GREMLIN Database
TBP - TATA-box-binding protein
UniProt: P58178 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 198 (174)
Sequences: 544 (346)
Seq/√Len: 26.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
27_L32_M5.2981.00
58_V73_A4.1101.00
144_M147_P3.2451.00
63_F71_T2.9901.00
137_F154_F2.9311.00
46_F63_F2.7310.99
19_A79_L2.4670.99
58_V82_A2.4320.99
39_I49_L2.4120.99
152_L160_V2.3100.98
71_T162_T2.2380.98
46_F61_L2.2300.98
40_E52_R2.1940.97
48_G156_S2.1900.97
16_N107_N2.1810.97
88_K91_K2.1380.97
149_V173_A2.0940.97
17_I75_S2.0520.96
50_I63_F1.9830.95
37_P44_D1.9780.95
144_M177_I1.9280.95
58_V86_I1.9130.94
84_K88_K1.8980.94
17_I79_L1.8620.93
22_T102_K1.8580.93
23_L90_L1.8360.93
144_M176_R1.8040.92
109_V160_V1.7830.92
161_I170_V1.7680.92
51_F62_I1.6810.89
30_Y34_R1.6220.88
151_L159_M1.5860.86
123_A151_L1.5380.85
26_S64_K1.5240.84
151_L177_I1.4850.82
106_Q109_V1.4760.82
50_I61_L1.4480.81
46_F107_N1.4320.80
138_P154_F1.3820.77
137_F152_L1.3740.77
61_L69_V1.3620.76
134_P157_G1.3310.75
114_L161_I1.3300.75
21_V68_M1.3120.74
19_A70_V1.2950.73
124_A140_L1.2930.73
58_V79_L1.2780.72
129_N142_F1.2760.72
156_S181_L1.2740.71
25_Q95_I1.2690.71
146_D172_K1.2490.70
69_V111_S1.2480.70
109_V152_L1.2410.69
72_G134_P1.2190.68
12_V174_V1.1690.65
23_L87_I1.1470.63
35_S93_Y1.1460.63
127_L142_F1.1460.63
55_Q96_K1.1450.63
45_Q49_L1.1390.63
63_F69_V1.1260.62
31_A182_A1.1200.61
15_E111_S1.1160.61
65_S133_E1.1140.61
75_S82_A1.1080.60
88_K98_V1.1010.60
51_F89_T1.0980.60
107_N162_T1.0940.59
119_N155_S1.0940.59
60_A86_I1.0860.59
139_G156_S1.0860.59
65_S78_E1.0840.59
54_E180_K1.0760.58
86_I111_S1.0720.58
97_I153_I1.0680.57
24_E75_S1.0660.57
49_L170_V1.0640.57
33_E39_I1.0560.57
16_N162_T1.0440.56
141_I152_L1.0390.55
125_F128_E1.0320.55
121_D125_F1.0320.55
159_M179_D1.0230.54
172_K175_K1.0190.54
48_G63_F1.0150.54
127_L136_Q1.0140.54
61_L152_L1.0100.53
79_L82_A1.0070.53
48_G61_L1.0070.53
70_V177_I1.0060.53
70_V79_L1.0050.53
113_N158_K1.0040.53
78_E166_R0.9990.52
14_I24_E0.9960.52
28_D31_A0.9890.52
85_R89_T0.9810.51
118_V153_I0.9780.51
53_L111_S0.9700.50
133_E163_G0.9650.50
46_F50_I0.9620.50
150_V162_T0.9590.49
128_E145_D0.9570.49
123_A140_L0.9440.48
72_G163_G0.9370.48
59_T83_V0.9320.47
49_L128_E0.9310.47
62_I138_P0.9210.47
100_K103_I0.9040.45
12_V112_A0.9020.45
47_P114_L0.8970.45
14_I53_L0.8920.45
112_A170_V0.8830.44
50_I59_T0.8700.43
20_T50_I0.8670.43
67_K107_N0.8630.42
25_Q93_Y0.8500.41
19_A47_P0.8500.41
146_D176_R0.8440.41
57_K148_R0.8420.41
21_V100_K0.8390.41
13_N142_F0.8370.41
17_I105_I0.8350.40
161_I174_V0.8310.40
14_I111_S0.8180.39
17_I146_D0.8150.39
32_M40_E0.8150.39
52_R106_Q0.8130.39
42_D117_N0.8100.39
164_A173_A0.8090.39
13_N74_K0.8090.39
52_R56_P0.8030.38
27_L93_Y0.8030.38
56_P147_P0.7990.38
59_T63_F0.7930.37
15_E123_A0.7860.37
158_K165_K0.7850.37
108_I163_G0.7850.37
49_L110_A0.7840.37
33_E90_L0.7810.37
