GREMLIN Database
YDCS - Putative ABC transporter periplasmic-binding protein YdcS
UniProt: P76108 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13762
Length: 381 (335)
Sequences: 37012 (30076)
Seq/√Len: 1643.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
35_R69_N3.9711.00
153_T272_A3.5081.00
108_Q296_P3.4531.00
37_D69_N3.3741.00
35_R67_A3.0471.00
154_K270_P2.9911.00
226_R230_S2.8371.00
167_F227_A2.8141.00
109_P136_K2.8011.00
66_C298_C2.6721.00
64_T301_K2.6141.00
223_K227_A2.5131.00
162_S165_V2.5131.00
61_E67_A2.4661.00
54_Y58_T2.4111.00
59_Q305_W2.3991.00
308_T311_V2.3561.00
59_Q62_K2.3331.00
301_K304_N2.3271.00
216_E220_A2.2161.00
153_T157_P2.1601.00
78_E82_L2.1551.00
151_Y272_A2.1521.00
59_Q63_E2.1351.00
168_V172_L2.1071.00
89_D295_H2.0991.00
55_D58_T2.0931.00
37_D71_K2.0671.00
220_A223_K2.0511.00
111_N136_K2.0231.00
61_E64_T2.0211.00
313_G317_A2.0131.00
107_V288_M2.0011.00
34_G298_C1.9841.00
60_F301_K1.9791.00
295_H298_C1.9621.00
59_Q314_D1.9451.00
58_T62_K1.9331.00
165_V168_V1.9181.00
156_F253_A1.9171.00
224_V227_A1.9091.00
139_G286_T1.8971.00
168_V171_N1.8901.00
155_T252_V1.8881.00
33_E67_A1.8711.00
60_F64_T1.8671.00
297_V301_K1.8561.00
238_D241_V1.8371.00
219_Q223_K1.8261.00
120_T327_E1.8001.00
57_V61_E1.7871.00
132_N137_V1.7861.00
91_V290_H1.7591.00
123_P127_K1.7351.00
57_V302_W1.7321.00
39_I82_L1.7001.00
19_T22_A1.6971.00
167_F228_Q1.6941.00
108_Q291_S1.6631.00
158_T161_D1.6601.00
309_P313_G1.6601.00
311_V314_D1.6431.00
58_T61_E1.6311.00
164_Q167_F1.6221.00
245_D250_G1.6111.00
161_D165_V1.5991.00
160_P165_V1.5681.00
55_D59_Q1.5581.00
298_C301_K1.5581.00
14_S17_I1.5531.00
34_G295_H1.5521.00
296_P300_Y1.5521.00
60_F302_W1.5451.00
167_F171_N1.5341.00
224_V228_Q1.5161.00
152_N155_T1.5161.00
63_E308_T1.5091.00
314_D318_W1.5071.00
217_Q220_A1.4661.00
289_L303_M1.4591.00
149_L274_V1.4411.00
314_D317_A1.4381.00
244_S248_N1.4331.00
102_I138_Y1.4311.00
151_Y274_V1.4251.00
167_F224_V1.4181.00
60_F305_W1.4081.00
153_T270_P1.3911.00
60_F66_C1.3811.00
90_L299_A1.3681.00
223_K226_R1.3651.00
293_A296_P1.3651.00
164_Q168_V1.3641.00
177_S180_G1.3541.00
127_K132_N1.3501.00
40_A70_V1.3461.00
155_T173_P1.3391.00
148_L273_T1.3381.00
177_S181_R1.3331.00
113_A116_P1.3211.00
105_K291_S1.3151.00
173_P252_V1.3131.00
109_P112_T1.3091.00
116_P119_K1.3041.00
161_D277_K1.3031.00
216_E219_Q1.3031.00
170_Q253_A1.2831.00
78_E81_S1.2821.00
346_N349_D1.2711.00
21_H24_E1.2641.00
131_F286_T1.2571.00
93_A288_M1.2561.00
66_C301_K1.2541.00
332_S336_G1.2541.00
241_V244_S1.2511.00
123_P126_V1.2491.00
57_V70_V1.2461.00
345_F349_D1.2331.00
297_V300_Y1.2151.00
245_D251_V1.2141.00
300_Y304_N1.2081.00
90_L302_W1.2001.00
