GREMLIN Database
YPJD - Inner membrane protein YpjD
UniProt: P64432 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14226
Length: 263 (256)
Sequences: 2989 (1939)
Seq/√Len: 121.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
46_A74_L7.2001.00
131_S190_T5.1311.00
42_L78_T4.7871.00
188_T217_W4.5661.00
12_Y45_H4.3161.00
184_V221_I4.0281.00
139_I245_A3.7491.00
142_A242_V3.4791.00
141_A180_T3.1521.00
38_A97_Y2.9241.00
219_V247_I2.6901.00
145_A176_M2.6651.00
219_V244_G2.5381.00
49_L74_L2.5331.00
152_D235_R2.4131.00
77_C100_A2.3091.00
173_E227_H2.2511.00
42_L74_L2.2261.00
232_W236_R2.1901.00
19_I93_L2.0811.00
216_A248_L2.0641.00
189_L193_T2.0441.00
46_A49_L2.0311.00
138_L183_G2.0031.00
257_I261_L1.9771.00
198_M202_F1.9281.00
18_L34_A1.9181.00
8_A12_Y1.8971.00
50_E54_L1.8341.00
184_V217_W1.8321.00
41_A77_C1.8221.00
42_L77_C1.7631.00
223_L244_G1.7381.00
144_Y172_I1.7311.00
39_V81_T1.6891.00
218_F222_V1.6781.00
251_A254_G1.6701.00
47_I50_E1.6221.00
146_L242_V1.5961.00
180_T241_N1.5811.00
198_M206_N1.5801.00
142_A146_L1.5761.00
43_V47_I1.5721.00
80_M93_L1.5521.00
12_Y77_C1.5441.00
135_Y187_L1.5301.00
155_L169_L1.4921.00
176_M241_N1.4571.00
69_G103_N1.4501.00
145_A241_N1.4311.00
202_F206_N1.4101.00
145_A242_V1.4081.00
206_N210_A1.4051.00
245_A249_T1.3671.00
148_L238_V1.3621.00
42_L81_T1.3571.00
184_V188_T1.3571.00
152_D169_L1.3511.00
15_S41_A1.3501.00
187_L216_A1.3461.00
231_G234_G1.3361.00
75_M136_A1.3311.00
183_G220_Y1.3291.00
205_E252_Y1.3071.00
135_Y209_K1.3051.00
45_H70_S1.2911.00
17_A21_P1.2831.00
9_L16_L1.2821.00
7_L11_A1.2801.00
76_I139_I1.2781.00
42_L45_H1.2771.00
47_I51_A1.2761.00
153_Y157_N1.2681.00
161_A164_Q1.2671.00
77_C97_Y1.2671.00
11_A41_A1.2631.00
198_M207_I1.2470.99
61_Q67_N1.2460.99
210_A225_W1.2380.99
6_L9_L1.2300.99
42_L46_A1.2290.99
12_Y16_L1.2270.99
6_L10_V1.2160.99
15_S38_A1.1980.99
202_F210_A1.1980.99
177_F227_H1.1940.99
94_P98_A1.1810.99
141_A241_N1.1780.99
155_L158_K1.1760.99
120_A192_C1.1660.99
137_T183_G1.1660.99
173_E234_G1.1640.99
7_L44_C1.1600.99
78_T82_I1.1540.99
52_R67_N1.1440.99
103_N106_L1.1320.99
12_Y41_A1.1280.99
254_G258_V1.1270.99
132_L135_Y1.1250.99
173_E237_V1.1210.99
85_S88_R1.1200.99
68_V252_Y1.1030.99
35_I84_A1.0990.99
222_V226_G1.0930.99
14_V37_S1.0910.99
39_V43_V1.0850.99
130_L190_T1.0570.98
68_V190_T1.0540.98
7_L14_V1.0490.98
22_G31_R1.0490.98
216_A251_A1.0470.98
203_S207_I1.0470.98
117_H195_L1.0330.98
205_E210_A1.0270.98
36_I40_I1.0250.98
174_R178_H1.0240.98
141_A179_I1.0150.98
150_W163_N1.0000.97
154_Q157_N0.9930.97
8_A48_A0.9930.97
227_H231_G0.9850.97
32_R150_W0.9840.97
239_W242_V0.9830.97
160_L163_N0.9830.97
206_N225_W0.9770.97
31_R90_W0.9740.97
187_L248_L0.9730.97
198_M210_A0.9720.97
202_F207_I0.9690.97
