GREMLIN Database
YCFP - UPF0227 protein YcfP
UniProt: P0A8E1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13434
Length: 180 (178)
Sequences: 115 (40)
Seq/√Len: 3.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
88_F166_I4.7830.85
96_E142_R4.3920.79
45_H48_K2.9870.48
44_Q103_D2.8940.46
125_D154_V2.8330.45
37_R44_Q2.7840.43
3_I48_K2.4970.36
10_S129_V2.4660.36
93_F96_E2.4400.35
88_F130_I2.2950.32
33_S84_R2.1450.29
20_L23_Q2.1300.28
19_V167_S2.1110.28
127_C166_I2.0950.28
93_F142_R2.0950.28
3_I20_L2.0940.28
44_Q74_A2.0650.27
65_C85_Q2.0170.26
160_T164_K1.9940.26
3_I65_C1.9680.25
37_R103_D1.9330.25
138_L142_R1.9290.24
88_F127_C1.8910.24
59_D62_P1.8510.23
32_I50_V1.8310.23
164_K167_S1.8280.23
140_S143_T1.8210.23
85_Q113_T1.8100.22
84_R124_R1.7240.21
9_D15_N1.6690.20
152_E175_A1.6160.19
87_I166_I1.5920.19
31_L166_I1.5900.19
162_K170_L1.5720.18
152_E172_R1.5680.18
71_G167_S1.5630.18
86_V130_I1.5560.18
23_Q41_H1.5480.18
55_Q84_R1.5480.18
53_M56_L1.5430.18
5_L64_I1.5010.17
165_N168_P1.4810.17
126_R140_S1.4790.17
87_I127_C1.4580.17
10_S53_M1.4570.17
103_D165_N1.4230.16
3_I164_K1.4120.16
63_L101_K1.3890.16
104_R155_W1.3690.16
3_I85_Q1.3560.15
12_S15_N1.3550.15
9_D12_S1.3550.15
9_D14_G1.3550.15
16_H23_Q1.3420.15
19_V81_C1.3300.15
62_P177_K1.3230.15
46_L104_R1.3130.15
23_Q46_L1.2810.14
126_R142_R1.2810.14
118_N122_K1.2720.14
65_C113_T1.2670.14
59_D177_K1.2390.14
51_D133_R1.2240.14
133_R157_E1.1850.13
86_V159_Q1.1820.13
162_K169_H1.1790.13
20_L167_S1.1750.13
20_L48_K1.1620.13
31_L146_E1.1590.13
32_I81_C1.1580.13
124_R137_A1.1440.13
19_V71_G1.1210.13
74_A101_K1.1080.12
53_M85_Q1.1000.12
10_S137_A1.0770.12
10_S65_C1.0770.12
3_I166_I1.0710.12
3_I19_V1.0670.12
81_C171_Q1.0640.12
154_V175_A1.0550.12
74_A103_D1.0520.12
48_K164_K1.0330.12
143_T153_I1.0300.12
23_Q44_Q1.0110.11
93_F146_E0.9990.11
159_Q165_N0.9920.11
150_Y154_V0.9880.11
116_V129_V0.9620.11
141_Q149_H0.9600.11
31_L126_R0.9600.11
54_L117_T0.9540.11
11_N159_Q0.9540.11
20_L81_C0.9490.11
57_N60_E0.9430.11
38_H155_W0.9330.11
121_E127_C0.9320.11
3_I81_C0.9290.11
3_I113_T0.9280.11
65_C171_Q0.9260.11
32_I126_R0.9170.10
37_R141_Q0.9090.10
53_M159_Q0.9060.10
65_C132_S0.9000.10
50_V168_P0.8980.10
126_R138_L0.8970.10
113_T117_T0.8860.10
144_S148_H0.8820.10
132_S169_H0.8700.10
3_I160_T0.8590.10
48_K167_S0.8550.10
55_Q72_Y0.8480.10
71_G172_R0.8470.10
33_S44_Q0.8430.10
46_L155_W0.8430.10
141_Q153_I0.8400.10
40_K62_P0.8360.10
85_Q144_S0.8310.10
15_N24_F0.8230.10
9_D24_F0.8230.10
130_I153_I0.8200.10
27_P33_S0.8120.10
127_C171_Q0.8110.10
58_V62_P0.8100.10
81_C143_T0.8100.10
79_F83_I0.8100.10
54_L172_R0.8090.10
52_K56_L0.8040.09
124_R142_R0.8030.09
48_K65_C0.8030.09
9_D169_H0.8020.09
15_N169_H0.8020.09
54_L118_N0.8000.09
118_N144_S0.8000.09
126_R152_E0.7900.09
14_G24_F0.7890.09
12_S24_F0.7890.09
9_D170_L0.7830.09
15_N162_K0.7830.09
15_N170_L0.7830.09
9_D162_K0.7830.09
20_L109_A0.7780.09
143_T146_E0.7780.09
