GREMLIN Database
APPF - Oligopeptide transport ATP-binding protein AppF
UniProt: P42065 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 329 (265)
Sequences: 51333 (32720)
Seq/√Len: 2010.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
47_E230_R4.6671.00
99_N180_E3.8481.00
34_K37_D3.3361.00
49_L232_G3.1241.00
76_Q83_D3.0381.00
44_K47_E3.0001.00
230_R242_L2.9261.00
50_G228_S2.8421.00
244_G247_E2.8291.00
80_K180_E2.8061.00
232_G239_M2.6181.00
132_T135_E2.6121.00
23_S38_G2.6031.00
153_F156_R2.6001.00
37_D238_K2.3681.00
115_K119_S2.3181.00
20_P42_S2.2781.00
139_K142_E2.1601.00
22_R76_Q2.1491.00
45_K180_E2.1451.00
63_G217_I2.1091.00
243_T248_L2.1081.00
83_D86_N2.0961.00
139_K178_N2.0811.00
225_R246_H2.0761.00
143_L176_T2.0231.00
63_G183_I1.9941.00
232_G242_L1.9821.00
141_E154_A1.9591.00
21_I24_G1.9231.00
50_G224_V1.8341.00
156_R160_E1.8271.00
25_L38_G1.8001.00
243_T247_E1.7461.00
218_S224_V1.7311.00
204_E226_H1.7061.00
206_L212_L1.6971.00
80_K99_N1.6961.00
24_G28_R1.6801.00
142_E146_R1.6711.00
118_R155_G1.6431.00
118_R122_K1.6311.00
122_K136_R1.6251.00
122_K140_V1.6201.00
22_R78_L1.6161.00
118_R154_A1.6081.00
204_E207_Q1.5711.00
41_F62_A1.5661.00
116_T119_S1.5641.00
41_F232_G1.5501.00
126_N136_R1.5461.00
247_E251_N1.5451.00
48_T207_Q1.5091.00
20_P78_L1.5001.00
137_N141_E1.4991.00
27_Q34_K1.4691.00
43_L49_L1.4681.00
153_F161_F1.4431.00
28_R61_T1.4381.00
184_A214_Y1.4091.00
121_I144_L1.3991.00
47_E229_D1.3721.00
25_L34_K1.3691.00
49_L230_R1.3681.00
141_E145_A1.3671.00
134_R138_E1.3611.00
178_N212_L1.3491.00
258_Q262_S1.3331.00
48_T228_S1.3291.00
25_L74_E1.3181.00
26_F65_T1.3181.00
67_I102_M1.3151.00
114_R159_H1.3101.00
137_N154_A1.3051.00
23_S26_F1.2961.00
39_V62_A1.2951.00
68_R71_K1.2901.00
144_L154_A1.2891.00
78_L83_D1.2821.00
200_I223_V1.2781.00
108_F166_R1.2661.00
116_T155_G1.2621.00
207_Q214_Y1.2601.00
245_K249_Y1.2591.00
48_T214_Y1.2471.00
103_V184_A1.2401.00
119_S122_K1.2331.00
82_Q87_L1.2321.00
255_P258_Q1.2151.00
152_S156_R1.2121.00
246_H250_D1.2081.00
44_K230_R1.2061.00
49_L242_L1.2051.00
150_H153_F1.1991.00
138_E142_E1.1951.00
161_F169_I1.1911.00
19_F28_R1.1881.00
131_Y136_R1.1861.00
203_M214_Y1.1861.00
132_T136_R1.1821.00
65_T72_P1.1751.00
23_S28_R1.1641.00
142_E145_A1.1611.00
120_I173_R1.1581.00
45_K80_K1.1451.00
191_L199_V1.1411.00
62_A234_M1.1401.00
19_F24_G1.1331.00
101_Q179_P1.1231.00
45_K211_N1.1231.00
231_V245_K1.1171.00
51_I215_L1.1161.00
257_T261_L1.1121.00
141_E151_P1.1051.00
135_E138_E1.0981.00
122_K126_N1.0911.00
121_I176_T1.0831.00
247_E250_D1.0721.00
101_Q174_A1.0651.00
115_K123_E1.0651.00
25_L28_R1.0621.00
255_P259_A1.0611.00
182_I212_L1.0571.00
125_F176_T1.0551.00
118_R137_N1.0471.00
182_I214_Y1.0451.00
27_Q73_T1.0441.00
133_M136_R1.0381.00
145_A151_P1.0381.00
136_R140_V1.0301.00
65_T70_Y1.0291.00
245_K256_Y1.0151.00
43_L181_L1.0061.00
36_V65_T1.0051.00
