GREMLIN Database
YPDF - Aminopeptidase YpdF
UniProt: P76524 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14153
Length: 361 (341)
Sequences: 11024 (8051)
Seq/√Len: 436.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
137_R346_E5.5801.00
314_P342_P4.5101.00
260_I340_V3.2391.00
133_V339_L3.0381.00
237_A329_Q2.7251.00
138_L141_G2.5671.00
247_Q251_Q2.5341.00
145_R174_Q2.4721.00
25_Q297_E2.4521.00
235_V238_E2.4001.00
149_H170_F2.3531.00
189_W201_K2.3491.00
270_D274_R2.3481.00
248_I280_A2.3261.00
169_W173_Q2.3031.00
265_R268_Q2.2951.00
255_A276_V2.2821.00
267_Q309_T2.2721.00
237_A244_N2.2561.00
166_E169_W2.2451.00
16_L94_G2.2431.00
254_L258_S2.2321.00
256_A273_A2.1901.00
159_S202_I2.1741.00
236_S244_N2.1701.00
136_I317_L2.1501.00
31_L40_V2.1381.00
127_I313_Q2.1341.00
341_T346_E2.1321.00
275_R279_E2.1271.00
106_H109_Q2.1211.00
294_I337_V2.1051.00
259_A272_A2.0721.00
137_R141_G1.9831.00
92_T113_N1.9331.00
50_L80_I1.9221.00
10_W13_A1.8631.00
203_V230_V1.8461.00
255_A258_S1.8411.00
135_K218_Q1.8281.00
168_E172_R1.8091.00
52_D55_Y1.7971.00
204_A207_E1.7951.00
245_V332_V1.7871.00
76_T79_T1.7711.00
247_Q355_V1.7641.00
12_K44_R1.7471.00
153_F166_E1.7401.00
245_V330_G1.7111.00
276_V280_A1.7061.00
161_R200_D1.6881.00
144_D351_M1.6881.00
170_F173_Q1.6771.00
201_K207_E1.6751.00
249_V332_V1.6711.00
341_T344_G1.6441.00
212_D223_D1.6361.00
320_V338_V1.6281.00
151_R228_L1.6221.00
251_Q255_A1.6021.00
223_D335_E1.6001.00
170_F174_Q1.5971.00
265_R311_T1.5911.00
92_T115_K1.5801.00
271_D275_R1.5771.00
277_I324_I1.5731.00
229_L234_G1.5711.00
339_L348_L1.5531.00
334_I353_K1.5371.00
257_I338_V1.5361.00
239_S247_Q1.5301.00
251_Q280_A1.5261.00
319_T337_V1.5171.00
185_V209_V1.5101.00
208_F238_E1.5001.00
7_L30_H1.4871.00
313_Q316_M1.4811.00
159_S162_E1.4741.00
254_L354_T1.4721.00
187_S201_K1.4691.00
180_S221_C1.4631.00
256_A269_V1.4621.00
156_A205_A1.4501.00
212_D335_E1.4431.00
165_A169_W1.4421.00
261_R264_V1.4261.00
126_Q316_M1.4051.00
250_L254_L1.3881.00
149_H174_Q1.3761.00
163_I203_V1.3751.00
252_A276_V1.3691.00
130_P134_E1.3541.00
208_F229_L1.3441.00
216_L221_C1.3361.00
339_L346_E1.3351.00
9_D13_A1.3301.00
148_E152_R1.3281.00
187_S203_V1.3261.00
251_Q279_E1.3241.00
149_H152_R1.3201.00
134_E138_L1.3111.00
245_V326_L1.3031.00
17_D91_Q1.3001.00
28_Q219_G1.2991.00
58_E62_R1.2781.00
253_Q257_I1.2661.00
264_V268_Q1.2591.00
162_E173_Q1.2541.00
16_L115_K1.2421.00
10_W14_Q1.2411.00
80_I83_Q1.2391.00
273_A290_T1.2351.00
262_P314_P1.2341.00
236_S239_S1.2251.00
257_I347_V1.2241.00
312_L318_L1.2061.00
123_V313_Q1.2001.00
254_L353_K1.1981.00
147_A224_M1.1911.00
166_E170_F1.1901.00
127_I316_M1.1891.00
253_Q353_K1.1821.00
143_A224_M1.1671.00
30_H124_L1.1521.00
268_Q271_D1.1511.00
