GREMLIN Database
YGBI - Uncharacterized HTH-type transcriptional regulator YgbI
UniProt: P52598 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13103
Length: 255 (246)
Sequences: 7680 (5611)
Seq/√Len: 357.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
94_S168_Q3.3191.00
85_L88_S3.1241.00
107_I205_V2.9401.00
137_T144_A2.7561.00
169_A199_S2.6101.00
13_M28_R2.3541.00
99_D192_K2.3361.00
208_A231_D2.2831.00
196_A220_L2.2561.00
109_Q129_Y2.2421.00
162_R194_A2.1311.00
203_V227_Q2.1211.00
91_Q94_S2.0871.00
9_I12_E2.0541.00
168_Q203_V2.0431.00
13_M17_K2.0231.00
84_K110_H2.0071.00
97_Y166_I1.9991.00
80_A106_A1.9971.00
196_A202_R1.9811.00
218_L221_P1.9691.00
234_L239_S1.9331.00
159_T162_R1.9141.00
98_L104_T1.9131.00
168_Q201_Q1.8871.00
97_Y195_I1.8281.00
201_Q227_Q1.8121.00
92_P115_E1.7811.00
106_A109_Q1.7761.00
239_S243_V1.7611.00
120_V166_I1.7521.00
221_P224_E1.6901.00
86_A170_F1.6791.00
159_T163_S1.6781.00
166_I195_I1.6561.00
158_A190_T1.6081.00
140_H152_C1.6041.00
194_A197_S1.6041.00
86_A205_V1.5991.00
167_D200_R1.5591.00
141_T160_M1.5491.00
127_A140_H1.5451.00
107_I170_F1.5351.00
181_I225_F1.5181.00
75_A209_T1.5091.00
240_R244_K1.5061.00
181_I204_L1.4991.00
31_V36_I1.4951.00
87_A110_H1.4951.00
162_R197_S1.4821.00
19_I57_Q1.4691.00
25_L36_I1.4541.00
80_A110_H1.4461.00
7_R46_Q1.4441.00
157_A191_V1.4441.00
13_M20_V1.4271.00
235_P238_A1.4251.00
50_V59_P1.4221.00
83_G110_H1.4201.00
119_V130_L1.4151.00
141_T152_C1.4121.00
89_L229_I1.4091.00
9_I13_M1.3991.00
8_Q12_E1.3971.00
10_I25_L1.3931.00
194_A198_A1.3911.00
75_A78_Q1.3891.00
40_L56_V1.3881.00
17_K24_E1.3721.00
15_A58_S1.3661.00
89_L203_V1.3651.00
204_L225_F1.3611.00
100_A151_S1.3591.00
145_V152_C1.3581.00
208_A233_G1.3391.00
23_A33_H1.3351.00
78_Q231_D1.3311.00
7_R42_K1.3281.00
92_P114_M1.3221.00
94_S167_D1.3201.00
76_M106_A1.3201.00
52_V55_G1.3191.00
144_A187_D1.3171.00
11_L48_A1.2891.00
119_V136_C1.2891.00
176_W211_Y1.2881.00
92_P116_S1.2871.00
220_L224_E1.2811.00
79_K102_T1.2801.00
21_S24_E1.2691.00
3_P7_R1.2461.00
93_G116_S1.2441.00
236_E240_R1.2421.00
141_T157_A1.2391.00
90_V111_L1.2381.00
201_Q226_D1.2361.00
9_I28_R1.2321.00
80_A109_Q1.2281.00
85_L89_L1.2211.00
118_T139_I1.2001.00
197_S224_E1.1931.00
34_M38_R1.1921.00
240_R243_V1.1841.00
9_I29_M1.1831.00
77_T80_A1.1771.00
97_Y198_A1.1731.00
14_V49_V1.1591.00
41_Q45_Q1.1591.00
108_A130_L1.1561.00
173_A206_C1.1431.00
76_M80_A1.1421.00
227_Q248_S1.1321.00
158_A191_V1.1291.00
170_F203_V1.1241.00
17_K28_R1.1211.00
156_A160_M1.1141.00
91_Q168_Q1.1141.00
12_E16_E1.1111.00
211_Y234_L1.1091.00
78_Q208_A1.1051.00
118_T137_T1.0991.00
50_V57_Q1.0971.00
173_A219_A1.0911.00
11_L14_V1.0881.00
