GREMLIN Database
YTSP - Protein YtsP
UniProt: O34553 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 163 (150)
Sequences: 12072 (9984)
Seq/√Len: 815.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
97_R147_E3.5111.00
93_G123_R3.1831.00
39_A157_L3.1321.00
40_S53_A2.7271.00
88_T92_N2.6341.00
31_D34_A2.3931.00
44_Y53_A2.2021.00
95_V151_T2.1191.00
100_D103_A2.0951.00
99_E141_R2.0811.00
136_S140_N1.9711.00
122_I158_E1.8771.00
25_M38_N1.8601.00
12_E16_Q1.8371.00
64_Q78_R1.8191.00
41_A71_Q1.8071.00
89_A119_V1.8031.00
134_I150_L1.7511.00
52_W135_D1.7341.00
84_G87_G1.6811.00
21_Q42_L1.6761.00
120_L150_L1.6721.00
51_N137_P1.6431.00
118_I150_L1.6261.00
42_L45_H1.6071.00
144_E147_E1.5901.00
108_I111_D1.5591.00
143_D146_D1.5451.00
47_L50_V1.5431.00
44_Y71_Q1.5231.00
38_N42_L1.5221.00
123_R128_I1.4581.00
50_V134_I1.4581.00
120_L154_A1.4521.00
119_V133_D1.4211.00
114_S135_D1.3931.00
37_A41_A1.3811.00
90_Y128_I1.3671.00
59_K66_V1.3631.00
151_T155_E1.3551.00
22_L39_A1.3521.00
29_E34_A1.3331.00
32_Q161_L1.3331.00
147_E151_T1.3321.00
50_V142_F1.3191.00
54_G133_D1.3181.00
16_Q20_K1.3081.00
13_K16_Q1.3051.00
20_K23_E1.3021.00
100_D115_Q1.2831.00
13_K17_L1.2761.00
93_G128_I1.2661.00
95_V147_E1.2511.00
95_V120_L1.2361.00
25_M42_L1.2341.00
12_E15_Y1.2281.00
57_F129_V1.2281.00
102_N115_Q1.2271.00
33_I68_G1.2241.00
122_I130_G1.2121.00
58_A81_F1.2121.00
136_S142_F1.2061.00
43_L153_F1.1971.00
50_V136_S1.1901.00
15_Y145_I1.1711.00
81_F90_Y1.1601.00
41_A45_H1.1601.00
89_A96_E1.1331.00
88_T106_G1.1091.00
59_K62_D1.1071.00
53_A134_I1.1041.00
56_Y67_L1.1011.00
115_Q139_K1.0921.00
144_E148_K1.0671.00
23_E156_T1.0571.00
51_N136_S1.0531.00
97_R118_I1.0481.00
21_Q24_A1.0341.00
24_A27_E1.0311.00
58_A90_Y1.0211.00
11_K15_Y1.0171.00
118_I147_E1.0071.00
76_C80_P1.0061.00
88_T91_A0.9891.00
152_Q156_T0.9871.00
55_F122_I0.9741.00
92_N96_E0.9691.00
80_P83_R0.9611.00
43_L132_L0.9381.00
136_S141_R0.9361.00
66_V78_R0.9361.00
19_L149_Y0.9351.00
117_E133_D0.9331.00
11_K145_I0.9321.00
87_G91_A0.9141.00
99_E140_N0.9141.00
15_Y148_K0.9061.00
22_L153_F0.8931.00
42_L46_S0.8921.00
118_I142_F0.8901.00
58_A63_G0.8871.00
90_Y131_V0.8831.00
109_A112_A0.8781.00
107_H110_C0.8751.00
124_V127_K0.8711.00
12_E145_I0.8571.00
33_I37_A0.8541.00
24_A155_E0.8511.00
67_L70_F0.8441.00
132_L154_A0.8361.00
27_E156_T0.8261.00
21_Q25_M0.8231.00
100_D139_K0.8221.00
140_N146_D0.8171.00
20_K24_A0.8151.00
17_L21_Q0.8151.00
70_F73_L0.8111.00
122_I129_V0.8061.00
27_E155_E0.8051.00
43_L53_A0.8051.00
105_P109_A0.8001.00
