GREMLIN Database
YDBK - Uncharacterized membrane protein YdbK
UniProt: P96606 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 246 (229)
Sequences: 4861 (3899)
Seq/√Len: 257.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
78_L88_V3.8271.00
89_F235_G3.5651.00
86_Q236_W3.3711.00
79_L239_F3.2601.00
154_L235_G3.0781.00
238_C242_R3.0601.00
69_E92_K2.9681.00
58_T100_S2.8431.00
195_L198_N2.7561.00
73_K76_K2.6961.00
96_V149_G2.6781.00
59_I152_G2.5891.00
222_G226_I2.5811.00
66_V157_S2.5641.00
97_V146_V2.4101.00
233_V237_W2.4021.00
93_L150_L2.3761.00
218_L222_G2.3141.00
154_L231_F2.2141.00
216_T219_F2.1811.00
154_L234_V2.1001.00
93_L153_L2.0811.00
11_V15_L2.0771.00
198_N220_S2.0391.00
67_S156_S2.0061.00
63_A165_A1.9861.00
65_I95_T1.9271.00
155_C169_S1.9231.00
135_L139_G1.9081.00
90_W236_W1.8841.00
159_F168_V1.8651.00
147_M228_A1.8221.00
155_C159_F1.8211.00
86_Q240_C1.8091.00
101_F142_W1.7921.00
192_S195_L1.7881.00
158_L238_C1.7641.00
116_L121_T1.7351.00
84_K87_K1.7151.00
22_F26_I1.7021.00
93_L232_I1.6831.00
172_V177_S1.6721.00
65_I96_V1.6421.00
8_V64_T1.6391.00
79_L88_V1.5871.00
89_F236_W1.5811.00
223_I227_H1.5711.00
108_Y142_W1.5581.00
197_A200_D1.5471.00
69_E74_T1.5381.00
200_D203_Q1.5231.00
189_K193_F1.5211.00
75_I79_L1.5211.00
59_I169_S1.4841.00
67_S162_S1.4681.00
189_K192_S1.4661.00
105_L142_W1.4621.00
191_G197_A1.4321.00
194_L199_T1.4241.00
144_E199_T1.4181.00
70_F242_R1.4181.00
139_G143_L1.4171.00
154_L157_S1.4151.00
227_H231_F1.3901.00
18_V22_F1.3711.00
164_V168_V1.3701.00
24_A28_K1.3691.00
167_V171_V1.3511.00
225_I229_I1.3451.00
195_L199_T1.3321.00
62_A96_V1.3031.00
91_S94_I1.3001.00
70_F160_R1.2851.00
60_V167_V1.2851.00
147_M231_F1.2591.00
230_F233_V1.2481.00
95_T98_M1.2461.00
136_A139_G1.2431.00
62_A152_G1.2401.00
39_N42_G1.2341.00
155_C168_V1.2301.00
222_G225_I1.2241.00
226_I230_F1.2071.00
46_Y49_S1.1981.00
152_G165_A1.1951.00
100_S149_G1.1851.00
112_L116_L1.1751.00
89_F157_S1.1741.00
64_T68_M1.1741.00
129_T132_V1.1591.00
68_M72_K1.1531.00
96_V100_S1.1471.00
41_I44_L1.1401.00
6_R9_T1.1391.00
119_F122_S1.1321.00
96_V153_L1.1171.00
194_L197_A1.1071.00
98_M102_Y1.0951.00
193_F196_F1.0931.00
109_I113_L1.0871.00
113_L117_L1.0681.00
91_S95_T1.0581.00
58_T62_A1.0551.00
154_L238_C1.0531.00
10_L14_I1.0511.00
223_I226_I1.0491.00
70_F75_I1.0481.00
78_L81_R1.0451.00
23_M27_I1.0391.00
189_K194_L1.0331.00
163_A167_V1.0271.00
28_K118_F1.0241.00
40_F47_T1.0211.00
20_Q24_A1.0191.00
161_N164_V1.0151.00
