYRLFA 236 (302)
T ss_pred HHHHHHHHHHhcCCCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 456777776665554 9999999999999999998763
No 204
>PRK10869 recombination and repair protein; Provisional
Probab=25.13 E-value=1.1e+02 Score=32.95 Aligned_cols=103 Identities=14% Similarity=0.179 Sum_probs=57.4
Q ss_pred CCCCCcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCCcchhHH
Q 017095 69 CRYDSSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPGEVDADA 148 (377)
Q Consensus 69 ~R~d~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~~~~~~~ 148 (377)
++++.+|..+...+-..+-.-.+-.-+|....+.+.+.--|+-.|-+=|.-|.=+.|+ | |.+ ..++-...
T Consensus 257 ~~~d~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~dp~~l~~ie~Rl~~l~~L~rK----y---g~~---~~~~~~~~ 326 (553)
T PRK10869 257 IGMDSKLSGVLDMLEEALIQIQEASDELRHYLDRLDLDPNRLAELEQRLSKQISLARK----H---HVS---PEELPQHH 326 (553)
T ss_pred hhhCHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHH----h---CCC---HHHHHHHH
Confidence 4555666655555555554444445555566666666666666666666666666665 2 322 22455566
Q ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhh
Q 017095 149 SILQADIDNLSMEELRVDE---QTRELRERLRELIE 181 (377)
Q Consensus 149 ~~Lk~El~~L~~~E~~LD~---lI~~~~q~L~~Lte 181 (377)
.++++|++.|...+..+.+ .+..+.+++..+.+
T Consensus 327 ~~l~~eL~~L~~~e~~l~~Le~e~~~l~~~l~~~A~ 362 (553)
T PRK10869 327 QQLLEEQQQLDDQEDDLETLALAVEKHHQQALETAQ 362 (553)
T ss_pred HHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7777777776655444433 34444445544443
No 205
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), 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=24.87 E-value=2.2e+02 Score=23.55 Aligned_cols=25 Identities=24% Similarity=0.353 Sum_probs=16.7
Q ss_pred cHHHHHHHhcccee--hhhhhHHHhhhccchhh
Q 017095 95 DLNKAAETLEVQKR--RIYDITNVLEGIGLIEK 125 (377)
Q Consensus 95 dLn~aA~~L~VqKR--RIYDItNVLEgIGLIeK 125 (377)
.+.++|+..||+.| |.|| .+||+..
T Consensus 2 ~Ige~a~~~gvs~~tlRyYe------~~GLl~p 28 (107)
T cd04777 2 KIGKFAKKNNITIDTVRHYI------DLGLLIP 28 (107)
T ss_pred CHHHHHHHHCcCHHHHHHHH------HCCCcCC
Confidence 46788888888777 4454 5555543
No 206
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=24.84 E-value=1.2e+02 Score=24.90 Aligned_cols=28 Identities=7% Similarity=0.253 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 017095 153 ADIDNLSMEELRVDEQTRELRERLRELI 180 (377)
Q Consensus 153 ~El~~L~~~E~~LD~lI~~~~q~L~~Lt 180 (377)
++|..|.++-+.|++.+..++++|-++-
T Consensus 2 ~~L~~l~~~k~~Le~~L~~lE~qIy~~E 29 (80)
T PF09340_consen 2 KELKELLQKKKKLEKDLAALEKQIYDKE 29 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677788888888888888888887763
No 207
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=24.74 E-value=85 Score=30.66 Aligned_cols=39 Identities=18% Similarity=0.278 Sum_probs=33.0
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHH
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNV 116 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNV 116 (377)
..++.+.++.+.....++|.++|+.+++.+|.++-+..-
T Consensus 192 ~i~~~~~~i~~~~~~~~tl~~lA~~~~~S~~~l~r~Fk~ 230 (302)
T PRK10371 192 YVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQR 230 (302)
T ss_pred HHHHHHHHHHHhhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 466788888888888999999999999999988877654
No 208
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=24.47 E-value=5.5e+02 Score=26.66 Aligned_cols=35 Identities=20% Similarity=0.355 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
....++.+++.|..++..|...++.++++++.+.+
T Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 (398)
T PTZ00454 23 KLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKE 57 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555666666666666666666655555433
No 209
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 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. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=24.02 E-value=1.9e+02 Score=26.77 Aligned_cols=55 Identities=24% Similarity=0.254 Sum_probs=39.5
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-------cccccccccHHHHhh
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTRELRERLRELIENE-------NNRKWLFVTEEDIKN 198 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~-------~n~~~aYVT~~DI~~ 198 (377)
...++..|++|++.|..+-+.+-..+..|+..|..+.... ....-.=|++++|.+
T Consensus 27 ~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~~~~~~~~~~~~~~~~~v~~~eLL~ 88 (188)
T PF10018_consen 27 NQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPDQADEKLKSIPKAEKRPVDYEELLS 88 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccCCCCHHHHHH
Confidence 3457889999999999888888888888999988886211 111123477888876
No 210
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=23.80 E-value=74 Score=29.76 Aligned_cols=40 Identities=23% Similarity=0.281 Sum_probs=36.7
Q ss_pred CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 89 AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 89 ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
.|+..+ .-.++|++|||+|==+-+.+..|+.-|||+...+
T Consensus 26 ~pG~~LPsE~eLa~~~gVSRtpVREAL~~L~~eGlV~~~~~ 66 (251)
T PRK09990 26 KVGQALPSERRLCEKLGFSRSALREGLTVLRGRGIIETAQG 66 (251)
T ss_pred CCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEeCC
Confidence 588889 8999999999999999999999999999987744
No 211
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=23.69 E-value=1.5e+02 Score=29.72 Aligned_cols=66 Identities=26% Similarity=0.368 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-ccccccccHHHHhhc-------cCCCCceEEEEeCCCCceEEecC
Q 017095 151 LQADIDNLSMEELRVDEQTRELRERLRELIENEN-NRKWLFVTEEDIKNL-------HCFQNQTLIAIKAPQGTTLEVPD 222 (377)
Q Consensus 151 Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~-n~~~aYVT~~DI~~l-------~~f~~qTvIAIKAP~gT~LEVPd 222 (377)
|+.+++.|...-+.+.+.+..+..+|.++....+ ++. .|..+|..| ..+.+=.++.+. |+.|++--
T Consensus 235 l~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~---~t~~Ev~~Lk~~~~~Le~~~gw~~~~~~---~~~l~~~~ 308 (325)
T PF08317_consen 235 LQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRG---WTRSEVKRLKAKVDALEKLTGWKIVSIS---GSTLEFRY 308 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCHHHHHHHHHHHHHHHHHHCcEEEEEe---CCeEEEEE
Confidence 3344444444444455555555555555543322 232 367777664 223333444444 66777644
No 212
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=23.65 E-value=1.3e+02 Score=32.50 Aligned_cols=59 Identities=25% Similarity=0.315 Sum_probs=38.1
Q ss_pred hhhhhHHHhhhccchhhc-cCCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 109 RIYDITNVLEGIGLIEKK-LKNRIRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 109 RIYDItNVLEgIGLIeK~-sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
++-++.|-|+++.=+.|. .||.-.|+| +|++..+.+...-...|+.|.++++||++|+-
T Consensus 390 k~~k~~kel~~~~E~n~~l~knq~vw~~--------------kl~~~~e~~~~~~~s~d~~I~dLqEQlrDlmf 449 (493)
T KOG0804|consen 390 KLKKCQKELKEEREENKKLIKNQDVWRG--------------KLKELEEREKEALGSKDEKITDLQEQLRDLMF 449 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhe
Confidence 455666666666544433 355555554 33444455666677889999999999999864
No 213
>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=23.64 E-value=74 Score=26.59 Aligned_cols=49 Identities=22% Similarity=0.357 Sum_probs=38.6
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhc-----cceehhhhhHHHhhhccchhhccCC
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLE-----VQKRRIYDITNVLEGIGLIEKKLKN 129 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~-----VqKRRIYDItNVLEgIGLIeK~sKN 129 (377)
+..++++.+++. .++.+++.+.|. +.+=-||-.++.|+..|+|.|...+
T Consensus 11 ~~Il~~l~~~~~-~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~ 64 (120)
T PF01475_consen 11 LAILELLKESPE-HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFG 64 (120)
T ss_dssp HHHHHHHHHHSS-SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEET
T ss_pred HHHHHHHHcCCC-CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcC
Confidence 346778888777 899999999986 3444599999999999999998544
No 214
>KOG0718 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=23.40 E-value=2.2e+02 Score=31.18 Aligned_cols=46 Identities=37% Similarity=0.367 Sum_probs=26.6
Q ss_pred CCCcHHHHHHHHHHHHh-hCCCCcc--cHHHHHHHh--------cc----ceehhhhhHHH
Q 017095 71 YDSSLGLLTKKFINLIK-HAEDGIL--DLNKAAETL--------EV----QKRRIYDITNV 116 (377)
Q Consensus 71 ~d~SLglLTkkFi~ll~-~ap~g~l--dLn~aA~~L--------~V----qKRRIYDItNV 116 (377)
+|-+=-.+-+..-.++. =+||.-. |..++|+++ .| +||-|||+.-+
T Consensus 19 kdAt~eeI~~AYrr~~~lfHPDkh~dpd~K~~AE~~F~~i~~AyEVLsDp~kRaIYD~~G~ 79 (546)
T KOG0718|consen 19 KDATDEEIKKAYRRLSRLFHPDKHTDPDQKKAAEEKFQRIQRAYEVLSDPQKRAIYDNYGE 79 (546)
T ss_pred cccCHHHHHHHHHHHHHhcCCcccCChhHHHHHHHHHHHHHHHHHHhcChHHHHHHHHhhh
Confidence 34444444444444442 2566654 566666654 23 89999998753
No 215
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=23.38 E-value=3e+02 Score=20.87 Aligned_cols=34 Identities=15% Similarity=0.349 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 148 ASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 148 ~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
+..|+.++..|..+-..|-..+..+.+.+..|..
