GREMLIN Database
YPHF - ABC transporter periplasmic-binding protein YphF
UniProt: P77269 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13467
Length: 327 (288)
Sequences: 39123 (29780)
Seq/√Len: 1754.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
140_L184_E3.4441.00
161_Q222_N3.3131.00
90_A288_T2.7781.00
179_R183_E2.6341.00
146_L251_F2.6311.00
255_M274_D2.5641.00
133_A291_V2.5081.00
161_Q249_A2.4571.00
144_K188_S2.3401.00
54_A57_D2.2831.00
208_I241_N2.2691.00
212_E242_Q2.2151.00
144_K184_E2.1551.00
144_K185_V2.1471.00
54_A286_A2.1431.00
148_N185_V2.1371.00
9_R13_L2.1011.00
283_A286_A2.0751.00
141_E145_K2.0711.00
212_E238_A2.0601.00
55_A285_F2.0151.00
140_L180_K1.9911.00
150_A223_A1.9831.00
142_F253_S1.9661.00
54_A282_N1.9461.00
50_G281_G1.9231.00
290_K295_Q1.8941.00
143_G147_G1.8831.00
163_K194_Q1.8821.00
207_A234_G1.8691.00
148_N152_D1.8391.00
151_A189_R1.8341.00
148_N189_R1.8291.00
153_Y314_D1.8141.00
34_G88_V1.7851.00
165_A221_L1.7701.00
144_K148_N1.7541.00
147_G182_F1.7501.00
274_D307_D1.7451.00
53_D278_K1.7441.00
216_I242_Q1.7421.00
143_G225_M1.7411.00
239_V248_I1.7181.00
226_G235_A1.7181.00
166_V227_E1.6941.00
208_I238_A1.6791.00
276_S279_K1.6671.00
211_G235_A1.6431.00
141_E144_K1.6411.00
283_A302_I1.6351.00
118_Y284_V1.6321.00
149_A153_Y1.6311.00
20_S23_F1.6231.00
54_A58_S1.6211.00
50_G278_K1.6101.00
180_K184_E1.6091.00
244_Q247_K1.5991.00
145_K306_I1.5931.00
149_A152_D1.5551.00
238_A242_Q1.5431.00
163_K220_D1.5211.00
151_A185_V1.5101.00
289_L293_N1.5061.00
58_S289_L1.5041.00
251_F271_A1.4821.00
8_T11_L1.4751.00
183_E187_K1.4741.00
238_A241_N1.4651.00
177_Q180_K1.4521.00
279_K283_A1.4481.00
31_M89_D1.4401.00
208_I237_K1.4361.00
138_D141_E1.4321.00
8_T12_L1.4271.00
199_Q213_K1.3941.00
163_K222_N1.3901.00
185_V188_S1.3861.00
255_M311_K1.3761.00
54_A285_F1.3731.00
279_K282_N1.3731.00
34_G83_L1.3711.00
165_A214_L1.3711.00
143_G181_G1.3701.00
149_A310_T1.3621.00
142_F306_I1.3541.00
147_G151_A1.3511.00
240_R264_E1.3491.00
10_N14_M1.3481.00
239_V244_Q1.3431.00
218_T221_L1.3361.00
106_R110_E1.3221.00
208_I212_E1.3201.00
212_E241_N1.3141.00
140_L144_K1.3141.00
147_G181_G1.3131.00
266_N312_T1.3131.00
286_A290_K1.2961.00
211_G239_V1.2931.00
55_A62_V1.2901.00
81_D107_R1.2891.00
147_G185_V1.2691.00
92_I284_V1.2691.00
145_K148_N1.2451.00
181_G185_V1.2421.00
211_G224_I1.2291.00
161_Q223_A1.2281.00
212_E216_I1.2281.00
260_A265_N1.2271.00
162_P222_N1.2161.00
51_V285_F1.2071.00
52_Q56_K1.1911.00
32_T61_Q1.1831.00
58_S286_A1.1811.00
32_T63_Q1.1801.00
31_M60_V1.1771.00
194_Q197_A1.1771.00
278_K282_N1.1731.00
33_I55_A1.1721.00
35_A51_V1.1691.00
234_G238_A1.1651.00
19_G22_L1.1541.00
166_V179_R1.1511.00
213_K217_S1.1501.00
182_F186_L1.1341.00
236_V250_V1.1311.00
149_A314_D1.1251.00
67_T79_F1.1231.00
205_D209_S1.1161.00
140_L181_G1.1141.00
229_G272_V1.1091.00
249_A314_D1.1091.00
152_D189_R1.1081.00
140_L177_Q1.1041.00
182_F225_M1.1021.00
210_V213_K1.1021.00
203_V206_K1.0961.00
176_V180_K1.0831.00
261_Q265_N1.0801.00
48_R52_Q1.0701.00
287_Q302_I1.0691.00
169_C202_T1.0681.00
51_V92_I1.0681.00
184_E188_S1.0651.00
