GREMLIN Database
YDHJ - Uncharacterized protein YdhJ
UniProt: O05502 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 325 (275)
Sequences: 1720 (1175)
Seq/√Len: 70.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_L70_Q4.2431.00
61_K70_Q3.3891.00
63_L145_A3.3471.00
20_L71_I3.2731.00
75_L78_V3.2211.00
23_S115_I3.0961.00
247_S252_V3.0911.00
60_I73_G3.0741.00
30_K50_Y3.0691.00
218_A256_L3.0461.00
258_S263_I2.9461.00
151_T198_E2.8401.00
27_Q30_K2.7061.00
24_A111_E2.5671.00
19_E118_K2.5551.00
81_T87_V2.4311.00
198_E203_F2.4221.00
31_G236_T2.4031.00
101_N105_Q2.3411.00
59_L145_A2.3111.00
245_R260_H2.2231.00
112_I116_L2.1651.00
6_I44_K2.1411.00
173_L182_P2.1171.00
113_P117_Q2.1061.00
217_R220_K2.0881.00
254_S258_S2.0581.00
4_S10_Q2.0101.00
9_G167_Q1.9851.00
7_I156_Y1.9801.00
17_L57_M1.9641.00
249_N252_V1.9421.00
56_V73_G1.9161.00
38_S208_N1.9151.00
57_M70_Q1.9141.00
40_L211_G1.8871.00
182_P188_A1.8491.00
80_H99_H1.8361.00
8_Y152_L1.8291.00
22_K30_K1.8251.00
77_D146_D1.8151.00
214_Y265_V1.8091.00
76_H146_D1.7681.00
257_T263_I1.7671.00
236_T245_R1.7501.00
21_I26_V1.7411.00
211_G264_Q1.7291.00
168_T205_N1.7091.00
47_V154_D1.6931.00
262_G266_I1.6881.00
56_V145_A1.6701.00
257_T261_P1.6420.99
111_E116_L1.6370.99
6_I156_Y1.6190.99
20_L75_L1.6030.99
229_S232_D1.5780.99
62_K167_Q1.5620.99
3_I43_R1.4830.99
46_N51_E1.4770.99
112_I115_I1.4500.99
66_T170_L1.4430.99
158_Y202_F1.4420.99
122_H125_E1.4330.99
75_L107_I1.4320.99
58_L62_K1.4270.98
236_T239_E1.4040.98
120_G123_T1.3940.98
198_E202_F1.3880.98
63_L173_L1.3880.98
172_H184_S1.3760.98
100_E147_R1.3720.98
71_I116_L1.3680.98
160_H198_E1.3470.98
168_T262_G1.3450.98
13_I17_L1.3360.98
76_H80_H1.3290.98
214_Y264_Q1.3020.97
115_I119_H1.3000.97
152_L166_A1.2980.97
17_L71_I1.2920.97
272_Y276_Q1.2870.97
253_L257_T1.2860.97
60_I145_A1.2800.97
248_K252_V1.2650.97
6_I157_R1.2550.97
247_S250_E1.2510.97
232_D235_K1.2490.96
23_S26_V1.2460.96
144_C147_R1.2430.96
148_T164_H1.2260.96
60_I138_Q1.2250.96
131_S136_L1.2210.96
14_D17_L1.2160.96
13_I18_E1.2150.96
100_E150_Y1.2130.96
36_G84_S1.2080.96
77_D85_H1.1990.96
24_A261_P1.1940.95
76_H85_H1.1910.95
85_H146_D1.1900.95
149_D153_R1.1850.95
205_N262_G1.1820.95
147_R192_V1.1630.95
84_S147_R1.1610.95
184_S187_A1.1590.95
19_E119_H1.1570.95
4_S42_N1.1530.94
34_Q154_D1.1180.94
100_E103_F1.1140.93
161_I198_E1.1010.93
258_S265_V1.1000.93
97_D102_I1.0970.93
43_R47_V1.0930.93
245_R248_K1.0850.92
151_T194_V1.0830.92
111_E114_D1.0820.92
38_S42_N1.0790.92
111_E115_I1.0780.92
39_F48_T1.0720.92
27_Q50_Y1.0720.92
51_E157_R1.0720.92
62_K65_G1.0670.92
81_T233_L1.0660.92
49_R55_G1.0590.92
88_D193_S1.0540.91
31_G261_P1.0360.91
12_H171_D1.0350.91
35_G158_Y1.0320.90
2_E10_Q1.0270.90
86_V212_Y1.0250.90
15_G19_E1.0220.90
3_I13_I1.0190.90
132_R135_L1.0160.90
63_L138_Q1.0060.89
193_S197_K1.0060.89
22_K262_G1.0030.89
18_E22_K1.0020.89
129_D136_L0.9970.89
149_D154_D0.9940.89
