GREMLIN Database
YCBP - Uncharacterized protein YcbP
UniProt: P42248 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 128 (118)
Sequences: 190 (160)
Seq/√Len: 14.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
13_M103_G5.8711.00
64_A67_G4.4351.00
3_H45_Y3.9881.00
66_F101_A2.9460.97
23_G26_F2.7220.96
15_I95_F2.6990.96
37_T41_G2.3060.90
41_G103_G2.2120.88
11_G37_T2.1430.86
52_V61_A1.9660.81
90_A95_F1.9170.79
39_V43_I1.8510.77
58_N106_C1.7390.72
39_V71_L1.7170.71
53_L57_N1.7120.71
43_I99_V1.7060.71
11_G41_G1.6770.69
3_H58_N1.6070.66
95_F111_M1.4990.60
21_V30_F1.4770.59
48_G62_T1.4760.59
88_E113_S1.4640.58
6_A115_E1.4540.58
69_A97_A1.3800.54
61_A65_D1.3710.53
94_L98_I1.3700.53
40_L72_V1.3380.51
27_G37_T1.3330.51
6_A116_I1.3060.50
71_L119_K1.2890.49
22_L40_L1.2700.48
16_I28_F1.2630.47
31_G42_V1.2510.47
42_V63_L1.2450.46
110_Y115_E1.2420.46
40_L99_V1.1910.43
73_I96_G1.1790.43
2_T101_A1.1740.42
36_M70_F1.1690.42
22_L56_W1.1630.42
4_V63_L1.1590.42
98_I105_Y1.1500.41
7_L67_G1.1310.40
73_I115_E1.1230.40
93_A97_A1.0950.38
17_V28_F1.0920.38
9_I12_I1.0890.38
6_A13_M1.0690.37
14_T101_A1.0640.37
23_G33_T1.0610.36
35_L75_L1.0510.36
34_L96_G1.0480.36
102_I119_K1.0310.35
57_N112_M1.0110.34
89_V93_A1.0110.34
69_A101_A1.0040.33
2_T72_V0.9960.33
2_T69_A0.9790.32
41_G110_Y0.9670.32
12_I117_G0.9670.32
36_M73_I0.9560.31
11_G34_L0.9510.31
30_F40_L0.9380.30
17_V93_A0.9290.30
56_W60_I0.9260.30
31_G34_L0.9220.30
39_V76_M0.9200.29
27_G88_E0.8980.28
92_A107_F0.8970.28
14_T17_V0.8970.28
5_K12_I0.8950.28
36_M89_V0.8870.28
26_F89_V0.8860.28
13_M16_I0.8840.28
47_L119_K0.8830.28
12_I38_I0.8740.27
98_I106_C0.8600.27
24_L54_P0.8540.27
1_M18_L0.8500.26
116_I119_K0.8350.26
82_M99_V0.8330.26
23_G51_Y0.8260.25
74_W97_A0.8240.25
21_V91_L0.8220.25
27_G106_C0.8190.25
25_G37_T0.8150.25
2_T102_I0.8120.25
58_N61_A0.8120.25
65_D104_E0.8110.25
41_G57_N0.8090.25
14_T37_T0.8030.24
80_L96_G0.7930.24
25_G29_T0.7920.24
38_I63_L0.7900.24
80_L88_E0.7890.24
50_L71_L0.7840.24
44_S69_A0.7750.23
17_V35_L0.7720.23
19_Y37_T0.7710.23
7_L113_S0.7640.23
30_F64_A0.7530.22
20_L27_G0.7480.22
48_G58_N0.7410.22
41_G44_S0.7380.22
17_V103_G0.7350.22
31_G63_L0.7310.22
41_G87_G0.7310.22
47_L74_W0.7240.21
46_L72_V0.7190.21
8_A54_P0.7150.21
7_L30_F0.7140.21
53_L105_Y0.7110.21
76_M109_F0.7100.21
43_I88_E0.7070.21
2_T105_Y0.7000.20
99_V113_S0.6980.20
18_L73_I0.6980.20
18_L36_M0.6980.20
20_L68_L0.6870.20
67_G114_K0.6870.20
2_T5_K0.6830.20
26_F91_L0.6820.20
8_A78_M0.6800.20
115_E118_K0.6760.20
66_F93_A0.6750.19
70_F76_M0.6600.19
79_P94_L0.6490.19
70_F90_A0.6430.18
69_A110_Y0.6420.18
6_A82_M0.6400.18
73_I112_M0.6390.18
35_L70_F0.6340.18
27_G63_L0.6320.18
73_I116_I0.6280.18
44_S101_A0.6270.18
8_A69_A0.6240.18
9_I114_K0.6190.18
42_V111_M0.6180.18
17_V70_F0.6160.18
39_V50_L0.6150.17
12_I69_A0.6140.17
18_L107_F0.6120.17
14_T19_Y0.6020.17
7_L56_W0.6010.17
16_I57_N0.5940.17
56_W87_G0.5910.17
25_G80_L0.5890.17
51_Y77_G0.5870.17
24_L63_L0.5840.17
15_I28_F0.5830.16
27_G43_I0.5810.16
33_T69_A0.5810.16
77_G80_L0.5810.16
34_L69_A0.5780.16
74_W114_K0.5740.16
25_G39_V0.5730.16
11_G14_T0.5590.16
13_M92_A0.5580.16
42_V109_F0.5560.16
3_H52_V0.5530.16
43_I47_L0.5520.16
86_G90_A0.5500.15
55_K103_G0.5480.15
90_A97_A0.5420.15
2_T59_M0.5420.15
74_W100_M0.5330.15
71_L74_W0.5310.15
38_I119_K0.5280.15
2_T116_I0.5260.15
52_V60_I0.5260.15
54_P65_D0.5230.15
15_I33_T0.5180.15
23_G28_F0.5110.14
11_G26_F0.5090.14
28_F76_M0.5080.14
93_A101_A0.5000.14
82_M102_I0.5000.14
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  
1ciiA 1 0.4453 32.9 0.923 Contact Map
1ldfA 3 0.7812 21.5 0.93 Contact Map
3c02A 3 0.8203 18.7 0.932 Contact Map
2b6oA 6 0.7812 16.5 0.934 Contact Map
3vouA 4 0.8125 14.8 0.935 Contact Map
3pjsK 4 0.8047 11.5 0.938 Contact Map
4lp8A 4 0.8281 10.6 0.939 Contact Map
4oj2X 3 0.8984 10.1 0.94 Contact Map
1lnqA 6 0.5781 9.5 0.94 Contact Map
2qksA 4 0.7344 9.5 0.94 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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