116_S139_K0.7911.00
58_A62_D0.7901.00
124_V129_V0.7891.00
23_E27_E0.7841.00
154_A158_E0.7801.00
148_K151_T0.7791.00
29_E38_N0.7771.00
82_G85_V0.7631.00
21_Q45_H0.7611.00
30_T34_A0.7601.00
32_Q36_Y0.7601.00
43_L134_I0.7581.00
86_C131_V0.7561.00
119_V131_V0.7551.00
89_A95_V0.7511.00
107_H111_D0.7501.00
82_G87_G0.7501.00
36_Y55_F0.7391.00
38_N41_A0.7371.00
124_V158_E0.7351.00
85_V89_A0.7331.00
72_G75_A0.7311.00
122_I154_A0.7191.00
56_Y86_C0.7191.00
43_L157_L0.7171.00
57_F68_G0.7131.00
27_E30_T0.7081.00
29_E35_N0.6981.00
121_P128_I0.6961.00
56_Y133_D0.6961.00
43_L46_S0.6931.00
26_T159_K0.6861.00
94_K151_T0.6851.00
89_A131_V0.6721.00
78_R81_F0.6691.00
43_L50_V0.6681.00
83_R87_G0.6671.00
153_F157_L0.6651.00
89_A92_N0.6631.00
64_Q80_P0.6581.00
44_Y50_V0.6571.00
88_T96_E0.6551.00
132_L150_L0.6541.00
82_G86_C0.6541.00
11_K14_D0.6501.00
106_G111_D0.6501.00
79_I82_G0.6481.00
98_I104_F0.6471.00
142_F146_D0.6461.00
106_G110_C0.6451.00
105_P108_I0.6441.00
145_I148_K0.6421.00
58_A128_I0.6371.00
36_Y57_F0.6261.00
60_E63_G0.6221.00
11_K143_D0.6201.00
108_I112_A0.6201.00
93_G121_P0.6181.00
101_V117_E0.6131.00
32_Q35_N0.6111.00
116_S142_F0.6101.00
70_F75_A0.6091.00
120_L134_I0.6081.00
18_L42_L0.6061.00
69_P72_G0.6041.00
89_A94_K0.5991.00
64_Q67_L0.5941.00
116_S136_S0.5911.00
104_F107_H0.5911.00
82_G91_A0.5851.00
18_L153_F0.5841.00
88_T104_F0.5801.00
52_W56_Y0.5731.00
66_V69_P0.5681.00
152_Q155_E0.5671.00
39_A43_L0.5651.00
16_Q152_Q0.5641.00
148_K152_Q0.5631.00
56_Y131_V0.5621.00
40_S55_F0.5611.00
15_Y19_L0.5611.00
47_L146_D0.5591.00
97_R144_E0.5561.00
14_D17_L0.5541.00
117_E135_D0.5511.00
59_K63_G0.5511.00
123_R158_E0.5461.00
37_A71_Q0.5461.00
35_N39_A0.5451.00
106_G109_A0.5381.00
65_L72_G0.5351.00
17_L20_K0.5351.00
149_Y156_T0.5321.00
40_S69_P0.5311.00
23_E26_T0.5221.00
93_G126_G0.5181.00
35_N157_L0.5161.00
52_W114_S0.5131.00
47_L134_I0.5081.00
102_N113_A0.5081.00
37_A69_P0.5041.00
18_L46_S0.5011.00
155_E158_E0.5011.00
18_L23_E0.5001.00
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  
3mmhA 2 0.9939 99.8 0.203 Contact Map
1f5mA 3 0.9939 99.8 0.209 Contact Map
3p01A 2 0.9755 99.8 0.217 Contact Map
1vhmA 2 0.9325 99.8 0.221 Contact Map
3bjcA 1 0 99.8 0.228 Contact Map
2zmfA 2 0.9264 99.8 0.232 Contact Map
3kshA 2 0.9325 99.8 0.249 Contact Map
1ykdA 2 0.9939 99.8 0.258 Contact Map
3e0yA 2 0.8834 99.8 0.259 Contact Map
3trcA 2 0.9387 99.8 0.259 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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