50_Y168_T0.9910.89
52_H77_D0.9830.88
45_W158_Y0.9820.88
31_G238_Q0.9810.88
35_G45_W0.9800.88
52_H146_D0.9760.88
80_H100_E0.9720.88
37_A212_Y0.9720.88
13_I57_M0.9640.87
219_L240_V0.9640.87
80_H84_S0.9640.87
117_Q124_E0.9630.87
141_P148_T0.9480.86
106_V234_L0.9440.86
79_S84_S0.9360.86
135_L139_P0.9360.86
58_L61_K0.9350.86
78_V107_I0.9330.85
27_Q83_F0.9240.85
59_L63_L0.9160.84
239_E245_R0.9100.84
199_V204_L0.9070.84
147_R191_F0.8970.83
80_H85_H0.8940.83
20_L112_I0.8940.83
76_H99_H0.8910.83
85_H100_E0.8860.82
117_Q121_Y0.8850.82
41_V102_I0.8840.82
114_D117_Q0.8820.82
13_I21_I0.8820.82
147_R195_Y0.8770.82
88_D144_C0.8740.81
3_I7_I0.8720.81
130_D133_W0.8700.81
116_L120_G0.8690.81
35_G151_T0.8660.81
22_K205_N0.8650.81
27_Q205_N0.8630.81
39_F208_N0.8620.81
147_R150_Y0.8540.80
271_Q275_H0.8540.80
99_H153_R0.8490.80
196_Y200_I0.8470.79
161_I196_Y0.8460.79
2_E12_H0.8450.79
194_V198_E0.8440.79
173_L188_A0.8430.79
13_I26_V0.8420.79
118_K121_Y0.8400.79
244_L248_K0.8390.79
76_H100_E0.8310.78
248_K261_P0.8310.78
52_H76_H0.8210.77
236_T240_V0.8200.77
50_Y262_G0.8200.77
121_Y124_E0.8160.77
44_K157_R0.8110.76
37_A215_L0.8080.76
100_E146_D0.8080.76
35_G38_S0.8040.76
116_L121_Y0.8010.75
36_G208_N0.8000.75
61_K73_G0.7980.75
77_D80_H0.7960.75
133_W136_L0.7930.75
157_R208_N0.7910.75
118_K177_N0.7890.74
80_H146_D0.7830.74
62_K166_A0.7780.73
110_S113_P0.7760.73
191_F206_P0.7750.73
222_A247_S0.7710.73
35_G203_F0.7700.73
238_Q241_L0.7670.72
151_T203_F0.7650.72
210_Y265_V0.7640.72
30_K158_Y0.7620.72
8_Y166_A0.7620.72
140_A144_C0.7610.72
43_R46_N0.7540.71
144_C195_Y0.7530.71
121_Y125_E0.7480.70
219_L241_L0.7460.70
22_K27_Q0.7460.70
66_T166_A0.7440.70
142_E147_R0.7430.70
174_I181_F0.7420.70
55_G153_R0.7410.70
4_S196_Y0.7400.70
59_L166_A0.7400.70
79_S144_C0.7390.69
91_F233_L0.7380.69
37_A208_N0.7380.69
17_L61_K0.7370.69
21_I74_L0.7360.69
43_R51_E0.7340.69
26_V78_V0.7280.68
50_Y205_N0.7200.67
268_D272_Y0.7200.67
178_G220_K0.7200.67
49_R52_H0.7190.67
242_N245_R0.7180.67
43_R168_T0.7160.67
138_Q192_V0.7140.67
151_T202_F0.7140.67
165_E187_A0.7130.67
208_N212_Y0.7130.67
151_T155_M0.7100.66
139_P147_R0.7090.66
109_H114_D0.7040.66
16_V119_H0.7000.65
23_S111_E0.6980.65
272_Y275_H0.6980.65
150_Y154_D0.6980.65
154_D203_F0.6970.65
34_Q100_E0.6960.65
87_V142_E0.6950.65
2_E171_D0.6940.65
6_I10_Q0.6930.64
36_G144_C0.6880.64
206_P267_E0.6880.64
151_T195_Y0.6870.64
130_D134_T0.6840.63
73_G139_P0.6840.63
159_G165_E0.6780.63
106_V230_A0.6750.62
57_M61_K0.6740.62
5_D8_Y0.6740.62
128_S132_R0.6720.62
218_A247_S0.6710.62
80_H150_Y0.6690.62
28_R49_R0.6650.61
29_L53_S0.6650.61
26_V75_L0.6600.61
22_K266_I0.6590.61
81_T91_F0.6590.61
101_N248_K0.6580.60
218_A259_I0.6560.60
93_N220_K0.6560.60
235_K249_N0.6520.60
77_D100_E0.6520.60
88_D189_E0.6510.60
151_T162_N0.6510.60
220_K275_H0.6460.59
239_E242_N0.6410.58
78_V103_F0.6400.58
214_Y255_L0.6390.58
204_L209_V0.6380.58
65_G69_E0.6350.58