20_V24_L0.9680.97
248_L254_G0.9650.97
41_A100_A0.9510.97
212_L215_V0.9410.96
191_L195_L0.9270.96
203_S210_A0.9200.96
52_R66_L0.9180.96
19_I35_I0.9160.96
212_L255_S0.9140.96
16_L20_V0.9140.96
187_L193_T0.9040.95
187_L191_L0.9030.95
15_S18_L0.9030.95
32_R36_I0.8970.95
197_Y206_N0.8870.95
226_G232_W0.8810.95
171_S174_R0.8810.95
190_T213_S0.8790.95
70_S104_L0.8790.95
62_N71_L0.8770.95
29_G32_R0.8770.95
74_L78_T0.8760.95
162_F167_P0.8670.94
144_Y176_M0.8670.94
206_N214_I0.8620.94
176_M223_L0.8610.94
100_A103_N0.8610.94
173_E177_F0.8530.94
202_F225_W0.8520.94
148_L169_L0.8440.93
195_L201_L0.8420.93
15_S19_I0.8390.93
122_P126_V0.8380.93
220_Y241_N0.8350.93
173_E238_V0.8230.93
177_F224_L0.8210.92
216_A254_G0.8200.92
181_Q224_L0.8180.92
198_M201_L0.8170.92
53_I61_Q0.8160.92
19_I34_A0.8150.92
72_V132_L0.8130.92
213_S254_G0.8130.92
22_G34_A0.8130.92
115_I214_I0.8120.92
201_L207_I0.8100.92
233_R237_V0.8090.92
45_H77_C0.8070.92
191_L217_W0.8040.92
97_Y100_A0.8030.92
65_L68_V0.8010.91
52_R61_Q0.8010.91
241_N254_G0.7980.91
220_Y260_Q0.7970.91
76_I136_A0.7950.91
19_I23_L0.7920.91
202_F205_E0.7890.91
59_S67_N0.7880.91
20_V94_P0.7870.91
197_Y225_W0.7860.91
123_G200_N0.7830.91
255_S259_Q0.7810.90
222_V240_F0.7710.90
215_V222_V0.7700.90
209_K256_R0.7680.90
151_I168_P0.7670.90
173_E231_G0.7650.89
50_E157_N0.7570.89
61_Q64_S0.7560.89
195_L214_I0.7560.89
244_G248_L0.7560.89
225_W229_H0.7550.89
254_G257_I0.7550.89
198_M203_S0.7540.89
218_F221_I0.7540.89
62_N67_N0.7530.89
208_D258_V0.7510.89
35_I43_V0.7480.88
221_I224_L0.7480.88
89_G140_I0.7470.88
134_S187_L0.7470.88
33_M40_I0.7420.88
11_A15_S0.7410.88
35_I39_V0.7380.88
10_V14_V0.7370.88
16_L101_L0.7370.88
73_S104_L0.7330.87
223_L240_F0.7310.87
130_L189_L0.7310.87
150_W153_Y0.7310.87
16_L98_A0.7310.87
121_T128_I0.7280.87
134_S146_L0.7280.87
196_F199_H0.7280.87
38_A77_C0.7250.87
206_N212_L0.7240.87
142_A245_A0.7240.87
19_I84_A0.7150.86
241_N244_G0.7120.86
25_Q29_G0.7100.86
195_L211_V0.7080.86
213_S253_F0.7060.85
137_T182_I0.7050.85
79_V140_I0.7040.85
99_F139_I0.7030.85
156_K159_K0.7020.85
151_I169_L0.7020.85
226_G237_V0.7010.85
210_A256_R0.7010.85
48_A66_L0.6980.85
172_I237_V0.6960.85
214_I218_F0.6960.85
223_L251_A0.6950.84
117_H215_V0.6940.84
207_I210_A0.6940.84
60_G116_T0.6930.84
227_H237_V0.6920.84
123_G207_I0.6870.84
256_R261_L0.6850.84
248_L252_Y0.6830.83
201_L205_E0.6810.83
68_V71_L0.6720.82
49_L71_L0.6710.82
154_Q159_K0.6710.82
246_V250_L0.6680.82
135_Y193_T0.6660.82
158_K168_P0.6640.82
32_R35_I0.6630.82
201_L206_N0.6620.82
21_P24_L0.6570.81
11_A37_S0.6550.81
125_L128_I0.6540.81
226_G233_R0.6520.81
62_N129_G0.6520.81
135_Y254_G0.6500.80
68_V131_S0.6490.80
252_Y255_S0.6470.80
197_Y202_F0.6460.80
117_H206_N0.6450.80
67_N214_I0.6410.79
