GREMLIN Database
YBBH - Uncharacterized HTH-type transcriptional regulator YbbH
UniProt: Q45581 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 283 (255)
Sequences: 8882 (6281)
Seq/√Len: 393.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
131_H178_D4.6761.00
209_S222_A3.7951.00
198_A221_L2.9491.00
13_K25_D2.7511.00
183_A197_F2.7101.00
189_E217_S2.7051.00
126_L206_T2.7011.00
135_F145_A2.6701.00
131_H176_D2.4641.00
40_N59_S2.4031.00
123_A208_I2.3681.00
62_L71_R2.3411.00
12_M15_K2.3241.00
106_Q110_D2.3111.00
201_K223_D2.2851.00
197_F207_T2.2741.00
123_A224_V2.2471.00
148_A152_W2.2341.00
132_T158_Q2.1771.00
131_H179_D2.1501.00
124_V257_G2.0421.00
240_A243_S2.0081.00
175_A205_I2.0081.00
199_M202_E2.0061.00
30_H33_K2.0041.00
181_V200_A1.9931.00
176_D179_D1.9881.00
125_S261_E1.9201.00
105_I109_Q1.9051.00
25_D29_A1.8941.00
130_A180_I1.8791.00
128_L261_E1.8291.00
197_F218_V1.8271.00
180_I208_I1.8201.00
36_E78_K1.8161.00
26_Y30_H1.8131.00
11_S15_K1.8121.00
116_D119_E1.7921.00
206_T223_D1.7801.00
183_A193_I1.7691.00
132_T160_T1.7661.00
135_F148_A1.7471.00
126_L224_V1.7341.00
184_I251_I1.7071.00
145_A184_I1.6741.00
184_I210_L1.6661.00
152_W258_M1.6591.00
200_A205_I1.6331.00
135_F182_F1.6321.00
185_S218_V1.6251.00
37_S41_E1.6101.00
24_A56_L1.5711.00
57_C68_L1.5591.00
70_M73_A1.5431.00
42_I55_R1.5201.00
206_T224_V1.5201.00
37_S45_L1.5181.00
119_E122_R1.5181.00
207_T222_A1.5171.00
20_E59_S1.5061.00
226_L250_I1.5001.00
11_S14_H1.4971.00
148_A251_I1.4801.00
108_I249_F1.4631.00
262_Q265_T1.4571.00
209_S218_V1.4451.00
101_A108_I1.4411.00
122_R224_V1.4271.00
209_S225_P1.4221.00
181_V205_I1.3971.00
136_I181_V1.3951.00
42_I58_K1.3951.00
219_S225_P1.3891.00
23_L56_L1.3841.00
144_V251_I1.3711.00
67_D70_M1.3631.00
257_G261_E1.3581.00
149_Q160_T1.3581.00
183_A207_T1.3501.00
125_S129_K1.3401.00
13_K21_R1.3391.00
126_L180_I1.3321.00
42_I59_S1.3021.00
65_F69_K1.2711.00
128_L258_M1.2621.00
201_K221_L1.2541.00
57_C75_D1.2481.00
21_R25_D1.2431.00
111_T229_A1.2371.00
63_K67_D1.2291.00
128_L262_Q1.2211.00
19_S52_A1.2151.00
191_Q195_E1.1931.00
182_F210_L1.1901.00
69_K73_A1.1791.00
132_T179_D1.1771.00
19_S22_K1.1731.00
53_V79_P1.1661.00
183_A200_A1.1641.00
195_E198_A1.1561.00
146_K163_T1.1511.00
92_P95_S1.1451.00
228_T247_Q1.1441.00
151_K252_D1.1381.00
62_L65_F1.1371.00
38_T41_E1.1281.00
122_R126_L1.1271.00
129_K206_T1.1251.00
68_L72_V1.1121.00
39_V54_I1.0961.00
142_G146_K1.0901.00
127_L180_I1.0821.00
123_A126_L1.0811.00
266_T269_Y1.0801.00
33_K45_L1.0761.00
149_Q159_A1.0741.00
12_M16_L1.0741.00
91_E99_K1.0651.00
13_K24_A1.0641.00
107_A246_A1.0601.00
75_D79_P1.0571.00
152_W159_A1.0561.00
134_H175_A1.0481.00
134_H179_D1.0421.00
179_D205_I1.0411.00
140_A240_A1.0381.00
33_K37_S1.0351.00