35_S42_D0.7790.36
69_V82_A0.7780.36
57_K156_S0.7700.36
143_R156_S0.7700.36
60_A178_F0.7690.36
139_G164_A0.7620.35
65_S149_V0.7600.35
45_Q148_R0.7550.35
25_Q32_M0.7520.35
44_D119_N0.7410.34
143_R150_V0.7360.34
17_I159_M0.7310.33
53_L82_A0.7300.33
61_L137_F0.7250.33
43_P123_A0.7240.33
75_S115_H0.7230.33
139_G154_F0.7220.33
44_D161_I0.7200.32
21_V115_H0.7100.32
27_L41_Y0.7090.32
31_A35_S0.7030.31
159_M178_F0.7020.31
149_V164_A0.7000.31
122_K125_F0.6990.31
133_E143_R0.6980.31
126_L170_V0.6980.31
36_I122_K0.6960.31
74_K165_K0.6950.31
78_E175_K0.6940.31
81_K100_K0.6910.31
62_I110_A0.6900.31
25_Q98_V0.6890.30
108_I166_R0.6870.30
77_E176_R0.6840.30
85_R179_D0.6820.30
70_V73_A0.6780.30
105_I153_I0.6780.30
127_L131_M0.6770.30
46_F74_K0.6740.30
11_I171_S0.6730.29
133_E139_G0.6640.29
83_V112_A0.6610.29
23_L178_F0.6590.29
17_I95_I0.6530.28
81_K85_R0.6470.28
106_Q165_K0.6450.28
109_V137_F0.6440.28
47_P119_N0.6440.28
87_I91_K0.6440.28
75_S161_I0.6380.27
71_T106_Q0.6340.27
148_R153_I0.6320.27
106_Q138_P0.6290.27
65_S107_N0.6280.27
53_L63_F0.6250.27
33_E64_K0.6240.27
170_V182_A0.6210.26
131_M136_Q0.6200.26
75_S122_K0.6120.26
158_K163_G0.6070.26
164_A167_E0.6070.26
16_N132_Y0.6060.26
146_D180_K0.6040.25
107_N160_V0.6030.25
110_A170_V0.6010.25
124_A128_E0.5990.25
138_P142_F0.5960.25
26_S122_K0.5950.25
12_V79_L0.5940.25
152_L158_K0.5900.25
30_Y108_I0.5900.25
88_K180_K0.5870.24
28_D117_N0.5860.24
115_H179_D0.5850.24
26_S35_S0.5850.24
39_I174_V0.5830.24
62_I76_T0.5820.24
137_F158_K0.5810.24
20_T59_T0.5810.24
51_F83_V0.5770.24
87_I166_R0.5730.24
13_N88_K0.5720.24
87_I92_K0.5720.24
18_V135_E0.5700.24
130_N141_I0.5680.23
13_N25_Q0.5650.23
129_N155_S0.5650.23
37_P129_N0.5610.23
42_D111_S0.5610.23
171_S183_E0.5590.23
124_A173_A0.5580.23
66_G72_G0.5540.23
38_N52_R0.5530.23
73_A118_V0.5490.22
68_M76_T0.5490.22
21_V130_N0.5470.22
39_I126_L0.5470.22
63_F107_N0.5470.22
42_D60_A0.5470.22
171_S175_K0.5450.22
144_M153_I0.5450.22
70_V94_G0.5430.22
149_V176_R0.5370.22
91_K166_R0.5340.22
29_L153_I0.5330.22
134_P163_G0.5280.21
95_I138_P0.5260.21
147_P169_E0.5250.21
18_V46_F0.5220.21
22_T25_Q0.5200.21
103_I117_N0.5180.21
82_A160_V0.5160.21
63_F67_K0.5140.21
104_Q150_V0.5140.21
93_Y97_I0.5140.21
36_I51_F0.5100.20
150_V155_S0.5070.20
132_Y143_R0.5060.20
42_D142_F0.5040.20
12_V122_K0.5040.20
32_M86_I0.5020.20
51_F69_V0.5000.20
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  
4b0aA 1 0.899 100 0.095 Contact Map
1rm1A 1 0.904 100 0.101 Contact Map
3eikA 2 0.8939 100 0.101 Contact Map
1ytbA 1 0.904 100 0.113 Contact Map
1mp9A 2 0.9848 100 0.137 Contact Map
1aisA 1 0.9141 100 0.145 Contact Map
2z8uA 2 0.8889 100 0.147 Contact Map
2d0bA 1 0.4495 85.3 0.925 Contact Map
3vn5A 1 0.399 75.5 0.932 Contact Map
4py5A 1 0.3788 68.3 0.936 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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