148_N188_S1.0641.00
224_I235_A1.0601.00
10_N13_L1.0601.00
226_G231_A1.0581.00
167_I235_A1.0571.00
164_I186_L1.0541.00
153_Y249_A1.0501.00
204_L237_K1.0491.00
146_L225_M1.0491.00
229_G252_G1.0451.00
180_K183_E1.0441.00
77_S81_D1.0381.00
283_A287_Q1.0301.00
281_G285_F1.0231.00
56_K75_K1.0221.00
6_R10_N1.0221.00
35_A62_V1.0161.00
206_K209_S1.0111.00
173_E177_Q1.0081.00
67_T83_L1.0071.00
11_L14_M1.0061.00
209_S213_K1.0061.00
282_N286_A1.0061.00
75_K78_T0.9971.00
171_A200_E0.9941.00
153_Y310_T0.9891.00
81_D85_A0.9881.00
141_E305_P0.9851.00
57_D282_N0.9801.00
288_T292_I0.9801.00
49_Q53_D0.9781.00
102_S106_R0.9761.00
58_S293_N0.9671.00
146_L273_V0.9671.00
185_V189_R0.9561.00
211_G215_I0.9451.00
19_G25_R0.9451.00
60_V289_L0.9441.00
226_G232_T0.9431.00
164_I223_A0.9411.00
18_L23_F0.9411.00
133_A287_Q0.9381.00
207_A211_G0.9331.00
149_A271_A0.9281.00
283_A304_V0.9241.00
262_E265_N0.9221.00
43_Y277_G0.9131.00
147_G186_L0.9061.00
199_Q210_V0.9061.00
307_D310_T0.9051.00
229_G255_M0.9021.00
33_I92_I0.8991.00
53_D57_D0.8971.00
151_A191_P0.8931.00
92_I288_T0.8931.00
209_S212_E0.8911.00
72_D75_K0.8901.00
276_S307_D0.8821.00
134_Y301_V0.8781.00
51_V281_G0.8711.00
244_Q248_I0.8701.00
274_D309_Y0.8701.00
53_D282_N0.8621.00
239_V250_V0.8571.00
137_G275_I0.8571.00
9_R12_L0.8561.00
215_I238_A0.8521.00
165_A224_I0.8511.00
206_K210_V0.8511.00
90_A292_I0.8481.00
153_Y161_Q0.8481.00
21_A24_A0.8471.00
224_I248_I0.8431.00
138_D303_Q0.8401.00
47_V118_Y0.8351.00
32_T86_R0.8341.00
137_G276_S0.8301.00
75_K79_F0.8211.00
139_P178_R0.8201.00
35_A48_R0.8201.00
70_Q75_K0.8171.00
287_Q290_K0.8151.00
184_E187_K0.8131.00
197_A217_S0.8081.00
136_V301_V0.8081.00
151_A162_P0.8081.00
232_T252_G0.8021.00
186_L191_P0.8011.00
135_L287_Q0.8001.00
107_R110_E0.7941.00
49_Q52_Q0.7921.00
22_L25_R0.7881.00
285_F289_L0.7881.00
63_Q88_V0.7861.00
252_G272_V0.7821.00
136_V303_Q0.7811.00
78_T81_D0.7771.00
48_R64_L0.7751.00
168_N179_R0.7751.00
36_I79_F0.7751.00
16_T19_G0.7741.00
193_A196_V0.7711.00
121_C301_V0.7681.00
141_E306_I0.7681.00
133_A300_K0.7671.00
137_G306_I0.7671.00
51_V62_V0.7641.00
183_E198_N0.7631.00
255_M309_Y0.7611.00
167_I226_G0.7611.00
254_D275_I0.7601.00
38_L44_Y0.7601.00
50_G282_N0.7601.00
144_K181_G0.7591.00
201_G231_A0.7591.00
255_M260_A0.7591.00
150_A251_F0.7581.00
229_G232_T0.7561.00
215_I242_Q0.7551.00
104_T107_R0.7501.00
211_G238_A0.7481.00
46_G278_K0.7461.00
149_A308_L0.7451.00
30_E89_D0.7391.00
237_K240_R0.7381.00
90_A116_I0.7371.00
276_S304_V0.7361.00
211_G214_L0.7361.00
166_V225_M0.7341.00
163_K219_P0.7341.00
162_P191_P0.7331.00
183_E193_A0.7321.00
63_Q86_R0.7311.00
50_G54_A0.7271.00
17_L85_A0.7241.00
202_T227_E0.7221.00
271_A308_L0.7161.00
138_D305_P0.7121.00
34_G91_I0.7121.00
195_I198_N0.7111.00
310_T314_D0.7071.00
92_I118_Y0.7051.00
177_Q181_G0.7051.00
119_N174_V0.7031.00
106_R109_S0.7001.00
30_E61_Q0.6991.00
108_A115_V0.6991.00
213_K216_I0.6921.00
175_C202_T0.6921.00
29_K89_D0.6901.00
41_Q230_G0.6891.00
12_L15_A0.6871.00
117_C122_I0.6851.00
236_V263_L0.6841.00
80_V91_I0.6821.00
151_A190_V0.6791.00
163_K197_A0.6771.00
74_S78_T0.6761.00
84_V111_A0.6751.00