26_Y46_A1.0331.00
135_F152_W1.0301.00
175_A181_V1.0151.00
175_A179_D1.0141.00
148_A182_F1.0051.00
111_T228_T0.9931.00
257_G260_A0.9921.00
84_Y87_I0.9841.00
39_V43_S0.9731.00
61_G64_G0.9721.00
16_L42_I0.9651.00
134_H160_T0.9621.00
158_Q162_F0.9621.00
152_W255_F0.9611.00
22_K54_I0.9601.00
64_G67_D0.9531.00
127_L258_M0.9471.00
199_M203_K0.9401.00
143_I146_K0.9381.00
71_R74_G0.9381.00
147_D151_K0.9381.00
133_V180_I0.9381.00
119_E224_V0.9361.00
23_L46_A0.9351.00
31_P35_I0.9301.00
76_L79_P0.9281.00
62_L68_L0.9281.00
110_D113_D0.9161.00
26_Y37_S0.9161.00
109_Q113_D0.9141.00
127_L182_F0.9071.00
27_I68_L0.8931.00
149_Q153_L0.8911.00
125_S128_L0.8811.00
198_A202_E0.8791.00
126_L129_K0.8731.00
98_E112_S0.8731.00
127_L133_V0.8731.00
117_Y121_E0.8671.00
219_S227_Y0.8631.00
194_V217_S0.8611.00
124_V261_E0.8591.00
16_L58_K0.8581.00
34_A72_V0.8571.00
98_E102_G0.8511.00
200_A207_T0.8501.00
135_F149_Q0.8501.00
106_Q109_Q0.8441.00
17_P20_E0.8431.00
111_T246_A0.8421.00
105_I108_I0.8421.00
121_E261_E0.8371.00
51_A54_I0.8351.00
185_S188_G0.8351.00
147_D244_R0.8331.00
162_F170_S0.8321.00
94_P98_E0.8301.00
97_S117_Y0.8271.00
67_D71_R0.8251.00
149_Q161_A0.8231.00
211_T219_S0.8191.00
42_I53_V0.8161.00
26_Y33_K0.8141.00
94_P117_Y0.8031.00
144_V184_I0.8011.00
129_K178_D0.8001.00
134_H181_V0.7991.00
40_N50_D0.7961.00
154_R171_L0.7931.00
130_A179_D0.7911.00
123_A226_L0.7871.00
54_I64_G0.7861.00
42_I65_F0.7851.00
35_I38_T0.7811.00
127_L130_A0.7811.00
122_R125_S0.7791.00
83_G86_D0.7791.00
142_G163_T0.7731.00
194_V198_A0.7701.00
124_V128_L0.7681.00
26_Y45_L0.7661.00
19_S58_K0.7631.00
155_I255_F0.7611.00
142_G161_A0.7571.00
214_S227_Y0.7551.00
123_A254_L0.7551.00
65_F68_L0.7541.00
23_L52_A0.7531.00
180_I206_T0.7491.00
133_V182_F0.7481.00
64_G68_L0.7471.00
166_H192_E0.7431.00
93_L102_G0.7431.00
52_A55_R0.7411.00
131_H158_Q0.7371.00
57_C72_V0.7291.00
135_F159_A0.7281.00
22_K47_N0.7271.00
132_T176_D0.7261.00
210_L251_I0.7221.00
17_P59_S0.7181.00
138_L190_T0.7121.00
241_T244_R0.7061.00
178_D206_T0.7061.00
70_M74_G0.7051.00
55_R59_S0.7051.00
182_F208_I0.7031.00
152_W254_L0.7021.00
35_I73_A0.7011.00
119_E123_A0.6991.00
151_K255_F0.6981.00
255_F259_A0.6971.00
101_A249_F0.6941.00
11_S16_L0.6931.00
246_A249_F0.6850.99
95_S98_E0.6850.99
148_A151_K0.6840.99
74_G77_A0.6810.99
146_K149_Q0.6780.99
238_S241_T0.6740.99
93_L121_E0.6740.99
118_K121_E0.6730.99
56_L60_L0.6720.99
189_E212_Q0.6710.99
224_V227_Y0.6710.99
173_A199_M0.6700.99
162_F171_L0.6700.99
137_G141_S0.6690.99
57_C64_G0.6680.99
27_I56_L0.6660.99
41_E44_A0.6660.99
14_H21_R0.6660.99
111_T114_L0.6610.99
183_A196_L0.6590.99
82_Q86_D0.6570.99
116_D120_L0.6550.99
157_K262_Q0.6520.99
96_I99_K0.6480.99
66_Q69_K0.6440.99
115_M120_L0.6440.99
144_V248_L0.6440.99
153_L170_S0.6430.99
