GREMLIN Database
YDAV - Uncharacterized protein YdaV
UniProt: P77546 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13364
Length: 248 (210)
Sequences: 4765 (3577)
Seq/√Len: 246.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
122_G168_V4.4471.00
220_D236_S4.1601.00
122_G132_V3.5351.00
124_R127_K3.2081.00
118_A202_L2.9311.00
137_V169_L2.9231.00
124_R128_D2.7481.00
31_W34_W2.6401.00
73_F120_A2.5631.00
130_Q165_D2.5141.00
201_M222_M2.4171.00
192_R199_V2.4001.00
116_H120_A2.2831.00
118_A200_G2.2781.00
90_A121_I2.2221.00
52_Q56_E2.1271.00
87_L91_K2.1161.00
193_T224_M2.0421.00
165_D197_R2.0221.00
102_T228_R2.0041.00
174_I217_R2.0011.00
112_T232_F1.9851.00
133_I164_V1.9601.00
86_A90_A1.9101.00
134_V202_L1.9051.00
135_V161_L1.8961.00
105_A203_T1.8811.00
235_E240_N1.8721.00
159_R163_E1.8701.00
150_D153_S1.8621.00
118_A168_V1.8381.00
153_S156_K1.7821.00
26_K29_A1.7701.00
34_W38_E1.7541.00
46_I50_N1.7401.00
73_F94_A1.7381.00
54_R58_I1.7111.00
131_T165_D1.7091.00
64_I122_G1.6841.00
75_N116_H1.6711.00
141_M181_E1.6471.00
139_D191_R1.6371.00
96_E99_T1.6151.00
29_A34_W1.5841.00
49_Q53_L1.5641.00
89_Q228_R1.5321.00
27_T30_E1.5211.00
94_A124_R1.5181.00
167_L188_I1.4681.00
172_I201_M1.4621.00
189_V199_V1.4601.00
106_F230_V1.4511.00
32_R35_Q1.4301.00
112_T234_W1.4201.00
107_S203_T1.4021.00
206_N209_A1.3931.00
143_A161_L1.3661.00
73_F93_I1.3551.00
76_Y117_L1.3521.00
35_Q38_E1.3371.00
190_D194_A1.3271.00
76_Y116_H1.3041.00
136_T190_D1.2981.00
53_L56_E1.2881.00
106_F232_F1.2711.00
155_E159_R1.2461.00
94_A125_L1.2451.00
59_L126_L1.2351.00
92_S96_E1.2301.00
121_I200_G1.2291.00
71_C116_H1.2271.00
123_N127_K1.2151.00
99_T130_Q1.2131.00
72_S127_K1.2051.00
48_R52_Q1.1851.00
125_L166_L1.1771.00
162_C191_R1.1751.00
137_V172_I1.1711.00
143_A157_F1.1691.00
209_A212_T1.1271.00
147_S154_G1.1231.00
132_V168_V1.1191.00
33_E48_R1.1171.00
91_K95_D1.1131.00
25_F28_V1.1121.00
74_S124_R1.1061.00
109_K112_T1.1021.00
126_L132_V1.0971.00
85_Y92_S1.0951.00
92_S95_D1.0821.00
52_Q55_V1.0801.00
164_V167_L1.0771.00
32_R38_E1.0531.00
57_K61_R1.0521.00
93_I97_L1.0481.00
44_E48_R1.0481.00
29_A36_L1.0301.00
171_E202_L1.0261.00
169_L185_L1.0251.00
28_V32_R1.0251.00
148_Y154_G1.0171.00
28_V38_E1.0161.00
135_V143_A1.0121.00
131_T164_V1.0051.00
125_L130_Q1.0051.00
133_I160_E1.0051.00
42_R46_I1.0011.00
186_H190_D0.9991.00
136_T139_D0.9961.00
166_L198_S0.9941.00
116_H237_W0.9921.00
86_A117_L0.9871.00
29_A32_R0.9751.00
32_R37_S0.9751.00
161_L164_V0.9751.00
147_S157_F0.9621.00
28_V35_Q0.9571.00
59_L64_I0.9561.00
103_N198_S0.9541.00
80_N84_R0.9521.00
49_Q52_Q0.9501.00
55_V58_I0.9461.00
182_Q215_G0.9341.00
205_L209_A0.9171.00
64_I119_A0.9041.00
25_F29_A0.9021.00
178_T181_E0.9001.00
40_Q44_E0.8921.00
26_K34_W0.8891.00
34_W37_S0.8831.00
31_W35_Q0.8761.00
84_R92_S0.8730.99
146_A155_E0.8720.99
173_G204_N0.8670.99
157_F160_E0.8640.99
25_F34_W0.8640.99
44_E47_N0.8580.99
140_V188_I0.8570.99
135_V140_V0.8560.99
43_C47_N0.8490.99
158_L184_V0.8380.99
119_A123_N0.8370.99
207_Y229_W0.8330.99
98_M166_L0.8330.99
58_I131_T0.8240.99
107_S229_W0.8230.99
145_H178_T0.8200.99
96_E100_G0.8090.99
76_Y87_L0.8020.99
168_V202_L0.7960.99
104_F121_I0.7930.99
28_V33_E0.7930.99
235_E239_P0.7910.99
148_Y184_V0.7900.99
40_Q43_C0.7850.99
143_A160_E0.7780.99
78_V87_L0.7770.99
93_I104_F0.7770.99
33_E37_S0.7750.99
148_Y180_N0.7730.99
144_L157_F0.7720.99
237_W240_N0.7700.99
30_E33_E0.7670.99
223_T229_W0.7600.99
192_R197_R0.7580.99
