GREMLIN Database
YDDH - Probable endopeptidase YddH
UniProt: P96645 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 329 (290)
Sequences: 2574 (2170)
Seq/√Len: 127.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
219_Y222_Q3.9891.00
295_V310_Y3.8441.00
217_L301_F3.5771.00
228_G234_G3.3821.00
213_M295_V3.0541.00
220_E301_F3.0471.00
241_V293_I2.9911.00
271_A325_F2.9101.00
322_L325_F2.8901.00
267_S270_E2.8271.00
229_S254_R2.6711.00
230_N234_G2.5881.00
223_P234_G2.4541.00
235_F243_W2.4381.00
242_Q254_R2.4381.00
241_V276_L2.4171.00
217_L310_Y2.4071.00
253_P262_A2.3591.00
210_E214_K2.3371.00
215_E243_W2.3261.00
222_Q230_N2.2981.00
255_T258_E2.2451.00
241_V259_Q2.2301.00
279_F292_G2.1991.00
280_G289_T2.1681.00
279_F300_M2.1501.00
265_K326_G2.1321.00
215_E247_K2.0631.00
241_V252_L1.9301.00
215_E235_F1.8931.00
268_E271_A1.8781.00
304_N309_Q1.8731.00
278_F291_V1.8541.00
256_A260_H1.8531.00
162_L165_D1.8071.00
155_G159_T1.7511.00
243_W247_K1.7491.00
222_Q234_G1.7401.00
260_H288_I1.7381.00
157_K161_K1.7321.00
215_E218_K1.7301.00
279_F322_L1.6681.00
276_L291_V1.6601.00
242_Q246_A1.6541.00
222_Q235_F1.6501.00
292_G300_M1.6421.00
154_N158_Y1.6361.00
280_G321_H1.6301.00
82_A86_Q1.6301.00
268_E314_K1.5951.00
161_K165_D1.5861.00
158_Y161_K1.5851.00
209_Y213_M1.5691.00
253_P256_A1.5571.00
145_S149_D1.5461.00
240_L244_S1.5441.00
263_T326_G1.5361.00
189_M192_V1.5061.00
215_E219_Y1.4931.00
164_L168_R1.4851.00
148_I152_K1.4841.00
268_E322_L1.4761.00
106_P110_T1.4661.00
231_P235_F1.4611.00
137_T140_A1.4581.00
292_G302_N1.4561.00
188_V191_Y1.4541.00
260_H324_S1.4531.00
222_Q228_G1.4481.00
159_T163_A1.4471.00
300_M313_L1.4471.00
181_D184_Y1.4181.00
165_D169_L1.4141.00
256_A288_I1.3981.00
302_N311_S1.3871.00
154_N157_K1.3821.00
216_A301_F1.3661.00
253_P258_E1.3551.00
148_I151_V1.3321.00
59_R63_V1.3251.00
162_L166_F1.3151.00
229_S242_Q1.3071.00
280_G287_A1.2971.00
159_T162_L1.2911.00
298_G313_L1.2901.00
124_K128_K1.2871.00
171_A174_M1.2801.00
220_E310_Y1.2641.00
134_V138_L1.2601.00
260_H263_T1.2411.00
304_N308_I1.2401.00
166_F170_Q1.2381.00
138_L142_N1.2291.00
180_G184_Y1.2291.00
219_Y230_N1.2200.99
214_K217_L1.2140.99
299_R310_Y1.2080.99
210_E273_A1.2010.99
242_Q259_Q1.1940.99
165_D168_R1.1800.99
169_L173_K1.1800.99
271_A277_V1.1790.99
242_Q255_T1.1730.99
273_A295_V1.1660.99
217_L295_V1.1660.99
213_M301_F1.1610.99
271_A313_L1.1570.99
87_E91_R1.1570.99
183_S187_H1.1330.99
230_N235_F1.1220.99
24_I27_V1.1190.99
147_F150_Y1.1160.99
158_Y162_L1.1100.99
279_F289_T1.1030.99
260_H278_F1.1020.99
31_S35_Q1.0990.99
286_K289_T1.0990.99
254_R257_Q1.0930.99
254_R258_E1.0910.99
152_K155_G1.0890.99
147_F151_V1.0860.99
72_G75_D1.0810.99
175_G179_Y1.0800.99
277_V292_G1.0800.99
260_H323_V1.0760.99
113_E117_E1.0670.99
182_P186_D1.0580.99
141_Y145_S1.0560.98
257_Q288_I1.0530.98
225_A234_G1.0520.98
225_A306_S1.0370.98
68_A72_G1.0330.98
189_M193_K1.0280.98
217_L220_E1.0270.98
89_G92_S1.0270.98
195_S199_V1.0260.98
299_R312_D1.0250.98
188_V192_V1.0200.98
215_E248_A1.0160.98
103_G106_P1.0130.98
32_R35_Q1.0070.98
211_T248_A0.9990.98
160_K164_L0.9980.98
156_G160_K0.9920.98
268_E325_F0.9850.98