38_T43_S0.6420.99
16_L59_S0.6410.99
114_L229_A0.6410.99
50_D54_I0.6400.99
260_A267_T0.6390.99
104_A249_F0.6380.99
194_V218_V0.6350.99
197_F221_L0.6350.99
23_L48_S0.6340.99
222_A225_P0.6330.99
120_L253_V0.6300.99
244_R247_Q0.6260.99
31_P34_A0.6260.99
244_R248_L0.6230.99
217_S221_L0.6190.99
62_L67_D0.6180.99
34_A37_S0.6180.99
101_A104_A0.6160.99
55_R58_K0.6140.99
121_E257_G0.6120.99
211_T216_T0.6110.99
24_A28_L0.6080.99
168_V195_E0.6080.99
22_K53_V0.6080.99
23_L53_V0.6050.99
249_F252_D0.6030.99
110_D114_L0.6020.99
146_K161_A0.5990.99
22_K50_D0.5970.99
61_G74_G0.5960.99
144_V247_Q0.5950.99
111_T250_I0.5950.99
136_I183_A0.5940.99
104_A245_L0.5930.98
81_F84_Y0.5900.98
208_I224_V0.5870.98
20_E68_L0.5860.98
17_P42_I0.5850.98
102_G106_Q0.5810.98
216_T219_S0.5810.98
82_Q85_R0.5800.98
83_G87_I0.5740.98
177_K204_G0.5700.98
136_I175_A0.5680.98
237_R240_A0.5670.98
183_A209_S0.5640.98
195_E199_M0.5630.98
141_S247_Q0.5630.98
228_T246_A0.5620.98
228_T250_I0.5590.98
27_I34_A0.5580.98
77_A80_T0.5580.98
85_R88_V0.5570.98
41_E45_L0.5560.98
37_S42_I0.5560.98
148_A255_F0.5550.98
87_I99_K0.5540.98
120_L257_G0.5540.98
197_F222_A0.5500.98
45_L55_R0.5480.97
209_S216_T0.5480.97
157_K258_M0.5480.97
253_V256_L0.5480.97
256_L260_A0.5460.97
100_T249_F0.5460.97
260_A264_E0.5460.97
123_A182_F0.5450.97
232_N236_I0.5440.97
60_L78_K0.5430.97
100_T104_A0.5430.97
83_G88_V0.5410.97
210_L250_I0.5400.97
144_V228_T0.5390.97
135_F161_A0.5380.97
263_Y266_T0.5380.97
150_Q170_S0.5370.97
194_V221_L0.5350.97
219_S222_A0.5350.97
57_C62_L0.5340.97
135_F184_I0.5320.97
110_D229_A0.5320.97
201_K207_T0.5320.97
186_F228_T0.5310.97
137_G142_G0.5300.97
40_N44_A0.5300.97
259_A266_T0.5280.97
137_G192_E0.5260.97
20_E61_G0.5260.97
185_S216_T0.5250.97
102_G105_I0.5220.97
256_L259_A0.5220.97
81_F85_R0.5210.97
101_A253_V0.5200.97
187_S190_T0.5150.96
185_S209_S0.5140.96
26_Y34_A0.5140.96
124_V258_M0.5130.96
46_A53_V0.5120.96
237_R243_S0.5120.96
138_L192_E0.5120.96
254_L258_M0.5110.96
264_E267_T0.5110.96
66_Q70_M0.5090.96
105_I112_S0.5080.96
211_T225_P0.5050.96
102_G109_Q0.5040.96
96_I100_T0.5040.96
126_L130_A0.5030.96
166_H169_A0.5020.96
131_H177_K0.5010.96
71_R75_D0.5010.96
226_L254_L0.5010.96
262_Q266_T0.5000.96
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  
4ivnA 2 0.9329 100 0.184 Contact Map
3shoA 4 0.6572 100 0.508 Contact Map
2xhzA 4 0.6078 100 0.54 Contact Map
3fxaA 4 0.6643 100 0.548 Contact Map
3etnA 4 0.6537 100 0.553 Contact Map
2pocA 4 0.6678 100 0.558 Contact Map
3tbfA 2 0.6855 100 0.564 Contact Map
1moqA 2 0.6784 100 0.565 Contact Map
1m3sA 4 0.6325 99.9 0.568 Contact Map
1vimA 4 0.6537 99.9 0.571 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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