GREMLIN Database
YDCV - Inner membrane ABC transporter permease protein YdcV
UniProt: P0AFR9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13765
Length: 264 (248)
Sequences: 72209 (46567)
Seq/√Len: 2957.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
176_Q180_Y3.8851.00
66_T70_K3.2491.00
168_M177_T3.1161.00
153_I157_R3.0181.00
64_A221_W2.6571.00
155_R189_A2.5991.00
63_D66_T2.5931.00
74_L137_V2.5571.00
92_R164_V2.5331.00
32_A52_F2.5161.00
167_S177_T2.4991.00
216_R224_N2.4821.00
164_V182_V2.4761.00
173_N176_Q2.4631.00
78_I141_A2.4481.00
53_S57_Q2.3621.00
50_R53_S2.3381.00
62_L66_T2.3381.00
174_G177_T2.3281.00
231_D234_V2.2651.00
175_W179_R2.2441.00
76_T194_G2.2261.00
152_V190_L2.1961.00
50_R54_V2.1461.00
95_F98_K2.1131.00
172_A176_Q2.0391.00
176_Q179_R1.9911.00
70_K133_F1.9421.00
91_W157_R1.9191.00
84_T178_F1.8991.00
167_S172_A1.8861.00
156_F186_L1.8831.00
148_V193_G1.8831.00
102_S153_I1.8611.00
26_L30_A1.8451.00
163_L185_N1.8251.00
30_A34_N1.8251.00
84_T186_L1.8041.00
80_L194_G1.7861.00
164_V177_T1.7591.00
63_D67_L1.7311.00
251_L255_W1.7291.00
168_M174_G1.7241.00
72_A198_F1.6701.00
164_V168_M1.6421.00
221_W225_Q1.6331.00
83_G148_V1.6321.00
70_K74_L1.6041.00
75_A201_S1.6021.00
54_V234_V1.5951.00
86_A149_F1.5881.00
84_T152_V1.5841.00
90_L149_F1.5681.00
11_K15_W1.5131.00
81_V85_L1.5061.00
161_W164_V1.5041.00
23_F27_I1.4741.00
148_V197_A1.4671.00
71_V217_T1.4411.00
97_G100_A1.4211.00
29_A240_L1.4141.00
60_D63_D1.4111.00
54_V57_Q1.3961.00
94_D98_K1.3761.00
87_A152_V1.3671.00
91_W153_I1.3651.00
205_I209_T1.3451.00
156_F182_V1.3321.00
192_A196_L1.3301.00
183_L190_L1.3291.00
49_L53_S1.3191.00
161_W165_E1.3181.00
27_I31_Y1.3081.00
79_A197_A1.3001.00
152_V193_G1.2931.00
48_T51_W1.2891.00
84_T190_L1.2491.00
167_S181_V1.2411.00
216_R221_W1.2341.00
88_A156_F1.2331.00
100_A103_L1.2291.00
92_R161_W1.2271.00
205_I223_L1.2261.00
162_S165_E1.2251.00
225_Q231_D1.2241.00
139_G211_T1.2171.00
225_Q229_P1.1901.00
207_V211_T1.1841.00
74_L77_L1.1841.00
77_L81_V1.1761.00
67_L70_K1.1711.00
159_T185_N1.1671.00
80_L190_L1.1591.00
224_N228_R1.1581.00
91_W156_F1.1511.00
38_A46_G1.1451.00
173_N177_T1.1271.00
124_F135_T1.1271.00
68_S218_L1.1211.00
145_V149_F1.1191.00
187_S191_L1.1131.00
28_I240_L1.1131.00
15_W19_V1.1121.00
35_T38_A1.0921.00
100_A104_L1.0911.00
208_T217_T1.0861.00
54_V58_R1.0791.00
136_I208_T1.0791.00
78_I137_V1.0711.00
8_F11_K1.0501.00
74_L78_I1.0371.00
27_I30_A1.0321.00
152_V189_A1.0311.00
70_K134_F1.0271.00
217_T220_L1.0261.00
252_G256_L1.0191.00
137_V141_A1.0161.00
8_F12_L1.0161.00
221_W238_V1.0111.00
151_N193_G1.0101.00
122_T126_T1.0081.00
75_A140_H1.0081.00
75_A79_A1.0071.00
88_A178_F1.0011.00
