GREMLIN Database
YADH - Inner membrane transport permease YadH
UniProt: P0AFN6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12321
Length: 256 (237)
Sequences: 23594 (16286)
Seq/√Len: 1057.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
145_T213_G5.3551.00
14_A18_H4.1101.00
159_L243_I3.6171.00
149_T210_M3.4091.00
12_I108_G3.2511.00
13_W115_A3.1931.00
9_L111_G2.9631.00
10_K14_A2.7261.00
122_I143_A2.6951.00
16_E109_Y2.6271.00
101_P104_V2.5651.00
151_V237_I2.5341.00
152_L237_I2.5171.00
13_W111_G2.4461.00
196_P200_G2.4131.00
227_V231_G2.2601.00
231_G235_V2.2311.00
18_H21_M2.1421.00
228_T232_V2.0871.00
159_L247_L2.0811.00
232_V235_V2.0581.00
57_S60_Q2.0511.00
148_L234_V2.0441.00
199_Q203_H1.9491.00
126_A130_F1.9451.00
159_L240_F1.9301.00
196_P199_Q1.9111.00
209_Y229_T1.9021.00
9_L104_V1.8771.00
9_L13_W1.8401.00
242_L246_S1.8101.00
152_L240_F1.8091.00
21_M24_W1.7971.00
235_V239_A1.7741.00
202_S208_V1.7311.00
58_Y61_F1.7121.00
127_I131_F1.6911.00
197_F200_G1.6881.00
118_L147_V1.6601.00
141_F217_G1.6581.00
155_L241_Y1.6481.00
9_L107_A1.6351.00
155_L237_I1.6231.00
152_L233_L1.6071.00
191_L202_S1.5931.00
236_F240_F1.5791.00
164_A173_V1.5701.00
166_T169_D1.5691.00
203_H209_Y1.5681.00
212_S229_T1.5291.00
209_Y232_V1.5251.00
160_N164_A1.5051.00
86_A109_Y1.5031.00
148_L237_I1.5031.00
140_V144_L1.4971.00
145_T230_F1.4801.00
149_T153_F1.4681.00
141_F226_L1.4561.00
239_A243_I1.4531.00
15_K86_A1.4491.00
13_W108_G1.4421.00
9_L108_G1.4131.00
230_F234_V1.4101.00
141_F144_L1.3981.00
200_G204_L1.3641.00
148_L230_F1.3351.00
181_L205_N1.3211.00
10_K13_W1.3021.00
232_V236_F1.2911.00
18_H22_R1.2861.00
155_L240_F1.2731.00
125_T142_V1.2691.00
114_V147_V1.2681.00
106_I244_C1.2541.00
159_L244_C1.2441.00
228_T231_G1.2421.00
212_S216_Y1.2321.00
17_I21_M1.2271.00
187_V211_I1.2251.00
145_T217_G1.2241.00
17_I112_G1.2001.00
108_G112_G1.1971.00
200_G203_H1.1951.00
117_G150_A1.1851.00
162_V247_L1.1761.00
243_I247_L1.1701.00
81_S84_F1.1691.00
44_N47_G1.1631.00
165_K169_D1.1611.00
203_H208_V1.1591.00
114_V151_V1.1591.00
175_T179_T1.1531.00
239_A242_L1.1481.00
103_H107_A1.1471.00
146_L210_M1.1301.00
234_V238_V1.1291.00
40_I44_N1.1261.00
155_L244_C1.1211.00
34_T38_Y1.1111.00
152_L236_F1.1101.00
208_V212_S1.1061.00
194_L199_Q1.1001.00
163_F247_L1.0921.00
106_I245_W1.0891.00
88_F167_F1.0891.00
197_F201_L1.0821.00
216_Y220_G1.0811.00
144_L230_F1.0741.00
65_G68_M1.0581.00
43_G131_F1.0551.00
63_V66_L1.0541.00
13_W112_G1.0511.00
205_N208_V1.0511.00
146_L214_F1.0491.00
16_E112_G1.0441.00
209_Y213_G1.0431.00
13_W17_I1.0391.00
209_Y212_S1.0391.00
