GREMLIN Database
YHDW - Putative amino-acid ABC transporter-binding protein YhdW
UniProt: P45766 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12834
Length: 341 (257)
Sequences: 6469 (4964)
Seq/√Len: 309.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_F80_K4.5301.00
40_G98_V4.5281.00
150_C192_C3.6891.00
38_Q80_K2.9611.00
239_F243_R2.8951.00
71_A248_A2.8901.00
187_L215_W2.4801.00
36_F78_K2.4641.00
38_Q82_T2.4311.00
158_E176_T2.4091.00
177_F186_A2.3771.00
107_W228_G2.3641.00
107_W112_D2.3121.00
52_D58_S2.2931.00
179_R182_E2.2901.00
52_D56_K2.2661.00
139_K143_E2.2641.00
109_S112_D2.2351.00
254_E257_I2.1861.00
256_G260_Q2.1791.00
140_S143_E2.1441.00
231_V242_V2.1281.00
148_T175_V2.0881.00
231_V239_F2.0811.00
29_D33_K2.0431.00
117_M230_V1.9761.00
92_A97_E1.9671.00
67_G70_A1.9271.00
148_T173_T1.9071.00
39_C65_C1.9061.00
94_Q114_G1.9011.00
84_L92_A1.9001.00
92_A98_V1.8691.00
118_A239_F1.8671.00
211_N214_E1.8361.00
135_K216_I1.8031.00
121_G247_F1.7411.00
67_G71_A1.7391.00
158_E162_A1.7281.00
247_F251_N1.7141.00
232_R235_D1.6941.00
187_L192_C1.6641.00
197_S202_L1.6161.00
186_A191_R1.6021.00
133_H136_A1.5881.00
58_S63_D1.5861.00
101_L105_T1.5741.00
121_G243_R1.5551.00
69_A79_V1.5531.00
133_H190_G1.5491.00
71_A245_T1.5341.00
134_D216_I1.5241.00
67_G249_M1.5101.00
67_G254_E1.4921.00
131_L202_L1.4601.00
90_F117_M1.4361.00
241_I244_W1.4361.00
177_F183_S1.4291.00
187_L195_L1.4181.00
34_K38_Q1.4181.00
26_A29_D1.4121.00
129_G199_Q1.4081.00
31_V35_G1.3621.00
120_T243_R1.3361.00
118_A236_D1.3361.00
165_F172_Y1.3341.00
153_A178_D1.3291.00
66_R81_Y1.3221.00
183_S195_L1.3131.00
102_S229_P1.3061.00
145_D171_K1.3021.00
64_I249_M1.2951.00
15_L18_V1.2941.00
89_R101_L1.2841.00
71_A252_A1.2801.00
118_A234_G1.2691.00
63_D262_V1.2531.00
56_K66_R1.2501.00
130_F194_T1.2481.00
62_V66_R1.2431.00
150_C177_F1.2401.00
100_L242_V1.2341.00
29_D32_Q1.2331.00
60_I258_N1.2321.00
132_T194_T1.2271.00
119_F230_V1.2201.00
125_Y226_P1.2161.00
28_L31_V1.2121.00
147_A193_D1.2111.00
121_G246_L1.2101.00
240_S244_W1.2051.00
199_Q203_Y1.1961.00
185_K189_S1.1901.00
120_T242_V1.1821.00
132_T218_L1.1821.00
18_V21_Q1.1781.00
151_I158_E1.1771.00
94_Q117_M1.1771.00
132_T136_A1.1721.00
108_T111_R1.1711.00
241_I245_T1.1701.00
144_L194_T1.1701.00
30_A34_K1.1641.00
149_V194_T1.1631.00
178_D182_E1.1481.00
186_A192_C1.1431.00
84_L98_V1.1411.00
120_T231_V1.1321.00
236_D240_S1.1311.00
260_Q264_E1.1291.00
37_V69_A1.1201.00
188_E214_E1.1191.00
63_D261_N1.1191.00
85_T88_E1.1111.00
199_Q221_V1.1051.00
60_I263_D1.1031.00
159_L163_D1.0901.00
243_R246_L1.0851.00
68_V242_V1.0801.00
111_R119_F1.0791.00
65_C79_V1.0751.00
106_T225_E1.0731.00
61_D123_T1.0691.00
182_E186_A1.0661.00
25_G30_A1.0651.00
105_T230_V1.0611.00
134_D214_E1.0601.00
31_V34_K1.0571.00