56_E60_N0.7570.99
27_T35_Q0.7570.99
136_T186_H0.7560.99
25_F31_W0.7500.98
95_D124_R0.7500.98
77_Q80_N0.7480.98
55_V127_K0.7470.98
29_A38_E0.7460.98
134_V168_V0.7440.98
138_A187_Q0.7440.98
29_A35_Q0.7400.98
86_A230_V0.7390.98
142_S146_A0.7360.98
77_Q237_W0.7340.98
103_N226_G0.7340.98
41_K44_E0.7310.98
31_W38_E0.7310.98
26_K32_R0.7250.98
141_M145_H0.7240.98
119_A134_V0.7210.98
28_V34_W0.7190.98
72_S120_A0.7160.98
179_K183_V0.7140.98
191_R195_S0.7120.98
140_V161_L0.7110.98
89_Q92_S0.7090.98
51_R55_V0.7010.98
237_W241_V0.7000.98
53_L57_K0.6970.98
71_C119_A0.6950.97
137_V141_M0.6920.97
103_N227_G0.6880.97
26_K31_W0.6880.97
97_L104_F0.6880.97
91_K96_E0.6840.97
88_S92_S0.6830.97
65_Q190_D0.6810.97
171_E174_I0.6790.97
166_L200_G0.6780.97
97_L166_L0.6710.97
144_L154_G0.6680.97
72_S123_N0.6660.97
110_P211_K0.6620.97
89_Q93_I0.6620.97
63_G133_I0.6590.97
33_E36_L0.6570.96
41_K45_E0.6570.96
110_P220_D0.6550.96
84_R88_S0.6530.96
146_A150_D0.6470.96
71_C115_N0.6420.96
43_C46_I0.6410.96
210_M219_M0.6400.96
177_E181_E0.6390.96
73_F121_I0.6370.96
141_M180_N0.6360.96
95_D98_M0.6310.96
139_D162_C0.6310.96
219_M223_T0.6310.96
107_S207_Y0.6310.96
104_F200_G0.6300.96
172_I185_L0.6300.96
138_A188_I0.6290.95
27_T31_W0.6260.95
158_L162_C0.6250.95
83_Q86_A0.6230.95
25_F33_E0.6190.95
85_Y88_S0.6180.95
38_E47_N0.6170.95
175_Q214_L0.6170.95
115_N134_V0.6160.95
211_K216_E0.6130.95
223_T239_P0.6110.95
51_R54_R0.6110.95
183_V187_Q0.6110.95
145_H181_E0.6100.95
37_S41_K0.6090.95
85_Y89_Q0.6080.95
28_V31_W0.6050.94
117_L232_F0.6030.94
30_E34_W0.6020.94
95_D128_D0.5990.94
91_K94_A0.5990.94
109_K233_N0.5980.94
171_E175_Q0.5970.94
45_E49_Q0.5920.94
80_N83_Q0.5920.94
145_H149_D0.5910.94
28_V37_S0.5900.94
89_Q230_V0.5860.93
58_I130_Q0.5840.93
27_T34_W0.5830.93
99_T128_D0.5770.93
211_K219_M0.5730.93
136_T187_Q0.5710.93
147_S150_D0.5710.93
135_V139_D0.5700.92
50_N53_L0.5650.92
47_N51_R0.5640.92
31_W37_S0.5630.92
32_R36_L0.5630.92
50_N54_R0.5560.92
193_T214_L0.5540.91
90_A104_F0.5520.91
138_A142_S0.5520.91
66_P195_S0.5480.91
29_A33_E0.5430.91
26_K33_E0.5420.91
25_F32_R0.5390.90
210_M236_S0.5380.90
92_S97_L0.5370.90
103_N199_V0.5370.90
169_L189_V0.5370.90
27_T38_E0.5350.90
65_Q119_A0.5350.90
72_S75_N0.5330.90
118_A166_L0.5330.90
58_I61_R0.5300.90
142_S145_H0.5300.90
135_V164_V0.5290.89
137_V185_L0.5270.89
145_H184_V0.5260.89
137_V144_L0.5250.89
144_L188_I0.5250.89
79_Q83_Q0.5240.89
25_F30_E0.5230.89
154_G184_V0.5210.89
57_K60_N0.5210.89
208_E223_T0.5200.89
104_F166_L0.5190.89
46_I49_Q0.5180.88
174_I222_M0.5180.88
73_F76_Y0.5170.88
137_V181_E0.5170.88
90_A93_I0.5170.88
175_Q183_V0.5160.88
93_I198_S0.5160.88
164_V188_I0.5160.88
122_G126_L0.5160.88
26_K30_E0.5120.88
101_C197_R0.5120.88
107_S231_N0.5110.88
142_S187_Q0.5110.88
59_L127_K0.5080.87
204_N217_R0.5050.87
146_A149_D0.5050.87
173_G203_T0.5050.87
164_V192_R0.5040.87
59_L123_N0.5030.87
120_A123_N0.5000.87
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  
4m4wJ 3 0.9032 100 0.412 Contact Map
2qgzA 1 0.7137 100 0.429 Contact Map
2w58A 2 0.7379 100 0.491 Contact Map
3ec2A 1 0.6734 100 0.527 Contact Map
1l8qA 1 0.7177 99.9 0.607 Contact Map
2z4sA 1 0.7177 99.9 0.617 Contact Map
2vhjA 3 0.9315 99.9 0.635 Contact Map
3bosA 2 0.7016 99.9 0.639 Contact Map
2kjqA 1 0.5927 99.7 0.697 Contact Map
4blqA 3 0.9395 99.7 0.705 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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