GREMLIN Database
YndJ - YndJ-like protein
PFAM: PF14158 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 262 (258)
Sequences: 909 (731)
Seq/√Len: 45.5
META: 0.788

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
163_G192_G4.8641.00
82_R93_D3.9611.00
91_A161_A3.7421.00
175_I182_E3.4441.00
186_A235_A3.1331.00
97_L100_A3.1061.00
68_T103_G3.0691.00
61_A107_V3.0231.00
137_A193_L2.9671.00
45_A106_L2.7971.00
104_A108_A2.7911.00
14_G135_F2.6931.00
10_I136_A2.6121.00
6_A10_I2.5961.00
99_L135_F2.5061.00
72_A100_A2.4721.00
48_S51_L2.3911.00
3_L7_P2.3791.00
140_L220_S2.3331.00
98_Y168_P2.2881.00
78_R93_D2.2341.00
54_G110_R2.2171.00
89_E146_R2.2081.00
138_P164_V2.2051.00
160_A192_G2.1851.00
253_T256_V2.1021.00
145_G157_Y2.0720.99
6_A132_Y2.0720.99
95_G139_L2.0100.99
48_S52_P2.0040.99
109_S120_E1.9400.99
54_G57_A1.9040.99
108_A117_G1.8850.99
95_G142_G1.8250.99
234_Y247_I1.8160.99
109_S121_P1.8140.99
5_L260_L1.8100.99
58_A111_L1.8040.99
254_H258_N1.7580.98
89_E92_I1.7250.98
186_A190_A1.7200.98
83_G93_D1.7200.98
250_M254_H1.6890.98
98_Y169_P1.6680.98
9_V43_L1.6650.98
200_T220_S1.6620.98
141_A161_A1.6570.97
11_V14_G1.6410.97
41_A63_P1.6330.97
161_A260_L1.6310.97
8_L42_A1.6230.97
3_L127_A1.6080.97
41_A67_V1.6070.97
118_F176_T1.5950.97
48_S110_R1.5760.97
223_S227_A1.5280.96
102_G115_P1.5260.96
255_G258_N1.5170.96
256_V260_L1.5090.96
88_A146_R1.4830.95
172_A176_T1.4530.95
82_R86_P1.4520.95
64_W131_H1.4370.94
7_P45_A1.4340.94
94_A165_V1.4220.94
133_A235_A1.3900.93
86_P93_D1.3870.93
168_P185_G1.3720.93
78_R89_E1.3700.93
201_L218_A1.3610.92
116_L176_T1.3480.92
72_A76_L1.3310.92
117_G235_A1.3270.91
45_A63_P1.3250.91
128_V255_G1.3130.91
128_V251_A1.3040.91
173_A181_L1.2860.90
14_G136_A1.2580.89
160_A195_G1.2360.88
75_G103_G1.2350.88
182_E238_E1.2340.88
140_L144_T1.2260.88
122_I126_T1.2240.88
237_G241_G1.2110.87
239_A246_T1.2090.87
178_S234_Y1.1960.86
71_L75_G1.1840.86
102_G131_H1.1830.86
83_G86_P1.1800.86
193_L224_L1.1750.85
71_L99_L1.1670.85
171_V186_A1.1650.85
118_F126_T1.1510.84
71_L103_G1.1480.84
137_A224_L1.1370.84
193_L221_A1.1370.84
118_F123_V1.1080.82
101_V133_A1.0840.80
224_L227_A1.0840.80
249_Q252_A1.0800.80
160_A199_L1.0700.80
6_A11_V1.0650.79
3_L128_V1.0640.79
246_T249_Q1.0630.79
227_A257_L1.0620.79
78_R142_G1.0620.79
92_I146_R1.0480.78
228_M231_A1.0480.78
118_F182_E1.0450.78
144_T203_A1.0440.78
189_L227_A1.0430.78
44_L67_V1.0300.77
237_G251_A1.0280.77
183_L239_A1.0210.76
92_I139_L1.0160.76
169_P172_A1.0160.76
10_I132_Y1.0150.76
127_A172_A1.0120.76
75_G95_G1.0110.76
75_G79_L1.0110.76
78_R83_G1.0060.75
89_E142_G1.0000.75
241_G246_T0.9990.75
94_A138_P0.9990.75
56_L59_A0.9970.75
96_L103_G0.9950.74
63_P67_V0.9940.74
43_L191_A0.9930.74
108_A113_L0.9920.74
250_M255_G0.9910.74
28_S47_V0.9880.74
