GREMLIN Database
YDGC - Uncharacterized HTH-type transcriptional regulator YdgC
UniProt: P96701 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 195 (174)
Sequences: 43206 (34525)
Seq/√Len: 2617.3

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_S41_Q4.0441.00
23_R32_E3.8781.00
18_N36_K3.5941.00
49_Q53_A2.6691.00
20_F28_A2.3631.00
50_S53_A2.2441.00
34_V44_F2.0931.00
19_E36_K2.0911.00
22_V36_K1.9641.00
10_K61_D1.9381.00
19_E32_E1.9371.00
19_E28_A1.9261.00
8_S11_R1.8631.00
15_A36_K1.8561.00
19_E23_R1.8431.00
11_R15_A1.8391.00
128_K147_E1.8011.00
9_R57_E1.8011.00
83_D86_K1.7661.00
31_S35_K1.7491.00
109_G112_L1.7331.00
87_R133_A1.7221.00
128_K132_E1.7111.00
40_T43_S1.7111.00
15_A18_N1.6951.00
30_V41_Q1.6331.00
17_A61_D1.6051.00
16_A20_F1.5921.00
13_L57_E1.5751.00
10_K14_K1.5731.00
132_E136_R1.5661.00
18_N22_V1.5401.00
132_E146_M1.5301.00
30_V45_Y1.5071.00
17_A62_F1.5001.00
132_E135_Q1.4591.00
57_E60_T1.4471.00
9_R47_Y1.4341.00
29_K32_E1.4301.00
148_T178_E1.4211.00
28_A33_I1.4181.00
32_E36_K1.3821.00
43_S46_L1.3811.00
134_E140_F1.3761.00
152_C156_M1.3761.00
135_Q142_S1.3341.00
17_A58_L1.3321.00
24_G28_A1.3281.00
56_A60_T1.3171.00
30_V44_F1.3091.00
16_A54_I1.3081.00
89_L177_A1.3071.00
15_A19_E1.3041.00
7_E11_R1.3031.00
85_S184_I1.3031.00
61_D65_R1.3031.00
32_E35_K1.3011.00
48_F57_E1.2841.00
133_A137_L1.2781.00
135_Q144_L1.2721.00
23_R27_D1.2131.00
39_F43_S1.1951.00
93_E177_A1.1901.00
24_G27_D1.1851.00
69_L94_T1.1831.00
93_E176_A1.1661.00
89_L93_E1.1641.00
93_E173_A1.1521.00
14_K61_D1.1511.00
40_T46_L1.1361.00
105_L108_I1.1251.00
134_E139_Y1.1241.00
124_A128_K1.1211.00
86_K90_L1.1201.00
20_F25_F1.1131.00
130_N134_E1.1041.00
25_F55_F1.0981.00
53_A57_E1.0961.00
42_P46_L1.0921.00
110_F113_N1.0811.00
85_S89_L1.0771.00
52_E56_A1.0751.00
71_E126_V1.0651.00
8_S47_Y1.0641.00
41_Q45_Y1.0591.00
90_L93_E1.0521.00
145_D148_T1.0381.00
44_F54_I1.0351.00
171_D174_S1.0301.00
43_S47_Y1.0281.00
109_G113_N1.0271.00
17_A21_S1.0131.00
89_L180_V1.0071.00
110_F117_K1.0061.00
45_Y50_S1.0001.00
13_L48_F1.0001.00
13_L58_L0.9991.00
15_A37_A0.9951.00
7_E10_K0.9931.00
69_L72_S0.9911.00
82_E90_L0.9811.00
141_H144_L0.9791.00
98_F102_D0.9701.00
126_V129_E0.9671.00
53_A56_A0.9571.00
16_A58_L0.9571.00
33_I54_I0.9541.00
115_E119_M0.9531.00
86_K89_L0.9381.00
103_K107_K0.9291.00
124_A151_E0.9251.00
14_K18_N0.9231.00
62_F65_R0.9101.00
6_V10_K0.9091.00
60_T64_S0.9081.00
83_D139_Y0.9061.00
129_E133_A0.9051.00
23_R36_K0.8981.00
56_A115_E0.8951.00
155_G159_H0.8941.00
129_E132_E0.8851.00
125_M129_E0.8851.00
148_T174_S0.8821.00
89_L181_N0.8811.00
117_K120_K0.8771.00
113_N117_K0.8731.00
18_N104_D0.8681.00
68_K72_S0.8661.00
73_L94_T0.8621.00
8_S39_F0.8621.00
90_L94_T0.8591.00
93_E97_Q0.8581.00
89_L184_I0.8571.00
61_D64_S0.8431.00
115_E118_Q0.8401.00
180_V184_I0.8381.00
94_T97_Q0.8381.00
81_T87_R0.8341.00
57_E61_D0.8341.00
13_L61_D0.8331.00
