GREMLIN Database
YDDK - Uncharacterized protein YddK
UniProt: P96648 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 266 (211)
Sequences: 163 (150)
Seq/√Len: 10.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
119_S192_E4.3340.99
158_D192_E3.3480.96
116_I176_F2.9170.92
204_S208_L2.8510.91
79_T82_K2.8430.91
118_I139_G2.7380.89
205_T209_P2.6900.89
205_T208_L2.6020.87
177_Y193_M2.5650.86
186_S189_C2.4340.83
188_Y192_E2.4340.83
158_D168_H2.1250.73
74_F148_T2.1080.73
119_S165_L2.0100.69
129_N152_Y1.9590.67
32_D43_I1.9550.66
235_F239_E1.9410.66
121_S155_I1.8870.64
77_H80_E1.8770.63
155_I188_Y1.8700.63
151_P192_E1.8420.62
117_F193_M1.8200.61
149_S168_H1.8180.61
202_N206_F1.8140.60
124_D155_I1.7810.59
131_F178_M1.7500.58
127_V178_M1.7150.56
117_F169_L1.7120.56
117_F165_L1.7080.56
203_C208_L1.6800.54
124_D192_E1.6680.54
160_D169_L1.6600.53
204_S207_I1.6450.53
60_N127_V1.6250.52
161_I165_L1.5480.48
155_I224_K1.5270.47
121_S124_D1.5100.46
175_V219_I1.4960.46
122_S169_L1.4940.46
75_E78_E1.4750.45
188_Y224_K1.4750.45
161_I224_K1.4690.45
120_H150_S1.4580.44
155_I159_E1.4550.44
202_N205_T1.4510.44
77_H221_K1.4490.44
159_E208_L1.4370.43
26_V29_N1.4050.42
49_S59_R1.3800.40
61_R97_E1.3800.40
24_E36_T1.3700.40
124_D188_Y1.3660.40
25_P30_I1.3600.40
100_S104_F1.3450.39
234_L238_K1.3220.38
212_K221_K1.3140.38
56_W70_V1.2910.37
175_V215_I1.2860.36
172_G188_Y1.2790.36
129_N150_S1.2690.36
58_A118_I1.2560.35
121_S188_Y1.2460.35
69_F94_D1.2410.34
165_L168_H1.2300.34
27_L31_I1.2240.34
27_L30_I1.2230.34
151_P172_G1.2220.34
22_S25_P1.2170.33
23_R29_N1.2040.33
126_I181_D1.2040.33
206_F225_A1.2040.33
88_D91_P1.1980.33
22_S41_N1.1890.32
116_I140_V1.1790.32
28_T36_T1.1740.32
124_D131_F1.1690.31
149_S166_K1.1620.31
34_F54_K1.1570.31
151_P178_M1.1570.31
192_E214_E1.1540.31
155_I229_E1.1530.31
117_F180_S1.1500.31
233_D237_L1.1480.31
61_R172_G1.1430.30
169_L195_A1.1410.30
23_R26_V1.1380.30
130_A226_F1.1320.30
78_E82_K1.1230.30
33_Q83_I1.1110.29
83_I215_I1.1100.29
135_L155_I1.1050.29
206_F209_P1.0960.29
110_R126_I1.0950.29
162_F210_G1.0790.28
49_S53_L1.0720.28
234_L237_L1.0690.28
189_C199_N1.0680.28
127_V182_N1.0670.28
121_S192_E1.0640.27
104_F173_A1.0620.27
102_T106_S1.0600.27
39_E47_R1.0590.27
104_F107_D1.0400.27
197_W228_L1.0390.27
23_R27_L1.0370.26
164_Y175_V1.0370.26
107_D113_E1.0350.26
26_V30_I1.0340.26
114_K172_G1.0330.26
119_S151_P1.0290.26
43_I58_A1.0260.26
24_E32_D1.0210.26
85_K176_F1.0210.26
193_M213_G1.0180.26
121_S179_L1.0120.26
112_L176_F1.0060.25
107_D111_E1.0030.25
82_K86_F1.0020.25
178_M229_E1.0020.25
133_E136_E0.9980.25
87_L118_I0.9960.25
120_H224_K0.9950.25
168_H192_E0.9940.25
107_D221_K0.9930.25
155_I192_E0.9850.25
51_E66_K0.9810.24
119_S158_D0.9770.24
132_V150_S0.9750.24
119_S155_I0.9740.24
137_D178_M0.9730.24
120_H165_L0.9720.24
53_L60_N0.9720.24
165_L220_D0.9600.24
165_L224_K0.9560.24
163_E194_G0.9540.24
26_V33_Q0.9500.23
33_Q37_S0.9450.23
121_S228_L0.9420.23
26_V37_S0.9340.23
24_E28_T0.9300.23
70_V102_T0.9260.23
122_S194_G0.9260.23
122_S193_M0.9190.22
167_K203_C0.9160.22
52_Q70_V0.9140.22
155_I196_T0.9120.22
150_S155_I0.8960.22
119_S188_Y0.8940.22
56_W59_R0.8890.21
120_H179_L0.8850.21
120_H183_Y0.8810.21
116_I179_L0.8740.21
24_E31_I0.8680.21
26_V34_F0.8660.21
183_Y189_C0.8630.21
127_V208_L0.8580.20
159_E176_F0.8440.20
118_I132_V0.8420.20
203_C207_I0.8390.20
168_H222_N0.8350.20
132_V155_I0.8350.20
69_F201_N0.8320.20
90_L211_F0.8300.20
47_R72_N0.8270.20
208_L212_K0.8260.20
