GREMLIN Database
MURD - UDP-N-acetylmuramoylalanine--D-glutamate ligase
UniProt: P14900 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10620
Length: 438 (385)
Sequences: 18231 (13629)
Seq/√Len: 694.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
176_T279_L3.5301.00
231_F275_A2.7471.00
129_A296_T2.6831.00
386_E397_L2.6231.00
32_P44_L2.5731.00
397_L401_R2.5621.00
106_P173_V2.5551.00
286_P289_S2.5481.00
277_L290_S2.5111.00
306_V314_R2.4911.00
174_A279_L2.4621.00
176_T275_A2.4141.00
388_T397_L2.4101.00
191_G194_Q2.3901.00
390_T393_Q2.3841.00
126_M276_A2.3061.00
126_M280_A2.2421.00
129_A293_A2.2351.00
238_Y278_A2.2021.00
84_A88_A2.2001.00
84_A87_D2.1961.00
261_E295_T2.1821.00
328_E332_N2.1671.00
196_R220_P2.1651.00
208_V282_A2.1481.00
241_N252_K2.1421.00
213_A236_G2.1101.00
348_G377_L2.0711.00
242_H250_R2.0561.00
189_P194_Q2.0271.00
173_V207_K1.9921.00
397_L400_P1.9801.00
262_M273_A1.9751.00
129_A292_K1.9491.00
130_A289_S1.9371.00
250_R259_V1.8841.00
366_R401_R1.8601.00
402_V408_V1.8531.00
123_V276_A1.8501.00
339_T406_D1.8401.00
125_E296_T1.8381.00
109_A172_A1.8321.00
366_R386_E1.8281.00
132_V153_E1.8171.00
108_V283_A1.8151.00
342_L365_V1.7731.00
196_R217_L1.7521.00
61_E64_M1.7491.00
341_H401_R1.7471.00
258_N291_L1.7441.00
181_T325_G1.7371.00
109_A159_L1.7271.00
281_D287_R1.7071.00
123_V279_L1.6951.00
233_V267_Q1.6891.00
124_G128_K1.6831.00
194_Q197_A1.6821.00
306_V316_I1.6751.00
273_A294_L1.6721.00
240_L274_L1.6681.00
203_Y209_C1.6661.00
110_I123_V1.6451.00
123_V280_A1.6431.00
124_G136_V1.6431.00
47_L70_V1.6401.00
309_E314_R1.5911.00
130_A285_L1.5731.00
174_A283_A1.5621.00
329_A332_N1.5621.00
106_P154_L1.5511.00
82_L86_A1.5351.00
175_A202_I1.5321.00
134_V137_G1.5111.00
127_A156_V1.5111.00
53_R57_S1.5061.00
280_A290_S1.5061.00
145_L149_D1.5021.00
34_V39_M1.4891.00
198_A201_R1.4791.00
248_W261_E1.4791.00
208_V227_R1.4761.00
213_A230_S1.4751.00
267_Q332_N1.4661.00
248_W259_V1.4641.00
388_T393_Q1.4631.00
108_V123_V1.4601.00
208_V229_V1.4591.00
291_L295_T1.4561.00
368_Y401_R1.4551.00
125_E293_A1.4541.00
60_D64_M1.4481.00
114_N323_N1.4471.00
249_L273_A1.4361.00
83_S86_A1.4341.00
161_S188_Y1.4241.00
238_Y281_D1.4101.00
136_V139_N1.4081.00
263_K298_T1.4071.00
127_A283_A1.3961.00
34_V40_T1.3911.00
210_V282_A1.3851.00
165_E168_S1.3831.00
315_W399_A1.3811.00
154_L283_A1.3791.00
122_L264_L1.3791.00
289_S292_K1.3731.00
253_G256_V1.3651.00
107_I170_L1.3621.00
118_T269_N1.3571.00
230_S237_D1.3391.00
380_L384_V1.3371.00
252_K257_L1.3321.00
313_V402_V1.3321.00
211_V228_C1.3241.00
251_V277_L1.3121.00
174_A282_A1.3081.00
280_A285_L1.3021.00
180_V196_R1.2971.00
292_K296_T1.2951.00
119_V178_L1.2951.00
341_H366_R1.2891.00
374_G377_L1.2831.00
369_C378_A1.2561.00
177_I180_V1.2531.00
110_I120_T1.2501.00
