GREMLIN Database
YWHD - Uncharacterized protein YwhD
UniProt: P70996 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 172 (163)
Sequences: 220 (128)
Seq/√Len: 10.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
75_N106_D5.4771.00
153_Q157_D4.4100.99
39_F48_F3.2360.95
85_T126_S3.1450.94
161_D165_T3.0460.93
67_L109_I2.9460.92
74_P106_D2.8630.91
35_I127_M2.5660.85
69_N72_E2.2530.77
121_N124_D2.1890.74
96_A129_R2.1880.74
99_T132_I2.1620.73
64_I116_L2.1460.73
98_V133_V2.0110.68
47_A143_V2.0050.68
154_G158_R1.9830.67
18_P23_G1.9200.64
137_D140_S1.9010.63
125_K130_K1.8470.61
68_P115_S1.8170.60
146_E150_K1.8110.59
162_E166_S1.7780.58
42_V78_P1.7490.56
106_D109_I1.7060.55
46_E59_T1.6390.51
152_D158_R1.6350.51
145_G149_K1.6330.51
123_M127_M1.6060.50
67_L72_E1.5940.49
115_S118_E1.5800.49
15_K33_D1.5370.47
15_K31_S1.5270.46
70_K104_T1.5240.46
91_E158_R1.5200.46
87_D129_R1.4970.45
142_R146_E1.4560.43
45_K139_S1.4370.42
74_P109_I1.4310.42
19_T23_G1.3760.40
23_G27_V1.3640.39
112_G121_N1.3230.37
85_T123_M1.3070.37
17_D21_G1.3040.36
51_I54_M1.2970.36
54_M126_S1.2960.36
63_G81_L1.2940.36
98_V131_I1.2920.36
66_F116_L1.2880.36
20_D85_T1.2850.36
16_S33_D1.2750.35
131_I160_S1.2370.34
36_S66_F1.2310.33
39_F81_L1.2190.33
75_N109_I1.2180.33
30_L110_R1.2060.32
67_L73_V1.2020.32
98_V123_M1.1990.32
35_I123_M1.1970.32
34_N100_A1.1930.32
110_R159_S1.1860.32
136_M140_S1.1780.31
39_F60_V1.1450.30
73_V106_D1.1410.30
25_F116_L1.1240.29
11_F79_Y1.1090.29
64_I76_G1.1010.28
73_V109_I1.0910.28
42_V143_V1.0890.28
104_T109_I1.0790.27
18_P27_V1.0670.27
89_K94_Y1.0640.27
14_I54_M1.0540.27
29_A127_M1.0510.26
149_K153_Q1.0470.26
76_G106_D1.0440.26
14_I18_P1.0370.26
63_G107_R1.0340.26
15_K18_P1.0290.26
30_L131_I1.0190.25
112_G124_D1.0190.25
116_L122_L1.0090.25
33_D86_I1.0060.25
70_K102_E1.0030.25
103_M129_R0.9860.24
152_D155_L0.9720.24
51_I127_M0.9700.24
72_E104_T0.9640.23
42_V45_K0.9620.23
68_P123_M0.9550.23
50_D60_V0.9480.23
25_F82_V0.9430.23
26_G53_A0.9370.23
14_I17_D0.9330.22
22_H56_A0.9250.22
125_K147_F0.9200.22
51_I129_R0.9200.22
15_K126_S0.9150.22
101_C159_S0.9100.22
38_V54_M0.9030.22
26_G39_F0.9020.21
138_D157_D0.8800.21
143_V147_F0.8750.21
134_D161_D0.8680.20
67_L74_P0.8640.20
11_F21_G0.8620.20
12_N45_K0.8520.20
16_S21_G0.8410.20
20_D126_S0.8370.20
30_L116_L0.8370.20
62_K124_D0.8210.19
110_R116_L0.8210.19
21_G125_K0.8200.19
139_S143_V0.8060.19
73_V104_T0.8050.19
43_E134_D0.8000.18
47_A86_I0.7980.18
27_V74_P0.7970.18
131_I165_T0.7970.18
56_A84_V0.7950.18
145_G164_K0.7920.18
40_V78_P0.7830.18
13_I123_M0.7790.18
70_K108_S0.7690.18
96_A131_I0.7680.18
68_P117_P0.7680.18
142_R145_G0.7670.18
70_K131_I0.7660.18
6_K152_D0.7660.18
31_S136_M0.7650.18
