GREMLIN Database
NLPD - Murein hydrolase activator NlpD
UniProt: P0ADA3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12111
Length: 379 (351)
Sequences: 3433 (3186)
Seq/√Len: 170.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
329_N347_A3.8651.00
303_A332_M3.6491.00
269_I285_A3.1791.00
292_I329_N3.1641.00
286_G349_M3.1011.00
318_H324_S3.0811.00
351_S355_S3.0501.00
333_L348_T2.9741.00
262_W284_I2.8901.00
291_A345_K2.7361.00
218_A222_L2.7011.00
297_D341_K2.6741.00
271_T373_L2.6641.00
261_R342_A2.6641.00
272_F369_S2.3941.00
224_N228_T2.2561.00
316_I346_I2.2141.00
310_Y327_A2.1991.00
232_V236_V2.1921.00
295_T324_S2.1851.00
288_K357_T2.1721.00
334_V338_Q1.9821.00
228_T231_T1.9801.00
156_A160_G1.9801.00
324_S363_I1.9661.00
221_M224_N1.9401.00
231_T235_P1.9251.00
226_K230_T1.9231.00
299_R339_E1.9171.00
222_L226_K1.8821.00
230_T234_A1.8761.00
294_A316_I1.8661.00
225_N229_A1.8501.00
190_V193_P1.8431.00
197_S201_V1.8221.00
345_K348_T1.8211.00
218_A221_M1.8151.00
220_K224_N1.7881.00
236_V239_P1.7781.00
227_P231_T1.7691.00
283_D360_H1.7511.00
234_A238_V1.7011.00
215_E219_N1.6891.00
295_T361_F1.6811.00
233_T236_V1.6771.00
270_E275_S1.6751.00
170_G174_T1.6611.00
322_Y365_Y1.6431.00
329_N332_M1.6401.00
204_Q207_I1.6331.00
315_I325_A1.6301.00
228_T232_V1.6181.00
229_A233_T1.6171.00
226_K229_A1.6121.00
280_K362_E1.5981.00
180_T184_A1.5971.00
172_P176_G1.5961.00
144_D147_Q1.5671.00
341_K344_Q1.5621.00
235_P238_V1.5601.00
292_I349_M1.5531.00
235_P239_P1.5471.00
301_V323_L1.5371.00
214_G217_S1.5141.00
177_N181_Q1.5061.00
267_K285_A1.5031.00
223_P226_K1.4981.00
327_A362_E1.4981.00
223_P227_P1.4901.00
286_G290_Q1.4871.00
120_G123_Y1.4861.00
236_V240_T1.4741.00
233_T237_T1.4621.00
190_V194_A1.4551.00
144_D148_R1.4531.00
125_V128_G1.4411.00
32_P36_V1.4341.00
333_L347_A1.4261.00
219_N223_P1.4141.00
110_Y114_P1.4081.00
296_A342_A1.4021.00
214_G218_A1.4011.00
279_N358_R1.3961.00
166_G170_G1.3941.00
120_G124_T1.3901.00
186_E189_V1.3751.00
36_V40_N1.3751.00
148_R152_Q1.3711.00
238_V241_A1.3701.00
229_A232_V1.3641.00
221_M225_N1.3631.00
204_Q208_T1.3571.00
184_A188_G1.3541.00
309_G327_A1.3531.00
147_Q151_I1.3441.00
149_N153_A1.3361.00
315_I323_L1.3351.00
279_N283_D1.3281.00
334_V344_Q1.3251.00
283_D358_R1.3241.00
301_V317_K1.3231.00
266_G284_I1.3191.00
293_I345_K1.3171.00
210_S214_G1.3161.00
174_T178_A1.3061.00
349_M359_L1.3041.00
215_E218_A1.2981.00
80_A84_P1.2901.00
216_Q220_K1.2851.00
167_N171_T1.2771.00
270_E279_N1.2761.00
103_R107_N1.2561.00
371_N374_R1.2441.00
31_N35_P1.2191.00
177_N180_T1.2161.00
72_P76_P1.2101.00
148_R151_I1.2091.00
137_I141_D1.2071.00
234_A237_T1.2001.00
37_S40_N1.1971.00
302_Y315_I1.1971.00
310_Y362_E1.1951.00
169_S172_P1.1821.00
314_I346_I1.1801.00
225_N228_T1.1761.00
335_R338_Q1.1731.00
159_V163_L1.1711.00
