GREMLIN Database
TBPD - TATA-box-binding protein D
UniProt: O52018 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 186 (173)
Sequences: 541 (344)
Seq/√Len: 26.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
23_L28_L5.0191.00
54_S69_A4.2701.00
142_L145_P3.1511.00
59_F67_T3.0271.00
135_F152_F2.8781.00
42_F57_L2.8181.00
35_A45_V2.7310.99
42_F59_F2.6880.99
15_A75_V2.4100.99
54_S78_A2.3700.98
80_S84_E2.2930.98
150_L158_V2.2170.98
84_E87_R2.1970.97
147_V171_A2.0850.96
44_G154_S2.0750.96
67_T160_T2.0260.96
46_I59_F1.9500.95
105_V158_V1.9460.95
124_G140_Y1.9360.95
18_D98_P1.9340.95
36_E48_R1.8890.94
159_I168_A1.8550.93
12_N103_N1.8180.93
149_V175_I1.7600.91
46_I57_L1.7590.91
142_L175_I1.7500.91
26_E30_T1.7420.91
13_V75_V1.7400.91
54_S82_V1.7360.91
13_V71_S1.7120.90
124_G127_D1.6940.90
33_P40_G1.6670.89
149_V157_L1.6570.88
142_L174_I1.6320.88
19_L86_L1.6320.88
144_D170_H1.5540.85
47_Y58_I1.5490.85
132_P155_G1.4990.83
136_P152_F1.4890.82
119_I149_V1.4320.80
102_Q105_V1.4230.79
47_Y85_D1.4010.78
22_E60_D1.3860.77
110_L159_I1.3650.76
135_F150_L1.3310.75
17_T64_A1.3020.73
59_F65_V1.3010.73
57_L65_V1.2900.72
10_I20_S1.2820.72
21_Q91_I1.2630.71
44_G57_L1.2590.70
42_F103_N1.2190.68
15_A66_C1.2140.67
154_S179_L1.1890.66
11_E107_S1.1750.65
56_T82_V1.1690.64
42_F46_I1.1670.64
53_K146_D1.1660.64
20_S71_S1.1420.63
44_G59_F1.1300.62
109_S156_K1.1260.61
93_I151_L1.1180.61
62_G68_G1.1090.60
124_G129_E1.1030.60
105_V150_L1.1000.60
19_L83_V1.0980.59
120_A138_L1.0940.59
61_S131_E1.0910.59
54_S75_V1.0790.58
52_P145_P1.0760.58
50_D178_R1.0590.57
49_L107_S1.0390.55
131_E161_G1.0320.55
27_Q180_T1.0290.54
173_E181_D1.0290.54
103_N160_T1.0270.54
45_V168_A1.0230.54
137_G162_G1.0220.54
55_A59_F1.0210.54
48_R52_P1.0080.53
65_V107_S1.0060.53
23_L37_Y1.0050.53
8_I108_G1.0000.52
162_G171_A0.9960.52
139_V150_L0.9960.52
58_I136_P0.9790.51
117_N121_I0.9760.51
41_D45_V0.9750.50
120_A126_E0.9630.50
8_I172_L0.9610.49
124_G128_V0.9580.49
121_I126_E0.9490.49
24_A27_Q0.9490.49
115_N153_G0.9410.48
38_N113_D0.9400.48
46_I55_A0.9390.48
21_Q28_L0.9380.48
13_V91_I0.9270.47
137_G154_S0.9230.47
15_A43_P0.9200.46
43_P110_L0.9060.45
66_C175_I0.9040.45
55_A79_I0.9020.45
84_E94_P0.8970.45
124_G178_R0.8930.44
29_A86_L0.8880.44
157_L177_E0.8870.44
48_R90_G0.8840.44
9_Q70_Q0.8810.44
114_L151_L0.8770.43
68_G132_P0.8750.43
45_V126_E0.8650.42
29_A35_A0.8630.42
75_V78_A0.8600.42
104_I161_G0.8410.41
40_G159_I0.8370.40
61_S74_D0.8350.40
102_Q163_S0.8340.40
159_I172_L0.8310.40
68_G161_G0.8310.40
170_H173_E0.8250.40
24_A113_D0.8220.39
119_I138_L0.8190.39
66_C75_V0.8170.39
96_S99_V0.8160.39
10_I49_L0.8150.39
17_T111_D0.8080.38
57_L150_L0.8080.38
108_G168_A0.8080.38
11_E119_I0.8060.38
148_V160_T0.8040.38
41_D146_D0.8040.38
16_S46_I0.8020.38
27_Q181_D0.7970.38
82_V107_S0.7950.37
67_T102_Q0.7870.37
28_L36_E0.7820.37
71_S78_A0.7790.36
