GREMLIN Database
CWLD - Germination-specific N-acetylmuramoyl-L-alanine amidase
UniProt: P50864 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 237 (187)
Sequences: 5365 (4025)
Seq/√Len: 294.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
75_R79_Q3.0111.00
73_R215_D2.9741.00
45_L71_A2.7291.00
160_I192_A2.6421.00
70_V196_V2.6321.00
163_E227_R2.5841.00
75_R87_M2.5821.00
132_N143_Q2.5531.00
42_I84_L2.5401.00
77_Y219_S2.5321.00
47_P71_A2.5021.00
69_E214_Q2.2091.00
86_I121_S2.1571.00
62_L65_D2.1261.00
44_Y123_A2.0861.00
81_Q226_L2.0141.00
61_L209_G1.9761.00
110_D113_Q1.9481.00
113_Q116_K1.8911.00
67_T131_L1.8541.00
71_A129_I1.8231.00
44_Y88_T1.8131.00
119_N188_T1.7651.00
64_K92_D1.7501.00
59_G205_A1.7401.00
144_S161_Q1.6851.00
44_Y117_L1.6711.00
58_G205_A1.6541.00
81_Q222_Y1.6521.00
163_E223_K1.6491.00
69_E73_R1.6261.00
77_Y215_D1.6101.00
77_Y222_Y1.6101.00
71_A87_M1.5971.00
73_R211_P1.5821.00
161_Q172_T1.5791.00
86_I117_L1.5511.00
207_L213_Y1.4921.00
133_A200_S1.4881.00
74_V221_I1.4791.00
41_K229_F1.4651.00
42_I86_I1.4511.00
61_L205_A1.4431.00
194_I221_I1.4381.00
182_Y186_N1.4361.00
126_Y183_L1.4321.00
43_I83_A1.4301.00
83_A226_L1.4141.00
127_I225_I1.4011.00
73_R214_Q1.3931.00
116_K120_H1.3891.00
125_L156_V1.3861.00
66_V131_L1.3791.00
125_L225_I1.3541.00
147_Y151_A1.3531.00
70_V131_L1.3471.00
79_Q85_V1.3271.00
154_E158_K1.3261.00
134_I139_W1.3261.00
143_Q176_K1.3241.00
56_A199_L1.3121.00
73_R77_Y1.3031.00
140_S203_S1.3011.00
117_L121_S1.2921.00
38_L83_A1.2801.00
159_Y227_R1.2781.00
74_V218_A1.2721.00
146_Y154_E1.2621.00
75_R90_E1.2571.00
40_G83_A1.2501.00
112_R182_Y1.2361.00
41_K124_E1.2311.00
210_K213_Y1.2211.00
118_I189_K1.2181.00
163_E166_R1.2161.00
40_G84_L1.2061.00
159_Y224_G1.2041.00
47_P88_T1.1951.00
54_G62_L1.1731.00
77_Y81_Q1.1691.00
78_L222_Y1.1571.00
78_L83_A1.1451.00
213_Y217_V1.1441.00
45_L74_V1.1331.00
115_V182_Y1.1191.00
68_L72_F1.1151.00
167_N220_S1.1101.00
131_L208_L1.1061.00
143_Q173_R1.1051.00
94_D110_D1.1051.00
75_R85_V1.0811.00
219_S223_K1.0801.00
129_I196_V1.0781.00
205_A209_G1.0771.00
49_H130_H1.0761.00
52_P94_D1.0661.00
76_D79_Q1.0641.00
119_N187_V1.0601.00
57_V62_L1.0301.00
77_Y80_E1.0281.00
54_G57_V1.0241.00
112_R116_K1.0181.00
74_V222_Y1.0111.00
123_A189_K1.0081.00
156_V192_A1.0081.00
167_N223_K0.9941.00
215_D219_S0.9921.00
95_L110_D0.9831.00
140_S207_L0.9831.00
115_V119_N0.9811.00
76_D80_E0.9761.00
78_L225_I0.9671.00
180_G185_Q0.9571.00
49_H195_E0.9531.00
222_Y226_L0.9441.00
203_S207_L0.9421.00
44_Y86_I0.9391.00
131_L199_L0.9391.00
163_E220_S0.9331.00
61_L66_V0.9211.00
40_G82_G0.9181.00
73_R76_D0.9161.00
155_K159_Y0.8981.00
158_K162_D0.8911.00
145_F179_H0.8901.00
173_R198_F0.8801.00
212_K216_K0.8751.00
196_V217_V0.8701.00
68_L89_R0.8701.00
140_S171_T0.8651.00
207_L216_K0.8581.00
72_F75_R0.8571.00
197_G204_E0.8541.00
136_S139_W0.8531.00
119_N189_K0.8521.00
115_V186_N0.8501.00
162_D227_R0.8491.00
73_R218_A0.8431.00
44_Y121_S0.8401.00
161_Q165_R0.8361.00
111_L182_Y0.8301.00
145_F181_I0.8301.00
152_E155_K0.8291.00
142_A164_L0.8281.00
74_V129_I0.8201.00
130_H195_E0.8171.00
199_L205_A0.8121.00
146_Y157_A0.8031.00
