GREMLIN Database
YDBA - Uncharacterized protein YdbA
UniProt: P96596 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 272 (231)
Sequences: 653 (533)
Seq/√Len: 35.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
157_Y262_E6.7601.00
147_T248_T5.0231.00
148_L251_G4.6541.00
223_K226_Q3.7141.00
253_M256_K3.5351.00
123_A237_A3.5071.00
108_E252_M3.4541.00
164_E258_R3.2511.00
111_G248_T2.8881.00
164_E255_Y2.8231.00
191_H194_Q2.6071.00
228_V231_A2.5281.00
232_G236_G2.4961.00
107_A151_I2.4691.00
147_T151_I2.4581.00
127_V233_M2.4421.00
115_T245_N2.4301.00
124_T225_F2.3610.99
157_Y259_R2.3390.99
151_I251_G2.3270.99
148_L168_I2.3000.99
89_F94_D2.2570.99
139_A142_G2.2060.99
112_K116_N2.2040.99
100_L104_D2.1410.99
104_D155_Y2.1300.99
128_G132_T2.0480.99
226_Q232_G1.8660.97
126_G129_G1.8600.97
238_A242_S1.8580.97
158_D161_E1.8270.97
144_S247_I1.7830.96
107_A155_Y1.6320.94
171_C251_G1.5960.93
155_Y256_K1.5950.93
59_V238_A1.5550.92
155_Y164_E1.5540.92
36_P190_K1.5450.92
60_G64_Q1.5410.92
146_K150_D1.5320.92
82_K86_E1.5110.91
119_T241_R1.5060.91
111_G115_T1.4880.91
110_M154_A1.4690.90
168_I255_Y1.4530.89
120_V127_V1.4410.89
121_Q143_L1.4070.88
199_K204_Q1.3570.86
36_P39_L1.3520.86
115_T240_N1.3330.85
100_L167_F1.3070.84
107_A154_A1.2940.83
130_V133_L1.2900.83
171_C180_V1.2590.81
129_G226_Q1.2590.81
231_A234_V1.2570.81
101_P105_E1.2570.81
78_R81_Q1.2470.81
77_I124_T1.2430.81
94_D97_K1.2360.80
172_L233_M1.2310.80
35_L39_L1.2090.79
120_V124_T1.2080.79
129_G138_P1.2040.78
160_K191_H1.1990.78
147_T244_L1.1840.77
28_F31_K1.1620.76
171_C254_L1.1580.76
175_T250_T1.1550.75
122_G126_G1.1530.75
122_G236_G1.1460.75
75_Q98_A1.1390.74
31_K35_L1.1310.74
125_T137_I1.1290.74
187_Q191_H1.1280.74
59_V62_F1.1230.73
219_F224_L1.1220.73
98_A102_V1.1170.73
138_P145_L1.1090.72
145_L149_Q1.1070.72
114_R143_L1.1070.72
220_G232_G1.1040.72
85_P163_K1.0990.72
100_L185_I1.0960.71
164_E167_F1.0910.71
31_K38_Q1.0870.71
129_G236_G1.0840.71
30_E34_R1.0820.70
120_V210_E1.0790.70
136_D223_K1.0730.70
104_D107_A1.0680.69
104_D256_K1.0670.69
157_Y255_Y1.0620.69
143_L152_A1.0450.68
78_R157_Y1.0450.68
140_V175_T1.0440.68
127_V230_V1.0340.67
46_E148_L1.0270.66
208_W216_R1.0060.65
122_G240_N1.0060.65
89_F96_R1.0050.65
96_R263_R1.0040.65
111_G241_R1.0020.64
106_I143_L0.9960.64
51_K54_K0.9940.64
152_A204_Q0.9910.64
199_K202_A0.9840.63
111_G151_I0.9810.63
59_V63_V0.9790.63
74_K228_V0.9740.62
90_E93_E0.9720.62
81_Q85_P0.9680.62
124_T147_T0.9600.61
30_E37_F0.9560.61
212_V216_R0.9470.60
49_Q120_V0.9460.60