109_S132_S0.6751.00
220_D244_Q0.6731.00
15_A18_L0.6691.00
77_S104_T0.6681.00
52_Q62_V0.6671.00
55_A60_V0.6581.00
228_S254_D0.6581.00
33_I285_F0.6561.00
225_M251_F0.6531.00
145_K273_V0.6521.00
116_I291_V0.6511.00
290_K294_K0.6481.00
84_V113_I0.6481.00
271_A314_D0.6441.00
179_R198_N0.6441.00
183_E195_I0.6351.00
237_K241_N0.6331.00
161_Q192_G0.6321.00
33_I90_A0.6301.00
125_K132_S0.6291.00
228_S231_A0.6281.00
29_K293_N0.6281.00
169_C175_C0.6251.00
193_A198_N0.6241.00
236_V240_R0.6231.00
239_V242_Q0.6231.00
17_L81_D0.6221.00
151_A186_L0.6171.00
207_A210_V0.6141.00
119_N139_P0.6131.00
90_A284_V0.6131.00
229_G256_T0.6121.00
166_V182_F0.6111.00
117_C134_Y0.6101.00
196_V199_Q0.6081.00
17_L21_A0.6041.00
217_S221_L0.6031.00
195_I199_Q0.6021.00
150_A225_M0.6021.00
211_G234_G0.6011.00
103_R106_R0.5991.00
73_I77_S0.5981.00
43_Y47_V0.5971.00
199_Q214_L0.5951.00
199_Q217_S0.5951.00
202_T231_A0.5931.00
256_T259_I0.5921.00
178_R275_I0.5881.00
233_L263_L0.5881.00
33_I292_I0.5841.00
44_Y94_S0.5811.00
225_M253_S0.5811.00
260_A263_L0.5811.00
46_G277_G0.5771.00
201_G206_K0.5761.00
191_P195_I0.5751.00
214_L218_T0.5731.00
222_N249_A0.5731.00
78_T82_T0.5701.00
109_S115_V0.5681.00
253_S275_I0.5671.00
50_G277_G0.5631.00
91_I113_I0.5631.00
221_L244_Q0.5621.00
261_Q266_N0.5611.00
145_K149_A0.5591.00
47_V277_G0.5591.00
175_C227_E0.5591.00
139_P174_V0.5581.00
32_T89_D0.5581.00
116_I135_L0.5581.00
146_L223_A0.5551.00
163_K221_L0.5551.00
49_Q278_K0.5531.00
31_M292_I0.5531.00
237_K266_N0.5531.00
107_R111_A0.5521.00
164_I222_N0.5511.00
13_L16_T0.5501.00
186_L193_A0.5491.00
259_I263_L0.5491.00
116_I288_T0.5471.00
208_I211_G0.5471.00
240_R245_A0.5451.00
163_K218_T0.5451.00
7_T16_T0.5441.00
226_G252_G0.5441.00
119_N280_M0.5431.00
60_V89_D0.5431.00
139_P177_Q0.5421.00
32_T88_V0.5391.00
291_V294_K0.5391.00
204_L234_G0.5381.00
121_C134_Y0.5371.00
221_L224_I0.5371.00
23_F27_A0.5371.00
136_V139_P0.5361.00
60_V292_I0.5361.00
233_L256_T0.5361.00
149_A251_F0.5351.00
266_N311_K0.5321.00
33_I60_V0.5321.00
116_I287_Q0.5311.00
83_L88_V0.5301.00
278_K281_G0.5301.00
206_K231_A0.5301.00
237_K264_E0.5251.00
144_K147_G0.5251.00
79_F82_T0.5201.00
116_I284_V0.5191.00
217_S220_D0.5181.00
19_G23_F0.5171.00
210_V214_L0.5141.00
205_D208_I0.5141.00
208_I234_G0.5141.00
303_Q306_I0.5121.00
165_A197_A0.5121.00
223_A249_A0.5101.00
103_R107_R0.5091.00
287_Q291_V0.5091.00
235_A239_V0.5061.00
215_I239_V0.5041.00
263_L266_N0.5021.00
196_V217_S0.5021.00
168_N200_E0.5021.00
114_P291_V0.5021.00
84_V107_R0.5021.00
229_G259_I0.5011.00
290_K300_K0.5011.00
190_V193_A0.5001.00
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  
2hsgA 1 0.8991 100 0.194 Contact Map
3dbiA 2 0.8318 100 0.199 Contact Map
4o5aA 2 0.8104 100 0.201 Contact Map
3h5oA 2 0.8135 100 0.206 Contact Map
3e3mA 2 0.8043 100 0.207 Contact Map
3kjxA 2 0.9083 100 0.207 Contact Map
1qpzA 2 0.9327 100 0.208 Contact Map
3bilA 2 0.7706 100 0.21 Contact Map
2o20A 2 0.8257 100 0.211 Contact Map
3huuA 2 0.8012 100 0.213 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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