GREMLIN Database
YDDR - UPF0173 protein YddR
UniProt: P96655 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 254 (235)
Sequences: 4777 (3391)
Seq/√Len: 221.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
123_K142_C3.6621.00
11_I215_V3.5361.00
147_K153_V3.2831.00
124_T145_V3.1491.00
120_Q147_K3.0861.00
14_K19_K3.0791.00
204_H212_I2.9501.00
67_T156_V2.8961.00
178_I209_H2.8801.00
162_W206_A2.6461.00
88_M108_E2.5571.00
20_F63_A2.5041.00
247_E250_E2.3871.00
167_E171_H2.3701.00
4_T251_S2.3601.00
115_V120_Q2.3111.00
176_E210_A2.2951.00
195_M203_V2.2911.00
122_V147_K2.2741.00
154_L179_V2.1851.00
145_V173_H2.1771.00
179_V213_I2.1681.00
96_A109_V2.1251.00
124_T143_G2.1241.00
18_K117_E2.0731.00
184_D196_G2.0621.00
198_E233_F2.0281.00
122_V173_H2.0221.00
22_I67_T2.0161.00
157_A181_N1.9701.00
49_S52_T1.9511.00
96_A100_K1.9421.00
12_V19_K1.9221.00
167_E206_A1.8901.00
65_I146_F1.8851.00
11_I179_V1.8831.00
65_I144_L1.8421.00
129_G193_L1.8381.00
157_A180_V1.7651.00
233_F236_E1.7551.00
211_K244_L1.7481.00
202_E205_K1.7481.00
204_H209_H1.7221.00
202_E206_A1.7091.00
3_I177_I1.6811.00
27_A75_D1.6791.00
179_V215_V1.6381.00
22_I156_V1.5871.00
228_E232_N1.5531.00
177_I213_I1.5421.00
170_I208_P1.5151.00
233_F237_K1.5151.00
205_K237_K1.5031.00
108_E111_H1.4631.00
93_E111_H1.4111.00
156_V215_V1.4071.00
15_Y148_H1.4031.00
168_D172_T1.3541.00
3_I11_I1.3471.00
110_L123_K1.3441.00
123_K144_L1.3091.00
191_G199_D1.3081.00
42_D45_N1.3011.00
76_D80_N1.2921.00
63_A88_M1.2801.00
186_Q189_D1.2801.00
115_V122_V1.2771.00
182_G200_I1.2711.00
69_L98_E1.2631.00
196_G199_D1.2601.00
121_L144_L1.2521.00
18_K119_I1.2511.00
4_T14_K1.2421.00
157_A178_I1.2351.00
168_D171_H1.2161.00
64_V89_F1.2111.00
229_E232_N1.2011.00
113_D125_K1.1881.00
107_V110_L1.1851.00
13_V154_L1.1791.00
6_I10_T1.1681.00
26_L50_L1.1481.00
232_N236_E1.1481.00
13_V22_I1.1451.00
162_W202_E1.1431.00
25_M30_G1.1391.00
230_L234_S1.1331.00
65_I121_L1.1291.00
200_I212_I1.1171.00
229_E233_F1.1161.00
22_I146_F1.1061.00
180_V203_V1.1041.00
63_A90_V1.0931.00
91_Q95_D1.0911.00
90_V144_L1.0821.00
68_H159_D1.0751.00
143_G157_A1.0731.00
84_K87_K1.0651.00
166_I203_V1.0631.00
234_S243_I1.0591.00
18_K62_D1.0581.00
20_F119_I1.0581.00
12_V61_V1.0571.00
42_D46_P1.0511.00
135_L138_M1.0451.00
177_I211_K1.0441.00
230_L233_F1.0401.00
146_F154_L1.0291.00
6_I26_L1.0221.00
22_I65_I1.0131.00
29_K38_T1.0031.00
225_L229_E0.9951.00
211_K242_N0.9911.00
21_L61_V0.9881.00
10_T22_I0.9881.00
145_V169_E0.9801.00
180_V207_A0.9771.00
178_I207_A0.9701.00