145_E152_E0.7690.09
98_M108_Y0.7690.09
72_Y139_N0.7690.09
82_D125_D0.7610.09
95_Y141_Q0.7610.09
115_C120_R0.7600.09
107_E115_C0.7600.09
106_E115_C0.7600.09
31_L88_F0.7560.09
54_L85_Q0.7520.09
111_I115_C0.7300.09
50_V53_M0.7300.09
41_H65_C0.7290.09
124_R130_I0.7240.09
45_H146_E0.7220.09
97_N150_Y0.7220.09
62_P87_I0.7200.09
11_N93_F0.7190.09
44_Q165_N0.7170.09
31_L81_C0.7160.09
65_C83_I0.7120.09
77_I140_S0.7100.09
14_G170_L0.7080.09
12_S170_L0.7080.09
14_G162_K0.7080.09
12_S162_K0.7080.09
32_I117_T0.7050.09
117_T121_E0.6980.09
54_L84_R0.6970.09
130_I159_Q0.6860.09
124_R146_E0.6860.09
41_H45_H0.6770.08
77_I153_I0.6730.08
14_G18_K0.6710.08
12_S18_K0.6710.08
96_E138_L0.6690.08
107_E120_R0.6680.08
106_E120_R0.6680.08
129_V137_A0.6680.08
62_P176_F0.6660.08
160_T168_P0.6650.08
145_E175_A0.6610.08
50_V125_D0.6580.08
17_E132_S0.6570.08
96_E126_R0.6460.08
33_S109_A0.6450.08
8_F13_P0.6440.08
65_C143_T0.6420.08
124_R172_R0.6410.08
111_I120_R0.6410.08
107_E111_I0.6410.08
106_E111_I0.6410.08
127_C165_N0.6390.08
45_H72_Y0.6380.08
81_C109_A0.6350.08
142_R149_H0.6350.08
32_I56_L0.6320.08
93_F124_R0.6240.08
133_R149_H0.6190.08
27_P145_E0.6180.08
72_Y109_A0.6170.08
82_D150_Y0.6140.08
138_L143_T0.6120.08
128_L137_A0.6100.08
117_T129_V0.6090.08
51_D71_G0.6050.08
113_T118_N0.6050.08
10_S62_P0.6040.08
32_I53_M0.6030.08
31_L109_A0.6010.08
74_A138_L0.6010.08
150_Y165_N0.6000.08
109_A165_N0.5950.08
51_D109_A0.5890.08
132_S143_T0.5870.08
38_H175_A0.5840.08
79_F144_S0.5800.08
27_P149_H0.5790.08
99_E112_A0.5780.08
103_D128_L0.5760.08
81_C113_T0.5750.08
129_V174_K0.5730.08
23_Q104_R0.5720.08
32_I149_H0.5690.08
31_L37_R0.5680.08
51_D165_N0.5670.08
55_Q74_A0.5620.08
20_L71_G0.5600.08
88_F153_I0.5600.08
51_D87_I0.5580.08
20_L164_K0.5540.08
51_D125_D0.5520.08
88_F159_Q0.5520.08
3_I51_D0.5500.08
33_S165_N0.5500.08
5_L65_C0.5440.07
85_Q118_N0.5430.07
15_N18_K0.5420.07
9_D18_K0.5420.07
8_F30_R0.5410.07
164_K171_Q0.5350.07
95_Y157_E0.5330.07
25_I175_A0.5320.07
71_G164_K0.5280.07
3_I71_G0.5280.07
159_Q162_K0.5280.07
159_Q170_L0.5280.07
40_K93_F0.5280.07
20_L41_H0.5250.07
53_M144_S0.5230.07
3_I83_I0.5220.07
37_R139_N0.5220.07
72_Y178_T0.5200.07
110_D115_C0.5190.07
97_N174_K0.5180.07
52_K122_K0.5160.07
142_R146_E0.5150.07
57_N152_E0.5110.07
63_L176_F0.5100.07
67_V91_N0.5100.07
33_S173_I0.5080.07
10_S127_C0.5050.07
116_V125_D0.5040.07
135_D176_F0.5040.07
20_L85_Q0.5000.07
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  
4fleA 1 0.9667 97.6 0.927 Contact Map
3llcA 1 0.9889 96.6 0.938 Contact Map
2qjwA 2 0.8778 96.4 0.939 Contact Map
3pfbA 2 0.95 95.8 0.942 Contact Map
4f21A 1 0.8889 95.6 0.943 Contact Map
1auoA 2 0.8889 95.3 0.944 Contact Map
3qh4A 1 1 95.2 0.944 Contact Map
3fakA 1 1 95.2 0.945 Contact Map
3u0vA 1 0.9056 95.1 0.945 Contact Map
1ufoA 2 0.9833 95.1 0.945 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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