237_I241_Y1.0331.00
221_I224_V1.0301.00
60_Q63_V1.0281.00
58_Y62_I1.0271.00
80_A170_I1.0101.00
164_A169_D1.0101.00
140_V143_A1.0041.00
109_Y113_G0.9991.00
191_L199_Q0.9981.00
11_S14_A0.9861.00
176_F180_P0.9801.00
139_W143_A0.9701.00
150_A154_S0.9651.00
135_Q138_S0.9551.00
199_Q202_S0.9511.00
158_L244_C0.9461.00
126_A129_L0.9421.00
138_S141_F0.9381.00
86_A91_N0.9341.00
16_E19_R0.9281.00
144_L148_L0.9181.00
217_G226_L0.9101.00
156_A240_F0.9091.00
137_H140_V0.9081.00
43_G132_V0.9071.00
133_P136_V0.9021.00
36_T127_I0.9001.00
210_M233_L0.8961.00
160_N174_P0.8871.00
156_A177_V0.8851.00
195_P199_Q0.8851.00
226_L229_T0.8801.00
80_A84_F0.8791.00
65_G69_M0.8691.00
246_S249_Q0.8581.00
157_G161_G0.8571.00
29_V33_I0.8571.00
110_V155_L0.8551.00
23_I26_Q0.8511.00
103_H245_W0.8501.00
68_M207_I0.8471.00
191_L203_H0.8461.00
100_V105_I0.8441.00
227_V230_F0.8391.00
110_V241_Y0.8391.00
222_N225_P0.8381.00
91_N94_E0.8351.00
191_L208_V0.8341.00
64_P69_M0.8271.00
169_D172_L0.8231.00
80_A83_F0.8211.00
229_T233_L0.8191.00
171_S175_T0.8191.00
66_L69_M0.8161.00
231_G234_V0.8151.00
39_F124_V0.8131.00
211_I215_R0.8111.00
94_E98_A0.8051.00
84_F170_I0.8021.00
122_I126_A0.8001.00
9_L103_H0.7981.00
123_L126_A0.7961.00
178_L182_T0.7901.00
210_M213_G0.7871.00
234_V237_I0.7841.00
132_V136_V0.7831.00
121_G146_L0.7831.00
16_E113_G0.7801.00
118_L122_I0.7771.00
213_G229_T0.7751.00
82_S85_G0.7751.00
63_V77_A0.7741.00
143_A147_V0.7721.00
63_V128_S0.7661.00
65_G74_N0.7631.00
57_S61_F0.7611.00
127_I130_F0.7551.00
17_I115_A0.7511.00
145_T210_M0.7511.00
243_I246_S0.7481.00
113_G117_G0.7471.00
40_I127_I0.7391.00
104_V108_G0.7391.00
91_N95_L0.7361.00
209_Y236_F0.7281.00
142_V214_F0.7281.00
82_S86_A0.7261.00
148_L233_L0.7241.00
66_L70_S0.7201.00
84_F88_F0.7161.00
238_V242_L0.7141.00
115_A118_L0.7131.00
81_S85_G0.7111.00
226_L230_F0.7081.00
59_M63_V0.7031.00
126_A139_W0.7031.00
220_G224_V0.7011.00
60_Q65_G0.6971.00
85_G88_F0.6961.00
79_V113_G0.6921.00
56_F60_Q0.6911.00
121_G147_V0.6911.00
115_A119_F0.6901.00
39_F128_S0.6831.00
111_G115_A0.6821.00
36_T40_I0.6801.00
20_F31_P0.6751.00
162_V244_C0.6721.00
122_I125_T0.6691.00
73_T178_L0.6661.00
191_L194_L0.6631.00
242_L245_W0.6621.00
107_A111_G0.6601.00
151_V155_L0.6591.00
44_N131_F0.6581.00
194_L202_S0.6561.00
87_K165_K0.6561.00
236_F239_A0.6511.00
30_P34_T0.6511.00
80_A85_G0.6501.00
168_D172_L0.6491.00
15_K19_R0.6481.00
81_S86_A0.6461.00
66_L71_V0.6411.00
61_F65_G0.6371.00
64_P215_R0.6361.00
203_H206_P0.6351.00
15_K94_E0.6341.00
125_T146_L0.6311.00
189_Y193_L0.6311.00
245_W249_Q0.6291.00
229_T232_V0.6241.00