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~ 61 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLKS 61 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5567777777777777777777777777666643
No 216
>PRK09863 putative frv operon regulatory protein; Provisional
Probab=22.93 E-value=3e+02 Score=29.46 Aligned_cols=52 Identities=25% Similarity=0.357 Sum_probs=33.9
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhh-hhH---HHhhhccc--hhhccCCeEEEeccC
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIY-DIT---NVLEGIGL--IEKKLKNRIRWKGLD 137 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIY-DIt---NVLEgIGL--IeK~sKN~i~W~G~~ 137 (377)
+.+.+++ ++.+...++|+.|+|++|-|+ ||. .+|++-|+ +.+ +.-|+..+.+
T Consensus 8 ~iL~~L~---~~~~t~~~LA~~l~VS~RTIr~dI~~in~~l~~~~~~~i~~--~~Gy~l~~~~ 65 (584)
T PRK09863 8 KIVDLLE---QQDRSGGELAQQLGVSRRTIVRDIAYINFTLNGKAIGSISG--SAKYHLEILN 65 (584)
T ss_pred HHHHHHH---cCCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcchhheec--CCceEEEeCC
Confidence 4555553 357899999999999998775 433 34555444 454 2357776643
No 217
>COG2207 AraC AraC-type DNA-binding domain-containing proteins [Transcription]
Probab=22.71 E-value=1.1e+02 Score=24.24 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=35.5
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccch
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLI 123 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLI 123 (377)
+++.++.......+.|+++|..+|+.++.+.-...-..|+...
T Consensus 24 ~~~~~i~~~~~~~~~l~~la~~~g~S~~~l~r~f~~~~g~s~~ 66 (127)
T COG2207 24 RALDYIEENLAEPLTLEDLARRLGMSRRTLSRLFKKETGTSPS 66 (127)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCHH
Confidence 7777776677777999999999999999999888876666554
No 218
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=22.70 E-value=1.9e+02 Score=25.64 Aligned_cols=40 Identities=20% Similarity=0.385 Sum_probs=34.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 143 EVDADASILQADIDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 143 ~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
..+.++..+++.++.|+.+...|+....+..+.||+|.+.
T Consensus 71 ~leak~k~see~IeaLqkkK~YlEk~v~eaE~nLrellqs 110 (114)
T KOG3501|consen 71 HLEAKMKSSEEKIEALQKKKTYLEKTVSEAEQNLRELLQS 110 (114)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556777888999999999999999999999999999774
No 219
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=22.43 E-value=1.2e+02 Score=31.34 Aligned_cols=44 Identities=14% Similarity=0.190 Sum_probs=38.1
Q ss_pred CCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEE
Q 017095 89 AEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 89 ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
..+..++..++++++++.-+.+-+|..-|+..|+|.+...+.|.
T Consensus 306 ~~g~~~t~~~La~~l~~~~~~v~~iL~~L~~agLI~~~~~g~~~ 349 (412)
T PRK04214 306 KHGKALDVDEIRRLEPMGYDELGELLCELARIGLLRRGERGQWV 349 (412)
T ss_pred hcCCCCCHHHHHHHhCCCHHHHHHHHHHHHhCCCeEecCCCceE
Confidence 35568899999999999999999999999999999987656443
No 220
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.31 E-value=97 Score=31.21 Aligned_cols=40 Identities=15% Similarity=0.174 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 017095 147 DASILQADIDNLSMEELRVDEQTRELRERLRELIENENNR 186 (377)
Q Consensus 147 ~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~ 186 (377)
.++.|++||..|+..-..-|++|-+-..+|-+|..|++++
T Consensus 226 ~i~~lkeeia~Lkk~L~qkdq~ileKdkqisnLKad~e~~ 265 (305)
T KOG3990|consen 226 KIQKLKEEIARLKKLLHQKDQLILEKDKQISNLKADKEYQ 265 (305)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHhhhhhhhccCcchhHH
Confidence 5889999999999999999999999999999998885554
No 221
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=22.27 E-value=1.1e+02 Score=27.02 Aligned_cols=50 Identities=12% Similarity=0.156 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhc
Q 017095 75 LGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 75 LglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~ 126 (377)
|-.+=++.+.+|+.. +.....++|++||+++-.+..=++=|+.-|+|.+.