202_R225_F1.0651.00
203_V229_I1.0601.00
14_V58_S1.0601.00
139_I144_A1.0441.00
22_I40_L1.0421.00
42_K46_Q1.0301.00
49_V56_V1.0261.00
120_V164_L1.0201.00
175_S182_S1.0171.00
238_A241_A1.0171.00
26_T33_H1.0131.00
3_P42_K1.0121.00
89_L227_Q1.0111.00
86_A107_I1.0071.00
87_A90_V0.9911.00
141_T161_L0.9901.00
90_V170_F0.9851.00
78_Q82_I0.9841.00
5_E9_I0.9801.00
68_H102_T0.9801.00
211_Y228_I0.9781.00
156_A164_L0.9761.00
87_A107_I0.9721.00
98_L107_I0.9651.00
104_T126_I0.9641.00
176_W206_C0.9601.00
223_S245_Q0.9571.00
41_Q44_E0.9531.00
83_G87_A0.9501.00
80_A84_K0.9501.00
108_A129_Y0.9371.00
174_S183_T0.9361.00
101_G104_T0.9351.00
190_T193_R0.9341.00
13_M16_E0.9341.00
177_S214_V0.9301.00
79_K103_T0.9241.00
189_V217_W0.9211.00
79_K210_K0.9191.00
158_A194_A0.9161.00
169_A195_I0.9161.00
82_I103_T0.9111.00
107_I110_H0.9111.00
24_E28_R0.9101.00
42_K45_Q0.9061.00
173_A204_L0.9051.00
103_T207_D0.9031.00
163_S193_R0.8991.00
125_V150_R0.8931.00
75_A207_D0.8891.00
239_S249_L0.8851.00
165_M200_R0.8841.00
83_G107_I0.8831.00
138_I145_V0.8751.00
26_T36_I0.8741.00
20_V56_V0.8741.00
103_T210_K0.8731.00
104_T107_I0.8721.00
83_G106_A0.8641.00
11_L15_A0.8601.00
165_M179_R0.8601.00
156_A163_S0.8581.00
20_V25_L0.8571.00
43_L48_A0.8561.00
131_L150_R0.8531.00
200_R214_V0.8481.00
179_R214_V0.8451.00
241_A244_K0.8411.00
112_I133_N0.8381.00
149_N174_S0.8361.00
108_A126_I0.8261.00
164_L186_E0.8241.00
123_D126_I0.8181.00
112_I129_Y0.8161.00
161_L195_I0.8131.00
165_M218_L0.8131.00
170_F205_V0.8101.00
165_M214_V0.8061.00
183_T189_V0.8051.00
202_R226_D0.8011.00
12_E15_A0.8011.00
81_A84_K0.7991.00
5_E8_Q0.7961.00
176_W181_I0.7841.00
86_A229_I0.7791.00
161_L194_A0.7781.00
129_Y132_D0.7771.00
97_Y161_L0.7761.00
24_E27_D0.7721.00
104_T205_V0.7701.00
75_A208_A0.7671.00
234_L238_A0.7631.00
41_Q51_L0.7631.00
112_I115_E0.7611.00
186_E217_W0.7611.00
71_K174_S0.7581.00
163_S218_L0.7521.00
182_S214_V0.7491.00
102_T210_K0.7491.00
165_M198_A0.7461.00
173_A181_I0.7431.00
116_S135_N0.7411.00
105_L129_Y0.7391.00
128_D150_R0.7371.00
5_E19_I0.7351.00
234_L249_L0.7331.00
67_S70_V0.7321.00
77_T81_A0.7291.00
183_T219_A0.7261.00
146_C188_K0.7251.00
98_L108_A0.7240.99
98_L119_V0.7190.99
196_A219_A0.7190.99
18_G58_S0.7160.99
127_A145_V0.7090.99
146_C153_V0.7070.99
176_W222_L0.7040.99
106_A110_H0.7010.99
178_V241_A0.7010.99
7_R11_L0.6990.99
11_L43_L0.6910.99
65_E71_K0.6880.99
127_A152_C0.6880.99
95_C120_V0.6860.99
142_G160_M0.6840.99
206_C228_I0.6840.99
133_N136_C0.6830.99
72_T105_L0.6830.99
100_A149_N0.6830.99
169_A202_R0.6830.99
207_D210_K0.6810.99
40_L51_L0.6800.99
154_G157_A0.6790.99
166_I199_S0.6760.99
181_I219_A0.6760.99
81_A85_L0.6730.99