130_V227_I0.9430.60
175_T247_I0.9410.59
191_H195_D0.9380.59
61_S75_Q0.9330.59
39_L42_K0.9190.58
117_A143_L0.9190.58
103_M175_T0.9170.57
67_G70_L0.9130.57
163_K194_Q0.9050.56
98_A120_V0.9040.56
63_V67_G0.8930.55
73_E231_A0.8930.55
215_Y227_I0.8910.55
171_C232_G0.8830.55
111_G252_M0.8820.55
81_Q94_D0.8790.54
129_G145_L0.8760.54
145_L230_V0.8760.54
230_V234_V0.8750.54
128_G240_N0.8730.54
138_P223_K0.8720.54
76_I140_V0.8710.54
65_T69_Y0.8680.53
186_L190_K0.8650.53
153_V159_P0.8560.52
28_F104_D0.8560.52
165_R238_A0.8550.52
205_I210_E0.8490.52
223_K240_N0.8480.52
170_K188_E0.8400.51
55_L194_Q0.8400.51
48_I54_K0.8370.51
148_L263_R0.8320.50
112_K228_V0.8300.50
29_W32_L0.8280.50
36_P186_L0.8250.50
59_V111_G0.8240.50
89_F95_I0.8240.50
54_K94_D0.8230.49
38_Q48_I0.8180.49
34_R39_L0.8180.49
186_L189_L0.8170.49
97_K106_I0.8150.49
63_V145_L0.8140.49
212_V215_Y0.8130.49
89_F113_N0.8120.49
89_F110_M0.8100.48
138_P175_T0.8100.48
212_V220_G0.8040.48
91_S94_D0.8020.48
211_V218_T0.8000.48
33_S36_P0.7940.47
109_G112_K0.7930.47
50_K61_S0.7920.47
101_P104_D0.7870.46
223_K256_K0.7820.46
100_L136_D0.7790.46
41_D168_I0.7770.46
118_A208_W0.7750.45
212_V232_G0.7750.45
135_A237_A0.7740.45
92_L100_L0.7730.45
147_T249_E0.7680.45
160_K193_D0.7670.45
138_P189_L0.7670.45
233_M239_A0.7640.44
208_W215_Y0.7630.44
118_A143_L0.7560.44
78_R260_I0.7560.44
173_Q177_A0.7520.43
86_E90_E0.7460.43
126_G138_P0.7450.43
175_T213_L0.7450.43
141_L190_K0.7450.43
123_A158_D0.7450.43
145_L226_Q0.7440.43
131_F231_A0.7430.43
113_N185_I0.7420.43
139_A231_A0.7400.42
202_A205_I0.7360.42
196_R231_A0.7340.42
37_F41_D0.7330.42
29_W151_I0.7330.42
216_R220_G0.7320.42
86_E211_V0.7320.42
74_K171_C0.7310.42
165_R247_I0.7290.41
129_G229_P0.7270.41
118_A217_D0.7240.41
51_K70_L0.7230.41
247_I256_K0.7200.41
58_E66_G0.7150.40
157_Y258_R0.7150.40
147_T225_F0.7140.40
104_D141_L0.7110.40
74_K87_E0.7040.39
75_Q179_V0.7040.39
48_I51_K0.7020.39
171_C236_G0.6990.39
77_I92_L0.6990.39
215_Y220_G0.6980.39
108_E113_N0.6970.39
118_A123_A0.6930.39
165_R217_D0.6910.38
217_D240_N0.6900.38
48_I250_T0.6900.38
76_I166_V0.6820.38
93_E198_Y0.6780.37
62_F231_A0.6770.37
129_G233_M0.6730.37
80_F89_F0.6730.37
33_S171_C0.6720.37
167_F175_T0.6710.37
94_D102_V0.6710.37
81_Q196_R0.6700.37
55_L184_S0.6700.37
108_E198_Y0.6700.37
93_E120_V0.6700.37
176_S240_N0.6680.37
50_K247_I0.6670.36
99_P234_V0.6660.36
35_L38_Q0.6650.36
102_V263_R0.6640.36
100_L244_L0.6620.36
80_F239_A0.6610.36
80_F211_V0.6600.36
167_F258_R0.6580.36
89_F112_K0.6540.35
35_L41_D0.6530.35