51_P81_V0.9701.00
6_I12_V0.9661.00
19_K60_G0.9641.00
124_T155_Y0.9611.00
99_V102_S0.9571.00
127_E163_Y0.9521.00
6_I47_L0.9441.00
213_I244_L0.9351.00
113_D120_Q0.9321.00
145_V175_P0.9210.99
185_N222_H0.9200.99
95_D139_G0.9190.99
68_H216_H0.9130.99
78_A82_L0.9120.99
126_G160_T0.9100.99
178_I204_H0.9090.99
164_D168_D0.8960.99
157_A160_T0.8950.99
148_H151_E0.8950.99
227_R230_L0.8920.99
153_V174_Q0.8920.99
63_A121_L0.8920.99
10_T26_L0.8890.99
19_K61_V0.8870.99
90_V121_L0.8870.99
46_P50_L0.8860.99
197_K225_L0.8850.99
15_Y20_F0.8800.99
18_K63_A0.8770.99
235_K240_S0.8760.99
58_L61_V0.8750.99
108_E116_F0.8690.99
106_N111_H0.8650.99
90_V116_F0.8610.99
113_D172_T0.8560.99
212_I243_I0.8550.99
226_S229_E0.8550.99
3_I179_V0.8520.99
113_D173_H0.8510.99
111_H129_G0.8500.99
5_Q215_V0.8480.99
75_D78_A0.8460.99
20_F121_L0.8410.99
97_K100_K0.8350.99
65_I142_C0.8300.99
121_L146_F0.8260.99
153_V175_P0.8260.99
204_H234_S0.8210.99
110_L114_T0.8200.99
19_K62_D0.8200.99
107_V111_H0.8190.99
93_E97_K0.8160.99
70_H159_D0.8080.99
211_K214_S0.8050.99
26_L78_A0.7920.98
108_E185_N0.7900.98
155_Y203_V0.7890.98
12_V21_L0.7890.98
170_I178_I0.7890.98
180_V195_M0.7860.98
129_G136_N0.7860.98
164_D167_E0.7850.98
152_K176_E0.7850.98
89_F104_F0.7850.98
11_I213_I0.7840.98
16_A151_E0.7810.98
246_P251_S0.7770.98
159_D216_H0.7760.98
182_G217_M0.7740.98
186_Q196_G0.7650.98
238_G241_S0.7640.98
184_D225_L0.7630.98
47_L51_P0.7600.98
196_G200_I0.7600.98
230_L239_F0.7550.98
199_D202_E0.7520.98
153_V176_E0.7510.98
3_I213_I0.7510.98
201_Y237_K0.7490.98
197_K229_E0.7460.98
156_V179_V0.7460.98
110_L116_F0.7450.98
134_L137_L0.7440.98
92_N142_C0.7410.98
155_Y207_A0.7370.98
133_E137_L0.7320.97
6_I46_P0.7310.97
223_W230_L0.7290.97
231_K245_V0.7280.97
99_V104_F0.7250.97
231_K235_K0.7230.97
4_T12_V0.7220.97
233_F238_G0.7150.97
133_E136_N0.7130.97
217_M231_K0.7120.97
80_N83_P0.7090.97
10_T75_D0.7060.97
9_A181_N0.7040.97
230_L238_G0.7040.97
66_V74_F0.7010.97
69_L139_G0.7000.97
106_N109_V0.6990.97
79_K82_L0.6950.96
214_S217_M0.6850.96
198_E229_E0.6840.96
112_Q115_V0.6830.96
147_K173_H0.6810.96
186_Q190_L0.6790.96
201_Y233_F0.6760.96
131_G136_N0.6750.96
131_G137_L0.6740.96
234_S238_G0.6690.96
128_H159_D0.6680.96
148_H152_K0.6670.96
88_M91_Q0.6660.95
122_V145_V0.6640.95
126_G143_G0.6630.95
48_V52_T0.6630.95
90_V93_E0.6620.95
223_W226_S0.6610.95
235_K238_G0.6600.95
5_Q218_E0.6580.95
228_E231_K0.6560.95
223_W227_R0.6540.95
232_N235_K0.6540.95
134_L138_M0.6530.95
16_A148_H0.6530.95
85_N88_M0.6510.95
9_A215_V0.6490.95