101_V151_L0.7740.36
71_S111_D0.7730.36
81_I85_D0.7730.36
35_A172_L0.7690.36
84_E178_R0.7680.36
59_F63_K0.7620.35
28_L45_V0.7580.35
89_L165_P0.7550.35
7_T169_H0.7510.34
45_V106_C0.7500.34
74_D173_E0.7490.34
31_D89_L0.7470.34
141_R154_S0.7420.34
10_I107_S0.7420.34
120_A171_A0.7400.34
127_D140_Y0.7300.33
137_G152_F0.7270.33
73_D174_I0.7200.32
39_P119_I0.7160.32
43_P115_N0.7150.32
79_I108_G0.7150.32
9_Q21_Q0.7130.32
129_E134_Q0.7100.32
53_K154_S0.7070.32
77_D81_I0.7070.32
12_N160_T0.7060.31
47_Y65_V0.7020.31
136_P140_Y0.7020.31
83_V164_N0.7000.31
38_N107_S0.6960.31
106_C110_L0.6940.31
99_V113_D0.6900.30
92_D106_C0.6880.30
63_K81_I0.6860.30
28_L47_Y0.6850.30
48_R102_Q0.6800.30
105_V135_F0.6770.30
126_E143_N0.6760.30
34_G48_R0.6750.30
22_E118_A0.6730.29
131_E137_G0.6720.29
74_D164_N0.6710.29
9_Q140_Y0.6710.29
31_D38_N0.6700.29
14_V42_F0.6690.29
120_A125_L0.6670.29
156_K161_G0.6640.29
169_H173_E0.6630.29
100_H148_V0.6610.29
156_K163_S0.6550.28
13_V144_D0.6530.28
27_Q31_D0.6520.28
35_A47_Y0.6490.28
102_Q136_P0.6380.27
49_L78_A0.6360.27
23_L56_T0.6350.27
38_N140_Y0.6350.27
58_I106_C0.6350.27
162_G165_P0.6350.27
8_I75_V0.6340.27
28_L82_V0.6330.27
40_G115_N0.6330.27
135_F156_K0.6310.27
77_D96_S0.6310.27
42_F70_Q0.6310.27
59_F64_A0.6290.27
47_Y55_A0.6250.27
125_L129_E0.6200.26
66_C69_A0.6160.26
64_A98_P0.6150.26
118_A121_I0.6110.26
141_R148_V0.6020.25
81_I177_E0.6020.25
68_G130_Y0.6010.25
64_A114_L0.6010.25
49_L59_F0.5950.25
56_T176_H0.5920.25
89_L92_D0.5900.25
29_A60_D0.5860.24
63_K103_N0.5840.24
91_I94_P0.5760.24
104_I147_V0.5760.24
157_L176_H0.5750.24
57_L135_F0.5720.24
26_E104_I0.5720.24
127_D153_G0.5700.23
61_S146_D0.5690.23
19_L176_H0.5680.23
137_G141_R0.5630.23
61_S147_V0.5630.23
22_E31_D0.5590.23
109_S141_R0.5590.23
33_P127_D0.5570.23
32_L82_V0.5570.23
14_V133_E0.5550.23
13_V157_L0.5540.23
51_D101_V0.5530.23
169_H181_D0.5520.23
103_N158_V0.5490.22
58_I72_V0.5470.22
10_I147_V0.5450.22
120_A181_D0.5400.22
91_I136_P0.5390.22
148_V153_G0.5390.22
83_V87_R0.5380.22
83_V88_D0.5350.22
14_V54_S0.5270.21
59_F135_F0.5270.21
137_G155_G0.5210.21
27_Q170_H0.5190.21
54_S172_L0.5170.21
41_D57_L0.5170.21
14_V136_P0.5160.21
130_Y155_G0.5140.21
130_Y141_R0.5130.21
84_E177_E0.5100.20
150_L156_K0.5090.20
105_V160_T0.5080.20
15_A116_L0.5070.20
79_I97_P0.5070.20
16_S19_L0.5050.20
125_L134_Q0.5000.20
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  
1rm1A 1 0.9677 100 0.064 Contact Map
4b0aA 1 0.9624 100 0.068 Contact Map
1ytbA 1 0.9677 100 0.074 Contact Map
3eikA 2 0.957 100 0.074 Contact Map
2z8uA 2 0.9462 100 0.121 Contact Map
1aisA 1 0.9677 100 0.121 Contact Map
1mp9A 2 0.9892 100 0.123 Contact Map
2d0bA 1 0.4247 91.2 0.916 Contact Map
3vn5A 1 0.3763 81 0.928 Contact Map
4py5A 1 0.3978 77.1 0.931 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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