63_D66_R1.0551.00
148_T193_D1.0541.00
185_K188_E1.0521.00
203_Y217_V1.0481.00
109_S113_A1.0451.00
129_G217_V1.0351.00
110_S113_A1.0331.00
88_E92_A1.0301.00
93_L98_V1.0291.00
257_I261_N1.0021.00
118_A233_R1.0021.00
64_I246_L0.9791.00
156_D225_E0.9771.00
43_D83_P0.9761.00
72_V241_I0.9731.00
27_T30_A0.9701.00
249_M254_E0.9651.00
65_C229_P0.9641.00
48_F124_Y0.9631.00
131_L206_R0.9611.00
245_T249_M0.9611.00
107_W122_V0.9581.00
250_L255_M0.9581.00
26_A237_E0.9571.00
35_G77_T0.9501.00
39_C100_L0.9501.00
153_A176_T0.9491.00
237_E241_I0.9381.00
72_V77_T0.9361.00
42_S49_S0.9321.00
248_A252_A0.9151.00
41_I57_F0.9101.00
31_V77_T0.9091.00
150_C183_S0.8971.00
130_F144_L0.8961.00
41_I103_R0.8951.00
162_A176_T0.8941.00
27_T232_R0.8881.00
39_C79_V0.8871.00
39_C81_Y0.8821.00
86_A89_R0.8821.00
258_N262_V0.8811.00
64_I255_M0.8771.00
60_I255_M0.8771.00
40_G89_R0.8751.00
10_A14_V0.8721.00
258_N261_N0.8711.00
10_A13_S0.8701.00
51_A57_F0.8621.00
34_K99_D0.8571.00
65_C81_Y0.8551.00
254_E258_N0.8531.00
38_Q99_D0.8501.00
50_Y58_S0.8411.00
23_X26_A0.8401.00
129_G202_L0.8401.00
67_G245_T0.8301.00
245_T248_A0.8271.00
131_L184_A0.8271.00
100_L231_V0.8231.00
65_C100_L0.8211.00
68_V245_T0.8181.00
132_T216_I0.8151.00
91_T94_Q0.8151.00
45_L104_N0.8141.00
114_G117_M0.8111.00
21_Q24_A0.8101.00
68_V229_P0.8101.00
256_G259_S0.8081.00
93_L232_R0.8061.00
202_L217_V0.7991.00
91_T95_S0.7941.00
46_P50_Y0.7921.00
93_L101_L0.7861.00
108_T119_F0.7851.00
197_S201_Q0.7851.00
128_I157_T0.7841.00
249_M258_N0.7790.99
47_G50_Y0.7740.99
66_R70_A0.7730.99
165_F170_M0.7660.99
21_Q25_G0.7650.99
16_L19_A0.7630.99
65_C102_S0.7600.99
101_L230_V0.7580.99
118_A235_D0.7570.99
11_A14_V0.7560.99
41_I81_Y0.7540.99
233_R240_S0.7540.99
253_E257_I0.7530.99
237_E240_S0.7490.99
175_V186_A0.7480.99
62_V81_Y0.7480.99
255_M259_S0.7440.99
181_D185_K0.7420.99
57_F62_V0.7380.99
249_M252_A0.7370.99
159_L162_A0.7350.99
138_L143_E0.7340.99
130_F196_A0.7320.99
126_D199_Q0.7280.99
175_V192_C0.7280.99
90_F105_T0.7280.99
119_F228_G0.7270.99
98_V101_L0.7260.99
51_A83_P0.7240.99
151_I161_V0.7190.99
182_E185_K0.7180.99
43_D49_S0.7170.99
259_S262_V0.7160.99
120_T246_L0.7140.99
37_V79_V0.7120.99
134_D213_A0.7120.99
28_L32_Q0.7110.99
40_G84_L0.7020.99
152_Q155_T0.7000.99
138_L144_L0.6990.99
32_Q35_G0.6960.99
71_A249_M0.6940.99
60_I259_S0.6940.99
120_T239_F0.6890.99
259_S263_D0.6840.99
64_I68_V0.6830.99
68_V72_V0.6830.99
11_A15_L0.6800.99
160_N163_D0.6780.99
164_Y167_A0.6760.99
68_V102_S0.6750.99
14_V19_A0.6710.98
150_C186_A0.6690.98
203_Y207_I0.6660.98
45_L86_A0.6660.98
127_G199_Q0.6640.98
72_V238_W0.6640.98
12_A15_L0.6630.98
13_S16_L0.6610.98
160_N164_Y0.6590.98
128_I225_E0.6580.98
68_V100_L0.6560.98
150_C187_L0.6550.98
188_E215_W0.6540.98
163_D166_K0.6510.98