364_R369_S1.1701.00
224_N227_P1.1611.00
129_D132_F1.1581.00
237_T241_A1.1581.00
96_P100_E1.1521.00
227_P230_T1.1511.00
152_Q156_A1.1501.00
275_S278_G1.1481.00
349_M357_T1.1461.00
126_K133_Y1.1451.00
230_T233_T1.1431.00
205_P209_Y1.1431.00
160_G164_Q1.1411.00
126_K135_A1.1391.00
260_W322_Y1.1361.00
212_S215_E1.1351.00
44_P47_T1.1341.00
119_S123_Y1.1341.00
146_A149_N1.1311.00
370_V375_Y1.1291.00
173_I177_N1.1251.00
143_R147_Q1.1221.00
283_D328_H1.1191.00
231_T234_A1.1141.00
322_Y363_I1.1121.00
101_N105_V1.1041.00
187_Q191_I1.1031.00
313_L327_A1.0961.00
102_G105_V1.0931.00
36_V39_V1.0891.00
173_I176_G1.0811.00
106_Y113_I1.0801.00
208_T212_S1.0801.00
198_T202_A1.0791.00
213_S217_S1.0701.00
287_S290_Q1.0701.00
265_E293_I1.0681.00
295_T326_Y1.0671.00
351_S356_S1.0621.00
26_C29_T1.0591.00
88_P92_V1.0580.99
310_Y325_A1.0570.99
196_N200_A1.0570.99
194_A198_T1.0550.99
241_A245_E1.0420.99
262_W376_L1.0400.99
142_F148_R1.0370.99
219_N222_L1.0360.99
159_V162_T1.0270.99
282_I373_L1.0260.99
288_K330_D1.0260.99
73_V76_P1.0260.99
331_T348_T1.0240.99
94_Q98_Q1.0230.99
123_Y126_K1.0210.99
178_A181_Q1.0210.99
237_T240_T1.0190.99
197_S200_A1.0180.99
44_P48_N1.0160.99
299_R317_K1.0140.99
118_Y122_T1.0140.99
264_T286_G1.0120.99
164_Q168_A1.0120.99
32_P35_P1.0080.99
69_Q73_V1.0040.99
175_G178_A1.0020.99
162_T166_G0.9990.99
138_T141_D0.9990.99
201_V207_I0.9970.99
314_I329_N0.9970.99
56_P60_G0.9950.99
63_S67_Q0.9930.99
271_T371_N0.9890.99
106_Y109_Q0.9880.99
46_N49_S0.9830.99
39_V43_A0.9820.99
277_G280_K0.9790.99
130_T133_Y0.9780.99
183_D187_Q0.9760.99
140_N144_D0.9730.99
207_I210_S0.9620.99
126_K130_T0.9600.99
216_Q219_N0.9590.99
313_L325_A0.9590.99
55_P58_K0.9590.99
30_S33_P0.9570.99
329_N349_M0.9570.99
69_Q72_P0.9560.99
187_Q190_V0.9540.99
330_D348_T0.9520.99
155_Y159_V0.9520.99
157_L161_Q0.9490.99
62_T66_Q0.9480.99
111_G114_P0.9400.99
178_A182_A0.9400.99
362_E369_S0.9390.99
108_R112_N0.9370.99
176_G179_I0.9360.99
183_D186_E0.9340.99
207_I211_E0.9340.99
253_T257_I0.9330.99
23_L26_C0.9330.99
142_F146_A0.9320.99
98_Q101_N0.9310.99
95_Q99_M0.9280.99
282_I376_L0.9280.99
317_K321_D0.9250.99
264_T284_I0.9230.99
73_V77_Q0.9210.99
217_S221_M0.9210.99
168_A172_P0.9190.99
282_I372_P0.9140.99
179_I183_D0.9130.99
302_Y313_L0.9120.98
130_T135_A0.9120.98
176_G180_T0.9070.98
318_H326_Y0.9060.98
141_D151_I0.9030.98
203_S206_T0.9020.98
84_P88_P0.9010.98
205_P208_T0.8980.98
194_A197_S0.8960.98
50_G53_I0.8890.98
82_Q86_I0.8880.98
314_I334_V0.8870.98
43_A47_T0.8850.98
60_G63_S0.8820.98
311_G350_G0.8810.98
169_S173_I0.8800.98
145_L149_N0.8770.98
185_A188_G0.8750.98
326_Y361_F0.8720.98
180_T183_D0.8680.98
310_Y364_R0.8670.98
333_L345_K0.8670.98
166_G169_S0.8650.98
312_N352_T0.8640.98
324_S361_F0.8620.98
295_T363_I0.8590.98
100_E103_R0.8530.98
37_S41_G0.8530.98
351_S357_T0.8530.98
