GREMLIN Database
YAGI - Uncharacterized HTH-type transcriptional regulator YagI
UniProt: P77300 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13349
Length: 252 (240)
Sequences: 12665 (9361)
Seq/√Len: 604.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
7_V10_A3.2051.00
95_R236_Q3.0901.00
103_G139_I2.8171.00
8_E50_H2.8011.00
88_W240_A2.7601.00
181_Q185_Q2.5831.00
15_D67_K2.5561.00
86_K114_E2.4061.00
141_K178_A2.3781.00
153_N176_M2.3611.00
11_L52_Y2.3291.00
141_K193_E2.2541.00
109_E131_R2.2011.00
98_Q224_R2.1061.00
88_W243_A2.1001.00
90_T116_I2.0151.00
17_F53_I2.0051.00
12_Q50_H1.9781.00
147_L151_E1.9751.00
146_W206_W1.9231.00
190_D200_C1.9231.00
105_L134_V1.8961.00
203_V237_L1.8451.00
191_S199_R1.8201.00
56_N59_N1.8191.00
203_V241_G1.8091.00
88_W247_A1.8071.00
199_R222_T1.7731.00
91_E243_A1.7571.00
15_D50_H1.7341.00
54_D63_R1.7041.00
234_R238_Q1.6841.00
171_S174_A1.6821.00
91_E95_R1.6801.00
16_L24_L1.6611.00
85_A244_L1.6511.00
172_R176_M1.6501.00
13_I29_I1.6421.00
93_S100_T1.6401.00
16_L33_M1.6321.00
192_E222_T1.6251.00
16_L29_I1.6221.00
220_T225_V1.5931.00
203_V238_Q1.5911.00
44_L53_I1.5841.00
16_L32_L1.5811.00
218_L233_F1.5681.00
44_L62_Y1.5641.00
192_E197_G1.5391.00
24_L32_L1.5331.00
187_Y234_R1.5111.00
25_K28_D1.5091.00
178_A181_Q1.5001.00
88_W91_E1.4961.00
23_E63_R1.4961.00
148_G151_E1.4811.00
152_L176_M1.4721.00
23_E61_K1.4521.00
96_T236_Q1.4511.00
117_E123_I1.4461.00
236_Q239_Q1.4451.00
35_L40_L1.4301.00
182_T188_A1.4221.00
153_N172_R1.4161.00
29_I40_L1.4101.00
165_T168_T1.4091.00
110_G143_L1.4021.00
206_W245_S1.4001.00
229_E232_N1.3831.00
67_K70_E1.3761.00
93_S116_I1.3761.00
110_G134_V1.3501.00
82_R114_E1.3461.00
48_Q53_I1.3421.00
56_N63_R1.3411.00
92_L236_Q1.3391.00
17_F24_L1.3381.00
17_F23_E1.3141.00
85_A102_L1.3091.00
15_D52_Y1.3081.00
241_G245_S1.3061.00
48_Q55_Q1.2951.00
11_L50_H1.2731.00
89_L102_L1.2731.00
36_S39_T1.2691.00
92_L240_A1.2461.00
108_R158_G1.2461.00
41_H45_K1.2391.00
20_Q24_L1.2321.00
149_E176_M1.2301.00
157_E172_R1.2271.00
20_Q32_L1.2241.00
239_Q243_A1.2231.00
149_E153_N1.2141.00
30_S40_L1.2081.00
86_K90_T1.1961.00
29_I44_L1.1941.00
169_L178_A1.1761.00
206_W212_V1.1651.00
146_W204_P1.1611.00
179_L182_T1.1531.00
145_A182_T1.1531.00
26_I41_H1.1331.00
96_T233_F1.1261.00
136_A164_F1.1231.00
238_Q242_L1.1201.00
136_A168_T1.1171.00
103_G110_G1.1141.00
146_W212_V1.1051.00
149_E180_A1.1041.00
104_I214_A1.0871.00
203_V234_R1.0831.00
167_A192_E1.0791.00
27_T31_K1.0781.00
8_E49_L1.0751.00
105_L108_R1.0681.00
149_E152_L1.0631.00
25_K61_K1.0561.00
90_T94_R1.0531.00
8_E46_T1.0501.00
18_N21_A1.0461.00
