GREMLIN Database
YDDN - Uncharacterized protein YddN
UniProt: P96651 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 339 (296)
Sequences: 16333 (10296)
Seq/√Len: 598.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
230_I288_T5.2631.00
32_K68_N3.2541.00
33_A322_E2.8181.00
230_I285_D2.7361.00
73_R105_D2.6671.00
134_E180_K2.6431.00
292_E295_D2.5651.00
33_A36_N2.5581.00
35_D71_D2.5351.00
176_E206_N2.4631.00
229_S232_E2.4471.00
230_I234_S2.4141.00
201_S205_E2.4111.00
66_L100_Y2.3991.00
62_V74_V2.3121.00
285_D288_T2.3061.00
227_A232_E2.2811.00
175_A202_I2.1621.00
138_N181_L2.1601.00
200_L204_R2.1351.00
207_F216_P2.1191.00
205_E209_P2.0941.00
32_K36_N2.0881.00
25_D101_P2.0841.00
28_V32_K2.0801.00
200_L218_V2.0511.00
322_E326_Q2.0491.00
324_L328_V2.0361.00
31_A65_I2.0251.00
202_I206_N2.0241.00
228_E327_V1.9921.00
197_E201_S1.9861.00
197_E299_M1.9761.00
37_M325_K1.9711.00
231_D235_F1.9371.00
295_D299_M1.8751.00
145_G162_H1.8361.00
42_I72_I1.8191.00
29_S32_K1.8101.00
66_L74_V1.8081.00
282_I289_I1.7961.00
28_V68_N1.7851.00
97_E102_N1.7841.00
179_A206_N1.7731.00
57_A92_Q1.7521.00
93_F104_V1.7521.00
43_W75_G1.7481.00
256_I260_E1.7181.00
206_N209_P1.6641.00
31_A42_I1.6161.00
116_Q120_D1.6151.00
176_E209_P1.5961.00
202_I205_E1.5881.00
138_N142_R1.5881.00
65_I74_V1.5851.00
261_N264_E1.5851.00
141_L162_H1.5761.00
93_F106_L1.5611.00
33_A37_M1.5571.00
198_E201_S1.5381.00
238_A242_Q1.5371.00
226_A289_I1.5101.00
169_G185_Y1.4951.00
288_T291_R1.4801.00
141_L181_L1.4711.00
287_E291_R1.4641.00
19_T22_Q1.4531.00
28_V64_H1.4411.00
176_E180_K1.4361.00
290_R294_I1.4161.00
220_A302_A1.4011.00
323_I327_V1.3951.00
31_A69_T1.3851.00
36_N70_K1.3801.00
294_I297_Q1.3571.00
232_E236_I1.3541.00
141_L165_V1.3331.00
64_H67_A1.3251.00
142_R146_D1.3241.00
35_D69_T1.3231.00
142_R147_K1.3211.00
134_E181_L1.3131.00
25_D29_S1.2941.00
22_Q26_S1.2921.00
288_T292_E1.2921.00
57_A60_S1.2881.00
64_H99_L1.2801.00
227_A233_A1.2791.00
291_R295_D1.2721.00
166_F219_I1.2691.00
286_R323_I1.2681.00
207_F212_Y1.2581.00
84_H92_Q1.2501.00
217_Y303_D1.2421.00
225_I236_I1.2381.00
29_S33_A1.2281.00
226_A286_R1.2271.00
235_F238_A1.2161.00
44_F62_V1.2121.00
179_A210_S1.2081.00
128_N131_F1.2001.00
56_A95_T1.1961.00
257_P260_E1.1871.00
75_G105_D1.1851.00
35_D70_K1.1801.00
89_V136_E1.1801.00
172_T202_I1.1791.00
176_E202_I1.1691.00
44_F65_I1.1681.00
176_E210_S1.1651.00