128_G132_F0.8520.98
144_D151_I0.8510.98
136_W139_G0.8500.98
279_N360_H0.8470.98
191_I194_A0.8450.98
203_S207_I0.8380.97
257_I296_A0.8360.97
151_I156_A0.8330.97
81_T84_P0.8290.97
65_A69_Q0.8290.97
243_T247_T0.8280.97
87_Q91_P0.8270.97
170_G173_I0.8260.97
157_L160_G0.8230.97
118_Y123_Y0.8200.97
188_G192_K0.8200.97
269_I358_R0.8170.97
307_L313_L0.8160.97
305_N312_N0.8160.97
242_S245_E0.8150.97
286_G289_G0.8150.97
92_V99_M0.8150.97
291_A348_T0.8140.97
86_I89_V0.8140.97
88_P91_P0.8120.97
274_A277_G0.8110.97
62_T65_A0.8100.97
318_H361_F0.8090.97
136_W140_N0.8090.97
322_Y375_Y0.8080.97
297_D342_A0.8070.97
238_V242_S0.8050.97
290_Q349_M0.7970.96
244_T247_T0.7970.96
147_Q150_N0.7960.96
268_V282_I0.7950.96
107_N110_Y0.7940.96
155_Y158_N0.7900.96
315_I364_R0.7890.96
305_N309_G0.7890.96
144_D152_Q0.7870.96
269_I279_N0.7850.96
211_E214_G0.7850.96
143_R146_A0.7840.96
232_V235_P0.7830.96
253_T256_P0.7820.96
42_N46_N0.7800.96
202_A205_P0.7760.96
240_T244_T0.7750.96
64_T67_Q0.7740.96
327_A364_R0.7710.96
34_A37_S0.7680.96
243_T246_P0.7630.96
58_K62_T0.7600.95
302_Y307_L0.7590.95
119_S126_K0.7580.95
137_I140_N0.7490.95
298_G316_I0.7470.95
200_A203_S0.7470.95
28_D32_P0.7460.95
328_H355_S0.7370.95
305_N352_T0.7350.95
329_N333_L0.7350.95
121_S124_T0.7340.94
328_H358_R0.7340.94
156_A170_G0.7310.94
156_A159_V0.7310.94
261_R295_T0.7310.94
195_Q198_T0.7310.94
146_A150_N0.7300.94
328_H353_G0.7300.94
165_V169_S0.7290.94
85_Q88_P0.7280.94
38_S42_N0.7280.94
29_T33_P0.7260.94
257_I375_Y0.7250.94
313_L329_N0.7250.94
284_I376_L0.7150.94
121_S125_V0.7130.94
188_G191_I0.7110.93
97_V101_N0.7080.93
104_I107_N0.7040.93
280_K369_S0.7020.93
31_N34_A0.7010.93
270_E283_D0.7000.93
117_S121_S0.6990.93
117_S123_Y0.6980.93
100_E104_I0.6980.93
122_T125_V0.6960.93
35_P38_S0.6940.93
160_G170_G0.6930.93
268_V271_T0.6900.92
33_P36_V0.6900.92
279_N328_H0.6860.92
260_W375_Y0.6850.92
129_D133_Y0.6830.92
26_C31_N0.6780.92
142_F147_Q0.6770.92
342_A363_I0.6710.91
279_N355_S0.6690.91
253_T258_S0.6680.91
64_T68_P0.6680.91
86_I90_Q0.6670.91
109_Q112_N0.6670.91
173_I180_T0.6640.91
163_L167_N0.6630.91
209_Y213_S0.6610.91
25_G28_D0.6610.91
279_N356_S0.6610.91
106_Y110_Y0.6600.91
42_N45_A0.6580.91
328_H360_H0.6580.91
102_G106_Y0.6570.91
305_N332_M0.6570.91
256_P296_A0.6560.90
45_A49_S0.6560.90
142_F149_N0.6520.90
260_W296_A0.6510.90
310_Y313_L0.6500.90
211_E215_E0.6490.90
43_A63_S0.6470.90
161_Q164_Q0.6460.90
78_I82_Q0.6460.90
89_V93_A0.6450.90
307_L315_I0.6420.89
147_Q152_Q0.6390.89
92_V96_P0.6380.89
95_Q98_Q0.6380.89
155_Y169_S0.6360.89
310_Y315_I0.6360.89
210_S213_S0.6320.89
225_N232_V0.6280.88
297_D339_E0.6270.88
24_A31_N0.6190.88
143_R151_I0.6180.88
317_K366_K0.6180.88
91_P94_Q0.6170.88
197_S214_G0.6150.87
172_P175_G0.6140.87
174_T177_N0.6140.87
209_Y212_S0.6120.87
242_S246_P0.6120.87