164_V174_G0.9931.00
85_L89_A0.9921.00
172_A177_T0.9911.00
177_T180_Y0.9841.00
221_W224_N0.9841.00
216_R220_L0.9821.00
185_N188_S0.9821.00
204_E207_V0.9811.00
56_A62_L0.9781.00
133_F137_V0.9721.00
65_V218_L0.9711.00
134_F138_V0.9671.00
223_L227_G0.9591.00
88_A174_G0.9561.00
10_L14_A0.9501.00
69_L73_A0.9491.00
226_L235_T0.9471.00
31_Y236_N0.9351.00
98_K157_R0.9301.00
87_A91_W0.9221.00
77_L194_G0.9191.00
32_A36_E0.9161.00
75_A137_V0.9051.00
83_G149_F0.9051.00
204_E208_T0.9041.00
106_L150_N0.8901.00
209_T220_L0.8821.00
120_L211_T0.8821.00
172_A180_Y0.8821.00
67_L133_F0.8821.00
96_F99_N0.8791.00
252_G255_W0.8791.00
43_P46_G0.8781.00
61_I238_V0.8711.00
34_N38_A0.8711.00
70_K73_A0.8701.00
73_A77_L0.8691.00
71_V133_F0.8691.00
139_G207_V0.8691.00
121_L125_K0.8651.00
18_V22_H0.8651.00
113_G143_F0.8641.00
140_H201_S0.8641.00
52_F240_L0.8621.00
225_Q234_V0.8621.00
177_T182_V0.8611.00
132_G135_T0.8591.00
152_V186_L0.8591.00
99_N102_S0.8571.00
31_Y34_N0.8561.00
65_V69_L0.8541.00
129_L134_F0.8491.00
186_L189_A0.8491.00
89_A95_F0.8451.00
66_T69_L0.8401.00
187_S190_L0.8401.00
79_A83_G0.8391.00
155_R186_L0.8381.00
37_D40_F0.8371.00
225_Q238_V0.8331.00
179_R183_L0.8291.00
212_A216_R0.8201.00
120_L139_G0.8191.00
33_F47_L0.8171.00
220_L224_N0.8061.00
76_T198_F0.8051.00
90_L102_S0.8031.00
87_A156_F0.8021.00
178_F183_L0.7971.00
78_I81_V0.7911.00
36_E40_F0.7891.00
197_A201_S0.7891.00
87_A149_F0.7831.00
79_A148_V0.7821.00
71_V140_H0.7811.00
248_L252_G0.7801.00
74_L141_A0.7701.00
134_F137_V0.7651.00
55_A241_L0.7651.00
117_G206_I0.7651.00
148_V152_V0.7611.00
28_I236_N0.7551.00
79_A144_C0.7511.00
31_Y35_T0.7511.00
174_G178_F0.7461.00
131_P214_H0.7441.00
163_L181_V0.7431.00
246_T250_I0.7431.00
59_S63_D0.7411.00
23_F26_L0.7391.00
90_L153_I0.7371.00
47_L50_R0.7361.00
253_A256_L0.7331.00
83_G152_V0.7251.00
178_F182_V0.7251.00
51_W233_P0.7201.00
125_K130_E0.7151.00
116_T142_T0.7151.00
80_L152_V0.7151.00
144_C197_A0.7091.00
54_V231_D0.7081.00
64_A67_L0.7081.00
49_L52_F0.7081.00
53_S56_A0.7061.00
182_V185_N0.7021.00
102_S150_N0.7021.00
46_G50_R0.7011.00
113_G206_I0.6991.00
90_L101_I0.6981.00
35_T46_G0.6971.00
9_F12_L0.6961.00
82_L141_A0.6951.00
86_A145_V0.6951.00
166_A170_L0.6921.00
72_A76_T0.6911.00
190_L193_G0.6861.00
117_G210_F0.6861.00
161_W168_M0.6851.00
12_L15_W0.6841.00
64_A218_L0.6821.00
218_L242_V0.6801.00
234_V238_V0.6791.00
79_A201_S0.6781.00
9_F13_A0.6711.00
128_N131_P0.6711.00
144_C200_L0.6681.00
247_T251_L0.6681.00
68_S202_F0.6681.00
38_A45_Q0.6671.00
204_E217_T0.6671.00
35_T45_Q0.6661.00
34_N44_P0.6651.00
89_A93_R0.6651.00
106_L109_I0.6641.00
62_L65_V0.6621.00
51_W54_V0.6621.00
17_G21_L0.6591.00
166_A169_D0.6581.00