254_K258_P1.1631.00
166_F184_P1.1631.00
96_L104_V1.1491.00
267_S270_E1.1421.00
180_K210_S1.1401.00
262_F265_S1.1391.00
31_A72_I1.1381.00
106_L140_I1.1381.00
137_V181_L1.1361.00
37_M321_Y1.1351.00
232_E235_F1.1311.00
141_L183_L1.1291.00
173_D176_E1.1241.00
138_N151_G1.1181.00
101_P158_G1.1161.00
134_E138_N1.1151.00
159_I162_H1.1061.00
228_E232_E1.1061.00
256_I259_T1.1031.00
237_S241_L1.1001.00
206_N210_S1.1001.00
193_P295_D1.0871.00
62_V76_S1.0851.00
60_S63_Q1.0841.00
88_I92_Q1.0661.00
79_I89_V1.0531.00
195_S198_E1.0521.00
36_N322_E1.0511.00
284_G289_I1.0501.00
59_V92_Q1.0481.00
108_L137_V1.0441.00
64_H68_N1.0381.00
132_F135_R1.0361.00
21_K25_D1.0291.00
140_I144_V1.0271.00
282_I292_E1.0261.00
32_K70_K1.0241.00
262_F266_L1.0211.00
261_N265_S1.0181.00
78_G168_L1.0181.00
135_R139_D1.0171.00
217_Y304_E1.0161.00
226_A323_I1.0111.00
207_F213_L1.0111.00
235_F239_S1.0101.00
149_V152_E1.0071.00
197_E300_Y1.0021.00
262_F267_S1.0011.00
224_V307_V0.9941.00
97_E161_T0.9941.00
264_E267_S0.9911.00
307_V324_L0.9901.00
60_S96_L0.9891.00
263_L266_L0.9861.00
29_S314_L0.9831.00
198_E202_I0.9821.00
141_L145_G0.9821.00
234_S238_A0.9811.00
39_Y325_K0.9771.00
97_E160_G0.9741.00
131_F173_D0.9691.00
290_R328_V0.9691.00
320_S323_I0.9661.00
192_S195_S0.9651.00
155_A159_I0.9581.00
139_D142_R0.9561.00
78_G109_G0.9521.00
26_S29_S0.9491.00
59_V79_I0.9491.00
186_A219_I0.9431.00
227_A236_I0.9351.00
134_E177_I0.9271.00
26_S314_L0.9261.00
222_I293_L0.9251.00
222_I282_I0.9251.00
41_R75_G0.9231.00
208_Q213_L0.9121.00
148_S152_E0.9101.00
148_S151_G0.9071.00
177_I181_L0.9071.00
228_E323_I0.8991.00
237_S283_M0.8931.00
114_T118_T0.8931.00
34_V321_Y0.8901.00
226_A328_V0.8851.00
178_A185_Y0.8841.00
193_P197_E0.8831.00
224_V324_L0.8831.00
153_V156_Y0.8831.00
128_N132_F0.8791.00
86_P139_D0.8781.00
175_A179_A0.8751.00
261_N266_L0.8741.00
231_D234_S0.8731.00
254_K257_P0.8721.00
63_Q67_A0.8711.00
321_Y325_K0.8711.00
132_F136_E0.8711.00
25_D28_V0.8691.00
204_R218_V0.8611.00
175_A206_N0.8521.00
255_L258_P0.8511.00
263_L267_S0.8481.00
291_R294_I0.8391.00
24_I99_L0.8371.00
139_D151_G0.8371.00
66_L104_V0.8361.00
243_V246_D0.8361.00
255_L260_E0.8351.00
62_V66_L0.8311.00
265_S268_Q0.8301.00
41_R304_E0.8291.00
81_L136_E0.8271.00
266_L269_F0.8261.00
29_S36_N0.8221.00
155_A158_G0.8191.00
294_I299_M0.8171.00
167_V178_A0.8171.00
142_R149_V0.8121.00
201_S301_H0.8091.00