41_I44_G0.9850.98
25_V28_M0.9850.98
215_E244_S0.9850.98
161_K164_L0.9840.98
73_V77_V0.9830.98
266_I270_E0.9810.98
82_A85_M0.9790.98
143_F147_F0.9770.97
29_T32_R0.9750.97
102_I106_P0.9700.97
53_I56_E0.9680.97
192_V196_D0.9640.97
139_Q143_F0.9580.97
179_Y183_S0.9580.97
213_M217_L0.9530.97
225_A228_G0.9520.97
258_E261_G0.9500.97
302_N309_Q0.9470.97
279_F314_K0.9440.97
302_N314_K0.9430.97
196_D199_V0.9410.97
24_I28_M0.9400.97
42_G46_G0.9390.97
208_F211_T0.9360.97
229_S255_T0.9300.97
195_S198_N0.9300.97
107_N111_D0.9240.96
219_Y244_S0.9240.96
212_V248_A0.9220.96
120_I124_K0.9180.96
184_Y187_H0.9160.96
78_N85_M0.9160.96
165_D172_F0.9080.96
162_L173_K0.9070.96
185_V189_M0.9030.96
103_G107_N0.8980.96
168_R171_A0.8880.96
183_S188_V0.8840.95
121_K125_K0.8820.95
183_S186_D0.8810.95
133_D137_T0.8800.95
86_Q89_G0.8780.95
170_Q174_M0.8760.95
34_N38_D0.8740.95
288_I323_V0.8740.95
58_E62_A0.8710.95
259_Q291_V0.8650.95
185_V190_R0.8610.95
295_V301_F0.8570.95
157_K160_K0.8560.95
257_Q260_H0.8550.95
106_P111_D0.8540.95
278_F288_I0.8490.94
23_C27_V0.8410.94
256_A291_V0.8390.94
222_Q232_E0.8350.94
181_D189_M0.8330.94
35_Q38_D0.8300.94
180_G183_S0.8300.94
149_D152_K0.8260.94
46_G49_E0.8250.93
179_Y182_P0.8240.93
226_W234_G0.8230.93
92_S95_I0.8230.93
181_D185_V0.8220.93
240_L248_A0.8190.93
116_I119_G0.8170.93
211_T214_K0.8170.93
74_F77_V0.8150.93
240_L304_N0.8130.93
85_M92_S0.8090.93
187_H190_R0.8090.93
163_A167_S0.8080.93
126_V129_Q0.8080.93
137_T151_V0.8080.93
212_V245_F0.8070.93
268_E277_V0.8070.93
62_A65_E0.8040.93
186_D192_V0.8040.93
241_V245_F0.8030.93
93_L96_M0.8030.93
289_T321_H0.8030.93
244_S248_A0.8030.93
242_Q252_L0.8020.93
116_I120_I0.8000.92
209_Y273_A0.7990.92
229_S235_F0.7990.92
182_P187_H0.7980.92
289_T306_S0.7960.92
218_K222_Q0.7960.92
166_F169_L0.7950.92
191_Y196_D0.7940.92
181_D188_V0.7880.92
45_D49_E0.7850.92
293_I301_F0.7830.92
219_Y240_L0.7810.91
235_F308_I0.7770.91
186_D190_R0.7760.91
260_H325_F0.7740.91
26_V30_I0.7740.91
36_V40_F0.7740.91
300_M321_H0.7740.91
182_P185_V0.7700.91
181_D186_D0.7690.91
181_D187_H0.7680.91
162_L172_F0.7660.91
78_N81_M0.7620.90
41_I45_D0.7610.90
90_G97_Q0.7610.90
186_D189_M0.7590.90
106_P109_I0.7560.90
246_A251_T0.7550.90
43_G50_T0.7540.90
170_Q173_K0.7490.90
245_F248_A0.7480.90
98_S101_S0.7480.90
79_I82_A0.7480.90
187_H193_K0.7420.89
219_Y232_E0.7420.89
188_V194_G0.7420.89
192_V198_N0.7380.89
219_Y248_A0.7350.89
301_F310_Y0.7350.89
226_W239_G0.7350.89
132_G136_L0.7340.89
264_K270_E0.7330.89
110_T113_E0.7310.89
241_V291_V0.7300.89
295_V299_R0.7260.88
180_G185_V0.7260.88
144_G148_I0.7260.88
256_A278_F0.7250.88
184_Y189_M0.7240.88
134_V141_Y0.7220.88
222_Q308_I0.7160.88
23_C26_V0.7160.88
131_G134_V0.7130.87
119_G122_H0.7120.87
27_V30_I0.7090.87
257_Q289_T0.7090.87
190_R193_K0.7070.87
218_K243_W0.7010.86
219_Y243_W0.7010.86
229_S246_A0.7000.86
54_A58_E0.6990.86
243_W246_A0.6950.86
305_D308_I0.6950.86
190_R196_D0.6950.86
245_F250_I0.6930.86
151_V155_G0.6880.85
67_Y74_F0.6870.85
184_Y188_V0.6850.85
102_I110_T0.6840.85
109_I113_E0.6840.85
163_A166_F0.6820.85
219_Y234_G0.6800.85
79_I83_L0.6800.85
106_P113_E0.6800.85
