GREMLIN Database
YIBA - Protein YibA
UniProt: P0ADK6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11187
Length: 280 (233)
Sequences: 13210 (10474)
Seq/√Len: 686.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_D39_K3.0181.00
145_R170_D2.8431.00
176_R203_D2.5061.00
197_F215_G2.4121.00
203_D208_V2.3641.00
226_S230_D2.2671.00
31_L43_S2.2441.00
65_D70_R2.0671.00
252_T258_D2.0551.00
108_R139_D2.0251.00
139_D144_V1.9861.00
196_C199_E1.9801.00
227_V230_D1.9621.00
40_R65_D1.9091.00
252_T256_V1.9031.00
62_F74_G1.8801.00
42_S46_V1.8281.00
185_I190_N1.8161.00
102_D107_V1.8051.00
58_L62_F1.7881.00
217_S220_K1.7771.00
40_R43_S1.7751.00
237_V240_D1.7751.00
240_D243_E1.7581.00
214_I218_Y1.7551.00
211_E214_I1.7491.00
240_D247_E1.7341.00
170_D175_V1.7331.00
246_G249_G1.7291.00
48_Q51_G1.7201.00
210_I214_I1.6771.00
132_Q136_T1.6721.00
202_Q227_V1.6711.00
61_E64_S1.6511.00
58_L61_E1.6491.00
70_R73_I1.6201.00
253_L256_V1.6191.00
199_E202_Q1.6101.00
251_K255_P1.5591.00
163_L166_N1.5551.00
131_E135_I1.5501.00
178_W181_F1.5341.00
92_F96_N1.5241.00
167_L179_A1.5201.00
90_N93_N1.5171.00
136_T139_D1.5171.00
184_N215_G1.5031.00
223_R227_V1.4931.00
200_M208_V1.4911.00
37_S67_N1.4791.00
177_N181_F1.4741.00
240_D244_A1.4731.00
214_I217_S1.4641.00
231_E237_V1.4531.00
239_D243_E1.4461.00
209_R212_A1.4431.00
142_T172_N1.4351.00
41_I73_I1.4301.00
73_I76_F1.4261.00
142_T146_R1.4231.00
150_F178_W1.4081.00
252_T255_P1.4031.00
195_D199_E1.3871.00
31_L34_D1.3661.00
27_E30_R1.3621.00
146_R178_W1.3481.00
83_I117_Q1.3341.00
253_L258_D1.3271.00
134_Q138_F1.3241.00
95_L114_S1.3161.00
79_G83_I1.3071.00
255_P258_D1.3011.00
242_I246_G1.2991.00
141_S144_V1.2981.00
44_A77_I1.2921.00
241_I250_D1.2921.00
166_N169_K1.2821.00
76_F80_Q1.2781.00
181_F211_E1.2761.00
90_N94_I1.2731.00
164_L182_A1.2721.00
209_R213_I1.2691.00
94_I97_N1.2671.00
26_D30_R1.2591.00
121_K124_I1.2571.00
113_E117_Q1.2551.00
213_I244_A1.2531.00
138_F166_N1.2521.00
181_F185_I1.2441.00
238_Y242_I1.2391.00
177_N211_E1.2161.00
136_T148_T1.2161.00
132_Q135_I1.2111.00
251_K256_V1.2081.00
246_G250_D1.2021.00
74_G77_I1.2001.00
146_R172_N1.1871.00
49_L52_G1.1711.00
147_A151_A1.1691.00
227_V231_E1.1651.00
213_I217_S1.1631.00
119_C154_V1.1621.00
244_A248_L1.1581.00
42_S45_R1.1521.00
210_I240_D1.1501.00
41_I45_R1.1451.00
109_A113_E1.1401.00
45_R48_Q1.1391.00
107_V110_T1.1361.00
243_E247_E1.1341.00
239_D242_I1.1321.00
230_D233_K1.1301.00
72_D76_F1.1211.00
206_E210_I1.1181.00
62_F70_R1.1021.00
67_N71_R1.1001.00
228_L244_A1.0881.00