T Consensus 7 lD~~D~~Il~~Lq~d--~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI~~~ 56 (153)
T PRK11179 7 IDNLDRGILEALMEN--ARTPYAELAKQFGVSPGTIHVRVEKMKQAGIITGT 56 (153)
T ss_pred cCHHHHHHHHHHHHc--CCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeE
Confidence 455668899988764 88999999999999999999999999999999865
No 222
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=22.06 E-value=3.9e+02 Score=28.39 Aligned_cols=44 Identities=25% Similarity=0.409 Sum_probs=28.9
Q ss_pred CCCceEEec---CCCcccCCCCCcEEEEEecCC-CceEEEEecCcccccccCCCC
Q 017095 213 PQGTTLEVP---DPDEAVDYPQRRYRIILRSTM-GPIDVYLVSRFEEKFEETNSV 263 (377)
Q Consensus 213 P~gT~LEVP---dP~e~~~~~~~~yqI~LkS~~-GPIdVyL~~~~~~~~e~~~~~ 263 (377)
|.+|.|.+- .++ .....+++.++. .+|.-.|+-- |+-|++-+.+
T Consensus 98 pa~T~l~~~l~~n~~------~~~~eL~vst~ndtiIr~vlIfa-EglF~gEs~v 145 (431)
T PF14782_consen 98 PANTQLQVSLSVNPE------TGCVELVVSTSNDTIIRAVLIFA-EGLFEGESHV 145 (431)
T ss_pred CCCCEEEEEEeeCCc------CCcEEEEEEeCCCcEEEEEEEEe-ccccCCcccc
Confidence 668887773 332 246888999776 4888777755 6667644433
No 223
>PRK11642 exoribonuclease R; Provisional
Probab=22.00 E-value=1.1e+02 Score=34.96 Aligned_cols=51 Identities=8% Similarity=0.046 Sum_probs=41.4
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccc----eehhhhhHHHhhhccchhhccCCeEE
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQ----KRRIYDITNVLEGIGLIEKKLKNRIR 132 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~Vq----KRRIYDItNVLEgIGLIeK~sKN~i~ 132 (377)
+.+++|... ...+.+++++..|++. ++.|..+++-|+..|.|.+..++.|.
T Consensus 23 ~Il~~l~~~-~~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~~~~~~~ 77 (813)
T PRK11642 23 FILEHLTKR-EKPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVFTRRQCYA 77 (813)
T ss_pred HHHHHHHhc-CCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEcCCceEe
Confidence 356666653 4899999999999995 35599999999999999987777663
No 224
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=22.00 E-value=1.1e+02 Score=33.91 Aligned_cols=55 Identities=16% Similarity=0.300 Sum_probs=45.9
Q ss_pred HHHHHHHhhCCCCcccHHHHHHHhccc----eehhhhhHHHhhhccchhhccCCeEEEe
Q 017095 80 KKFINLIKHAEDGILDLNKAAETLEVQ----KRRIYDITNVLEGIGLIEKKLKNRIRWK 134 (377)
Q Consensus 80 kkFi~ll~~ap~g~ldLn~aA~~L~Vq----KRRIYDItNVLEgIGLIeK~sKN~i~W~ 134 (377)
.+.+++++..+...+..++++..|++. |.-++.+++-|+.-|.|.|..++.|...
T Consensus 5 ~~il~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~l~~~l~~l~~~g~l~~~~~~~~~~~ 63 (709)
T TIGR02063 5 ELILEFLKSKKGKPISLKELAKAFHLKGADEKKALRKRLRALEDDGLVKKNRRGLYALP 63 (709)
T ss_pred HHHHHHHHhCCCCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEcCCceEecC
Confidence 357788888888999999999999985 3459999999999999998777767553
No 225
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=21.88 E-value=2.5e+02 Score=22.55 Aligned_cols=36 Identities=28% Similarity=0.388 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 146 ADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 146 ~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
..+..+++.+..|......|-..|....+.|+++.+
T Consensus 14 P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~ 49 (92)
T PF14712_consen 14 PDLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNE 49 (92)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888999999999999999999999999999877
No 226
>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=21.82 E-value=4.4e+02 Score=23.90 Aligned_cols=34 Identities=15% Similarity=0.196 Sum_probs=32.0
Q ss_pred CCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 91 DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 91 ~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
.+.+.-.++|..||++++-+=-+.+.|...|||.