164_A168_E1.1511.00
136_I140_C1.1491.00
163_I209_V1.1491.00
208_F227_T1.1401.00
312_L340_V1.1381.00
253_Q336_D1.1371.00
141_G145_R1.1301.00
267_Q271_D1.1241.00
8_R43_S1.1211.00
166_E173_Q1.1171.00
251_Q276_V1.1151.00
142_I176_A1.1101.00
244_N280_A1.1081.00
142_I219_G1.1051.00
260_I269_V1.0941.00
246_Y334_I1.0931.00
255_A272_A1.0871.00
138_L217_Y1.0811.00
256_A272_A1.0761.00
248_I277_I1.0661.00
26_N96_E1.0661.00
246_Y353_K1.0651.00
11_L16_L1.0631.00
190_R196_G1.0591.00
105_A109_Q1.0551.00
270_D290_T1.0511.00
149_H166_E1.0481.00
244_N248_I1.0471.00
17_D92_T1.0441.00
7_L19_V1.0431.00
264_V272_A1.0401.00
244_N247_Q1.0371.00
201_K204_A1.0341.00
315_G339_L1.0341.00
134_E137_R1.0291.00
102_W105_A1.0281.00
140_C144_D1.0271.00
67_Q70_L1.0271.00
269_V272_A1.0251.00
21_L30_H1.0221.00
149_H173_Q1.0211.00
186_A196_G1.0211.00
131_E135_K1.0201.00
60_E63_A1.0031.00
259_A264_V1.0021.00
317_L339_L1.0011.00
48_H72_D0.9891.00
158_M166_E0.9891.00
27_K38_G0.9881.00
336_D353_K0.9871.00
188_G207_E0.9871.00
94_G117_V0.9851.00
252_A277_I0.9831.00
317_L348_L0.9821.00
191_G210_T0.9811.00
260_I338_V0.9791.00
147_A228_L0.9771.00
8_R11_L0.9761.00
187_S207_E0.9731.00
137_R339_L0.9721.00
338_V347_V0.9681.00
56_Y60_E0.9681.00
267_Q307_R0.9661.00
158_M162_E0.9651.00
148_E351_M0.9631.00
26_N122_D0.9621.00
43_S47_A0.9531.00
248_I251_Q0.9521.00
239_S355_V0.9521.00
318_L340_V0.9511.00
257_I320_V0.9501.00
248_I276_V0.9501.00
76_T80_I0.9501.00
209_V230_V0.9471.00
260_I320_V0.9461.00
144_D350_A0.9451.00
275_R278_T0.9451.00
131_E134_E0.9431.00
255_A259_A0.9411.00
117_V120_T0.9391.00
262_P341_T0.9391.00
176_A215_A0.9391.00
102_W106_H0.9371.00
168_E183_T0.9351.00
140_C337_V0.9341.00
211_L228_L0.9301.00
154_I228_L0.9301.00
18_A43_S0.9241.00
326_L329_Q0.9201.00
168_E179_A0.9131.00
138_L218_Q0.9111.00
260_I345_A0.9101.00
161_R165_A0.9091.00
8_R44_R0.9091.00
293_A300_E0.9071.00
237_A326_L0.9061.00
11_L18_A0.9061.00
130_P341_T0.9031.00
272_A275_R0.8991.00
77_L85_I0.8971.00
107_R111_E0.8961.00
9_D12_K0.8931.00
30_H121_P0.8901.00
18_A41_V0.8881.00
269_V312_L0.8881.00
294_I317_L0.8851.00
138_L142_I0.8841.00
171_M215_A0.8791.00
293_A302_P0.8791.00
163_I185_V0.8781.00
179_A183_T0.8731.00
43_S48_H0.8731.00
154_I163_I0.8721.00
229_L238_E0.8701.00
277_I282_Y0.8681.00
273_A286_F0.8671.00
340_V345_A0.8651.00
259_A269_V0.8631.00
148_E352_P0.8581.00
304_F318_L0.8561.00
149_H153_F0.8521.00
146_G170_F0.8511.00
212_D321_E0.8491.00
7_L42_I0.8481.00
310_T313_Q0.8451.00
247_Q250_L0.8431.00
272_A276_V0.8421.00
264_V269_V0.8411.00
257_I345_A0.8401.00
190_R193_L0.8391.00
327_P330_G0.8391.00
59_V63_A0.8381.00
155_Q158_M0.8371.00
106_H110_S0.8331.00
182_D197_K0.8321.00
79_T83_Q0.8261.00
167_L171_M0.8261.00