131_Y135_E1.0051.00
51_I232_G0.9941.00
246_H249_Y0.9921.00
96_V100_I0.9891.00
207_Q229_D0.9851.00
249_Y252_P0.9811.00
64_R69_L0.9761.00
44_K213_T0.9731.00
51_I62_A0.9731.00
277_R280_L0.9691.00
23_S40_S0.9631.00
133_M137_N0.9601.00
64_R70_Y0.9521.00
125_F129_N0.9521.00
286_S289_N0.9511.00
118_R140_V0.9441.00
83_D87_L0.9441.00
235_Y240_M0.9421.00
57_C234_M0.9401.00
284_L287_P0.9401.00
66_M215_L0.9361.00
115_K120_I0.9341.00
196_Q220_D0.9281.00
27_Q32_D0.9261.00
186_E219_H0.9251.00
100_I181_L0.9241.00
67_I183_I0.9221.00
245_K248_L0.9221.00
266_V269_K0.9211.00
252_P257_T0.9141.00
43_L213_T0.9101.00
239_M242_L0.9041.00
143_L146_R0.9041.00
26_F30_V0.9031.00
285_P289_N0.9021.00
21_I41_F0.8961.00
20_P23_S0.8951.00
216_F227_I0.8931.00
286_S290_P0.8891.00
204_E227_I0.8891.00
287_P290_P0.8861.00
65_T73_T0.8841.00
103_V171_I0.8841.00
48_T204_E0.8831.00
36_V39_V0.8821.00
139_K143_L0.8781.00
129_N139_K0.8781.00
184_A203_M0.8741.00
29_K32_D0.8741.00
281_K284_L0.8711.00
125_F128_H0.8641.00
143_L172_A0.8611.00
248_L257_T0.8501.00
19_F23_S0.8491.00
43_L215_L0.8461.00
197_A201_N0.8401.00
122_K137_N0.8371.00
200_I226_H0.8361.00
275_R279_V0.8331.00
111_L166_R0.8301.00
157_Y160_E0.8271.00
35_A61_T0.8231.00
216_F228_S0.8211.00
52_V224_V0.8171.00
282_G287_P0.8161.00
196_Q223_V0.8151.00
202_L205_E0.8111.00
112_N115_K0.8101.00
262_S278_I0.8021.00
65_T77_I0.7981.00
28_R35_A0.7911.00
146_R205_E0.7911.00
148_G205_E0.7911.00
117_L169_I0.7891.00
147_V172_A0.7851.00
23_S30_V0.7841.00
183_I215_L0.7831.00
259_A263_S0.7821.00
88_S95_S0.7801.00
128_H177_L0.7791.00
116_T157_Y0.7781.00
282_G285_P0.7781.00
79_F99_N0.7721.00
228_S231_V0.7691.00
268_R271_G0.7691.00
38_G238_K0.7641.00
20_P24_G0.7631.00
135_E139_K0.7631.00
25_L37_D0.7621.00
22_R42_S0.7601.00
48_T216_F0.7561.00
52_V233_V0.7551.00
254_H257_T0.7481.00
76_Q86_N0.7481.00
163_G168_R0.7481.00
137_N155_G0.7461.00
117_L161_F0.7411.00
285_P290_P0.7411.00
49_L215_L0.7401.00
39_V239_M0.7371.00
201_N204_E0.7321.00
19_F26_F0.7321.00
26_F70_Y0.7311.00
54_E235_Y0.7261.00
48_T227_I0.7241.00
82_Q99_N0.7191.00
264_V267_T0.7191.00
188_V223_V0.7181.00
145_A150_H0.7171.00
148_G198_Q0.7171.00
288_A291_P0.7141.00
158_P169_I0.7111.00
248_L252_P0.7101.00
161_F165_Q0.7061.00
95_S98_K0.7061.00
181_L213_T0.7051.00
140_V143_L0.7051.00
235_Y238_K0.7051.00
223_V227_I0.7031.00
89_E95_S0.7011.00
283_E287_P0.6921.00
141_E149_L0.6871.00
95_S99_N0.6851.00
22_R40_S0.6841.00
24_G72_P0.6841.00
259_A262_S0.6841.00
98_K129_N0.6801.00
121_I140_V0.6791.00
116_T120_I0.6791.00
241_E251_N0.6791.00
233_V252_P0.6771.00
120_I158_P0.6771.00
124_P177_L0.6751.00
140_V154_A0.6731.00
103_V174_A0.6721.00
276_E280_L0.6691.00
124_P173_R0.6681.00
277_R281_K0.6661.00
64_R102_M0.6661.00
126_N133_M0.6651.00
67_I100_I0.6631.00
124_P127_T0.6601.00
287_P291_P0.6591.00
276_E279_V0.6581.00
240_M254_H0.6581.00