206_G210_P1.1941.00
11_C15_M1.1931.00
293_A299_A1.1901.00
332_S335_L1.1851.00
227_A230_S1.1831.00
60_F298_C1.1811.00
149_L253_A1.1741.00
289_L299_A1.1661.00
327_E330_K1.1541.00
156_F169_E1.1421.00
309_P327_E1.1401.00
33_E65_G1.1261.00
57_V68_V1.1221.00
81_S85_K1.1151.00
36_L298_C1.1111.00
117_N304_N1.1061.00
150_M256_A1.1021.00
122_D326_P1.1011.00
109_P137_V1.1001.00
290_H293_A1.0941.00
310_K313_G1.0921.00
169_E172_L1.0911.00
302_W306_S1.0901.00
325_V328_G1.0891.00
289_L300_Y1.0831.00
166_V170_Q1.0771.00
36_L302_W1.0761.00
196_L201_T1.0711.00
38_I287_T1.0701.00
305_W311_V1.0691.00
190_Y193_D1.0681.00
246_F271_V1.0651.00
101_L107_V1.0591.00
63_E305_W1.0561.00
310_K314_D1.0481.00
102_I133_V1.0451.00
91_V288_M1.0431.00
220_A224_V1.0421.00
13_L16_T1.0411.00
346_N350_K1.0381.00
89_D293_A1.0381.00
120_T325_V1.0381.00
198_V201_T1.0351.00
168_V177_S1.0341.00
169_E253_A1.0331.00
152_N270_P1.0311.00
115_I118_W1.0281.00
263_A266_A1.0221.00
291_S296_P1.0201.00
83_M106_R1.0171.00
20_A23_A1.0151.00
55_D314_D1.0121.00
100_R104_G1.0121.00
90_L303_M1.0091.00
302_W305_W0.9981.00
17_I21_H0.9961.00
181_R252_V0.9911.00
232_I235_Y0.9871.00
331_A334_L0.9861.00
287_T303_M0.9821.00
142_Y287_T0.9801.00
313_G331_A0.9781.00
155_T181_R0.9701.00
39_I88_Y0.9691.00
86_G292_E0.9671.00
289_L293_A0.9651.00
18_M21_H0.9561.00
34_G65_G0.9541.00
80_V84_T0.9501.00
11_C14_S0.9501.00
56_W59_Q0.9481.00
59_Q310_K0.9481.00
256_A260_Q0.9471.00
115_I304_N0.9461.00
344_G347_Y0.9431.00
55_D318_W0.9431.00
15_M18_M0.9421.00
231_L234_R0.9381.00
177_S183_Q0.9371.00
309_P325_V0.9361.00
166_V253_A0.9361.00
158_T165_V0.9351.00
15_M19_T0.9351.00
63_E310_K0.9301.00
313_G328_G0.9271.00
14_S18_M0.9251.00
197_F202_Q0.9111.00
177_S182_V0.9101.00
343_N346_N0.9091.00
333_P336_G0.9071.00
12_A16_T0.9021.00
16_T19_T0.9021.00
262_N266_A0.8961.00
82_L85_K0.8961.00
215_E219_Q0.8951.00
139_G288_M0.8951.00
56_W311_V0.8931.00
68_V302_W0.8871.00
99_L103_M0.8841.00
108_Q293_A0.8841.00
59_Q311_V0.8811.00
178_N181_R0.8801.00
131_F137_V0.8801.00
195_A200_A0.8701.00
114_L117_N0.8701.00
154_K157_P0.8641.00
299_A303_M0.8631.00
151_Y159_P0.8631.00
11_C17_I0.8561.00
107_V138_Y0.8521.00
206_G209_D0.8491.00
195_A199_K0.8471.00
178_N182_V0.8431.00
215_E218_Y0.8431.00
21_H25_P0.8411.00
108_Q300_Y0.8401.00
244_S247_K0.8361.00
114_L300_Y0.8341.00
194_A197_F0.8331.00
213_L218_Y0.8311.00
121_L307_L0.8301.00
10_L14_S0.8271.00
108_Q290_H0.8211.00
17_I20_A0.8201.00
61_E68_V0.8191.00
77_D81_S0.8191.00
347_Y350_K0.8191.00
225_L229_H0.8171.00
348_F351_I0.8151.00
132_N135_G0.8101.00
226_R229_H0.8061.00
102_I107_V0.8051.00
126_V137_V0.8041.00
29_L32_P0.8021.00
108_Q112_T0.8011.00