T Consensus 26 ~~~~tdEeLa~~Lgi~~~~VRk~L~~L~e~~Lv~ 59 (158)
T TIGR00373 26 KGEFTDEEISLELGIKLNEVRKALYALYDAGLAD 59 (158)
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCce
Confidence 5679999999999999999999999999999995
No 227
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=21.73 E-value=60 Score=35.07 Aligned_cols=33 Identities=6% Similarity=0.278 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 143 EVDADASILQADIDNLSMEELRVDEQTRELRER 175 (377)
Q Consensus 143 ~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~ 175 (377)
+..+++++|++||++|+++-..|++.+.+.+++
T Consensus 28 ~~~qkie~L~kql~~Lk~q~~~l~~~v~k~e~~ 60 (489)
T PF11853_consen 28 DLLQKIEALKKQLEELKAQQDDLNDRVDKVEKH 60 (489)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccccchhhHh
No 228
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=21.70 E-value=2.2e+02 Score=23.70 Aligned_cols=25 Identities=20% Similarity=0.283 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 017095 156 DNLSMEELRVDEQTRELRERLRELI 180 (377)
Q Consensus 156 ~~L~~~E~~LD~lI~~~~q~L~~Lt 180 (377)
+.|..+...|+..+..++.++..+.
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~~~~~~ 114 (129)
T cd00890 90 EFLKKRLETLEKQIEKLEKQLEKLQ 114 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 229
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=21.67 E-value=89 Score=29.39 Aligned_cols=39 Identities=15% Similarity=0.125 Sum_probs=35.3
Q ss_pred CCCCcc-cHHHHHHHhccceehhhhhHHHhhhccchhhcc
Q 017095 89 AEDGIL-DLNKAAETLEVQKRRIYDITNVLEGIGLIEKKL 127 (377)
Q Consensus 89 ap~g~l-dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~s 127 (377)
.|+..+ .-.++|++|||+|==+=+.+..||..|||+...
T Consensus 21 ~pG~~LpsE~eLae~~gVSRtpVREAL~~Le~~GlV~~~~ 60 (253)
T PRK10421 21 EAGMKLPAERQLAMQLGVSRNSLREALAKLVSEGVLLSRR 60 (253)
T ss_pred CCCCcCCCHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 577788 699999999999999999999999999998653
No 230
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=21.64 E-value=1.2e+02 Score=29.98 Aligned_cols=60 Identities=28% Similarity=0.359 Sum_probs=49.3
Q ss_pred CcHHHHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEE
Q 017095 73 SSLGLLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRW 133 (377)
Q Consensus 73 ~SLglLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W 133 (377)
..|-.-=+.-|+++.. .+|.+.-+++.+.||.+|=-++=|+-=||-.|+|+|..++.=.|
T Consensus 191 ~~L~~~e~~il~~i~~-~GGri~Q~eL~r~lglsktTvsR~L~~LEk~GlIe~~K~G~~n~ 250 (258)
T COG2512 191 YDLNEDEKEILDLIRE-RGGRITQAELRRALGLSKTTVSRILRRLEKRGLIEKEKKGRTNI 250 (258)
T ss_pred CCCCHHHHHHHHHHHH-hCCEEeHHHHHHhhCCChHHHHHHHHHHHhCCceEEEEeCCeeE
Confidence 3444555667777766 58899999999999999999999999999999999987765444
No 231
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=21.50 E-value=79 Score=22.41 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=24.2
Q ss_pred HHHHhhCCCCcccHHHHHHHhccceehhh
Q 017095 83 INLIKHAEDGILDLNKAAETLEVQKRRIY 111 (377)
Q Consensus 83 i~ll~~ap~g~ldLn~aA~~L~VqKRRIY 111 (377)
++++.+..-..+.+.++|++++|.|.-||
T Consensus 6 ~~l~~~~G~~~~s~~~Ia~~~gvs~~~~y 34 (47)
T PF00440_consen 6 LELFAEKGYEAVSIRDIARRAGVSKGSFY 34 (47)
T ss_dssp HHHHHHHHTTTSSHHHHHHHHTSCHHHHH
T ss_pred HHHHHHhCHHhCCHHHHHHHHccchhhHH
Confidence 45566666677999999999999999888
No 232
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=21.49 E-value=1.9e+02 Score=27.66 Aligned_cols=28 Identities=11% Similarity=0.261 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 151 LQADIDNLSMEELRVDEQTRELRERLRE 178 (377)
Q Consensus 151 Lk~El~~L~~~E~~LD~lI~~~~q~L~~ 178 (377)
|+.+++++...++.|.-++..+-+.|+.