96_G232_R0.6500.98
20_N23_X0.6450.98
90_F94_Q0.6430.98
133_H214_E0.6410.98
45_L49_S0.6390.98
106_T119_F0.6390.98
8_T14_V0.6380.98
106_T156_D0.6370.98
40_G93_L0.6350.98
89_R105_T0.6330.98
37_V72_V0.6290.98
231_V235_D0.6290.98
137_G216_I0.6260.98
15_L19_A0.6250.98
235_D238_W0.6250.98
42_S89_R0.6250.98
51_A55_G0.6250.98
184_A188_E0.6230.98
133_H193_D0.6230.98
72_V245_T0.6190.97
7_A10_A0.6180.97
139_K216_I0.6170.97
14_V17_A0.6160.97
152_Q180_S0.6100.97
68_V241_I0.6090.97
184_A215_W0.6090.97
127_G224_K0.6080.97
246_L250_L0.6070.97
49_S103_R0.6060.97
30_A33_K0.6050.97
112_D233_R0.6050.97
131_L215_W0.6030.97
257_I260_Q0.6030.97
149_V161_V0.6030.97
58_S262_V0.6000.97
258_N263_D0.5980.97
43_D57_F0.5980.97
42_S86_A0.5970.97
156_D159_L0.5970.97
106_T198_D0.5960.97
89_R92_A0.5950.97
128_I196_A0.5940.97
144_L147_A0.5940.97
161_V165_F0.5910.97
233_R236_D0.5910.97
133_H188_E0.5910.97
31_V238_W0.5900.97
249_M253_E0.5890.97
162_A174_P0.5880.97
88_E91_T0.5880.97
247_F250_L0.5870.97
27_T31_V0.5850.96
8_T12_A0.5830.96
244_W247_F0.5790.96
229_P242_V0.5750.96
105_T117_M0.5740.96
37_V77_T0.5740.96
72_V76_D0.5720.96
149_V172_Y0.5700.96
198_D201_Q0.5700.96
212_P215_W0.5670.96
260_Q265_K0.5660.96
82_T97_E0.5640.96
121_G250_L0.5560.95
253_E256_G0.5550.95
130_F222_I0.5540.95
41_I62_V0.5530.95
31_V37_V0.5520.95
7_A16_L0.5510.95
69_A76_D0.5510.95
52_D55_G0.5500.95
132_T138_L0.5490.95
112_D118_A0.5490.95
66_R79_V0.5480.95
204_A208_K0.5450.95
133_H215_W0.5450.95
157_T198_D0.5440.95
7_A15_L0.5440.95
262_V265_K0.5440.95
27_T34_K0.5440.95
128_I160_N0.5430.95
6_I14_V0.5430.95
99_D232_R0.5420.95
142_K145_D0.5420.95
40_G101_L0.5400.95
69_A77_T0.5400.95
252_A257_I0.5290.94
35_G78_K0.5290.94
170_M174_P0.5280.94
126_D200_S0.5260.94
133_H187_L0.5240.94
13_S18_V0.5230.94
82_T92_A0.5230.94
42_S152_Q0.5230.94
82_T98_V0.5220.93
123_T229_P0.5210.93
24_A30_A0.5210.93
48_F200_S0.5200.93
157_T196_A0.5190.93
151_I174_P0.5180.93
100_L229_P0.5170.93
196_A222_I0.5170.93
131_L187_L0.5160.93
16_L21_Q0.5160.93
152_Q183_S0.5140.93
177_F192_C0.5120.93
41_I83_P0.5110.93
126_D227_L0.5090.93
86_A105_T0.5050.92
12_A18_V0.5040.92
50_Y262_V0.5040.92
123_T246_L0.5020.92
166_K172_Y0.5020.92
91_T97_E0.5010.92
18_V23_X0.5000.92
102_S123_T0.5000.92
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  
4z9nA 2 0.9326 100 0.406 Contact Map
2ylnA 1 0.6891 100 0.41 Contact Map
2yjpA 1 0.7214 100 0.412 Contact Map
1xt8A 1 0.7331 100 0.415 Contact Map
4ohnA 1 0.7126 100 0.421 Contact Map
1pb7A 1 0.7243 100 0.421 Contact Map
4tllA 1 0.8182 100 0.425 Contact Map
4powA 1 0.6628 100 0.425 Contact Map
3kbrA 4 0.6598 100 0.43 Contact Map
2vhaA 2 0.7977 100 0.431 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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