336_G339_G0.7951.00
13_L17_I0.7921.00
195_A198_V0.7901.00
212_Q215_E0.7901.00
52_K55_D0.7891.00
109_P138_Y0.7891.00
120_T309_P0.7851.00
196_L200_A0.7841.00
167_F170_Q0.7831.00
121_L126_V0.7821.00
345_F348_F0.7791.00
197_F200_A0.7751.00
242_Q254_S0.7751.00
345_F350_K0.7731.00
326_P330_K0.7711.00
7_R10_L0.7691.00
185_Y251_V0.7691.00
34_G66_C0.7671.00
122_D125_V0.7641.00
240_T243_M0.7621.00
163_W167_F0.7611.00
12_A15_M0.7601.00
338_K341_E0.7591.00
77_D80_V0.7591.00
287_T306_S0.7561.00
334_L338_K0.7541.00
193_D201_T0.7521.00
108_Q292_E0.7521.00
82_L87_G0.7511.00
61_E66_C0.7491.00
123_P326_P0.7481.00
159_P169_E0.7441.00
91_V107_V0.7431.00
92_T287_T0.7391.00
108_Q289_L0.7371.00
7_R11_C0.7331.00
9_S13_L0.7331.00
65_G301_K0.7321.00
110_I303_M0.7261.00
10_L13_L0.7241.00
145_G283_W0.7241.00
47_R54_Y0.7181.00
339_G342_T0.7171.00
7_R14_S0.7141.00
157_P270_P0.7121.00
156_F173_P0.7101.00
122_D126_V0.7071.00
64_T298_C0.7061.00
36_L295_H0.7031.00
10_L16_T0.7021.00
240_T244_S0.6991.00
194_A198_V0.6971.00
343_N347_Y0.6961.00
243_M247_K0.6941.00
183_Q251_V0.6891.00
296_P299_A0.6831.00
201_T204_Q0.6831.00
198_V202_Q0.6821.00
80_V100_R0.6821.00
111_N137_V0.6811.00
9_S12_A0.6791.00
98_S139_G0.6781.00
344_G348_F0.6771.00
22_A25_P0.6761.00
39_I73_A0.6751.00
304_N308_T0.6741.00
117_N120_T0.6741.00
261_A265_K0.6741.00
6_A9_S0.6721.00
214_T217_Q0.6681.00
163_W224_V0.6651.00
337_E340_C0.6651.00
199_K220_A0.6621.00
150_M273_T0.6581.00
113_A117_N0.6571.00
56_W305_W0.6551.00
37_D89_D0.6531.00
334_L337_E0.6531.00
196_L199_K0.6511.00
150_M261_A0.6511.00
119_K126_V0.6501.00
38_I70_V0.6481.00
81_S84_T0.6471.00
193_D200_A0.6461.00
179_K182_V0.6451.00
262_N265_K0.6441.00
97_A100_R0.6421.00
214_T219_Q0.6421.00
328_G331_A0.6421.00
111_N300_Y0.6411.00
71_K88_Y0.6401.00
121_L125_V0.6381.00
67_A70_V0.6381.00
6_A17_I0.6371.00
79_M91_V0.6341.00
152_N249_E0.6341.00
165_V169_E0.6331.00
83_M290_H0.6331.00
150_M271_V0.6321.00
38_I90_L0.6311.00
195_A202_Q0.6301.00
222_L226_R0.6301.00
159_P274_V0.6281.00
201_T217_Q0.6281.00
33_E66_C0.6281.00
193_D196_L0.6261.00
124_R127_K0.6261.00
73_A78_E0.6261.00
343_N350_K0.6251.00
89_D294_K0.6231.00
112_T300_Y0.6231.00
245_D248_N0.6221.00
9_S15_M0.6211.00
344_G350_K0.6211.00
221_V225_L0.6201.00
90_L287_T0.6191.00
190_Y194_A0.6181.00
56_W314_D0.6161.00
344_G351_I0.6161.00
160_P169_E0.6151.00
89_D299_A0.6141.00
112_T136_K0.6131.00
36_L299_A0.6131.00
93_A101_L0.6121.00
192_A196_L0.6121.00
193_D197_F0.6121.00
233_H236_W0.6111.00
241_V245_D0.6111.00
44_Y47_R0.6111.00
151_Y156_F0.6111.00
343_N348_F0.6111.00
218_Y221_V0.6101.00
335_L338_K0.6101.00
171_N178_N0.6091.00
34_G301_K0.6081.00
169_E173_P0.6071.00
