GREMLIN Database
YACD - Putative peptidyl-prolyl cis-trans isomerase YacD
UniProt: P37566 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 297 (260)
Sequences: 5841 (4958)
Seq/√Len: 307.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
167_E171_R4.0331.00
174_L178_K3.6171.00
176_E181_S3.2481.00
160_R246_K3.0921.00
209_A218_I2.9731.00
166_D169_E2.8661.00
139_E271_Q2.8661.00
158_R202_D2.6271.00
226_E247_E2.5991.00
77_L80_K2.5481.00
140_L256_F2.5131.00
225_K228_E2.5041.00
215_S219_E2.4771.00
143_F147_N2.4691.00
141_E145_N2.4231.00
224_L230_S2.3601.00
156_S249_L2.3311.00
45_K72_R2.3071.00
172_E176_E2.2921.00
43_G76_Q2.2771.00
142_S146_K2.2051.00
182_S185_A2.1171.00
175_K179_G2.1061.00
174_L242_I2.0061.00
205_F247_E1.9951.00
77_L81_N1.9921.00
173_V190_R1.9751.00
160_R244_Q1.9661.00
49_R53_L1.9511.00
174_L232_E1.8941.00
205_F249_L1.8721.00
173_V186_V1.8311.00
177_L186_V1.8181.00
158_R247_E1.8091.00
161_H241_A1.7791.00
264_R268_A1.7741.00
91_D116_K1.7681.00
157_Y222_K1.7611.00
141_E256_F1.7591.00
165_K192_T1.7561.00
93_E96_L1.7441.00
70_N282_W1.7421.00
208_E222_K1.7321.00
145_N148_K1.7221.00
155_D248_K1.7061.00
89_E127_D1.7041.00
40_A65_L1.6961.00
55_E71_V1.6841.00
206_V213_I1.6051.00
236_V241_A1.5961.00
174_L233_P1.5851.00
147_N150_L1.5821.00
47_V68_M1.5751.00
255_S258_E1.5691.00
158_R246_K1.5581.00
271_Q274_D1.5531.00
263_I267_I1.5491.00
224_L228_E1.5451.00
185_A189_E1.5341.00
140_L264_R1.5241.00
255_S259_V1.5011.00
171_R175_K1.5001.00
169_E172_E1.4971.00
224_L245_L1.4861.00
235_K240_Y1.4741.00
136_S139_E1.4571.00
176_E190_R1.4521.00
168_E172_E1.4511.00
169_E190_R1.4401.00
236_V239_G1.3941.00
261_D264_R1.3931.00
86_S89_E1.3791.00
143_F263_I1.3381.00
229_W244_Q1.3381.00
137_N260_K1.3251.00
91_D95_L1.3251.00
39_I52_W1.3151.00
53_L61_G1.3081.00
175_K178_K1.3051.00
157_Y248_K1.3051.00
138_K142_S1.2891.00
102_N106_E1.2621.00
41_T46_S1.2571.00
37_E49_R1.2571.00
38_S46_S1.2401.00
168_E171_R1.2381.00
140_L263_I1.2351.00
158_R205_F1.2311.00
51_E72_R1.2231.00
36_G50_E1.1981.00
111_T114_E1.1881.00
66_E70_N1.1771.00
214_P238_N1.1691.00
177_L229_W1.1621.00
268_A272_L1.1611.00
147_N151_Y1.1601.00
164_V173_V1.1531.00
88_S92_R1.1441.00
120_R124_L1.1281.00
87_K120_R1.1261.00
260_K264_R1.1251.00
72_R75_E1.1251.00
156_S205_F1.1241.00
226_E245_L1.1191.00
112_E116_K1.1191.00
166_D192_T1.1191.00
140_L267_I1.1161.00
270_D274_D1.0881.00
144_Y255_S1.0861.00
238_N241_A1.0791.00
117_D121_Y1.0721.00
104_F107_D1.0501.00
256_F260_K1.0471.00
55_E68_M1.0461.00
117_D120_R1.0431.00
167_E240_Y1.0421.00
95_L98_K1.0401.00
45_K76_Q1.0361.00
219_E223_T1.0351.00
48_T51_E1.0341.00
95_L99_A1.0331.00
277_T280_T1.0311.00
62_K66_E1.0311.00
186_V190_R1.0271.00
159_I206_V1.0271.00
163_V239_G1.0191.00
21_V24_T1.0191.00
193_D196_T1.0161.00
172_E190_R1.0151.00
245_L248_K1.0131.00