28_I239_A0.6561.00
33_F48_T0.6551.00
222_L238_V0.6541.00
219_P242_V0.6541.00
135_T139_G0.6531.00
95_F101_I0.6451.00
19_V23_F0.6441.00
152_V156_F0.6431.00
71_V137_V0.6401.00
71_V136_I0.6401.00
136_I140_H0.6391.00
24_P28_I0.6381.00
159_T186_L0.6361.00
187_S256_L0.6351.00
136_I212_A0.6331.00
18_V21_L0.6331.00
236_N240_L0.6321.00
14_A18_V0.6311.00
48_T52_F0.6301.00
59_S62_L0.6281.00
190_L194_G0.6251.00
96_F100_A0.6241.00
88_A182_V0.6201.00
189_A193_G0.6201.00
60_D221_W0.6191.00
13_A17_G0.6181.00
120_L123_A0.6181.00
68_S219_P0.6141.00
122_T125_K0.6131.00
206_I210_F0.6101.00
127_I130_E0.6091.00
242_V246_T0.6081.00
86_A105_L0.6061.00
105_L146_V0.6021.00
151_N189_A0.6021.00
34_N46_G0.6001.00
114_I210_F0.5981.00
99_N103_L0.5971.00
194_G197_A0.5941.00
31_Y36_E0.5941.00
46_G49_L0.5921.00
191_L194_G0.5921.00
79_A141_A0.5871.00
179_R182_V0.5871.00
76_T80_L0.5861.00
220_L223_L0.5861.00
36_E44_P0.5841.00
232_V236_N0.5841.00
60_D216_R0.5811.00
206_I209_T0.5801.00
236_N239_A0.5791.00
109_I146_V0.5771.00
87_A153_I0.5711.00
22_H26_L0.5711.00
97_G101_I0.5651.00
71_V75_A0.5641.00
55_A234_V0.5621.00
75_A141_A0.5601.00
200_L203_D0.5591.00
80_L84_T0.5591.00
72_A202_F0.5591.00
11_K14_A0.5591.00
82_L145_V0.5581.00
76_T201_S0.5581.00
250_I254_W0.5581.00
103_L107_L0.5581.00
177_T181_V0.5521.00
135_T211_T0.5521.00
113_G117_G0.5501.00
124_F130_E0.5491.00
93_R174_G0.5491.00
32_A237_V0.5431.00
34_N45_Q0.5411.00
208_T220_L0.5411.00
193_G197_A0.5361.00
86_A89_A0.5351.00
94_D99_N0.5341.00
102_S157_R0.5331.00
140_H204_E0.5311.00
55_A238_V0.5311.00
58_R62_L0.5301.00
109_I147_V0.5301.00
108_P146_V0.5301.00
38_A41_S0.5301.00
81_V84_T0.5291.00
222_L239_A0.5261.00
95_F99_N0.5241.00
233_P236_N0.5231.00
199_A203_D0.5231.00
94_D161_W0.5221.00
44_P47_L0.5211.00
82_L85_L0.5191.00
63_D70_K0.5171.00
232_V235_T0.5161.00
201_S204_E0.5151.00
98_K102_S0.5141.00
83_G145_V0.5101.00
165_E168_M0.5101.00
143_F207_V0.5101.00
230_R234_V0.5101.00
117_G121_L0.5091.00
72_A201_S0.5081.00
60_D64_A0.5041.00
52_F237_V0.5041.00
140_H208_T0.5021.00
53_S58_R0.5021.00
173_N179_R0.5021.00
123_A130_E0.5011.00
32_A240_L0.5001.00
37_D41_S0.5001.00
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  
2onkC 2 0.9167 100 0.238 Contact Map
4tquM 1 0.9394 100 0.252 Contact Map
3d31C 2 0.8977 100 0.263 Contact Map
3rlfG 1 0.9811 100 0.295 Contact Map
4tquN 1 0.9659 100 0.307 Contact Map
3rlfF 1 0.9356 100 0.323 Contact Map
4ymuD 2 0.8068 99.9 0.43 Contact Map
3tuiA 2 0.7879 99.9 0.453 Contact Map
2a65A 2 0.8674 16.9 0.938 Contact Map
2m20A 2 0.1402 13.8 0.94 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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