49_S101_I0.8260.20
78_E84_K0.8250.20
235_F238_K0.8230.19
115_K172_G0.8200.19
187_V191_N0.8200.19
186_S207_I0.8200.19
158_D165_L0.8190.19
27_L34_F0.8190.19
155_I161_I0.8170.19
149_S195_A0.8150.19
124_D180_S0.8130.19
45_L49_S0.8090.19
177_Y188_Y0.8040.19
175_V196_T0.8030.19
169_L191_N0.8010.19
183_Y188_Y0.7950.19
181_D209_P0.7940.19
104_F229_E0.7900.18
194_G197_W0.7880.18
204_S209_P0.7870.18
29_N61_R0.7840.18
76_H79_T0.7830.18
202_N207_I0.7770.18
201_N206_F0.7740.18
26_V178_M0.7730.18
115_K204_S0.7710.18
189_C192_E0.7660.18
115_K157_G0.7660.18
149_S175_V0.7640.18
33_Q36_T0.7600.18
194_G228_L0.7600.18
197_W221_K0.7550.18
233_D239_E0.7370.17
115_K180_S0.7350.17
226_F238_K0.7330.17
113_E171_K0.7320.17
97_E100_S0.7270.17
206_F212_K0.7270.17
150_S225_A0.7270.17
64_I100_S0.7170.17
80_E187_V0.7170.17
67_N84_K0.7160.17
28_T37_S0.7110.16
45_L59_R0.7090.16
121_S168_H0.7080.16
165_L193_M0.7010.16
182_N190_L0.6970.16
24_E27_L0.6930.16
140_V193_M0.6920.16
79_T109_N0.6900.16
22_S46_I0.6860.16
134_L198_V0.6820.16
155_I164_Y0.6810.16
148_T196_T0.6810.16
25_P28_T0.6770.16
165_L237_L0.6760.16
77_H103_H0.6750.15
166_K191_N0.6740.15
184_Y189_C0.6720.15
117_F131_F0.6690.15
138_I204_S0.6610.15
32_D36_T0.6590.15
41_N205_T0.6560.15
20_D23_R0.6550.15
38_L102_T0.6540.15
27_L35_R0.6530.15
102_T202_N0.6490.15
160_D222_N0.6490.15
193_M200_S0.6490.15
72_N105_S0.6470.15
58_A62_N0.6430.15
121_S224_K0.6420.15
86_F112_L0.6400.15
58_A61_R0.6400.15
92_V176_F0.6370.15
179_L237_L0.6370.15
117_F127_V0.6350.15
21_Y37_S0.6350.15
130_A238_K0.6350.15
28_T38_L0.6320.14
139_G153_H0.6320.14
193_M215_I0.6300.14
31_I34_F0.6270.14
188_Y196_T0.6250.14
161_I178_M0.6250.14
90_L107_D0.6230.14
59_R98_K0.6210.14
170_F192_E0.6100.14
55_T58_A0.6070.14
128_C178_M0.6010.14
184_Y212_K0.6010.14
192_E228_L0.5950.14
138_I194_G0.5920.14
160_D166_K0.5900.14
124_D165_L0.5890.14
22_S118_I0.5880.13
162_F172_G0.5870.13
85_K111_E0.5850.13
99_S113_E0.5840.13
44_E48_Y0.5830.13
44_E90_L0.5830.13
175_V186_S0.5820.13
175_V188_Y0.5800.13
24_E39_E0.5800.13
81_N90_L0.5790.13
60_N63_E0.5770.13
45_L202_N0.5760.13
135_L201_N0.5730.13
129_N206_F0.5720.13
77_H214_E0.5710.13
124_D148_T0.5710.13
30_I33_Q0.5690.13
158_D189_C0.5690.13
56_W178_M0.5690.13
178_M204_S0.5640.13
20_D37_S0.5610.13
22_S30_I0.5600.13
23_R31_I0.5590.13
150_S158_D0.5580.13
186_S196_T0.5570.13
122_S228_L0.5560.13
94_D97_E0.5560.13
163_E213_G0.5550.13
151_P208_L0.5520.13
97_E181_D0.5500.13
132_V169_L0.5490.13
192_E197_W0.5480.13
186_S238_K0.5470.13
55_T85_K0.5460.13
86_F176_F0.5420.13
91_P167_K0.5390.12
121_S165_L0.5370.12
74_F81_N0.5370.12
45_L101_I0.5320.12
148_T205_T0.5250.12
42_D53_L0.5230.12
175_V187_V0.5220.12
85_K99_S0.5210.12
115_K168_H0.5210.12
24_E53_L0.5200.12
58_A84_K0.5160.12
41_N53_L0.5160.12
158_D205_T0.5160.12
97_E235_F0.5150.12
64_I94_D0.5130.12
121_S166_K0.5120.12
25_P36_T0.5100.12
219_I227_S0.5080.12
51_E55_T0.5030.12
156_P222_N0.5020.12
41_N140_V0.5000.12
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  
3oziA 2 0.5564 100 0.531 Contact Map
4c6rA 1 0.5451 100 0.55 Contact Map
3jrnA 1 0.5 100 0.552 Contact Map
4lzpB 2 0.609 100 0.586 Contact Map
4c6sA 2 0.4662 100 0.605 Contact Map
4lqcA 2 0.485 99.9 0.613 Contact Map
3h16A 2 0.4925 99.9 0.623 Contact Map
3ub2A 2 0.4474 99.9 0.643 Contact Map
2js7A 1 0.5564 99.9 0.645 Contact Map
1fyxA 2 0.4925 99.9 0.654 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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