257_K261_L0.6510.35
137_I214_G0.6480.35
132_T228_V0.6450.35
47_F52_I0.6430.35
115_T243_T0.6410.34
76_I172_L0.6410.34
66_G69_Y0.6380.34
114_R150_D0.6380.34
103_M259_R0.6370.34
81_Q110_M0.6370.34
136_D156_G0.6360.34
69_Y259_R0.6330.34
78_R160_K0.6330.34
123_A171_C0.6330.34
232_G258_R0.6310.34
55_L150_D0.6310.34
222_K246_D0.6300.34
41_D145_L0.6290.33
222_K226_Q0.6250.33
125_T139_A0.6250.33
149_Q170_K0.6240.33
97_K101_P0.6240.33
63_V118_A0.6220.33
169_V240_N0.6190.33
74_K82_K0.6190.33
62_F152_A0.6180.33
169_V226_Q0.6180.33
131_F224_L0.6080.32
109_G140_V0.6070.32
146_K237_A0.6050.32
176_S215_Y0.6020.31
257_K260_I0.5980.31
57_D183_R0.5980.31
131_F134_A0.5930.31
140_V243_T0.5920.31
56_L64_Q0.5910.31
136_D140_V0.5910.31
119_T219_F0.5890.30
30_E234_V0.5880.30
93_E230_V0.5880.30
152_A168_I0.5870.30
36_P132_T0.5860.30
137_I196_R0.5820.30
80_F98_A0.5810.30
140_V223_K0.5810.30
65_T209_R0.5800.30
203_S207_G0.5790.30
129_G232_G0.5750.29
144_S243_T0.5740.29
254_L260_I0.5740.29
114_R137_I0.5730.29
125_T175_T0.5720.29
88_I94_D0.5710.29
106_I109_G0.5710.29
250_T254_L0.5700.29
73_E233_M0.5700.29
151_I171_C0.5690.29
61_S230_V0.5690.29
144_S208_W0.5680.29
51_K181_G0.5680.29
107_A255_Y0.5660.29
209_R213_L0.5630.29
148_L165_R0.5620.29
121_Q139_A0.5610.28
30_E51_K0.5590.28
155_Y235_F0.5590.28
172_L241_R0.5540.28
50_K163_K0.5530.28
174_L185_I0.5470.28
107_A221_W0.5470.28
127_V130_V0.5440.27
213_L217_D0.5440.27
88_I104_D0.5430.27
115_T172_L0.5420.27
53_G233_M0.5400.27
193_D197_T0.5390.27
61_S105_E0.5390.27
225_F228_V0.5370.27
82_K109_G0.5320.27
139_A168_I0.5300.26
207_G212_V0.5290.26
52_I133_L0.5250.26
56_L73_E0.5250.26
68_Q79_M0.5230.26
76_I99_P0.5200.26
129_G150_D0.5170.26
45_P195_D0.5130.25
74_K77_I0.5120.25
145_L206_Q0.5110.25
73_E77_I0.5110.25
122_G156_G0.5090.25
40_L230_V0.5080.25
160_K180_V0.5050.25
123_A225_F0.5050.25
208_W226_Q0.5040.25
218_T260_I0.5040.25
133_L149_Q0.5030.25
93_E163_K0.5010.24
219_F247_I0.5010.24
76_I125_T0.5000.24
55_L67_G0.5000.24
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  
2qneA 2 0.2463 12.7 0.959 Contact Map
4pt2P 11 0.2904 6.2 0.964 Contact Map
1w53A 2 0.2721 5.8 0.965 Contact Map
4yycA 2 0.2279 5.2 0.966 Contact Map
1rh5B 1 0.2059 4.7 0.966 Contact Map
3sjqC 1 0.1176 4.5 0.967 Contact Map
3dktA 6 0.2941 3.7 0.968 Contact Map
3oq9A 3 0.1985 3.6 0.968 Contact Map
2j6yA 2 0.2831 3.4 0.968 Contact Map
1hgvA 8 0.1691 3.2 0.969 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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