48_S64_W0.9880.74
234_Y244_W0.9860.74
99_L105_W0.9830.74
102_G127_A0.9810.73
5_L9_V0.9770.73
80_L84_S0.9720.73
79_L92_I0.9640.72
105_W126_T0.9620.72
45_A61_A0.9610.72
105_W175_I0.9590.72
64_W110_R0.9570.71
121_P175_I0.9540.71
200_T221_A0.9540.71
250_M258_N0.9530.71
255_G259_A0.9470.71
133_A167_G0.9460.71
167_G188_L0.9450.71
48_S228_M0.9440.70
185_G238_E0.9430.70
253_T257_L0.9420.70
131_H135_F0.9340.70
24_D28_S0.9310.69
104_A117_G0.9020.67
229_V233_L0.8990.67
124_L185_G0.8980.67
89_E145_G0.8960.66
173_A183_L0.8840.65
42_A46_V0.8830.65
258_N262_F0.8820.65
54_G112_G0.8810.65
137_A168_P0.8600.63
190_A231_A0.8540.63
108_A121_P0.8440.62
57_A110_R0.8420.62
81_R220_S0.8410.61
41_A44_L0.8390.61
68_T99_L0.8370.61
5_L16_R0.8310.60
235_A253_T0.8300.60
142_G175_I0.8280.60
237_G240_T0.8280.60
138_P233_L0.8270.60
81_R132_Y0.8240.60
64_W98_Y0.8230.60
32_R147_A0.8230.60
130_F172_A0.8180.59
108_A123_V0.8130.59
104_A115_P0.8100.59
5_L197_A0.8070.58
92_I95_G0.8060.58
99_L251_A0.8050.58
120_E175_I0.8040.58
232_L236_L0.8030.58
92_I142_G0.8010.58
105_W168_P0.7950.57
147_A151_G0.7950.57
69_L87_L0.7920.57
36_R39_P0.7890.57
118_F175_I0.7870.56
76_L191_A0.7820.56
168_P175_I0.7810.56
225_L229_V0.7790.56
126_T258_N0.7760.55
62_L84_S0.7730.55
50_W59_A0.7690.55
9_V13_L0.7680.54
23_R28_S0.7640.54
115_P123_V0.7600.54
132_Y185_G0.7590.54
168_P182_E0.7550.53
31_Y40_L0.7550.53
189_L194_A0.7540.53
63_P107_V0.7390.52
99_L132_Y0.7390.52
5_L18_V0.7380.52
50_W94_A0.7360.51
75_G97_L0.7330.51
197_A200_T0.7310.51
29_R65_L0.7300.51
208_A213_A0.7300.51
66_L90_L0.7270.50
122_I128_V0.7260.50
8_L46_V0.7260.50
176_T199_L0.7220.50
189_L193_L0.7220.50
204_V214_R0.7180.50
133_A259_A0.7160.49
182_E224_L0.7160.49
100_A138_P0.7150.49
10_I14_G0.7140.49
120_E182_E0.7110.49
108_A115_P0.7110.49
246_T260_L0.7100.49
66_L155_R0.7100.49
102_G138_P0.7090.49
135_F164_V0.7080.49
25_G28_S0.7060.48
132_Y168_P0.7020.48
47_V51_L0.7020.48
101_V167_G0.7010.48
132_Y236_L0.6980.48
155_R158_R0.6960.47
182_E185_G0.6940.47
40_L70_L0.6940.47
139_L230_L0.6930.47
4_L42_A0.6920.47
31_Y35_R0.6900.47
56_L80_L0.6900.47
109_S123_V0.6890.47
4_L49_F0.6870.47
200_T204_V0.6870.47
106_L127_A0.6860.46
15_L71_L0.6830.46
91_A142_G0.6820.46
14_G134_G0.6800.46
175_I234_Y0.6780.46
30_L70_L0.6760.46
141_A164_V0.6730.45
77_L188_L0.6730.45
190_A232_L0.6720.45
64_W68_T0.6720.45
237_G257_L0.6690.45
64_W124_L0.6650.44
123_V139_L0.6640.44
6_A131_H0.6640.44
30_L37_L0.6640.44
4_L8_L0.6620.44
133_A182_E0.6540.43
123_V127_A0.6540.43
176_T182_E0.6540.43
257_L262_F0.6540.43
64_W128_V0.6510.43
244_W248_P0.6490.43
176_T186_A0.6480.43
184_A226_A0.6450.43
191_A211_R0.6450.43
26_P30_L0.6410.42
121_P176_T0.6400.42
95_G213_A0.6360.42
124_L227_A0.6360.42
94_A219_V0.6350.42
97_L139_L0.6310.41