T Consensus 89 L~~qi~~~~~~~~~l~p~m~~m~~~L~~ 116 (251)
T PF11932_consen 89 LEQQIEQIEETRQELVPLMEQMIDELEQ 116 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333334444444444444444
No 233
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=21.25 E-value=1.9e+02 Score=24.19 Aligned_cols=34 Identities=18% Similarity=0.422 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 146 ADASILQADIDNLSMEELRVDEQTRELRERLREL 179 (377)
Q Consensus 146 ~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~L 179 (377)
+++..+.+++..|+.-=..||+..+.+..+++.|
T Consensus 66 ~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k~k~l 99 (99)
T PF10046_consen 66 QQIDQIEEQVTELEQTVYELDEYSKELESKFKKL 99 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 3455556677777777777777777777777653
No 234
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=21.24 E-value=67 Score=23.62 Aligned_cols=26 Identities=27% Similarity=0.369 Sum_probs=22.2
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhh
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEG 119 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEg 119 (377)
+.|.++|+.+++..+.|+.+.+-.-|
T Consensus 2 ~~~~~la~~~~~s~~~l~~~f~~~~~ 27 (84)
T smart00342 2 LTLEDLAEALGMSPRHLQRLFKKETG 27 (84)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHhC
Confidence 67899999999999999999875543
No 235
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=21.21 E-value=56 Score=32.35 Aligned_cols=35 Identities=23% Similarity=0.432 Sum_probs=26.8
Q ss_pred CcccHHHHH-------HHhccc---eehhhhhHHHhhhccchhhc
Q 017095 92 GILDLNKAA-------ETLEVQ---KRRIYDITNVLEGIGLIEKK 126 (377)
Q Consensus 92 g~ldLn~aA-------~~L~Vq---KRRIYDItNVLEgIGLIeK~ 126 (377)
+.+...++. +.+++. +|+++|+.|-|+..|||+-.
T Consensus 314 ~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l~~L~~~glI~~~ 358 (394)
T PRK00411 314 DEVTTGEVYEEYKELCEELGYEPRTHTRFYEYINKLDMLGIINTR 358 (394)
T ss_pred CcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHhcCCeEEE
Confidence 345555554 557874 49999999999999999854
No 236
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=21.17 E-value=5.2e+02 Score=21.95 Aligned_cols=80 Identities=25% Similarity=0.352 Sum_probs=58.5
Q ss_pred HHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccCCeEEEeccCCCCCCcchhHHHHHHHHHHHHHHH
Q 017095 82 FINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLKNRIRWKGLDNSIPGEVDADASILQADIDNLSME 161 (377)
Q Consensus 82 Fi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sKN~i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~ 161 (377)
|.-++...--..-++..+.+++.-..||+-.|=+.|+.+ | ..+++..|+-++..++.+
T Consensus 23 ~~~~l~~~~a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~L--------------------P--t~~dv~~L~l~l~el~G~ 80 (106)
T PF10805_consen 23 FWLWLRRTYAKREDIEKLEERLDEHDRRLQALETKLEHL--------------------P--TRDDVHDLQLELAELRGE 80 (106)
T ss_pred HHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhC--------------------C--CHHHHHHHHHHHHHHHhH
Confidence 334444433335678888888888888887766655432 2 135688999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhh
Q 017095 162 ELRVDEQTRELRERLRELIENE 183 (377)
Q Consensus 162 E~~LD~lI~~~~q~L~~Lted~ 183 (377)
-+.+...|+-+..++.-|.|.+
T Consensus 81 ~~~l~~~l~~v~~~~~lLlE~~ 102 (106)
T PF10805_consen 81 LKELSARLQGVSHQLDLLLENE 102 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998888754
No 237
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal 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. This subgroup lacks one of the c
Probab=21.16 E-value=5.4e+02 Score=22.23 Aligned_cols=89 Identities=8% Similarity=0.116 Sum_probs=0.0
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhhccC--CeEEEe----------------------------ccCCCCCCc
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK--NRIRWK----------------------------GLDNSIPGE 143 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK--N~i~W~----------------------------G~~~s~~~~ 143 (377)
+.+.++|+.+||..|-| =-.|-+|||.-... |.|+.- .........
T Consensus 1 m~IgE~A~~~gvs~~TL----RyYE~~GLl~p~r~~~~gyR~Y~~~~~~~l~~I~~lr~~G~sL~eI~~~l~~~~~~~~~ 76 (133)
T cd04787 1 MKVKELANAAGVTPDTV----RFYTRIGLLRPTRDPVNGYRLYSEKDLSRLRFILSARQLGFSLKDIKEILSHADQGESP 76 (133)
T ss_pred CCHHHHHHHHCcCHHHH----HHHHHCCCCCCCcCCCCCeeeCCHHHHHHHHHHHHHHHcCCCHHHHHHHHhhhccCCCc
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 017095 144 VDADASILQADIDNLSMEELRVDEQTRELRERLRELIENENNR 186 (377)
Q Consensus 144 ~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~~n~ 186 (377)
.......|++.++.|+.+..+|.+++..+...+..........