67_S157_S1.0131.00
34_A42_G1.0071.00
201_F204_Y1.0031.00
158_L234_V0.9991.00
200_D204_Y0.9961.00
67_S165_A0.9961.00
7_K10_L0.9761.00
148_M173_L0.9731.00
152_G169_S0.9721.00
113_L116_L0.9671.00
229_I233_V0.9611.00
61_I99_V0.9601.00
58_T149_G0.9431.00
86_Q90_W0.9371.00
200_D206_S0.9321.00
65_I77_F0.9321.00
166_V169_S0.9271.00
221_I225_I0.9231.00
37_D40_F0.9231.00
35_G45_S0.9161.00
159_F165_A0.9031.00
237_W241_K0.9001.00
238_C241_K0.8951.00
55_Q148_M0.8921.00
58_T169_S0.8751.00
77_F80_I0.8721.00
37_D42_G0.8641.00
164_V167_V0.8601.00
62_A149_G0.8571.00
97_V153_L0.8500.99
63_A152_G0.8480.99
104_Y146_V0.8450.99
147_M150_L0.8350.99
12_S57_L0.8330.99
16_M103_L0.8310.99
14_I18_V0.8250.99
218_L221_I0.8230.99
85_R243_D0.8190.99
128_K131_L0.8140.99
36_T40_F0.8100.99
29_R32_I0.8080.99
215_M223_I0.8010.99
89_F239_F0.8010.99
16_M57_L0.8010.99
150_L154_L0.7990.99
58_T152_G0.7980.99
156_S165_A0.7980.99
132_V136_A0.7970.99
21_F28_K0.7940.99
43_Y47_T0.7930.99
142_W146_V0.7920.99
176_A180_V0.7900.99
191_G194_L0.7900.99
234_V237_W0.7890.99
34_A38_E0.7890.99
176_A196_F0.7870.99
42_G48_P0.7830.99
35_G40_F0.7800.99
146_V228_A0.7780.99
135_L138_I0.7770.99
198_N223_I0.7760.99
66_V156_S0.7760.99
217_P220_S0.7750.99
4_F10_L0.7730.99
35_G38_E0.7720.99
44_L49_S0.7680.99
192_S198_N0.7610.99
108_Y138_I0.7580.99
77_F81_R0.7540.99
151_F172_V0.7530.99
160_R242_R0.7510.99
157_S239_F0.7450.99
57_L227_H0.7370.98
90_W232_I0.7320.98
99_V103_L0.7280.98
29_R33_S0.7220.98
29_R35_G0.7190.98
71_D161_N0.7170.98
71_D162_S0.7130.98
215_M218_L0.7120.98
33_S41_I0.7100.98
235_G239_F0.7090.98
44_L47_T0.7090.98
219_F223_I0.7030.98
29_R34_A0.6990.98
64_T162_S0.6960.98
56_A170_F0.6930.98
52_I174_Y0.6930.98
21_F113_L0.6880.98
34_A41_I0.6850.98
62_A154_L0.6850.98
220_S223_I0.6840.98
226_I229_I0.6840.98
180_V194_L0.6840.98
163_A166_V0.6820.98
114_F118_F0.6800.97
175_G178_T0.6760.97
6_R78_L0.6760.97
40_F43_Y0.6760.97
116_L120_G0.6730.97
9_T72_K0.6690.97
228_A232_I0.6680.97
36_T39_N0.6670.97
13_L103_L0.6660.97
162_S165_A0.6630.97
101_F139_G0.6600.97
104_Y108_Y0.6510.97
213_S216_T0.6470.97
71_D80_I0.6460.97
78_L82_P0.6440.96
138_I142_W0.6440.96
17_A110_L0.6440.96
34_A40_F0.6360.96
180_V183_M0.6360.96
94_I97_V0.6350.96
56_A173_L0.6330.96
42_G46_Y0.6310.96
97_V150_L0.6300.96
69_E75_I0.6280.96
23_M28_K0.6270.96
15_L181_Q0.6270.96
202_T206_S0.6270.96
85_R160_R0.6250.96
87_K91_S0.6250.96
197_A203_Q0.6240.96
215_M229_I0.6240.96
6_R159_F0.6230.96
45_S49_S0.6230.96