14_A17_I0.6211.00
190_S194_L0.6201.00
240_F244_C0.6151.00
63_V74_N0.6131.00
92_I96_L0.6101.00
175_T180_P0.6101.00
215_R219_L0.6101.00
70_S74_N0.6091.00
186_G190_S0.6081.00
64_P67_I0.6081.00
201_L205_N0.6071.00
34_T180_P0.6041.00
228_T235_V0.6041.00
94_E157_G0.6041.00
41_I45_L0.6001.00
12_I104_V0.5971.00
106_I158_L0.5921.00
64_P68_M0.5901.00
56_F59_M0.5871.00
137_H141_F0.5871.00
39_F43_G0.5871.00
114_V154_S0.5851.00
110_V154_S0.5841.00
95_L98_A0.5821.00
40_I131_F0.5801.00
182_T185_G0.5801.00
95_L100_V0.5781.00
68_M71_V0.5771.00
96_L102_T0.5751.00
241_Y245_W0.5751.00
68_M149_T0.5721.00
20_F116_R0.5691.00
94_E97_V0.5671.00
158_L161_G0.5651.00
213_G230_F0.5641.00
208_V215_R0.5591.00
195_P198_W0.5571.00
68_M210_M0.5551.00
126_A143_A0.5551.00
172_L175_T0.5541.00
65_G215_R0.5541.00
67_I70_S0.5541.00
90_R93_E0.5531.00
192_T199_Q0.5521.00
94_E100_V0.5511.00
40_I43_G0.5511.00
160_N163_F0.5501.00
213_G226_L0.5501.00
11_S18_H0.5501.00
160_N173_V0.5491.00
181_L207_I0.5481.00
80_A174_P0.5481.00
238_V241_Y0.5441.00
41_I183_Y0.5421.00
41_I44_N0.5411.00
94_E99_P0.5411.00
87_K92_I0.5401.00
216_Y222_N0.5391.00
156_A159_L0.5391.00
184_L198_W0.5381.00
143_A146_L0.5351.00
38_Y58_Y0.5341.00
31_P116_R0.5331.00
158_L162_V0.5321.00
203_H212_S0.5321.00
119_F122_I0.5311.00
194_L198_W0.5291.00
145_T226_L0.5271.00
198_W201_L0.5271.00
141_F213_G0.5271.00
216_Y226_L0.5251.00
47_G131_F0.5251.00
216_Y229_T0.5241.00
217_G220_G0.5231.00
206_P210_M0.5231.00
15_K34_T0.5231.00
125_T143_A0.5211.00
135_Q222_N0.5211.00
204_L209_Y0.5201.00
83_F86_A0.5191.00
175_T178_L0.5191.00
59_M68_M0.5181.00
159_L163_F0.5181.00
12_I100_V0.5171.00
161_G181_L0.5171.00
159_L162_V0.5161.00
183_Y186_G0.5161.00
59_M62_I0.5161.00
146_L150_A0.5141.00
147_V151_V0.5141.00
179_T182_T0.5131.00
80_A86_A0.5131.00
175_T181_L0.5111.00
213_G216_Y0.5111.00
68_M76_Y0.5091.00
163_F243_I0.5091.00
21_M28_L0.5071.00
59_M64_P0.5071.00
20_F112_G0.5041.00
70_S73_T0.5041.00
128_S142_V0.5041.00
186_G191_L0.5041.00
164_A170_I0.5031.00
65_G187_V0.5021.00
142_V218_F0.5021.00
63_V69_M0.5001.00
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  
2jwaA 2 0.168 12.1 0.928 Contact Map
2l2tA 2 0.1641 11.8 0.929 Contact Map
2m20A 2 0.1367 10.1 0.931 Contact Map
2kv5A 1 0.1289 9.5 0.932 Contact Map
2a65A 2 0.3477 7.7 0.935 Contact Map
2kluA 1 0.1406 6.4 0.937 Contact Map
2ks1B 1 0.168 6.2 0.937 Contact Map
2rddB 1 0.125 5.9 0.938 Contact Map
4b19A 1 0.1172 3.9 0.943 Contact Map
2l6wA 2 0.1484 3.7 0.944 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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