GREMLIN Database
YDCU - Inner membrane ABC transporter permease protein YdcU
UniProt: P77156 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13764
Length: 313 (254)
Sequences: 69350 (44522)
Seq/√Len: 2793.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
227_Q231_Y4.0981.00
88_L92_T3.2401.00
204_Q208_E3.0521.00
219_A228_T3.0331.00
85_D88_L2.6791.00
86_I272_M2.6721.00
55_G75_I2.6541.00
114_R215_L2.5931.00
215_L233_V2.5331.00
218_S228_T2.5251.00
96_A188_F2.5241.00
224_R227_Q2.5121.00
206_A240_G2.5011.00
100_A192_L2.4971.00
267_Y275_S2.4831.00
84_Y88_L2.4461.00
73_A76_R2.3851.00
98_T245_S2.3281.00
225_P228_T2.3101.00
203_V241_I2.2541.00
73_A77_A2.2331.00
226_R230_R2.2241.00
282_N285_M2.1041.00
223_A227_Q2.0921.00
106_F229_F2.0821.00
118_G121_K2.0761.00
227_Q230_R2.0561.00
199_M244_G1.9741.00
207_L237_A1.9731.00
113_A208_E1.9361.00
53_W57_Y1.9331.00
92_T184_G1.9281.00
214_L236_L1.9121.00
218_S223_A1.8851.00
106_F237_A1.8521.00
125_Y204_Q1.8091.00
102_A245_S1.7971.00
85_D89_R1.7651.00
49_L53_W1.7611.00
219_A225_P1.7341.00
302_A306_R1.7221.00
94_A249_F1.7091.00
215_L228_T1.6921.00
105_A199_M1.6811.00
97_V252_T1.6621.00
92_T96_A1.6611.00
77_A285_M1.6551.00
106_F203_V1.6251.00
108_M200_I1.6081.00
112_M200_I1.5951.00
215_L219_A1.5481.00
52_L291_L1.5391.00
34_L38_M1.5081.00
212_P215_L1.4851.00
120_M123_F1.4581.00
272_M276_Q1.4481.00
46_G50_T1.4461.00
71_T74_N1.4311.00
72_L76_R1.4101.00
256_F260_Q1.4091.00
82_A85_D1.4071.00
109_A203_V1.3991.00
113_A204_Q1.3961.00
199_M248_T1.3921.00
93_M268_F1.3811.00
243_A247_F1.3671.00
234_L241_I1.3671.00
50_T54_Q1.3651.00
207_L233_V1.3511.00
203_V244_G1.3041.00
101_S248_T1.2971.00
212_P216_Q1.2911.00
103_I107_P1.2801.00
276_Q280_I1.2711.00
190_V262_V1.2701.00
114_R212_P1.2651.00
267_Y272_M1.2601.00
218_S232_V1.2461.00
258_V262_V1.2461.00
213_S216_Q1.2431.00
106_F241_I1.2391.00
256_F274_Y1.2381.00
110_W207_L1.2291.00
116_T121_K1.2211.00
38_M42_I1.1991.00
210_L236_L1.1911.00
99_I103_I1.1841.00
147_L186_G1.1821.00
123_F126_I1.1801.00
90_T269_I1.1791.00
276_Q282_N1.1691.00
115_Y118_G1.1591.00
27_L31_L1.1571.00
275_S279_A1.1511.00
102_A241_I1.1501.00
28_G32_L1.1461.00
29_L33_L1.1441.00
96_A99_I1.1381.00
61_D69_E1.1351.00
224_R228_T1.1261.00
187_R259_P1.1261.00
238_I242_A1.1241.00
203_V240_G1.1021.00
89_R92_T1.0941.00
79_F84_Y1.0941.00
51_L291_L1.0881.00
31_L35_G1.0851.00
58_T61_D1.0711.00
26_G29_L1.0711.00
50_T53_W1.0661.00
196_L200_I1.0581.00
123_F127_A1.0531.00
215_L225_P1.0371.00
185_L189_L1.0311.00
77_A80_N1.0311.00
145_L149_K1.0301.00
184_G188_F1.0261.00
188_F192_L1.0251.00
100_A188_F1.0251.00
96_A100_A1.0251.00
236_L239_P1.0211.00
113_A207_L1.0201.00
202_P244_G1.0201.00
75_I291_L1.0201.00
110_W225_P1.0181.00
259_P268_F1.0161.00