153_K157_K0.6790.85
220_E309_Q0.6790.85
146_G150_Y0.6750.84
273_A294_Y0.6710.84
143_F146_G0.6710.84
254_R262_A0.6700.84
294_Y298_G0.6670.84
277_V313_L0.6610.83
219_Y235_F0.6600.83
137_T144_G0.6570.83
61_R65_E0.6570.83
192_V195_S0.6560.83
37_G40_F0.6530.82
225_A229_S0.6530.82
240_L303_S0.6490.82
252_L263_T0.6480.82
261_G265_K0.6470.82
117_E120_I0.6450.82
135_R139_Q0.6430.81
90_G93_L0.6420.81
209_Y303_S0.6420.81
40_F44_G0.6420.81
271_A322_L0.6410.81
47_E51_V0.6380.81
154_N161_K0.6320.80
151_V154_N0.6300.80
212_V244_S0.6290.80
279_F313_L0.6220.79
81_M85_M0.6210.79
116_I130_A0.6210.79
54_A61_R0.6210.79
164_L167_S0.6170.79
144_G147_F0.6170.79
153_K160_K0.6160.78
179_Y184_Y0.6140.78
212_V252_L0.6140.78
241_V247_K0.6070.77
276_L293_I0.6050.77
103_G110_T0.6040.77
226_W255_T0.6030.77
222_Q231_P0.6030.77
160_K168_R0.6020.77
253_P261_G0.6010.77
189_M195_S0.6010.77
78_N82_A0.6000.77
208_F248_A0.6000.77
136_L140_A0.5990.77
193_K199_V0.5970.76
28_M32_R0.5970.76
26_V29_T0.5930.76
102_I105_P0.5900.75
194_G198_N0.5890.75
181_D190_R0.5860.75
189_M196_D0.5860.75
106_P127_F0.5820.75
279_F288_I0.5810.74
127_F131_G0.5790.74
280_G288_I0.5790.74
92_S96_M0.5790.74
167_S171_A0.5760.74
149_D153_K0.5760.74
85_M89_G0.5760.74
187_H195_S0.5750.74
131_G135_R0.5730.73
230_N243_W0.5730.73
69_R72_G0.5730.73
169_L172_F0.5720.73
294_Y299_R0.5700.73
252_L259_Q0.5660.72
234_G239_G0.5630.72
209_Y212_V0.5620.72
138_L141_Y0.5610.72
248_A276_L0.5610.72
125_K129_Q0.5590.72
245_F293_I0.5590.72
65_E68_A0.5590.72
229_S239_G0.5580.71
232_E235_F0.5570.71
265_K324_S0.5530.71
271_A279_F0.5530.71
171_A175_G0.5530.71
75_D79_I0.5520.71
39_D42_G0.5520.71
67_Y70_Q0.5510.70
193_K197_K0.5480.70
119_G126_V0.5470.70
256_A263_T0.5470.70
194_G197_K0.5470.70
280_G304_N0.5450.70
134_V137_T0.5440.69
140_A143_F0.5410.69
230_N303_S0.5400.69
27_V31_S0.5400.69
152_K156_G0.5390.69
31_S34_N0.5380.69
254_R288_I0.5380.69
260_H265_K0.5370.69
244_S247_K0.5360.68
58_E61_R0.5350.68
92_S97_Q0.5340.68
268_E279_F0.5330.68
294_Y297_N0.5280.67
105_P116_I0.5280.67
229_S243_W0.5270.67
271_A295_V0.5260.67
313_L322_L0.5250.67
56_E59_R0.5200.66
103_G113_E0.5190.66
197_K200_K0.5190.66
259_Q276_L0.5190.66
223_P304_N0.5180.66
242_Q256_A0.5180.66
88_S95_I0.5180.66
183_S189_M0.5170.66
179_Y187_H0.5170.66
185_V188_V0.5140.65
118_V122_H0.5140.65
195_S201_P0.5130.65
33_E40_F0.5120.65
229_S258_E0.5100.65
213_M293_I0.5080.64
301_F308_I0.5080.64
133_D148_I0.5060.64
260_H326_G0.5060.64
42_G45_D0.5050.64
105_P109_I0.5050.64
155_G163_A0.5030.64
260_H280_G0.5020.63
88_S96_M0.5010.63
280_G300_M0.5010.63
123_F127_F0.5000.63
180_G187_H0.5000.63
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  
4q4gX 1 0.4012 100 0.331 Contact Map
4hpeA 1 0.8267 100 0.496 Contact Map
2k1gA 1 0.3708 100 0.498 Contact Map
4fdyA 1 0.8267 100 0.505 Contact Map
4xcmA 2 0.6687 100 0.52 Contact Map
3pbiA 1 0.5532 100 0.523 Contact Map
3npfA 2 0.8116 100 0.527 Contact Map
4lj1A 1 0.3495 100 0.527 Contact Map
2hbwA 1 0.5988 100 0.535 Contact Map
3h41A 1 0.8815 100 0.535 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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