244_A247_E1.0861.00
39_K46_V1.0861.00
125_Y128_K1.0861.00
207_E211_E1.0761.00
241_I244_A1.0751.00
54_D57_R1.0721.00
48_Q52_G1.0691.00
180_A184_N1.0641.00
135_I138_F1.0631.00
234_K237_V1.0561.00
80_Q84_C1.0531.00
254_L258_D1.0461.00
177_N207_E1.0391.00
185_I189_D1.0391.00
45_R49_L1.0361.00
247_E250_D1.0351.00
36_N39_K1.0301.00
153_S182_A1.0301.00
71_R74_G1.0271.00
209_R234_K1.0161.00
251_K254_L1.0141.00
93_N97_N1.0111.00
31_L39_K1.0091.00
238_Y241_I1.0061.00
59_A77_I0.9901.00
146_R150_F0.9891.00
44_A48_Q0.9811.00
251_K258_D0.9801.00
200_M203_D0.9791.00
39_K42_S0.9751.00
181_F184_N0.9641.00
35_H39_K0.9631.00
179_A182_A0.9621.00
61_E65_D0.9541.00
175_V178_W0.9481.00
73_I77_I0.9471.00
145_R148_T0.9441.00
38_L42_S0.9411.00
176_R179_A0.9361.00
107_V111_A0.9341.00
54_D58_L0.9301.00
243_E246_G0.9291.00
167_L170_D0.9291.00
125_Y129_I0.9271.00
40_R44_A0.9211.00
45_R73_I0.9211.00
62_F65_D0.9171.00
110_T113_E0.9161.00
201_L216_L0.9111.00
253_L257_L0.9101.00
196_C200_M0.9091.00
170_D176_R0.9061.00
79_G82_K0.9031.00
59_A74_G0.9021.00
149_A167_L0.8991.00
212_A216_L0.8981.00
70_R74_G0.8941.00
133_S151_A0.8931.00
168_L183_I0.8911.00
46_V50_R0.8881.00
180_A215_G0.8811.00
180_A200_M0.8771.00
45_R52_G0.8721.00
80_Q83_I0.8691.00
224_V229_C0.8691.00
153_S181_F0.8681.00
165_I169_K0.8531.00
72_D75_A0.8501.00
32_L43_S0.8431.00
128_K131_E0.8411.00
169_K199_E0.8361.00
79_G85_K0.8331.00
34_D40_R0.8291.00
60_I63_C0.8291.00
237_V242_I0.8141.00
46_V49_L0.8081.00
26_D31_L0.8071.00
211_E218_Y0.8051.00
180_A212_A0.8051.00
43_S46_V0.7961.00
106_C109_A0.7931.00
116_A119_C0.7911.00
173_G176_R0.7911.00
65_D74_G0.7841.00
28_L46_V0.7821.00
26_D29_F0.7801.00
240_D246_G0.7771.00
231_E241_I0.7711.00
31_L42_S0.7711.00
142_T149_A0.7711.00
201_L213_I0.7711.00
207_E210_I0.7701.00
110_T117_Q0.7691.00
142_T145_R0.7681.00
135_I139_D0.7681.00
184_N218_Y0.7651.00
79_G114_S0.7641.00
185_I188_Y0.7591.00
117_Q120_K0.7581.00
71_R102_D0.7571.00
134_Q159_A0.7551.00
125_Y134_Q0.7541.00
52_G80_Q0.7531.00
79_G117_Q0.7511.00
173_G205_N0.7451.00
224_V230_D0.7451.00
204_K208_V0.7441.00
72_D110_T0.7441.00
69_I73_I0.7401.00
89_D93_N0.7391.00
105_A108_R0.7391.00
44_A53_Q0.7361.00
153_S178_W0.7351.00
48_Q53_Q0.7271.00
148_T151_A0.7221.00
89_D96_N0.7191.00
202_Q230_D0.7181.00
149_A179_A0.7131.00
229_C232_L0.7121.00
191_S195_D0.7091.00
93_N96_N0.7091.00
187_K190_N0.7091.00
95_L111_A0.7061.00
25_D29_F0.7041.00
238_Y250_D0.7031.00
77_I80_Q0.7011.00
75_A79_G0.6971.00
234_K241_I0.6971.00
164_L167_L0.6971.00
39_K51_G0.6961.00