303_F307_L1.0141.00
255_D258_V1.0141.00
110_W229_F1.0131.00
97_V101_S1.0131.00
97_V191_F1.0121.00
28_G31_L1.0041.00
91_L95_V0.9971.00
107_P111_Y0.9971.00
268_F271_N0.9921.00
272_M289_F0.9921.00
31_L34_L0.9861.00
223_A228_T0.9791.00
267_Y271_N0.9731.00
87_I269_I0.9651.00
277_Q286_A0.9641.00
228_T231_Y0.9641.00
272_M275_S0.9431.00
66_V69_E0.9401.00
83_N289_F0.9371.00
33_L37_L0.9341.00
143_W262_V0.9311.00
255_D259_P0.9261.00
99_I245_S0.9221.00
30_F34_L0.9201.00
92_T95_V0.9191.00
109_A113_A0.9181.00
143_W190_V0.9151.00
152_V185_L0.9121.00
191_F252_T0.9111.00
89_R184_G0.9101.00
26_G30_F0.9071.00
92_T185_L0.9061.00
54_Q287_A0.9041.00
260_Q271_N0.8951.00
121_K208_E0.8901.00
95_V99_I0.8901.00
97_V188_F0.8871.00
119_K122_A0.8861.00
41_G45_F0.8861.00
93_M184_G0.8841.00
87_I91_L0.8801.00
238_I241_I0.8771.00
237_A240_G0.8751.00
78_L292_V0.8691.00
206_A237_A0.8671.00
199_M203_V0.8661.00
230_R234_L0.8561.00
203_V237_A0.8551.00
248_T252_T0.8461.00
74_N284_P0.8461.00
101_S105_A0.8451.00
129_M201_L0.8441.00
105_A200_I0.8431.00
100_A103_I0.8391.00
136_Y194_I0.8381.00
122_A125_Y0.8361.00
229_F234_L0.8361.00
60_D63_T0.8331.00
51_L287_A0.8321.00
303_F306_R0.8311.00
190_V258_V0.8301.00
56_F70_L0.8261.00
263_G267_Y0.8261.00
140_A257_I0.8241.00
299_L303_F0.8201.00
54_Q57_Y0.8191.00
185_L188_F0.8181.00
276_Q285_M0.8111.00
93_M191_F0.8101.00
109_A200_I0.8061.00
88_L91_L0.8051.00
112_M125_Y0.8041.00
183_S186_G0.8021.00
57_Y61_D0.8001.00
111_Y118_G0.7991.00
228_T233_V0.7941.00
96_A192_L0.7901.00
144_T148_A0.7901.00
109_A207_L0.7841.00
80_N84_Y0.7811.00
214_L232_V0.7741.00
76_R79_F0.7711.00
70_L73_A0.7691.00
72_L75_I0.7691.00
276_Q289_F0.7671.00
297_I301_L0.7671.00
183_S266_G0.7661.00
86_I89_R0.7651.00
54_Q58_T0.7641.00
77_A282_N0.7621.00
55_G59_F0.7611.00
285_M289_F0.7601.00
25_P29_L0.7541.00
187_R263_G0.7491.00
225_P229_F0.7451.00
223_A231_Y0.7411.00
51_L290_T0.7411.00
210_L237_A0.7361.00
274_Y278_G0.7321.00
101_S195_W0.7241.00
61_D68_P0.7221.00
101_S199_M0.7211.00
74_N77_A0.7201.00
273_V289_F0.7181.00
203_V207_L0.7161.00
129_M132_M0.7151.00
98_T249_F0.7151.00
140_A261_L0.7131.00
35_G38_M0.7121.00
241_I244_G0.7101.00
27_L30_F0.7101.00
229_F233_V0.7081.00
102_A203_V0.7041.00
32_L35_G0.7001.00
238_I307_L0.7001.00
86_I269_I0.6981.00
212_P219_A0.6981.00
105_A203_V0.6981.00
186_G190_V0.6971.00
94_A98_T0.6971.00
46_G49_L0.6941.00
304_V307_L0.6921.00
112_M124_F0.6911.00
101_S252_T0.6901.00
269_I293_P0.6891.00
40_F44_Y0.6871.00
195_W248_T0.6841.00
98_T102_A0.6841.00
84_Y87_I0.6811.00
139_K193_Y0.6801.00
58_T69_E0.6781.00
255_D268_F0.6781.00
145_L148_A0.6781.00
217_A221_L0.6781.00
112_M204_Q0.6771.00
32_L36_P0.6771.00
56_F71_T0.6761.00
287_A291_L0.6751.00
136_Y257_I0.6751.00
270_G293_P0.6701.00
69_E73_A0.6681.00