203_Y207_F0.8081.00
265_S269_F0.8051.00
236_I323_I0.8051.00
255_L259_T0.8041.00
115_D118_T0.7941.00
204_R208_Q0.7931.00
144_V163_V0.7931.00
250_N253_S0.7901.00
134_E173_D0.7901.00
81_L89_V0.7891.00
36_N326_Q0.7871.00
234_S278_L0.7851.00
98_T158_G0.7851.00
207_F210_S0.7821.00
23_G26_S0.7791.00
239_S243_V0.7781.00
67_A100_Y0.7771.00
185_Y203_Y0.7771.00
245_I248_Y0.7771.00
200_L203_Y0.7761.00
207_F214_Q0.7751.00
239_S242_Q0.7741.00
94_G153_V0.7731.00
229_S233_A0.7711.00
176_E205_E0.7681.00
254_K260_E0.7671.00
142_R151_G0.7651.00
97_E159_I0.7641.00
97_E162_H0.7611.00
98_T161_T0.7601.00
172_T206_N0.7581.00
136_E140_I0.7521.00
309_S324_L0.7501.00
167_V174_S0.7501.00
130_V173_D0.7471.00
62_V104_V0.7471.00
66_L96_L0.7441.00
105_D166_F0.7351.00
113_G118_T0.7341.00
143_F149_V0.7311.00
175_A185_Y0.7311.00
89_V140_I0.7301.00
43_W77_G0.7281.00
172_T176_E0.7201.00
30_L321_Y0.7151.00
62_V96_L0.7131.00
116_Q126_N0.7111.00
236_I239_S0.7101.00
194_H197_E0.7091.00
73_R164_P0.7091.00
138_N180_K0.7081.00
242_Q246_D0.7071.00
40_K71_D0.7061.00
234_S283_M0.7051.00
207_F215_E0.7021.00
262_F269_F0.7011.00
42_I65_I0.7011.00
25_D67_A0.6961.00
48_H91_E0.6961.00
117_K120_D0.6961.00
221_C306_I0.6941.00
200_L300_Y0.6931.00
26_S30_L0.6911.00
264_E268_Q0.6881.00
261_N267_S0.6861.00
263_L269_F0.6831.00
153_V157_P0.6831.00
41_R306_I0.6821.00
28_V65_I0.6781.00
46_E84_H0.6771.00
245_I249_T0.6771.00
127_H173_D0.6761.00
234_S237_S0.6761.00
203_Y216_P0.6751.00
84_H88_I0.6741.00
33_A325_K0.6741.00
24_I64_H0.6701.00
167_V182_G0.6701.00
80_M113_G0.6691.00
40_K73_R0.6691.00
218_V302_A0.6671.00
59_V93_F0.6661.00
238_A241_L0.6661.00
142_R145_G0.6651.00
110_R129_G0.6641.00
110_R133_F0.6631.00
187_F199_A0.6621.00
93_F144_V0.6611.00
85_S88_I0.6591.00
138_N141_L0.6591.00
167_V177_I0.6511.00
79_I93_F0.6511.00
86_P136_E0.6491.00
76_S104_V0.6431.00
287_E290_R0.6421.00
28_V31_A0.6411.00
254_K259_T0.6381.00
156_Y159_I0.6381.00
169_G174_S0.6351.00
74_V100_Y0.6331.00
108_L140_I0.6331.00
24_I28_V0.6321.00
219_I304_E0.6321.00
154_R157_P0.6321.00
44_F61_I0.6311.00
297_Q302_A0.6311.00
87_L143_F0.6301.00
35_D72_I0.6261.00
94_G155_A0.6261.00
210_S213_L0.6251.00
309_S321_Y0.6221.00
286_R327_V0.6211.00
293_L305_L0.6201.00
108_L165_V0.6191.00
25_D70_K0.6191.00
247_I250_N0.6181.00
137_V167_V0.6181.00
75_G166_F0.6171.00
230_I233_A0.6151.00
180_K206_N0.6141.00
204_R303_D0.6141.00