143_A222_S0.8251.00
21_L121_P0.8231.00
49_I59_V0.8231.00
123_V310_T0.8231.00
338_V345_A0.8221.00
305_S308_D0.8201.00
10_W123_V0.8191.00
321_E335_E0.8191.00
186_A191_G0.8181.00
29_P124_L0.8131.00
82_N86_A0.8111.00
234_G239_S0.8071.00
223_D292_H0.8021.00
226_R336_D0.8021.00
266_C312_L0.7971.00
190_R201_K0.7971.00
16_L19_V0.7971.00
262_P345_A0.7961.00
103_E107_R0.7951.00
156_A230_V0.7941.00
237_A245_V0.7921.00
181_F214_G0.7921.00
146_G171_M0.7911.00
292_H335_E0.7901.00
140_C349_Y0.7861.00
245_V248_I0.7851.00
250_L334_I0.7851.00
276_V279_E0.7841.00
160_E190_R0.7811.00
8_R42_I0.7801.00
132_E220_Y0.7791.00
145_R148_E0.7791.00
294_I319_T0.7781.00
262_P342_P0.7751.00
95_F102_W0.7751.00
325_Y333_R0.7721.00
31_L47_A0.7711.00
59_V62_R0.7691.00
17_D44_R0.7661.00
27_K40_V0.7661.00
194_P288_H0.7661.00
262_P313_Q0.7651.00
135_K138_L0.7631.00
100_V105_A0.7621.00
120_T123_V0.7561.00
256_A320_V0.7551.00
57_V61_A0.7531.00
90_L93_L0.7521.00
261_R345_A0.7511.00
265_R309_T0.7461.00
245_V282_Y0.7441.00
252_A256_A0.7421.00
83_Q86_A0.7411.00
64_Q68_L0.7391.00
19_V117_V0.7381.00
69_H73_A0.7371.00
15_Q92_T0.7371.00
255_A273_A0.7371.00
147_A351_M0.7351.00
28_Q296_I0.7341.00
18_A93_L0.7331.00
259_A262_P0.7331.00
252_A272_A0.7331.00
323_G333_R0.7321.00
66_Y69_H0.7291.00
167_L211_L0.7291.00
64_Q67_Q0.7271.00
215_A222_S0.7221.00
158_M163_I0.7221.00
48_H52_D0.7191.00
223_D321_E0.7171.00
46_S67_Q0.7171.00
142_I217_Y0.7121.00
193_L196_G0.7051.00
206_G230_V0.7051.00
144_D148_E0.7001.00
189_W328_G0.6991.00
97_G106_H0.6991.00
341_T345_A0.6981.00
53_S56_Y0.6961.00
153_F170_F0.6961.00
140_C222_S0.6941.00
152_R156_A0.6911.00
246_Y250_L0.6911.00
135_K217_Y0.6901.00
288_H299_H0.6891.00
48_H69_H0.6891.00
225_T335_E0.6861.00
187_S230_V0.6851.00
55_Y58_E0.6811.00
39_Y42_I0.6811.00
133_V137_R0.6811.00
274_R286_F0.6801.00
126_Q313_Q0.6791.00
191_G208_F0.6751.00
269_V290_T0.6721.00
142_I174_Q0.6691.00
221_C298_V0.6691.00
285_Y327_P0.6691.00
310_T316_M0.6681.00
256_A259_A0.6631.00
234_G238_E0.6621.00
38_G42_I0.6581.00
42_I45_E0.6571.00
141_G144_D0.6561.00
20_L41_V0.6540.99
128_K132_E0.6530.99
167_L213_F0.6530.99
150_I211_L0.6520.99
11_L19_V0.6480.99
195_H299_H0.6480.99
281_G284_D0.6460.99
262_P340_V0.6440.99
70_L73_A0.6430.99
268_Q272_A0.6360.99
206_G233_E0.6350.99
7_L124_L0.6320.99
205_A233_E0.6320.99
16_L21_L0.6310.99
24_R27_K0.6300.99
159_S200_D0.6280.99
212_D292_H0.6280.99
22_S25_Q0.6270.99
25_Q296_I0.6260.99
46_S52_D0.6260.99
130_P315_G0.6250.99
185_V211_L0.6220.99
49_I52_D0.6210.99
146_G167_L0.6200.99
169_W172_R0.6190.99
147_A213_F0.6180.99
98_Q101_S0.6160.99
82_N85_I0.6150.99
8_R12_K0.6140.99
140_C224_M0.6120.99
165_A172_R0.6120.99
314_P341_T0.6110.99
101_S105_A0.6090.99