26_V230_A0.6350.58
170_L173_L0.6350.58
86_V208_N0.6330.58
218_A244_L0.6330.58
66_T171_D0.6320.57
59_L104_Q0.6310.57
223_L226_D0.6300.57
51_E168_T0.6270.57
13_I167_Q0.6240.56
186_E201_D0.6240.56
104_Q107_I0.6240.56
155_M160_H0.6230.56
53_S116_L0.6220.56
240_V245_R0.6200.56
79_S103_F0.6180.56
129_D134_T0.6180.56
115_I118_K0.6170.56
99_H154_D0.6150.55
19_E22_K0.6140.55
79_S82_A0.6120.55
16_V19_E0.6080.55
8_Y195_Y0.6080.55
35_G79_S0.6060.54
141_P144_C0.6050.54
228_I231_E0.6040.54
145_A169_F0.6040.54
195_Y203_F0.6030.54
53_S135_L0.6030.54
88_D139_P0.6010.54
152_L156_Y0.6010.54
22_K50_Y0.5980.53
162_N189_E0.5980.53
14_D70_Q0.5960.53
180_M271_Q0.5930.53
8_Y11_H0.5920.53
65_G68_E0.5900.52
128_S235_K0.5890.52
26_V73_G0.5880.52
78_V112_I0.5870.52
122_H127_L0.5870.52
28_R84_S0.5870.52
270_I274_F0.5860.52
186_E196_Y0.5830.51
207_V262_G0.5800.51
25_P73_G0.5800.51
8_Y94_Q0.5750.51
63_L73_G0.5750.51
30_K258_S0.5740.50
14_D57_M0.5720.50
7_I157_R0.5710.50
109_H122_H0.5710.50
80_H154_D0.5660.49
113_P124_E0.5640.49
139_P197_K0.5610.49
248_K251_E0.5580.48
48_T51_E0.5580.48
27_Q168_T0.5560.48
190_W197_K0.5560.48
79_S99_H0.5560.48
141_P184_S0.5540.48
169_F202_F0.5510.48
247_S253_L0.5500.47
118_K231_E0.5470.47
30_K40_L0.5460.47
107_I237_D0.5450.47
6_I11_H0.5440.47
67_I82_A0.5430.47
114_D118_K0.5420.46
47_V198_E0.5410.46
229_S254_S0.5410.46
79_S199_V0.5400.46
160_H194_V0.5400.46
148_T191_F0.5400.46
57_M206_P0.5400.46
92_E102_I0.5390.46
19_E39_F0.5380.46
99_H146_D0.5370.46
114_D248_K0.5360.46
138_Q141_P0.5360.46
183_D267_E0.5360.46
34_Q150_Y0.5350.46
38_S66_T0.5340.46
58_L129_D0.5340.46
11_H14_D0.5330.45
197_K201_D0.5330.45
15_G71_I0.5320.45
211_G218_A0.5300.45
6_I159_G0.5300.45
64_G69_E0.5290.45
41_V92_E0.5280.45
36_G86_V0.5270.45
61_K228_I0.5240.44
70_Q241_L0.5230.44
228_I233_L0.5220.44
19_E120_G0.5200.44
20_L46_N0.5190.44
144_C150_Y0.5190.44
90_V209_V0.5190.44
168_T207_V0.5190.44
85_H99_H0.5190.44
218_A264_Q0.5170.43
155_M194_V0.5160.43
7_I175_V0.5150.43
158_Y192_V0.5150.43
6_I204_L0.5150.43
195_Y199_V0.5140.43
213_E216_A0.5140.43
138_Q145_A0.5130.43
88_D162_N0.5130.43
27_Q262_G0.5120.43
57_M148_T0.5110.43
37_A88_D0.5100.43
34_Q80_H0.5080.42
40_L242_N0.5080.42
8_Y30_K0.5080.42
60_I64_G0.5070.42
45_W214_Y0.5040.42
26_V53_S0.5020.42
208_N211_G0.5020.42
123_T126_L0.5010.42
214_Y218_A0.5000.41
147_R151_T0.5000.41
70_Q73_G0.5000.41
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  
4lrlA 4 0.9877 100 0.281 Contact Map
4mz7A 4 0.9631 100 0.288 Contact Map
2hekA 4 0.9415 100 0.314 Contact Map
2q14A 4 0.96 100 0.335 Contact Map
3bg2A 4 0.7908 100 0.697 Contact Map
2pgsA 4 0.8 100 0.703 Contact Map
4x9eA 4 0.9354 99.9 0.719 Contact Map
2dqbA 4 0.7969 99.9 0.726 Contact Map
4n6wA 1 0.4985 98.3 0.895 Contact Map
3gw7A 2 0.5631 97.6 0.911 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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