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~~~~~ 119 (133)
T cd04787 77 CPMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQWQQMPDGA 119 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
No 238
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=21.10 E-value=1.2e+02 Score=22.81 Aligned_cols=39 Identities=10% Similarity=0.245 Sum_probs=34.9
Q ss_pred CCCcccHHHHHHHhccceehhhhhHHHhhhccchhhccC
Q 017095 90 EDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEKKLK 128 (377)
Q Consensus 90 p~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK~sK 128 (377)
.++.+++.++=+.|+++|+-.-=+..-|...|+..|.+-
T Consensus 7 ~~~~itv~~~rd~lg~sRK~ai~lLE~lD~~g~T~R~gd 45 (50)
T PF09107_consen 7 KNGEITVAEFRDLLGLSRKYAIPLLEYLDREGITRRVGD 45 (50)
T ss_dssp TTSSBEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred cCCcCcHHHHHHHHCccHHHHHHHHHHHhccCCEEEeCC
Confidence 388999999999999999999999999999999988853
No 239
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=21.07 E-value=3.3e+02 Score=21.98 Aligned_cols=38 Identities=21% Similarity=0.361 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 017095 146 ADASILQADIDNLSMEELRVDEQTRELRERLRELIENE 183 (377)
Q Consensus 146 ~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lted~ 183 (377)
+.+..||.|++.|..+-..|.+....+.+....|.++.
T Consensus 18 eti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~ 55 (72)
T PF06005_consen 18 ETIALLQMENEELKEKNNELKEENEELKEENEQLKQER 55 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 34677888888888887777777777777776666543
No 240
>PLN03239 histone acetyltransferase; Provisional
Probab=20.99 E-value=2.3e+02 Score=29.60 Aligned_cols=53 Identities=19% Similarity=0.309 Sum_probs=39.0
Q ss_pred CCCCcHHHHH------HHHHHHHhhCC--CCcccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 70 RYDSSLGLLT------KKFINLIKHAE--DGILDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 70 R~d~SLglLT------kkFi~ll~~ap--~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
|--+-||++. ...++++.... ...++|+++|...++. .-||+..|+.+|++..
T Consensus 253 kPLSdlG~~sY~~YW~~~il~~L~~~~~~~~~~si~dis~~Tgi~---~~DIi~tL~~l~~l~~ 313 (351)
T PLN03239 253 KPMSDLGQQAYIPYWGSTIVDFLLNHSGNDSSLSIMDIAKKTSIM---AEDIVFALNQLGILKF 313 (351)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCccHHHHHHHhCCC---HHHHHHHHHHCCcEEE
Confidence 3344577776 23555555443 3579999999999994 5799999999999953
No 241
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer 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 conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=20.96 E-value=3.3e+02 Score=22.48 Aligned_cols=28 Identities=21% Similarity=0.380 Sum_probs=20.5
Q ss_pred ccHHHHHHHhccceehhhhhHHHhhhccchhh
Q 017095 94 LDLNKAAETLEVQKRRIYDITNVLEGIGLIEK 125 (377)
Q Consensus 94 ldLn~aA~~L~VqKRRIYDItNVLEgIGLIeK 125 (377)
+.+.++|+.+||+.+-|--. |..|+|..
T Consensus 2 ~~i~eva~~~gVs~~tLR~y----e~~Gli~p 29 (98)
T cd01279 2 YPISVAAELLGIHPQTLRVY----DRLGLVSP 29 (98)
T ss_pred cCHHHHHHHHCcCHHHHHHH----HHCCCCCC
Confidence 57899999999988755443 45667653
No 242
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.60 E-value=2.5e+02 Score=22.98 Aligned_cols=35 Identities=14% Similarity=0.285 Sum_probs=25.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 017095 145 DADASILQADIDNLSMEELRVDEQTRELRERLREL 179 (377)
Q Consensus 145 ~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~L 179 (377)
...+..|+++++.|+.+...+...+.-+..++.-|
T Consensus 69 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 69 SPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34677788888888887777777777777666543
No 243
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.51 E-value=3.7e+02 Score=22.03 Aligned_cols=37 Identities=16% Similarity=0.251 Sum_probs=23.5
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchhh--ccCCeEEEec
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIEK--KLKNRIRWKG 135 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK--~sKN~i~W~G 135 (377)
.+.++|+.+||..+-|- -.|..|||.. ...|.++.-.
T Consensus 2 ~i~eva~~~gvs~~tlR----~ye~~Gll~p~~r~~~gyR~Y~ 40 (96)
T cd04788 2 KIGELARRTGLSVRTLH----HYDHIGLLSPSQRTEGGHRLYD 40 (96)
T ss_pred CHHHHHHHHCcCHHHHH----HHHHCCCCCCCccCCCCceeeC
Confidence 57789999999877432 2346788854 3345555543
No 244
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=20.48 E-value=4.8e+02 Score=24.24 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=34.8
Q ss_pred HHHHHHhhCCCCcccHHHHHHHhccceehhhhhHHHhhhccchh
Q 017095 81 KFINLIKHAEDGILDLNKAAETLEVQKRRIYDITNVLEGIGLIE 124 (377)
Q Consensus 81 kFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItNVLEgIGLIe 124 (377)
+++..+. ..|.+.-.++|..||+++.-+=-+.+-|+.-|||.