195_W251_L0.6601.00
71_T75_I0.6591.00
233_V236_L0.6571.00
57_Y67_T0.6541.00
240_G244_G0.6531.00
259_P271_N0.6511.00
58_T68_P0.6501.00
108_M196_L0.6451.00
41_G44_Y0.6421.00
241_I245_S0.6411.00
293_P297_I0.6371.00
55_G288_A0.6361.00
93_M187_R0.6331.00
287_A290_T0.6321.00
217_A220_D0.6321.00
81_P85_D0.6311.00
271_N275_S0.6291.00
43_V47_S0.6291.00
128_V197_P0.6271.00
118_G124_F0.6251.00
37_L41_G0.6251.00
90_T270_G0.6231.00
186_G262_V0.6191.00
111_Y115_Y0.6151.00
30_F33_L0.6151.00
125_Y201_L0.6131.00
75_I288_A0.6121.00
120_M124_F0.6121.00
104_L192_L0.6111.00
148_A153_A0.6111.00
202_P240_G0.6091.00
257_I261_L0.6091.00
283_M287_A0.6091.00
25_P28_G0.6061.00
78_L285_M0.6061.00
69_E72_L0.6061.00
143_W146_L0.6051.00
93_M188_F0.6051.00
67_T70_L0.6031.00
90_T253_L0.5981.00
108_M128_V0.5971.00
82_A272_M0.5971.00
137_I261_L0.5891.00
132_M197_P0.5851.00
147_L153_A0.5841.00
94_A252_T0.5831.00
102_A106_F0.5831.00
187_R191_F0.5791.00
57_Y68_P0.5751.00
119_K123_F0.5751.00
81_P84_Y0.5751.00
250_S254_G0.5751.00
36_P40_F0.5741.00
94_A253_L0.5731.00
78_L289_F0.5721.00
122_A126_I0.5701.00
132_M198_F0.5701.00
109_A204_Q0.5701.00
101_S192_L0.5691.00
191_F255_D0.5671.00
298_A302_A0.5661.00
57_Y69_E0.5661.00
55_G291_L0.5641.00
228_T232_V0.5621.00
224_R230_R0.5611.00
271_N274_Y0.5591.00
104_L196_L0.5571.00
45_F49_L0.5571.00
257_I260_Q0.5551.00
284_P287_A0.5541.00
242_A245_S0.5531.00
115_Y225_P0.5531.00
259_P263_G0.5511.00
151_G154_Q0.5511.00
42_I46_G0.5511.00
126_I130_L0.5501.00
127_A131_P0.5501.00
245_S248_T0.5491.00
93_M97_V0.5491.00
110_W233_V0.5481.00
134_A138_V0.5481.00
59_F67_T0.5471.00
140_A144_T0.5471.00
251_L254_G0.5461.00
59_F63_T0.5451.00
146_L153_A0.5431.00
301_L305_K0.5431.00
210_L215_L0.5411.00
131_P197_P0.5401.00
98_T252_T0.5381.00
136_Y140_A0.5351.00
52_L56_F0.5351.00
296_L299_L0.5261.00
102_A107_P0.5251.00
29_L32_L0.5241.00
230_R233_V0.5231.00
88_L184_G0.5191.00
97_V192_L0.5171.00
124_F128_V0.5171.00
34_L37_L0.5151.00
116_T119_K0.5151.00
108_M111_Y0.5111.00
283_M286_A0.5101.00
75_I79_F0.5101.00
82_A267_Y0.5101.00
98_T103_I0.5091.00
216_Q219_A0.5081.00
39_W43_V0.5071.00
191_F259_P0.5061.00
275_S280_I0.5051.00
89_R268_F0.5041.00
252_T255_D0.5021.00
295_I299_L0.5021.00
54_Q59_F0.5001.00
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 0.8019 100 0.344 Contact Map
3d31C 2 0.7891 100 0.361 Contact Map
4tquM 1 0.8818 100 0.364 Contact Map
3rlfF 1 0.9169 100 0.409 Contact Map
3rlfG 1 0.8371 100 0.413 Contact Map
4tquN 1 0.8339 100 0.432 Contact Map
4ymuD 2 0.6837 99.9 0.55 Contact Map
3tuiA 2 0.6709 99.9 0.567 Contact Map
2m8rA 1 0.1629 11.4 0.953 Contact Map
2kogA 1 0.1725 7.9 0.956 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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