217_Q221_V0.6041.00
61_E65_G0.5981.00
194_A202_Q0.5931.00
162_S278_E0.5901.00
180_G183_Q0.5871.00
260_Q264_L0.5861.00
286_T290_H0.5861.00
39_I71_K0.5861.00
178_N183_Q0.5851.00
8_S12_A0.5851.00
28_N31_K0.5851.00
74_A78_E0.5851.00
125_V144_W0.5851.00
173_P181_R0.5841.00
301_K305_W0.5831.00
154_K249_E0.5801.00
98_S102_I0.5791.00
12_A17_I0.5791.00
149_L255_S0.5781.00
181_R250_G0.5781.00
120_T326_P0.5761.00
132_N136_K0.5761.00
196_L202_Q0.5721.00
159_P165_V0.5701.00
173_P253_A0.5701.00
184_A187_G0.5671.00
119_K122_D0.5671.00
101_L106_R0.5661.00
260_Q263_A0.5661.00
114_L297_V0.5651.00
110_I300_Y0.5651.00
214_T218_Y0.5651.00
80_V104_G0.5641.00
156_F252_V0.5641.00
300_Y303_M0.5631.00
161_D166_V0.5611.00
34_G37_D0.5601.00
243_M256_A0.5601.00
331_A335_L0.5591.00
143_Q285_D0.5591.00
25_P28_N0.5591.00
237_H241_V0.5581.00
232_I236_W0.5561.00
102_I105_K0.5541.00
118_W126_V0.5541.00
151_Y253_A0.5531.00
309_P312_Q0.5521.00
38_I92_T0.5521.00
43_G47_R0.5511.00
242_Q251_V0.5511.00
185_Y189_I0.5501.00
64_T302_W0.5501.00
18_M22_A0.5491.00
6_A13_L0.5451.00
192_A198_V0.5421.00
345_F351_I0.5421.00
338_K342_T0.5401.00
64_T305_W0.5391.00
56_W306_S0.5391.00
289_L296_P0.5391.00
33_E64_T0.5391.00
130_W133_V0.5381.00
99_L102_I0.5371.00
11_C16_T0.5371.00
295_H299_A0.5351.00
190_Y195_A0.5331.00
233_H237_H0.5331.00
186_D189_I0.5321.00
333_P337_E0.5321.00
312_Q324_V0.5311.00
122_D329_C0.5301.00
329_C332_S0.5291.00
89_D296_P0.5291.00
110_I289_L0.5271.00
71_K82_L0.5261.00
71_K78_E0.5251.00
199_K202_Q0.5241.00
194_A199_K0.5231.00
140_T303_M0.5221.00
34_G64_T0.5211.00
126_V132_N0.5211.00
140_T307_L0.5201.00
194_A200_A0.5201.00
170_Q228_Q0.5201.00
192_A201_T0.5191.00
163_W170_Q0.5191.00
349_D352_A0.5181.00
8_S11_C0.5181.00
305_W308_T0.5171.00
19_T23_A0.5161.00
164_Q278_E0.5121.00
37_D40_A0.5121.00
179_K183_Q0.5121.00
94_S97_A0.5121.00
54_Y70_V0.5111.00
221_V224_V0.5101.00
237_H245_D0.5101.00
312_Q316_A0.5091.00
191_I194_A0.5081.00
145_G285_D0.5071.00
259_Y321_S0.5071.00
10_L17_I0.5051.00
171_N227_A0.5041.00
114_L304_N0.5031.00
37_D88_Y0.5031.00
321_S324_V0.5021.00
231_L237_H0.5011.00
199_K224_V0.5001.00
209_D212_Q0.5001.00
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  
4r2fA 1 0.8845 100 0.231 Contact Map
4r9fA 1 0.8871 100 0.242 Contact Map
3uorA 1 0.8819 100 0.243 Contact Map
4mfiA 1 0.8976 100 0.252 Contact Map
3vxbA 1 0.8845 100 0.269 Contact Map
3woaA 1 0.9528 100 0.272 Contact Map
2xd3A 1 0.8714 100 0.284 Contact Map
2zyoA 1 0.8871 100 0.289 Contact Map
4c1uA 1 0.8845 100 0.302 Contact Map
4g68A 1 0.8819 100 0.303 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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