196_V221_I0.7990.99
134_I137_Q0.7980.99
142_A168_L0.7840.99
181_I184_M0.7760.99
126_Y191_G0.7740.99
118_I126_Y0.7650.99
156_V160_I0.7640.99
78_L85_V0.7580.99
146_Y177_R0.7580.99
164_L220_S0.7520.99
38_L41_K0.7500.99
181_I193_L0.7480.99
159_Y163_E0.7420.99
131_L196_V0.7420.99
159_Y231_E0.7380.99
50_G64_K0.7310.99
71_A74_V0.7290.99
46_D114_R0.7250.99
168_L220_S0.7220.99
156_V228_Y0.7120.99
220_S224_G0.7100.99
53_D94_D0.7080.99
115_V187_V0.7040.99
70_V218_A0.7030.99
125_L229_F0.7000.99
157_A192_A0.6990.99
118_I187_V0.6970.99
164_L194_I0.6970.99
143_Q198_F0.6920.99
51_G89_R0.6910.99
127_I192_A0.6910.99
43_I78_L0.6900.99
56_A133_A0.6900.99
45_L75_R0.6890.99
70_V129_I0.6870.98
77_Y218_A0.6800.98
145_F176_K0.6780.98
182_Y185_Q0.6710.98
140_S204_E0.6680.98
203_S206_T0.6670.98
164_L217_V0.6660.98
223_K227_R0.6610.98
145_F198_F0.6600.98
142_A170_N0.6550.98
142_A197_G0.6490.98
202_P206_T0.6470.98
157_A175_A0.6410.98
48_G130_H0.6410.98
163_E167_N0.6390.98
113_Q117_L0.6320.97
79_Q84_L0.6310.97
118_I123_A0.6310.97
197_G208_L0.6290.97
51_G64_K0.6270.97
201_N204_E0.6230.97
69_E72_F0.6210.97
197_G213_Y0.6210.97
95_L113_Q0.6180.97
144_S194_I0.6150.97
50_G53_D0.6120.97
184_M191_G0.6120.97
179_H184_M0.6100.97
88_T117_L0.6070.97
211_P214_Q0.6070.97
170_N207_L0.6070.97
139_W200_S0.6020.97
83_A229_F0.6000.96
165_R172_T0.5970.96
72_F90_E0.5950.96
87_M90_E0.5930.96
226_L230_T0.5910.96
42_I124_E0.5910.96
68_L92_D0.5910.96
65_D69_E0.5890.96
69_E211_P0.5890.96
70_V214_Q0.5860.96
113_Q120_H0.5860.96
125_L228_Y0.5850.96
170_N204_E0.5840.96
132_N198_F0.5780.96
163_E224_G0.5780.96
68_L90_E0.5770.96
47_P87_M0.5770.96
43_I125_L0.5770.96
227_R231_E0.5750.95
51_G92_D0.5750.95
160_I221_I0.5740.95
167_N219_S0.5730.95
159_Y162_D0.5680.95
150_Y153_N0.5660.95
144_S192_A0.5650.95
142_A165_R0.5620.95
64_K89_R0.5570.95
135_P200_S0.5550.95
58_G61_L0.5540.94
45_L85_V0.5520.94
154_E177_R0.5500.94
67_T70_V0.5500.94
152_E228_Y0.5480.94
132_N193_L0.5460.94
168_L197_G0.5450.94
139_W198_F0.5450.94
67_T129_I0.5430.94
70_V217_V0.5400.94
147_Y150_Y0.5390.94
48_G193_L0.5390.94
81_Q223_K0.5380.94
144_S160_I0.5370.94
207_L210_K0.5370.94
170_N213_Y0.5360.93
31_W35_S0.5350.93
144_S172_T0.5350.93
147_Y184_M0.5350.93
46_D88_T0.5320.93
211_P215_D0.5290.93
148_G151_A0.5290.93
48_G195_E0.5280.93
136_S200_S0.5280.93
165_R170_N0.5260.93
173_R176_K0.5260.93
64_K68_L0.5240.93
94_D111_L0.5230.93
147_Y185_Q0.5230.93
74_V225_I0.5230.93
222_Y225_I0.5200.92
158_K175_A0.5190.92
183_L193_L0.5180.92
76_D215_D0.5170.92
187_V191_G0.5160.92
142_A213_Y0.5030.91
137_Q202_P0.5000.91
212_K215_D0.5000.91
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  
3ne8A 2 0.7764 100 0.191 Contact Map
4rn7A 1 0.7637 100 0.191 Contact Map
4binA 1 0.8734 100 0.195 Contact Map
1jwqA 1 0.7426 100 0.203 Contact Map
4lq6A 1 0.7595 100 0.213 Contact Map
1xovA 1 0.7637 100 0.218 Contact Map
3czxA 2 0.7426 100 0.237 Contact Map
3qayA 1 0.7384 100 0.267 Contact Map
3nh4A 2 0.7595 90.5 0.913 Contact Map
2gu2A 3 0.73 87.4 0.918 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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