56_M61_G0.9821.00
96_L99_A0.9801.00
155_D250_K0.9791.00
202_D246_K0.9761.00
52_W65_L0.9731.00
157_Y221_A0.9731.00
142_S145_N0.9671.00
143_F146_K0.9671.00
103_S106_E0.9661.00
172_E175_K0.9661.00
75_E79_K0.9641.00
176_E189_E0.9621.00
169_E192_T0.9601.00
217_Y241_A0.9551.00
263_I266_Q0.9381.00
182_S186_V0.9361.00
181_S186_V0.9331.00
202_D205_F0.9321.00
42_I45_K0.9291.00
194_R197_S0.9211.00
167_E235_K0.9211.00
138_K141_E0.9201.00
207_T212_N0.9161.00
73_V281_L0.9141.00
161_H217_Y0.9131.00
78_A124_L0.9121.00
94_F116_K0.9091.00
52_W64_T0.9051.00
72_R76_Q0.8991.00
103_S107_D0.8991.00
171_R174_L0.8941.00
174_L177_L0.8901.00
234_I243_I0.8871.00
160_R184_E0.8851.00
266_Q270_D0.8851.00
121_Y124_L0.8831.00
185_A188_A0.8691.00
104_F108_E0.8661.00
23_Y26_T0.8531.00
173_V176_E0.8531.00
181_S185_A0.8531.00
92_R95_L0.8491.00
49_R61_G0.8481.00
279_K282_W0.8481.00
161_H236_V0.8411.00
221_A243_I0.8391.00
160_R202_D0.8391.00
191_S201_G0.8381.00
45_K79_K0.8351.00
27_K30_A0.8331.00
137_N141_E0.8311.00
148_K151_Y0.8251.00
252_R258_E0.8201.00
220_E234_I0.8201.00
52_W68_M0.8161.00
157_Y245_L0.8101.00
233_P240_Y0.8051.00
102_N112_E0.8021.00
259_V262_Q0.8011.00
141_E144_Y0.7991.00
143_F151_Y0.7971.00
191_S200_G0.7971.00
171_R232_E0.7951.00
144_Y256_F0.7951.00
174_L229_W0.7941.00
226_E248_K0.7931.00
159_I213_I0.7921.00
64_T68_M0.7901.00
28_S31_G0.7901.00
162_I187_A0.7871.00
217_Y238_N0.7871.00
218_I222_K0.7810.99
139_E142_S0.7790.99
29_Q32_A0.7780.99
177_L242_I0.7770.99
89_E92_R0.7750.99
277_T281_L0.7730.99
85_I90_V0.7710.99
208_E218_I0.7700.99
135_I267_I0.7700.99
16_V19_I0.7650.99
18_C21_V0.7640.99
213_I217_Y0.7640.99
173_V177_L0.7630.99
116_K120_R0.7620.99
209_A212_N0.7610.99
187_A201_G0.7540.99
20_A23_Y0.7520.99
191_S194_R0.7520.99
71_V121_Y0.7510.99
122_N126_E0.7500.99
180_G186_V0.7450.99
124_L128_L0.7440.99
163_V241_A0.7430.99
259_V263_I0.7400.99
227_D246_K0.7390.99
257_D260_K0.7380.99
170_A177_L0.7370.99
225_K245_L0.7290.99
66_E282_W0.7280.99
187_A197_S0.7220.99
38_S48_T0.7220.99
115_W119_I0.7220.99
40_A69_I0.7190.99
85_I123_I0.7190.99
41_T44_G0.7180.99
159_I221_A0.7170.99
254_F258_E0.7110.99
81_N128_L0.7100.99
229_W233_P0.7080.99
50_E54_K0.7050.99
93_E126_E0.7040.99
213_I218_I0.7040.99
184_E244_Q0.7040.99
214_P237_S0.7030.99
92_R96_L0.7020.99
147_N263_I0.7020.99
220_E223_T0.7010.99
225_K248_K0.7000.99
67_D71_V0.7000.99
216_A219_E0.6970.99
135_I139_E0.6960.99
191_S196_T0.6960.99
270_D273_G0.6950.99
230_S233_P0.6930.99
170_A174_L0.6930.99
59_Q62_K0.6920.99
39_I48_T0.6920.99
59_Q63_S0.6910.99
40_A47_V0.6900.99
65_L69_I0.6890.99
52_W56_M0.6870.99
166_D170_A0.6860.99
87_K91_D0.6850.99
219_E222_K0.6840.99
30_A33_S0.6830.99
217_Y243_I0.6800.99
71_V75_E0.6800.99
262_Q265_R0.6730.98
155_D251_A0.6700.98
68_M72_R0.6680.98
137_N264_R0.6670.98
193_D197_S0.6640.98