21_I66_M0.6571.00
69_L104_F0.6571.00
90_E95_S0.6551.00
132_T141_E0.6551.00
233_V248_L0.6541.00
143_L175_L0.6541.00
285_P291_P0.6531.00
76_Q85_S0.6521.00
24_G30_V0.6521.00
263_S266_V0.6511.00
280_L284_L0.6501.00
84_I95_S0.6461.00
230_R241_E0.6461.00
148_G151_P0.6441.00
48_T229_D0.6411.00
95_S100_I0.6411.00
201_N205_E0.6411.00
60_S64_R0.6401.00
282_G286_S0.6391.00
281_K285_P0.6331.00
241_E252_P0.6331.00
280_L283_E0.6321.00
19_F25_L0.6271.00
256_Y259_A0.6271.00
243_T249_Y0.6271.00
201_N226_H0.6241.00
71_K85_S0.6241.00
283_E286_S0.6231.00
228_S245_K0.6161.00
244_G248_L0.6121.00
218_S223_V0.6121.00
278_I281_K0.6121.00
137_N140_V0.6071.00
279_V283_E0.6061.00
181_L215_L0.6041.00
77_I85_S0.6021.00
204_E208_E0.6021.00
221_L249_Y0.6021.00
36_V62_A0.6001.00
111_L120_I0.5991.00
286_S291_P0.5991.00
134_R137_N0.5971.00
285_P288_A0.5941.00
79_F181_L0.5911.00
28_R31_G0.5911.00
34_K38_G0.5901.00
136_R141_E0.5881.00
26_F61_T0.5861.00
224_V228_S0.5821.00
79_F84_I0.5821.00
66_M77_I0.5821.00
198_Q201_N0.5801.00
106_D109_A0.5761.00
123_E127_T0.5741.00
256_Y260_L0.5731.00
68_R89_E0.5711.00
55_S186_E0.5711.00
82_Q95_S0.5701.00
84_I100_I0.5691.00
54_E57_C0.5691.00
281_K287_P0.5661.00
260_L263_S0.5631.00
143_L147_V0.5621.00
111_L169_I0.5601.00
46_G213_T0.5591.00
118_R121_I0.5591.00
153_F165_Q0.5581.00
26_F73_T0.5581.00
274_K277_R0.5551.00
23_S74_E0.5511.00
78_L81_G0.5501.00
284_L289_N0.5491.00
38_G74_E0.5481.00
175_L212_L0.5471.00
283_E288_A0.5461.00
264_V268_R0.5461.00
121_I135_E0.5461.00
55_S195_I0.5451.00
284_L290_P0.5441.00
149_L153_F0.5431.00
42_S242_L0.5421.00
270_R274_K0.5411.00
45_K213_T0.5411.00
149_L165_Q0.5381.00
171_I199_V0.5371.00
122_K130_M0.5351.00
122_K125_F0.5341.00
144_L153_F0.5341.00
130_M136_R0.5341.00
188_V199_V0.5331.00
257_T260_L0.5311.00
139_K146_R0.5301.00
118_R130_M0.5281.00
261_L265_P0.5271.00
280_L287_P0.5261.00
27_Q30_V0.5261.00
243_T252_P0.5251.00
152_S155_G0.5241.00
251_N255_P0.5231.00
162_S165_Q0.5231.00
84_I96_V0.5201.00
24_G65_T0.5191.00
284_L288_A0.5191.00
258_Q261_L0.5171.00
110_S170_G0.5171.00
275_R278_I0.5161.00
19_F70_Y0.5141.00
55_S191_L0.5121.00
277_R285_P0.5111.00
224_V231_V0.5101.00
138_E145_A0.5091.00
138_E141_E0.5091.00
87_L90_E0.5071.00
87_L95_S0.5051.00
122_K154_A0.5051.00
280_L285_P0.5041.00
271_G274_K0.5021.00
277_R282_G0.5011.00
260_L264_V0.5001.00
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  
4fwiB 1 0.9149 100 0.23 Contact Map
4ry2A 2 0.7416 100 0.242 Contact Map
4f4cA 1 0.7325 100 0.246 Contact Map
3tuiC 2 0.9362 100 0.255 Contact Map
2it1A 1 0.9149 100 0.257 Contact Map
2yyzA 1 0.9088 100 0.258 Contact Map
1oxxK 1 0.9331 100 0.258 Contact Map
1v43A 2 0.8845 100 0.26 Contact Map
3b5xA 2 0.769 100 0.261 Contact Map
4u00A 1 0.7325 100 0.261 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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