5_K16_S0.7610.17
78_P100_A0.7610.17
48_F59_T0.7570.17
81_L105_V0.7570.17
57_R140_S0.7560.17
161_D164_K0.7530.17
138_D166_S0.7500.17
74_P95_Y0.7500.17
125_K140_S0.7380.17
100_A135_K0.7380.17
64_I112_G0.7350.17
5_K8_S0.7350.17
81_L86_I0.7290.17
70_K75_N0.7290.17
159_S165_T0.7270.17
39_F105_V0.7260.17
8_S127_M0.7250.16
5_K10_G0.7220.16
29_A166_S0.7200.16
22_H65_K0.7200.16
109_I141_K0.7180.16
69_N129_R0.7120.16
89_K133_V0.7090.16
101_C124_D0.7080.16
9_I25_F0.7060.16
17_D93_P0.7050.16
159_S163_L0.7010.16
30_L86_I0.7000.16
16_S20_D0.6970.16
67_L104_T0.6970.16
37_P140_S0.6970.16
40_V100_A0.6940.16
88_R164_K0.6930.16
143_V146_E0.6860.16
52_G64_I0.6830.15
7_K74_P0.6750.15
15_K54_M0.6740.15
62_K139_S0.6730.15
134_D166_S0.6640.15
40_V161_D0.6630.15
74_P104_T0.6610.15
133_V166_S0.6510.15
64_I75_N0.6510.15
86_I89_K0.6470.15
70_K109_I0.6450.15
22_H63_G0.6420.14
122_L130_K0.6410.14
8_S94_Y0.6370.14
22_H123_M0.6350.14
11_F77_K0.6310.14
113_Y140_S0.6310.14
122_L135_K0.6290.14
18_P31_S0.6190.14
98_V160_S0.6170.14
131_I159_S0.6150.14
36_S49_V0.6080.14
79_Y93_P0.6080.14
12_N38_V0.6070.14
62_K110_R0.6060.14
15_K29_A0.6050.14
42_V63_G0.6050.14
63_G129_R0.6040.14
85_T113_Y0.6010.14
23_G155_L0.6000.14
133_V145_G0.6000.14
59_T63_G0.5930.13
21_G113_Y0.5910.13
29_A90_E0.5850.13
16_S127_M0.5840.13
157_D166_S0.5820.13
72_E118_E0.5780.13
66_F103_M0.5770.13
107_R166_S0.5700.13
37_P53_A0.5680.13
26_G58_S0.5670.13
27_V67_L0.5670.13
69_N96_A0.5620.13
101_C121_N0.5610.13
64_I122_L0.5590.13
9_I23_G0.5580.13
57_R117_P0.5580.13
27_V31_S0.5570.13
49_V157_D0.5550.13
56_A123_M0.5540.13
112_G116_L0.5500.13
81_L143_V0.5480.12
86_I133_V0.5470.12
123_M141_K0.5460.12
62_K78_P0.5420.12
11_F23_G0.5400.12
69_N138_D0.5400.12
40_V135_K0.5400.12
64_I108_S0.5370.12
10_G29_A0.5340.12
57_R125_K0.5330.12
65_K119_H0.5330.12
14_I106_D0.5320.12
65_K101_C0.5310.12
23_G29_A0.5290.12
9_I48_F0.5260.12
7_K73_V0.5250.12
54_M62_K0.5250.12
22_H64_I0.5240.12
132_I135_K0.5230.12
45_K143_V0.5230.12
13_I34_N0.5230.12
67_L75_N0.5210.12
56_A65_K0.5200.12
19_T25_F0.5200.12
12_N46_E0.5190.12
99_T129_R0.5180.12
25_F151_H0.5120.12
25_F58_S0.5040.12
21_G147_F0.5020.12
145_G162_E0.5000.12
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  
4tr3A 1 0.407 12.4 0.969 Contact Map
4ldaA 3 0.2733 10.5 0.97 Contact Map
1ud0A 4 0.3372 9.3 0.971 Contact Map
1y32A 1 0.1395 9.2 0.971 Contact Map
3fg6A 4 0.4884 7.6 0.972 Contact Map
4cvrA 2 0.5523 6.6 0.973 Contact Map
4gydA 1 0.4884 6.5 0.973 Contact Map
3da5A 2 0.25 6.2 0.973 Contact Map
2w9yA 1 0.314 6 0.973 Contact Map
4kbqD 1 0.3314 5.9 0.973 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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