22_A25_L0.6610.98
155_D208_E0.6600.98
174_L230_S0.6520.98
98_K101_N0.6520.98
55_E64_T0.6480.98
184_E200_G0.6480.98
88_S91_D0.6470.98
169_E173_V0.6460.98
72_R121_Y0.6420.98
176_E179_G0.6410.98
63_S66_E0.6410.98
39_I49_R0.6410.98
144_Y259_V0.6410.98
75_E78_A0.6400.98
17_C20_A0.6400.98
21_V25_L0.6390.98
97_I101_N0.6380.98
79_K84_K0.6300.98
149_E152_Q0.6300.98
85_I127_D0.6260.98
137_N256_F0.6250.98
170_A242_I0.6250.98
156_S207_T0.6240.98
93_E97_I0.6220.97
113_K116_K0.6160.97
269_M273_G0.6140.97
118_Q121_Y0.6130.97
22_A26_T0.6130.97
261_D265_R0.6130.97
50_E53_L0.6130.97
25_L28_S0.6120.97
222_K245_L0.6090.97
144_Y148_K0.6060.97
116_K119_I0.6050.97
220_E224_L0.6030.97
184_E188_A0.6020.97
193_D201_G0.6010.97
18_C22_A0.6010.97
256_F259_V0.6000.97
20_A25_L0.6000.97
164_V170_A0.5970.97
75_E121_Y0.5960.97
183_F187_A0.5950.97
73_V282_W0.5930.97
40_A52_W0.5920.97
262_Q266_Q0.5910.97
164_V192_T0.5910.97
21_V26_T0.5890.97
63_S67_D0.5880.96
120_R123_I0.5870.96
267_I270_D0.5850.96
78_A128_L0.5840.96
85_I124_L0.5840.96
178_K229_W0.5830.96
110_T118_Q0.5830.96
75_E125_L0.5820.96
137_N140_L0.5810.96
176_E186_V0.5790.96
122_N125_L0.5720.96
187_A191_S0.5710.96
228_E244_Q0.5690.96
144_Y263_I0.5680.96
52_W61_G0.5680.96
77_L281_L0.5680.96
159_I217_Y0.5650.96
19_I23_Y0.5610.95
110_T114_E0.5590.95
105_Y110_T0.5560.95
119_I123_I0.5540.95
184_E187_A0.5520.95
206_V221_A0.5510.95
123_I128_L0.5500.95
192_T197_S0.5470.95
265_R269_M0.5450.95
187_A200_G0.5440.95
254_F259_V0.5430.95
183_F201_G0.5430.95
39_I65_L0.5410.94
196_T200_G0.5390.94
113_K117_D0.5380.94
40_A68_M0.5360.94
57_E61_G0.5340.94
227_D244_Q0.5340.94
214_P236_V0.5290.94
177_L180_G0.5290.94
19_I22_A0.5280.94
267_I271_Q0.5260.94
207_T218_I0.5260.94
55_E67_D0.5250.94
214_P217_Y0.5240.93
171_R233_P0.5230.93
167_E233_P0.5220.93
150_L266_Q0.5220.93
216_A237_S0.5210.93
183_F191_S0.5200.93
135_I140_L0.5200.93
269_M272_L0.5200.93
42_I69_I0.5190.93
129_L132_D0.5180.93
177_L182_S0.5170.93
16_V23_Y0.5160.93
76_Q80_K0.5150.93
140_L260_K0.5150.93
182_S244_Q0.5130.93
196_T214_P0.5120.93
216_A235_K0.5110.93
268_A271_Q0.5110.93
170_A233_P0.5100.93
228_E245_L0.5070.92
235_K238_N0.5070.92
161_H203_L0.5030.92
105_Y108_E0.5030.92
106_E109_H0.5020.92
143_F270_D0.5010.92
133_I268_A0.5000.92
165_K169_E0.5000.92
31_G34_S0.5000.92
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  
3nrkA 3 0.8586 100 0.261 Contact Map
4wo7A 2 0.8215 100 0.298 Contact Map
1m5yA 1 0.8013 100 0.315 Contact Map
3rgcA 2 0.7946 100 0.336 Contact Map
3rfwA 2 0.7778 100 0.34 Contact Map
1yw5A 1 0.5017 99.9 0.611 Contact Map
3tc5A 1 0.404 99.8 0.654 Contact Map
1jnsA 1 0.3098 99.8 0.659 Contact Map
2m08A 1 0.3131 99.8 0.662 Contact Map
3i6cA 1 0.3064 99.7 0.667 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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