13_V20_F0.6480.95
181_N200_I0.6470.95
41_Q45_N0.6460.95
197_K201_Y0.6410.94
74_F79_K0.6400.94
10_T46_P0.6380.94
148_H154_L0.6360.94
153_V173_H0.6310.94
15_Y119_I0.6280.94
68_H72_D0.6280.94
154_L177_I0.6270.94
98_E102_S0.6270.94
44_F248_D0.6250.94
46_P49_S0.6240.94
43_L221_N0.6240.94
83_P86_I0.6230.94
127_E161_V0.6210.93
50_L81_V0.6200.93
162_W166_I0.6200.93
130_R139_G0.6170.93
111_H114_T0.6160.93
86_I90_V0.6140.93
170_I175_P0.6080.93
18_K118_G0.6070.93
3_I13_V0.6070.93
106_N110_L0.6060.93
38_T41_Q0.6060.93
166_I206_A0.6020.92
186_Q191_G0.6010.92
47_L50_L0.6010.92
180_V204_H0.6000.92
5_Q217_M0.5990.92
182_G214_S0.5970.92
87_K92_N0.5940.92
69_L138_M0.5940.92
160_T195_M0.5930.92
42_D47_L0.5900.92
28_E41_Q0.5900.92
14_K17_N0.5870.91
209_H212_I0.5860.91
42_D219_A0.5850.91
41_Q44_F0.5850.91
214_S245_V0.5840.91
184_D222_H0.5830.91
10_T25_M0.5820.91
16_A152_K0.5800.91
225_L230_L0.5800.91
160_T166_I0.5800.91
104_F107_V0.5750.91
28_E45_N0.5740.91
5_Q248_D0.5720.90
125_K140_D0.5700.90
88_M106_N0.5690.90
79_K104_F0.5680.90
68_H73_H0.5670.90
96_A103_G0.5670.90
94_A99_V0.5670.90
28_E75_D0.5640.90
92_N144_L0.5640.90
203_V207_A0.5610.90
223_W229_E0.5610.90
98_E101_A0.5580.89
80_N84_K0.5570.89
77_V81_V0.5560.89
90_V123_K0.5550.89
28_E31_T0.5540.89
91_Q96_A0.5480.88
76_D79_K0.5480.88
161_V199_D0.5470.88
68_H128_H0.5460.88
91_Q144_L0.5440.88
165_A168_D0.5410.88
61_V64_V0.5410.88
86_I104_F0.5410.88
124_T169_E0.5400.88
163_Y169_E0.5380.88
52_T59_D0.5370.87
143_G155_Y0.5360.87
15_Y152_K0.5320.87
88_M92_N0.5300.87
146_F156_V0.5290.87
74_F132_E0.5280.87
66_V99_V0.5280.87
69_L95_D0.5280.87
96_A107_V0.5270.86
185_N194_I0.5270.86
124_T172_T0.5260.86
12_V59_D0.5250.86
156_V181_N0.5220.86
192_S196_G0.5210.86
82_L86_I0.5210.86
201_Y205_K0.5210.86
15_Y146_F0.5200.86
74_F95_D0.5200.86
170_I206_A0.5180.86
66_V95_D0.5160.85
175_P208_P0.5150.85
202_E237_K0.5140.85
201_Y238_G0.5130.85
157_A166_I0.5110.85
129_G185_N0.5110.85
180_V212_I0.5090.85
76_D102_S0.5060.84
212_I230_L0.5060.84
163_Y170_I0.5000.83
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  
4qn9A 2 0.9685 100 0.338 Contact Map
3rpcA 2 0.9764 100 0.378 Contact Map
3bv6A 5 0.9685 100 0.485 Contact Map
2wylA 5 0.9252 100 0.502 Contact Map
4jo0A 2 0.9134 100 0.536 Contact Map
3kl7A 1 0.7953 100 0.575 Contact Map
3zwfA 2 0.8071 100 0.611 Contact Map
1zkpA 2 0.8543 100 0.613 Contact Map
2cbnA 2 0.8701 99.9 0.623 Contact Map
1y44A 2 0.8701 99.9 0.626 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.

Page generated in 0.0091 seconds.