102_L214_A1.0441.00
68_L75_V1.0441.00
152_L183_R1.0441.00
105_L147_L1.0401.00
106_D131_R1.0371.00
135_H168_T1.0351.00
139_I215_A1.0291.00
243_A247_A1.0281.00
102_L205_V1.0271.00
137_T140_G1.0261.00
235_E239_Q1.0221.00
207_N211_R1.0181.00
96_T218_L1.0181.00
153_N157_E1.0111.00
52_Y71_R1.0041.00
89_L100_T1.0001.00
26_I30_S0.9991.00
5_Q9_R0.9941.00
28_D31_K0.9911.00
156_L172_R0.9851.00
216_L244_L0.9831.00
91_E240_A0.9771.00
164_F168_T0.9771.00
151_E154_A0.9711.00
166_P196_Q0.9641.00
95_R239_Q0.9561.00
242_L246_R0.9511.00
86_K116_I0.9451.00
163_T170_A0.9401.00
103_G112_Y0.9381.00
27_T37_K0.9321.00
81_I214_A0.9271.00
23_E56_N0.9211.00
142_V146_W0.9151.00
111_V131_R0.9081.00
226_D229_E0.9081.00
204_P212_V0.9051.00
182_T185_Q0.9041.00
138_A200_C0.9041.00
14_L68_L0.8901.00
177_S180_A0.8891.00
84_K247_A0.8861.00
89_L114_E0.8861.00
100_T218_L0.8851.00
177_S181_Q0.8841.00
19_E32_L0.8811.00
151_E155_L0.8741.00
154_A158_G0.8721.00
144_I175_L0.8721.00
174_A178_A0.8671.00
142_V212_V0.8661.00
38_S41_H0.8661.00
9_R39_T0.8651.00
231_A235_E0.8641.00
191_S222_T0.8631.00
28_D32_L0.8571.00
201_V234_R0.8551.00
180_A184_E0.8551.00
176_M180_A0.8521.00
207_N213_I0.8401.00
13_I33_M0.8391.00
192_E196_Q0.8341.00
142_V182_T0.8321.00
82_R86_K0.8311.00
13_I43_L0.8221.00
101_H219_S0.8201.00
202_A217_S0.8151.00
185_Q234_R0.8151.00
164_F194_N0.8091.00
139_I217_S0.8051.00
174_A177_S0.8021.00
152_L179_L0.8011.00
26_I44_L0.7941.00
237_L241_G0.7921.00
106_D111_V0.7921.00
89_L216_L0.7901.00
48_Q62_Y0.7861.00
232_N235_E0.7831.00
230_L234_R0.7731.00
98_Q120_L0.7711.00
240_A243_A0.7701.00
33_M40_L0.7701.00
181_Q184_E0.7681.00
143_L215_A0.7621.00
14_L52_Y0.7581.00
221_L224_R0.7571.00
200_C219_S0.7561.00
178_A182_T0.7541.00
138_A202_A0.7531.00
178_A185_Q0.7511.00
230_L235_E0.7481.00
152_L155_L0.7451.00
235_E238_Q0.7441.00
17_F22_T0.7411.00
101_H115_K0.7381.00
64_L68_L0.7341.00
136_A194_N0.7331.00
88_W244_L0.7331.00
169_L174_A0.7301.00
6_S10_A0.7281.00
145_A179_L0.7271.00
189_L230_L0.7261.00
169_L175_L0.7231.00
89_L116_I0.7221.00
55_Q59_N0.7201.00
17_F20_Q0.7201.00
200_C217_S0.7191.00
105_L151_E0.7181.00
81_I85_A0.7161.00
35_L39_T0.7161.00
55_Q60_G0.7161.00
68_L71_R0.7121.00
54_D65_G0.7081.00
45_K48_Q0.7051.00
101_H126_S0.7041.00
45_K49_L0.7021.00
80_D83_Q0.6951.00
206_W213_I0.6951.00
7_V43_L0.6921.00
26_I40_L0.6921.00
13_I40_L0.6901.00
26_I37_K0.6891.00
141_K182_T0.6821.00
24_L29_I0.6791.00
120_L224_R0.6791.00
155_L159_Y0.6791.00
68_L72_G0.6731.00
239_Q242_L0.6721.00
26_I62_Y0.6701.00
240_A244_L0.6701.00
201_V230_L0.6651.00
191_S227_D0.6621.00
105_L143_L0.6621.00