202_F214_I0.6400.79
184_V224_L0.6360.79
92_L143_L0.6320.78
95_I147_Q0.6300.78
14_V78_T0.6260.78
8_A23_L0.6240.78
242_V246_V0.6240.78
198_M225_W0.6220.77
189_L219_V0.6220.77
9_L18_L0.6220.77
76_I247_I0.6190.77
14_V27_N0.6160.77
151_I166_M0.6150.77
18_L82_I0.6120.76
66_L124_M0.6090.76
135_Y248_L0.6080.76
208_D256_R0.6080.76
45_H74_L0.6070.76
13_S20_V0.6030.75
231_G235_R0.6020.75
44_C48_A0.6010.75
203_S225_W0.5980.75
83_V91_L0.5980.75
27_N40_I0.5970.74
224_L240_F0.5960.74
68_V132_L0.5950.74
201_L210_A0.5930.74
7_L32_R0.5890.73
55_P214_I0.5880.73
121_T225_W0.5880.73
140_I144_Y0.5880.73
123_G197_Y0.5880.73
152_D155_L0.5860.73
92_L99_F0.5850.73
207_I225_W0.5830.73
73_S103_N0.5810.72
130_L175_K0.5810.72
53_I58_D0.5800.72
117_H225_W0.5790.72
208_D213_S0.5770.72
148_L185_V0.5770.72
201_L250_L0.5750.72
208_D252_Y0.5750.72
57_G112_N0.5740.72
216_A247_I0.5740.72
94_P97_Y0.5740.72
8_A15_S0.5730.71
82_I156_K0.5730.71
186_L190_T0.5720.71
199_H205_E0.5710.71
108_T111_P0.5690.71
78_T156_K0.5680.71
71_L128_I0.5680.71
67_N124_M0.5670.71
12_Y15_S0.5670.71
80_M84_A0.5660.71
18_L37_S0.5610.70
139_I143_L0.5610.70
253_F257_I0.5600.70
25_Q28_G0.5590.70
147_Q172_I0.5590.70
11_A44_C0.5590.70
180_T223_L0.5590.70
116_T179_I0.5570.69
61_Q119_E0.5570.69
118_L201_L0.5540.69
30_W33_M0.5530.69
35_I81_T0.5530.69
212_L216_A0.5520.69
208_D225_W0.5520.69
14_V215_V0.5510.68
195_L205_E0.5480.68
212_L254_G0.5480.68
67_N121_T0.5440.68
5_A104_L0.5440.68
198_M205_E0.5440.68
55_P109_F0.5400.67
95_I143_L0.5390.67
110_M116_T0.5350.66
195_L199_H0.5320.66
200_N204_M0.5310.66
58_D61_Q0.5310.66
41_A97_Y0.5310.66
139_I183_G0.5300.66
18_L156_K0.5270.65
108_T112_N0.5270.65
8_A41_A0.5270.65
61_Q115_I0.5270.65
173_E232_W0.5260.65
234_G237_V0.5260.65
173_E176_M0.5250.65
119_E197_Y0.5250.65
119_E225_W0.5240.65
205_E211_V0.5240.65
14_V243_A0.5240.65
107_A112_N0.5240.65
114_Y118_L0.5230.65
8_A20_V0.5230.65
5_A8_A0.5210.64
10_V31_R0.5210.64
22_G27_N0.5130.63
173_E233_R0.5130.63
145_A177_F0.5130.63
123_G198_M0.5120.63
32_R40_I0.5100.63
101_L106_L0.5090.62
121_T202_F0.5070.62
78_T163_N0.5060.62
151_I163_N0.5040.62
80_M96_V0.5030.62
154_Q161_A0.5030.62
70_S73_S0.5010.61
22_G25_Q0.5010.61
40_I44_C0.5000.61
137_T179_I0.5000.61
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  
4o6yA 2 0.6806 10.9 0.958 Contact Map
2bg9A 1 0.5627 10.5 0.958 Contact Map
3mk7A 1 0.8897 8.7 0.96 Contact Map
2m20A 2 0.2281 6.9 0.961 Contact Map
4qncA 2 0.308 5.7 0.963 Contact Map
3s8fA 1 0.8631 5.2 0.963 Contact Map
4phzK 1 0.5475 4.1 0.965 Contact Map
4qndA 2 0.327 3.8 0.966 Contact Map
3b5dA 2 0.3764 3.8 0.966 Contact Map
2l2tA 2 0.1673 3.5 0.967 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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