GREMLIN Database
YIZB - Putative DNA-binding protein YizB
UniProt: C0H3Y4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 115 (101)
Sequences: 3152 (2080)
Seq/√Len: 206.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_P70_F3.9591.00
104_H108_L3.5651.00
68_E84_K2.9301.00
66_W92_M2.8381.00
28_R90_E2.7621.00
33_Y82_Y2.4611.00
65_G88_K2.1921.00
20_E60_R2.0481.00
31_P84_K2.0421.00
92_M95_E1.9211.00
31_P72_E1.9111.00
71_W79_K1.9021.00
70_F84_K1.8401.00
40_S43_T1.8271.00
22_A107_L1.8241.00
23_I57_I1.7921.00
26_L32_M1.7911.00
30_K40_S1.7361.00
85_M90_E1.6861.00
21_L96_R1.6731.00
87_Q90_E1.6691.00
27_L32_M1.6661.00
30_K36_E1.5701.00
32_M40_S1.5391.00
22_A110_L1.5231.00
32_M36_E1.4621.00
52_G56_P1.4491.00
88_K91_E1.4031.00
13_Q16_K1.3801.00
36_E40_S1.3521.00
42_K48_A1.3391.00
28_R93_L1.2971.00
34_G58_L1.2801.00
20_E57_I1.2711.00
21_L111_S1.2401.00
25_S111_S1.2211.00
91_E95_E1.2041.00
61_M66_W1.2011.00
19_F49_I1.2001.00
62_T69_F1.1981.00
62_T67_I1.1951.00
94_K97_L1.1871.00
25_S97_L1.1531.00
22_A41_L1.1451.00
40_S44_T1.1421.00
94_K98_E1.1161.00
93_L97_L1.1071.00
73_D79_K1.1041.00
33_Y36_E1.1021.00
97_L111_S1.0861.00
27_L67_I1.0421.00
74_S78_P1.0241.00
28_R97_L1.0031.00
68_E86_T0.9981.00
71_W81_K0.9761.00
105_Q109_S0.9691.00
96_R99_K0.9601.00
90_E94_K0.9601.00
25_S93_L0.9570.99
66_W88_K0.9450.99
44_T109_S0.9220.99
32_M37_L0.9220.99
41_L49_I0.8850.99
29_S43_T0.8830.99
92_M96_R0.8740.99
102_E105_Q0.8250.98
25_S28_R0.8250.98
101_L108_L0.8230.98
20_E64_K0.8220.98
98_E102_E0.8200.98
38_T54_I0.8100.98
101_L104_H0.8040.98
46_A106_A0.7940.98
97_L101_L0.7940.98
91_E105_Q0.7830.98
77_G80_R0.7810.98
91_E94_K0.7810.98
59_K67_I0.7760.98
57_I96_R0.7460.97
101_L105_Q0.7430.97
72_E75_L0.7190.96
87_Q91_E0.7110.96
38_T50_S0.7090.96
39_S42_K0.7050.96
14_F74_S0.6960.96
59_K63_E0.6940.96
100_Y108_L0.6940.96
14_F18_I0.6930.96
29_S40_S0.6800.95
29_S44_T0.6700.95
46_A102_E0.6650.95
38_T58_L0.6620.94
65_G105_Q0.6590.94
15_R96_R0.6540.94
74_S80_R0.6500.94
88_K92_M0.6480.94
100_Y104_H0.6430.93
50_S54_I0.6420.93
56_P81_K0.6390.93
34_G69_F0.6370.93
52_G81_K0.6310.93
18_I107_L0.6240.92
100_Y107_L0.6220.92
42_K45_S0.6160.92
43_T95_E0.6110.92
17_G53_A0.6070.91
73_D78_P0.6050.91
38_T57_I0.6050.91
70_F82_Y0.6040.91
14_F110_L0.6000.91
34_G83_Y0.5990.91
22_A103_T0.5940.91
64_K92_M0.5930.90
91_E98_E0.5890.90
19_F58_L0.5810.90
13_Q71_W0.5790.89
103_T111_S0.5760.89
49_I53_A0.5750.89
98_E108_L0.5640.88
25_S29_S0.5610.88
32_M47_L0.5590.88
39_S51_E0.5570.88
21_L49_I0.5560.87
68_E88_K0.5540.87
19_F52_G0.5510.87
52_G59_K0.5500.87
15_R47_L0.5500.87
59_K78_P0.5450.86
98_E101_L0.5400.86
105_Q110_L0.5380.86
65_G98_E0.5360.85
88_K95_E0.5350.85
41_L56_P0.5310.85
22_A44_T0.5260.84
16_K22_A0.5230.84
51_E83_Y0.5220.84
67_I83_Y0.5210.84
18_I23_I0.5190.84
74_S79_K0.5160.83
11_I53_A0.5160.83
23_I104_H0.5150.83
95_E98_E0.5140.83
26_L40_S0.5140.83
73_D77_G0.5130.83
59_K62_T0.5100.83
26_L30_K0.5080.82
52_G74_S0.5070.82
72_E77_G0.5070.82
17_G107_L0.5050.82
33_Y80_R0.5030.82
38_T52_G0.5010.81
95_E101_L0.5000.81
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  
1bm9A 2 0.9739 100 0.323 Contact Map
2rkhA 2 0.8087 99.8 0.48 Contact Map
2zfwA 2 0.913 99.8 0.496 Contact Map
2e1nA 2 0.9217 99.8 0.51 Contact Map
1xmaA 2 0.887 99.7 0.531 Contact Map
3l9fA 2 0.8348 99.7 0.532 Contact Map
2eshA 2 0.913 99.7 0.541 Contact Map
2dqlA 2 0.9478 99.7 0.544 Contact Map
4ejoA 2 0.9739 99.7 0.547 Contact Map
3hhhA 2 0.9043 99.7 0.562 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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