167_N170_G0.6120.87
158_N162_T0.6120.87
325_A364_R0.6120.87
152_Q155_Y0.6100.87
168_A171_T0.6100.87
117_S120_G0.6100.87
29_T32_P0.6060.87
352_T355_S0.6060.87
278_G356_S0.6040.86
40_N44_P0.6040.86
74_Q78_I0.6040.86
160_G163_L0.6030.86
123_Y129_D0.6030.86
39_V46_N0.6010.86
127_K130_T0.6000.86
274_A278_G0.6000.86
244_T248_V0.6000.86
39_V42_N0.6000.86
220_K223_P0.5990.86
185_A189_V0.5980.86
202_A206_T0.5970.86
41_G44_P0.5950.86
138_T142_F0.5930.85
239_P243_T0.5910.85
268_V373_L0.5910.85
93_A97_V0.5900.85
126_K132_F0.5900.85
301_V316_I0.5890.85
328_H350_G0.5860.85
132_F137_I0.5860.85
148_R155_Y0.5860.85
99_M102_G0.5850.85
171_T174_T0.5830.84
338_Q344_Q0.5830.84
347_A359_L0.5820.84
197_S211_E0.5810.84
182_A186_E0.5770.84
28_D31_N0.5760.84
200_A204_Q0.5760.84
170_G184_A0.5740.84
211_E218_A0.5740.84
262_W265_E0.5740.84
66_Q69_Q0.5740.84
34_A38_S0.5700.83
161_Q165_V0.5700.83
141_D144_D0.5690.83
193_P196_N0.5630.82
49_S52_L0.5630.82
304_G332_M0.5620.82
102_G109_Q0.5620.82
110_Y113_I0.5600.82
55_P59_M0.5590.82
264_T349_M0.5590.82
141_D146_A0.5590.82
264_T290_Q0.5590.82
317_K323_L0.5570.82
329_N359_L0.5530.81
40_N43_A0.5500.81
208_T214_G0.5490.81
279_N350_G0.5490.81
198_T201_V0.5490.81
95_Q113_I0.5480.81
159_V166_G0.5480.81
138_T144_D0.5450.80
292_I359_L0.5430.80
355_S358_R0.5420.80
176_G183_D0.5410.80
257_I260_W0.5400.80
197_S207_I0.5400.80
179_I182_A0.5390.80
217_S222_L0.5380.79
122_T126_K0.5330.79
102_G114_P0.5330.79
302_Y364_R0.5330.79
99_M106_Y0.5330.79
276_E279_N0.5330.79
156_A167_N0.5320.79
365_Y370_V0.5280.78
134_I138_T0.5280.78
56_P59_M0.5280.78
184_A190_V0.5280.78
123_Y128_G0.5280.78
155_Y166_G0.5270.78
206_T209_Y0.5270.78
155_Y170_G0.5270.78
201_V205_P0.5270.78
105_V108_R0.5270.78
245_E248_V0.5260.78
81_T85_Q0.5260.78
126_K131_L0.5250.78
232_V239_P0.5240.78
118_Y121_S0.5230.78
56_P63_S0.5230.78
370_V374_R0.5220.77
75_Q80_A0.5190.77
201_V204_Q0.5190.77
142_F151_I0.5180.77
67_Q70_I0.5180.77
189_V192_K0.5170.77
249_S253_T0.5170.77
313_L369_S0.5170.77
27_S31_N0.5150.77
104_I108_R0.5140.76
99_M103_R0.5140.76
323_L366_K0.5130.76
125_V134_I0.5120.76
41_G45_A0.5110.76
144_D149_N0.5110.76
325_A362_E0.5100.76
65_A68_P0.5070.75
283_D353_G0.5050.75
53_I56_P0.5040.75
125_V133_Y0.5020.75
67_Q71_Q0.5010.75
207_I212_S0.5000.74
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  
2gu1A 1 0.6755 100 0.497 Contact Map
3sluA 1 0.6939 100 0.499 Contact Map
4bh5A 4 0.3325 100 0.5 Contact Map
4rnzA 1 0.6702 100 0.51 Contact Map
3tufB 1 0.3245 100 0.517 Contact Map
2hsiA 1 0.5831 100 0.522 Contact Map
1qwyA 1 0.5488 100 0.53 Contact Map
3nyyA 2 0.5541 100 0.553 Contact Map
4qp5A 1 0.3193 100 0.556 Contact Map
4lxcA 4 0.3298 100 0.567 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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