235_A238_E0.6300.41
104_A113_L0.6290.41
23_R27_A0.6280.41
119_G224_L0.6270.41
184_A245_L0.6270.41
204_V218_A0.6260.41
172_A234_Y0.6240.41
205_R218_A0.6220.40
67_V222_L0.6210.40
164_V178_S0.6210.40
223_S261_G0.6190.40
201_L205_R0.6190.40
56_L183_L0.6160.40
103_G251_A0.6120.39
63_P231_A0.6120.39
150_D153_R0.6080.39
122_I131_H0.6080.39
87_L90_L0.6060.39
94_A98_Y0.6060.39
254_H262_F0.6050.39
62_L187_L0.6050.39
128_V175_I0.6050.39
167_G246_T0.6020.38
143_L201_L0.6010.38
251_A256_V0.6010.38
24_D30_L0.6010.38
220_S227_A0.6000.38
3_L109_S0.5990.38
98_Y138_P0.5980.38
16_R19_A0.5940.38
209_R222_L0.5920.38
2_L5_L0.5920.38
121_P168_P0.5910.37
134_G230_L0.5900.37
152_R207_R0.5880.37
26_P29_R0.5870.37
203_A237_G0.5840.37
115_P122_I0.5840.37
123_V172_A0.5820.37
62_L80_L0.5790.36
119_G175_I0.5780.36
158_R215_V0.5770.36
244_W247_I0.5760.36
45_A49_F0.5750.36
112_G136_A0.5740.36
240_T243_P0.5730.36
60_L135_F0.5720.36
190_A200_T0.5720.36
228_M258_N0.5710.36
134_G190_A0.5710.36
177_F247_I0.5690.35
89_E95_G0.5690.35
35_R86_P0.5690.35
71_L96_L0.5660.35
124_L142_G0.5650.35
187_L191_A0.5600.35
90_L158_R0.5580.34
77_L113_L0.5580.34
106_L137_A0.5540.34
43_L63_P0.5540.34
154_R158_R0.5520.34
160_A165_V0.5480.34
120_E227_A0.5470.34
130_F234_Y0.5470.34
27_A30_L0.5450.33
223_S257_L0.5440.33
18_V29_R0.5410.33
33_L41_A0.5410.33
31_Y74_A0.5400.33
211_R214_R0.5390.33
89_E93_D0.5380.33
96_L99_L0.5380.33
81_R140_L0.5380.33
68_T88_A0.5360.33
98_Y102_G0.5360.33
118_F130_F0.5340.32
4_L17_L0.5330.32
76_L222_L0.5330.32
70_L141_A0.5330.32
169_P227_A0.5320.32
168_P189_L0.5290.32
112_G164_V0.5280.32
33_L38_Q0.5270.32
9_V38_Q0.5230.31
45_A103_G0.5220.31
123_V169_P0.5210.31
116_L123_V0.5200.31
179_P238_E0.5200.31
220_S225_L0.5190.31
256_V259_A0.5180.31
235_A252_A0.5180.31
69_L162_L0.5170.31
128_V177_F0.5160.31
128_V257_L0.5150.31
101_V204_V0.5130.31
122_I230_L0.5120.31
105_W131_H0.5100.30
11_V135_F0.5090.30
105_W176_T0.5090.30
118_F185_G0.5080.30
175_I237_G0.5080.30
89_E231_A0.5070.30
67_V198_V0.5070.30
138_P169_P0.5070.30
139_L143_L0.5050.30
122_I164_V0.5050.30
92_I217_L0.5040.30
169_P176_T0.5020.30
211_R219_V0.5020.30
197_A226_A0.5020.30
237_G252_A0.5010.30
61_A65_L0.5010.30
163_G169_P0.5010.30
74_A246_T0.5000.30
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  
3mk7A 1 0.2252 30 0.952 Contact Map
1fftA 1 0.2137 15.8 0.958 Contact Map
1v54A 1 0.2481 12.9 0.96 Contact Map
4m5bA 1 0.6985 8.5 0.963 Contact Map
2k3cA 1 0.1183 7.8 0.964 Contact Map
2yevA 1 0.2519 5.8 0.965 Contact Map
3s8fA 1 0.2328 4.7 0.967 Contact Map
3wfdB 1 0.2099 4.2 0.968 Contact Map
3l1lA 2 0.3092 4.1 0.968 Contact Map
2gsmA 1 0.2405 2 0.973 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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