178_W182_A0.6961.00
149_A178_W0.6951.00
220_K247_E0.6931.00
79_G113_E0.6881.00
149_A182_A0.6871.00
75_A111_A0.6861.00
76_F110_T0.6851.00
37_S40_R0.6821.00
70_R76_F0.6771.00
136_T144_V0.6771.00
223_R226_S0.6721.00
231_E234_K0.6701.00
41_I44_A0.6691.00
91_V96_N0.6661.00
30_R34_D0.6601.00
217_S221_D0.6591.00
225_L245_A0.6591.00
108_R111_A0.6581.00
242_I245_A0.6491.00
159_A162_P0.6471.00
180_A197_F0.6461.00
150_F153_S0.6391.00
67_N70_R0.6381.00
88_E91_V0.6371.00
113_E147_A0.6371.00
131_E134_Q0.6351.00
126_S129_I0.6341.00
211_E220_K0.6331.00
193_I197_F0.6311.00
241_I246_G0.6291.00
205_N209_R0.6271.00
59_A79_G0.6261.00
116_A150_F0.6261.00
68_Y72_D0.6251.00
145_R149_A0.6211.00
112_I136_T0.6181.00
233_K239_D0.6161.00
228_L241_I0.6141.00
55_A59_A0.6111.00
111_A114_S0.6111.00
212_A215_G0.6101.00
165_I196_C0.6071.00
113_E116_A0.6051.00
57_R61_E0.6041.00
69_I80_Q0.6001.00
35_H40_R0.6001.00
173_G177_N0.5981.00
107_V114_S0.5961.00
150_F154_V0.5961.00
44_A52_G0.5941.00
243_E248_L0.5941.00
106_C110_T0.5911.00
216_L220_K0.5891.00
76_F79_G0.5881.00
192_D195_D0.5861.00
217_S244_A0.5851.00
94_I99_A0.5841.00
192_D200_M0.5821.00
126_S135_I0.5791.00
26_D50_R0.5761.00
127_P131_E0.5761.00
116_A151_A0.5761.00
48_Q76_F0.5731.00
55_A61_E0.5711.00
88_E92_F0.5671.00
215_G219_R0.5661.00
213_I240_D0.5651.00
29_F34_D0.5631.00
48_Q73_I0.5621.00
242_I249_G0.5621.00
40_R48_Q0.5561.00
237_V241_I0.5551.00
112_I148_T0.5541.00
162_P166_N0.5511.00
220_K249_G0.5511.00
213_I228_L0.5501.00
130_V134_Q0.5491.00
41_I46_V0.5481.00
49_L53_Q0.5481.00
175_V182_A0.5471.00
46_V51_G0.5461.00
65_D71_R0.5441.00
176_R180_A0.5441.00
27_E31_L0.5421.00
92_F95_L0.5401.00
100_L108_R0.5281.00
149_A153_S0.5251.00
57_R60_I0.5231.00
210_I237_V0.5211.00
44_A73_I0.5190.99
243_E249_G0.5180.99
112_I117_Q0.5180.99
238_Y249_G0.5180.99
239_D246_G0.5130.99
240_D245_A0.5120.99
63_C66_K0.5110.99
217_S247_E0.5100.99
233_K256_V0.5100.99
69_I72_D0.5070.99
229_C239_D0.5060.99
44_A59_A0.5020.99
30_R33_D0.5010.99
74_G78_L0.5000.99
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  
1oyzA 1 0.975 100 0.279 Contact Map
4d4zA 1 0.9 99.9 0.411 Contact Map
1wa5B 1 0.9143 99.9 0.414 Contact Map
1b3uA 1 0.9929 99.9 0.429 Contact Map
3tpoA 1 0.9393 99.8 0.438 Contact Map
4rv1A 1 0.9929 99.8 0.446 Contact Map
4lacA 1 0.7179 99.8 0.456 Contact Map
4rxhB 1 0.9893 99.8 0.468 Contact Map
4uafB 1 0.9286 99.8 0.47 Contact Map
3nowA 3 0.9964 99.8 0.47 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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