236_W240_C0.6210.96
64_T83_V0.6210.96
110_L113_L0.6170.96
134_T138_I0.6140.95
37_D43_Y0.6110.95
53_L91_S0.6100.95
38_E49_S0.6080.95
172_V176_A0.6080.95
161_N174_Y0.6050.95
38_E41_I0.6030.95
191_G196_F0.6020.95
64_T156_S0.6010.95
169_S173_L0.5990.95
159_F164_V0.5950.95
204_Y207_G0.5940.95
35_G39_N0.5930.94
215_M220_S0.5920.94
141_N199_T0.5900.94
74_T77_F0.5860.94
78_L97_V0.5850.94
42_G45_S0.5850.94
44_L48_P0.5840.94
24_A27_I0.5840.94
132_V137_L0.5820.94
35_G49_S0.5820.94
29_R36_T0.5790.94
9_T15_L0.5790.94
196_F199_T0.5780.94
191_G195_L0.5750.94
68_M107_Y0.5740.93
44_L181_Q0.5740.93
10_L234_V0.5730.93
228_A231_F0.5710.93
13_L102_Y0.5700.93
196_F200_D0.5690.93
60_V166_V0.5670.93
88_V239_F0.5670.93
104_Y142_W0.5650.93
193_F223_I0.5640.93
194_L198_N0.5630.93
51_N141_N0.5590.93
194_L200_D0.5590.93
237_W240_C0.5580.93
47_T116_L0.5580.93
8_V13_L0.5560.92
72_K162_S0.5550.92
16_M22_F0.5540.92
9_T25_L0.5540.92
178_T181_Q0.5530.92
24_A121_T0.5520.92
75_I239_F0.5500.92
55_Q145_A0.5500.92
236_W241_K0.5490.92
150_L153_L0.5480.92
155_C165_A0.5470.92
11_V14_I0.5470.92
158_L235_G0.5460.92
153_L156_S0.5460.92
67_S80_I0.5450.92
20_Q107_Y0.5440.92
68_M162_S0.5440.92
101_F104_Y0.5420.91
32_I38_E0.5370.91
59_I173_L0.5370.91
55_Q174_Y0.5370.91
104_Y110_L0.5350.91
143_L168_V0.5320.91
150_L228_A0.5320.91
56_A181_Q0.5320.91
203_Q206_S0.5310.91
63_A156_S0.5310.91
45_S51_N0.5300.90
32_I35_G0.5280.90
54_L145_A0.5280.90
63_A67_S0.5250.90
201_F205_R0.5240.90
88_V175_G0.5210.90
15_L233_V0.5190.90
215_M219_F0.5190.90
180_V186_F0.5170.89
23_M153_L0.5160.89
220_S224_L0.5160.89
57_L76_K0.5150.89
9_T99_V0.5140.89
95_T175_G0.5140.89
147_M227_H0.5140.89
189_K195_L0.5120.89
146_V150_L0.5090.89
7_K14_I0.5080.89
40_F49_S0.5070.88
34_A37_D0.5070.88
177_S183_M0.5070.88
13_L106_A0.5050.88
83_V91_S0.5040.88
36_T45_S0.5030.88
115_G220_S0.5020.88
21_F25_L0.5010.88
120_G123_V0.5010.88
12_S171_V0.5000.88
42_G47_T0.5000.88
69_E78_L0.5000.88
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  
4us3A 1 0.4309 10.2 0.93 Contact Map
1qleD 1 0.1748 4.6 0.941 Contact Map
1iijA 1 0.1423 4.1 0.942 Contact Map
3j2wE 1 0.187 4 0.942 Contact Map
2l2tA 2 0.1667 3.7 0.943 Contact Map
2mmuA 1 0.2033 3.4 0.944 Contact Map
2llmA 1 0.1748 2.9 0.947 Contact Map
3ar4A 1 0.2846 2.6 0.948 Contact Map
4c7rA 3 0.5813 2.3 0.949 Contact Map
2wswA 3 0.6423 2.2 0.95 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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