54_D66_M0.6591.00
242_L245_S0.6591.00
30_S33_M0.6581.00
108_R155_L0.6571.00
165_T169_L0.6541.00
147_L152_L0.6481.00
104_I113_I0.6471.00
91_E94_R0.6441.00
180_A183_R0.6371.00
152_L180_A0.6351.00
152_L156_L0.6341.00
216_L241_G0.6291.00
93_S118_G0.6281.00
238_Q241_G0.6281.00
144_I179_L0.6261.00
144_I152_L0.6251.00
143_L147_L0.6251.00
229_E233_F0.6241.00
149_E183_R0.6241.00
137_T200_C0.6221.00
72_G75_V0.6191.00
7_V11_L0.6171.00
101_H200_C0.6161.00
92_L96_T0.6151.00
203_V245_S0.6141.00
84_K87_G0.6141.00
18_N71_R0.6141.00
15_D70_E0.6131.00
92_L218_L0.6081.00
133_P136_A0.6011.00
186_G206_W0.6001.00
6_S43_L0.5991.00
90_T114_E0.5981.00
21_A32_L0.5971.00
191_S230_L0.5961.00
192_E199_R0.5961.00
170_A174_A0.5951.00
216_L240_A0.5951.00
115_K128_I0.5951.00
94_R119_K0.5941.00
9_R35_L0.5941.00
112_Y126_S0.5931.00
55_Q62_Y0.5921.00
28_D61_K0.5881.00
135_H161_Y0.5881.00
243_A246_R0.5861.00
232_N236_Q0.5851.00
12_Q15_D0.5841.00
167_A196_Q0.5821.00
117_E127_R0.5821.00
17_F21_A0.5771.00
92_L100_T0.5741.00
161_Y165_T0.5671.00
142_V202_A0.5671.00
115_K126_S0.5671.00
98_Q220_T0.5661.00
7_V46_T0.5661.00
23_E59_N0.5651.00
205_V214_A0.5641.00
216_L237_L0.5631.00
142_V204_P0.5631.00
18_N64_L0.5631.00
52_Y67_K0.5621.00
127_R130_R0.5611.00
110_G139_I0.5591.00
97_G119_K0.5591.00
56_N61_K0.5581.00
98_Q218_L0.5571.00
45_K55_Q0.5561.00
30_S37_K0.5561.00
10_A43_L0.5551.00
112_Y139_I0.5540.99
122_A223_S0.5530.99
73_H76_V0.5520.99
228_A232_N0.5510.99
236_Q240_A0.5510.99
100_T116_I0.5510.99
143_L214_A0.5490.99
141_K190_D0.5480.99
15_D71_R0.5480.99
173_E176_M0.5440.99
87_G247_A0.5430.99
203_V216_L0.5410.99
51_G67_K0.5380.99
12_Q16_L0.5370.99
110_G132_L0.5370.99
41_H55_Q0.5350.99
25_K37_K0.5340.99
69_V76_V0.5310.99
103_G137_T0.5290.99
9_R43_L0.5290.99
233_F236_Q0.5290.99
126_S130_R0.5250.99
187_Y238_Q0.5240.99
101_H217_S0.5220.99
175_L179_L0.5180.99
16_L20_Q0.5180.99
110_G137_T0.5170.99
112_Y132_L0.5140.99
85_A89_L0.5120.99
114_E128_I0.5110.99
206_W214_A0.5090.99
99_T115_K0.5080.99
142_V188_A0.5060.99
173_E177_S0.5020.99
139_I200_C0.5000.99
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  
3mq0A 2 0.9841 100 0.077 Contact Map
2ia2A 4 0.9841 100 0.077 Contact Map
2g7uA 6 0.9921 100 0.079 Contact Map
3r4kA 2 0.9881 100 0.08 Contact Map
1mkmA 4 0.9802 100 0.088 Contact Map
2xrnA 3 0.9563 100 0.102 Contact Map
2o0yA 4 0.9643 100 0.129 Contact Map
1ysqA 1 0.6905 100 0.397 Contact Map
1tf1A 1 0.7302 100 0.398 Contact Map
1yspA 1 0.6508 100 0.403 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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