T Consensus 26 ~Vl~~L~--~~g~~tdeeLA~~Lgi~~~~VRk~L~~L~e~gLv~ 67 (178)
T PRK06266 26 EVLKALI--KKGEVTDEEIAEQTGIKLNTVRKILYKLYDARLAD 67 (178)
T ss_pred HHHHHHH--HcCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCeE
Confidence 3444443 34578999999999999999999999999999999
No 245
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=20.46 E-value=2.5e+02 Score=26.18 Aligned_cols=28 Identities=14% Similarity=0.312 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017095 155 IDNLSMEELRVDEQTRELRERLRELIEN 182 (377)
Q Consensus 155 l~~L~~~E~~LD~lI~~~~q~L~~Lted 182 (377)
++-|..+.+.|++.|.++++.|..+.++
T Consensus 87 ~~lLe~~~~~l~~ri~eLe~~l~~kad~ 114 (175)
T PRK13182 87 FEQLEAQLNTITRRLDELERQLQQKADD 114 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3556677777777788888777777665
No 246
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=20.44 E-value=38 Score=28.56 Aligned_cols=48 Identities=31% Similarity=0.439 Sum_probs=33.3
Q ss_pred EEEeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 131 IRWKGLDNSIPGEVDADASILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 131 i~W~G~~~s~~~~~~~~~~~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
..|+|.+. .+++..+..|..+++.|..+-..|...+..++.+|..+..
T Consensus 13 ~~~rGYd~---~eVD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~ 60 (131)
T PF05103_consen 13 KSMRGYDP---DEVDDFLDELAEELERLQRENAELKEEIEELQAQLEELRE 60 (131)
T ss_dssp EEEEEEEH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT------
T ss_pred CCCCCcCH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence 56778764 3677888889999999888888888888877777766644
No 247
>PRK15185 transcriptional regulator HilD; Provisional
Probab=20.30 E-value=1.2e+02 Score=30.94 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 77 LLTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 77 lLTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
.+..+...++.+.+...+++.++|+.+++++|.|+-...
T Consensus 206 ~~~erV~~~I~~n~~~~~SledLA~~lgmS~~tL~R~FK 244 (309)
T PRK15185 206 TLKERVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKLA 244 (309)
T ss_pred HHHHHHHHHHHhCccCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 366788889989999999999999999999999876543
No 248
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=20.24 E-value=1e+02 Score=21.83 Aligned_cols=38 Identities=18% Similarity=0.170 Sum_probs=25.1
Q ss_pred HHHHHHHHHhhCCCCcccHHHHHHHhccceehhhhhHH
Q 017095 78 LTKKFINLIKHAEDGILDLNKAAETLEVQKRRIYDITN 115 (377)
Q Consensus 78 LTkkFi~ll~~ap~g~ldLn~aA~~L~VqKRRIYDItN 115 (377)
+|++|..++-..-.....+..+|+.+||.--.+..|++
T Consensus 12 ~T~~~~~~i~~~~~~~~s~~~vA~~~~vs~~TV~ri~~ 49 (52)
T PF13542_consen 12 ITKRLEQYILKLLRESRSFKDVARELGVSWSTVRRIFD 49 (52)
T ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHHCCCHHHHHHHHH
Confidence 56666665433222227999999999997666666554
No 249
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=20.12 E-value=5.2e+02 Score=23.92 Aligned_cols=32 Identities=9% Similarity=-0.018 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 017095 150 ILQADIDNLSMEELRVDEQTRELRERLRELIE 181 (377)
Q Consensus 150 ~Lk~El~~L~~~E~~LD~lI~~~~q~L~~Lte 181 (377)
.|+.-..-|..++.-|++.+..+.++|.+|..
T Consensus 67 ~Le~R~~~L~aree~I~~v~~~a~e~L~~l~~ 98 (185)
T PRK01194 67 NIEARSIKREKRREILKDYLDIAYEHLMNITK 98 (185)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC
Confidence 45555677888999999999999999999874
No 250
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.09 E-value=1.9e+02 Score=23.74 Aligned_cols=36 Identities=19% Similarity=0.332 Sum_probs=22.9
Q ss_pred cHHHHHHHhccceehhhhhHHHhhhccchhh--ccCCeEEEe
Q 017095 95 DLNKAAETLEVQKRRIYDITNVLEGIGLIEK--KLKNRIRWK 134 (377)
Q Consensus 95 dLn~aA~~L~VqKRRIYDItNVLEgIGLIeK--~sKN~i~W~ 134 (377)
.+.++|+.+||..+-|- -.|..|||.- ...|.|++-
T Consensus 2 ~i~eva~~~gvs~~tlR----~ye~~Gll~p~~~~~~gyR~Y 39 (97)
T cd04782 2 TTGEFAKLCGISKQTLF----HYDKIGLFKPEIVKENGYRYY 39 (97)
T ss_pred CHHHHHHHHCcCHHHHH----HHHHCCCCCCCccCCCCCccC
Confidence 56788999999877542 2366788743 234555543
Done!