248_I324_I0.6090.99
325_Y331_G0.6080.99
261_R343_Q0.6070.99
292_H321_E0.6070.99
150_I163_I0.6070.99
179_A182_D0.6060.99
143_A213_F0.6050.99
147_A150_I0.6030.99
140_C348_L0.6030.99
142_I215_A0.6020.99
144_D349_Y0.6010.99
105_A111_E0.6000.99
253_Q320_V0.5990.99
143_A146_G0.5970.99
101_S104_T0.5960.99
164_A198_A0.5960.99
252_A273_A0.5930.99
101_S107_R0.5930.99
69_H72_D0.5920.99
289_N292_H0.5920.99
256_A290_T0.5920.99
326_L330_G0.5860.99
18_A21_L0.5830.99
126_Q310_T0.5830.99
150_I153_F0.5830.99
308_D311_T0.5830.99
109_Q112_L0.5830.99
14_Q17_D0.5830.99
154_I230_V0.5810.99
8_R47_A0.5810.99
72_D80_I0.5810.99
266_C304_F0.5780.99
311_T314_P0.5780.99
260_I312_L0.5760.99
107_R110_S0.5740.99
26_N29_P0.5730.99
68_L71_L0.5720.99
292_H295_G0.5710.99
134_E141_G0.5710.99
191_G229_L0.5710.99
191_G331_G0.5710.99
154_I209_V0.5700.99
55_Y59_V0.5700.99
238_E329_Q0.5690.99
162_E165_A0.5670.99
51_V56_Y0.5670.99
139_A143_A0.5660.99
207_E238_E0.5660.99
248_I282_Y0.5640.99
71_L74_T0.5620.98
208_F234_G0.5620.98
26_N121_P0.5610.98
10_W124_L0.5570.98
68_L72_D0.5570.98
51_V55_Y0.5550.98
150_I166_E0.5540.98
224_M349_Y0.5530.98
248_I252_A0.5530.98
133_V317_L0.5520.98
212_D225_T0.5510.98
270_D289_N0.5500.98
66_Y71_L0.5480.98
347_V350_A0.5470.98
33_I58_E0.5470.98
65_G68_L0.5470.98
323_G331_G0.5450.98
317_L337_V0.5440.98
191_G194_P0.5440.98
46_S69_H0.5390.98
255_A275_R0.5390.98
263_G311_T0.5390.98
100_V104_T0.5370.98
66_Y70_L0.5360.98
11_L14_Q0.5360.98
273_A276_V0.5340.98
123_V126_Q0.5340.98
97_G116_L0.5320.98
252_A255_A0.5320.98
57_V60_E0.5300.98
38_G44_R0.5300.98
224_M337_V0.5290.98
251_Q254_L0.5290.98
156_A204_A0.5270.98
22_S216_L0.5260.98
263_G313_Q0.5250.98
130_P314_P0.5240.98
43_S46_S0.5230.98
288_H291_G0.5220.98
53_S287_G0.5200.97
23_S27_K0.5200.97
38_G45_E0.5200.97
122_D301_D0.5190.97
229_L232_G0.5190.97
250_L353_K0.5180.97
229_L235_V0.5180.97
28_Q34_S0.5170.97
163_I211_L0.5170.97
54_R58_E0.5160.97
147_A151_R0.5150.97
189_W192_A0.5140.97
41_V80_I0.5140.97
65_G69_H0.5130.97
127_I314_P0.5100.97
146_G215_A0.5090.97
233_E239_S0.5080.97
277_I286_F0.5080.97
303_R307_R0.5070.97
254_L257_I0.5030.97
22_S27_K0.5030.97
245_V324_I0.5010.97
67_Q71_L0.5000.97
91_Q113_N0.5000.97
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  
3q6dA 1 0.9723 100 0.135 Contact Map
2zsgA 2 0.9723 100 0.138 Contact Map
4fkcA 2 0.9695 100 0.155 Contact Map
1wn1A 2 0.9584 100 0.166 Contact Map
1wy2A 2 0.9474 100 0.169 Contact Map
4r60A 2 0.9806 100 0.175 Contact Map
4egeA 2 0.9751 100 0.178 Contact Map
3ig4A 4 0.9806 100 0.188 Contact Map
2v3zA 3 0.9806 100 0.201 Contact Map
1kp0A 2 0.8726 100 0.202 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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