164_F167_T0.8261.00
135_Q146_M0.8221.00
73_L90_L0.8211.00
71_E75_L0.8201.00
173_A177_A0.8151.00
174_S178_E0.8131.00
178_E181_N0.8121.00
64_S68_K0.8081.00
41_Q46_L0.8061.00
135_Q138_G0.8021.00
131_L134_E0.8001.00
93_E180_V0.7991.00
35_K41_Q0.7921.00
147_E151_E0.7911.00
12_L44_F0.7891.00
118_Q122_D0.7821.00
82_E86_K0.7811.00
176_A179_V0.7811.00
177_A181_N0.7801.00
144_L149_V0.7801.00
19_E22_V0.7791.00
128_K146_M0.7791.00
34_V41_Q0.7781.00
52_E109_G0.7751.00
87_R130_N0.7671.00
11_R14_K0.7611.00
11_R37_A0.7581.00
133_A136_R0.7561.00
112_L115_E0.7461.00
176_A180_V0.7451.00
67_R122_D0.7281.00
25_F51_K0.7251.00
67_R71_E0.7251.00
134_E138_G0.7231.00
135_Q140_F0.7221.00
109_G117_K0.7201.00
163_S166_L0.7201.00
114_P117_K0.7171.00
110_F114_P0.7101.00
8_S43_S0.7101.00
125_M128_K0.7091.00
97_Q176_A0.7001.00
81_T86_K0.6991.00
128_K150_A0.6951.00
84_V137_L0.6901.00
12_L37_A0.6881.00
65_R68_K0.6841.00
67_R126_V0.6831.00
119_M123_L0.6791.00
114_P118_Q0.6791.00
130_N133_A0.6751.00
97_Q173_A0.6721.00
23_R28_A0.6621.00
60_T119_M0.6611.00
13_L17_A0.6611.00
148_T152_C0.6581.00
173_A176_A0.6561.00
100_D172_P0.6501.00
30_V34_V0.6431.00
68_K71_E0.6421.00
92_V153_L0.6391.00
121_K125_M0.6381.00
95_V99_L0.6351.00
20_F55_F0.6351.00
89_L92_V0.6281.00
60_T115_E0.6231.00
178_E182_L0.6221.00
163_S167_T0.6211.00
155_G158_E0.6171.00
8_S40_T0.6131.00
172_P176_A0.6111.00
103_K106_T0.6101.00
25_F28_A0.6091.00
120_K123_L0.6071.00
37_A40_T0.6051.00
146_M150_A0.6041.00
14_K17_A0.6031.00
22_V32_E0.5971.00
21_S104_D0.5941.00
84_V134_E0.5931.00
97_Q101_E0.5921.00
124_A147_E0.5911.00
117_K121_K0.5901.00
122_D126_V0.5901.00
104_D107_K0.5891.00
174_S177_A0.5761.00
148_T151_E0.5701.00
25_F52_E0.5621.00
94_T98_F0.5601.00
81_T90_L0.5531.00
119_M122_D0.5491.00
97_Q172_P0.5451.00
102_D105_L0.5441.00
80_N90_L0.5421.00
98_F101_E0.5401.00
153_L183_L0.5401.00
31_S45_Y0.5401.00
170_K174_S0.5391.00
169_I173_A0.5331.00
69_L98_F0.5311.00
84_V139_Y0.5291.00
145_D178_E0.5281.00
17_A65_R0.5271.00
131_L146_M0.5261.00
113_N116_A0.5241.00
142_S145_D0.5241.00
152_C155_G0.5231.00
111_F114_P0.5221.00
72_S94_T0.5181.00
111_F115_E0.5161.00
34_V39_F0.5141.00
159_H163_S0.5131.00
132_E147_E0.5111.00
131_L153_L0.5111.00
171_D175_L0.5111.00
12_L47_Y0.5091.00
41_Q44_F0.5061.00
83_D87_R0.5031.00
175_L178_E0.5021.00
159_H162_E0.5011.00
37_A41_Q0.5001.00
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
2ibdA 2 0.9385 100 0.209 Contact Map
3aqtA 2 0.9538 100 0.214 Contact Map
2iaiA 2 0.9282 100 0.215 Contact Map
3dcfA 2 0.9231 100 0.223 Contact Map
4udsA 2 0.9026 100 0.223 Contact Map
2f07A 2 0.9538 100 0.228 Contact Map
2xdnA 2 0.9846 100 0.233 Contact Map
3pasA 2 0.9641 100 0.235 Contact Map
3he0A 2 0.9179 100 0.236 Contact Map
3npiA 2 0.959 100 0.237 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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