23_A27_D0.6720.99
142_G157_A0.6710.99
132_D150_R0.6690.99
236_E239_S0.6690.99
115_E135_N0.6660.99
84_K88_S0.6650.99
193_R197_S0.6650.99
96_I119_V0.6650.99
237_S241_A0.6640.99
31_V34_M0.6600.99
241_A245_Q0.6570.99
52_V57_Q0.6550.99
113_H133_N0.6550.99
162_R198_A0.6540.99
155_E159_T0.6500.99
4_V7_R0.6480.99
159_T190_T0.6480.99
96_I168_Q0.6460.99
25_L40_L0.6450.99
155_E190_T0.6400.99
82_I205_V0.6380.99
183_T188_K0.6370.99
105_L125_V0.6320.99
171_I199_S0.6300.99
22_I36_I0.6290.99
44_E51_L0.6280.99
121_T127_A0.6260.99
203_V226_D0.6250.99
14_V20_V0.6240.99
238_A242_L0.6220.98
122_N195_I0.6210.98
6_R39_D0.6210.98
174_S215_A0.6200.98
164_L217_W0.6180.98
201_Q248_S0.6140.98
124_F152_C0.6140.98
29_M36_I0.6120.98
199_S202_R0.6090.98
125_V128_D0.6070.98
44_E49_V0.6040.98
116_S137_T0.5990.98
187_D190_T0.5970.98
34_M123_D0.5970.98
208_A234_L0.5960.98
220_L225_F0.5960.98
90_V107_I0.5950.98
124_F140_H0.5950.98
155_E158_A0.5930.98
146_C185_A0.5920.98
189_V219_A0.5910.98
177_S182_S0.5910.98
81_A232_D0.5830.98
69_Q72_T0.5820.98
158_A162_R0.5800.98
174_S188_K0.5790.98
178_V238_A0.5780.98
124_F128_D0.5770.98
157_A160_M0.5760.98
72_T106_A0.5760.98
120_V216_T0.5750.97
184_P215_A0.5700.97
99_D104_T0.5680.97
101_G172_S0.5630.97
155_E187_D0.5630.97
181_I220_L0.5600.97
171_I219_A0.5600.97
95_C216_T0.5600.97
96_I170_F0.5590.97
65_E146_C0.5590.97
71_K188_K0.5550.97
192_K219_A0.5550.97
34_M174_S0.5500.97
191_V194_A0.5480.97
171_I196_A0.5470.97
96_I107_I0.5470.97
120_V139_I0.5460.97
79_K207_D0.5460.97
233_G239_S0.5450.97
174_S184_P0.5420.96
38_R176_W0.5400.96
97_Y169_A0.5380.96
78_Q233_G0.5380.96
171_I202_R0.5370.96
211_Y230_T0.5350.96
211_Y238_A0.5340.96
202_R224_E0.5320.96
152_C160_M0.5320.96
78_Q81_A0.5300.96
151_S188_K0.5270.96
183_T192_K0.5250.96
159_T193_R0.5240.96
236_E243_V0.5240.96
101_G174_S0.5230.96
175_S213_Q0.5230.96
98_L126_I0.5200.95
22_I26_T0.5190.95
123_D188_K0.5190.95
175_S215_A0.5160.95
180_G221_P0.5160.95
172_S183_T0.5150.95
27_D30_N0.5150.95
156_A159_T0.5120.95
208_A232_D0.5120.95
113_H135_N0.5110.95
71_K102_T0.5060.95
97_Y120_V0.5040.95
82_I230_T0.5030.95
212_G238_A0.5020.95
26_T32_S0.5000.94
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  
1stzA 3 0.9451 100 0.516 Contact Map
3rrlB 1 0.6706 100 0.538 Contact Map
2w48A 3 0.9216 100 0.572 Contact Map
2o0mA 1 0.6941 100 0.614 Contact Map
3l7oA 2 0.6039 100 0.617 Contact Map
1o8bA 2 0.5922 100 0.626 Contact Map
1m0sA 2 0.6157 100 0.63 Contact Map
1lk5A 4 0.6118 100 0.631 Contact Map
3ixqA 4 0.6275 100 0.631 Contact Map
4io1A 2 0.6157 100 0.631 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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