97_E157_P0.6131.00
69_T72_I0.6131.00
243_V247_I0.6111.00
97_E100_Y0.6091.00
135_R138_N0.6071.00
193_P300_Y0.6061.00
179_A207_F0.6051.00
63_Q96_L0.6041.00
69_T103_R0.6041.00
180_K209_P0.6031.00
28_V67_A0.6021.00
292_E296_F0.6021.00
34_V72_I0.6011.00
193_P299_M0.6001.00
261_N269_F0.5991.00
240_H243_V0.5981.00
84_H89_V0.5971.00
224_V282_I0.5971.00
247_I251_N0.5961.00
61_I95_T0.5961.00
204_R301_H0.5951.00
124_R132_F0.5941.00
173_D177_I0.5901.00
222_I305_L0.5871.00
20_M23_G0.5861.00
265_S270_E0.5841.00
175_A203_Y0.5841.00
241_L244_Y0.5821.00
125_S128_N0.5811.00
264_E269_F0.5791.00
201_S204_R0.5781.00
172_T198_E0.5771.00
81_L108_L0.5761.00
215_E303_D0.5761.00
228_E286_R0.5751.00
154_R159_I0.5751.00
164_P217_Y0.5731.00
146_D149_V0.5711.00
94_G144_V0.5701.00
107_A168_L0.5691.00
204_R213_L0.5691.00
280_Y292_E0.5681.00
293_L307_V0.5641.00
122_I125_S0.5621.00
286_R326_Q0.5611.00
204_R214_Q0.5570.99
270_E277_R0.5570.99
258_P261_N0.5570.99
170_S188_G0.5570.99
204_R207_F0.5560.99
205_E208_Q0.5560.99
184_P217_Y0.5540.99
147_K151_G0.5540.99
248_Y251_N0.5540.99
196_M199_A0.5540.99
63_Q100_Y0.5530.99
22_Q25_D0.5520.99
286_R290_R0.5510.99
270_E276_S0.5460.99
63_Q66_L0.5450.99
85_S124_R0.5410.99
133_F167_V0.5400.99
203_Y218_V0.5390.99
248_Y253_S0.5380.99
90_A144_V0.5370.99
248_Y252_L0.5360.99
227_A230_I0.5340.99
166_F304_E0.5340.99
287_E327_V0.5300.99
220_A296_F0.5300.99
191_F195_S0.5290.99
64_H100_Y0.5290.99
223_N308_L0.5270.99
229_S235_F0.5260.99
36_N71_D0.5250.99
60_S92_Q0.5250.99
60_S64_H0.5250.99
177_I180_K0.5210.99
78_G107_A0.5200.99
199_A202_I0.5200.99
97_E163_V0.5190.99
262_F268_Q0.5190.99
105_D304_E0.5190.99
105_D164_P0.5180.99
162_H183_L0.5160.99
60_S95_T0.5160.99
246_D249_T0.5150.99
225_I237_S0.5100.99
113_G119_A0.5100.99
247_I252_L0.5060.99
266_L270_E0.5050.99
144_V165_V0.5010.99
170_S189_A0.5000.99
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  
1lucA 1 0.9263 100 0.201 Contact Map
2wgkA 2 0.9764 100 0.214 Contact Map
1lucB 1 0.9086 100 0.217 Contact Map
4us5A 3 0.9587 100 0.221 Contact Map
2i7gA 2 0.9528 100 0.228 Contact Map
3raoA 2 0.9617 100 0.245 Contact Map
1ezwA 3 0.9204 100 0.248 Contact Map
3c8nA 2 0.9204 100 0.259 Contact Map
3b9oA 2 0.9676 100 0.267 Contact Map
1rhcA 2 0.9115 100 0.269 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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