106_P153_E1.2491.00
355_P359_Y1.2491.00
171_Q207_K1.2471.00
211_V230_S1.2401.00
339_T365_V1.2391.00
354_S358_R1.2391.00
339_T366_R1.2341.00
258_N287_R1.2321.00
239_H252_K1.2321.00
236_G239_H1.2291.00
122_L297_F1.2261.00
353_F373_D1.2261.00
393_Q396_R1.2221.00
368_Y397_L1.2151.00
200_L221_I1.2121.00
250_R257_L1.2111.00
267_Q271_T1.2031.00
41_P44_L1.2021.00
212_N271_T1.2011.00
306_V309_E1.1981.00
227_R282_A1.1931.00
304_F334_L1.1921.00
133_N153_E1.1911.00
312_G404_P1.1861.00
246_E261_E1.1821.00
117_S300_L1.1821.00
269_N272_N1.1811.00
174_A210_V1.1811.00
301_P305_E1.1781.00
182_E185_M1.1781.00
328_E359_Y1.1761.00
182_E352_D1.1661.00
370_F394_A1.1631.00
343_L370_F1.1611.00
327_T411_S1.1591.00
356_L359_Y1.1591.00
123_V176_T1.1551.00
34_V44_L1.1481.00
217_L220_P1.1461.00
359_Y363_D1.1451.00
135_G147_L1.1441.00
347_D372_R1.1431.00
134_V139_N1.1381.00
193_Q197_A1.1351.00
233_V271_T1.1321.00
211_V218_T1.1301.00
127_A285_L1.1291.00
396_R400_P1.1281.00
229_V282_A1.1261.00
229_V278_A1.1261.00
292_K295_T1.1231.00
113_S183_D1.1221.00
334_L340_L1.1201.00
253_G281_D1.1181.00
304_F316_I1.1041.00
159_L167_T1.1021.00
97_E101_R1.1011.00
240_L270_Y1.0911.00
249_L270_Y1.0851.00
210_V278_A1.0831.00
201_R204_E1.0821.00
63_L81_S1.0731.00
211_V222_R1.0681.00
305_E317_N1.0681.00
58_L62_W1.0681.00
44_L48_P1.0681.00
177_I203_Y1.0651.00
328_E363_D1.0641.00
288_A292_K1.0641.00
182_E192_L1.0631.00
339_T403_Q1.0551.00
108_V279_L1.0551.00
197_A201_R1.0541.00
91_E95_D1.0451.00
192_L217_L1.0421.00
213_A219_M1.0421.00
132_V154_L1.0421.00
88_A91_E1.0401.00
393_Q397_L1.0371.00
220_P223_G1.0321.00
234_N267_Q1.0321.00
166_T169_S1.0311.00
122_L273_A1.0301.00
126_M290_S1.0301.00
164_L198_A1.0291.00
338_G407_M1.0291.00
403_Q406_D1.0241.00
214_D271_T1.0231.00
127_A154_L1.0191.00
126_M293_A1.0181.00
241_N257_L1.0151.00
341_H368_Y1.0141.00
368_Y394_A1.0131.00
241_N250_R1.0111.00
72_S89_G1.0081.00
322_T327_T1.0061.00
178_L275_A1.0051.00
392_E396_R1.0051.00
196_R200_L1.0041.00
194_Q198_A1.0021.00
309_E313_V0.9951.00
39_M47_L0.9921.00
130_A293_A0.9911.00
201_R205_N0.9871.00
309_E312_G0.9851.00
375_A379_A0.9841.00
380_L383_E0.9821.00
177_I221_I0.9811.00
125_E128_K0.9791.00
124_G134_V0.9771.00
341_H406_D0.9761.00
53_R58_L0.9751.00
381_R384_V0.9731.00
114_N325_G0.9711.00
379_A383_E0.9691.00
174_A208_V0.9661.00
285_L289_S0.9581.00
342_L364_N0.9571.00
59_N69_I0.9551.00
106_P283_A0.9541.00
140_I143_P0.9481.00
86_A92_I0.9441.00
369_C387_Q0.9411.00
287_R291_L0.9391.00
59_N62_W0.9391.00
107_I155_Y0.9301.00
330_A409_L0.9291.00
230_S236_G0.9291.00
45_D68_L0.9281.00
375_A387_Q0.9241.00
45_D48_P0.9241.00
313_V405_G0.9241.00
342_L411_S0.9201.00
104_Q145_L0.9201.00
129_A289_S0.9201.00
193_Q217_L0.9171.00
125_E297_F0.9081.00
327_T344_L0.9011.00
379_A382_P0.8941.00
93_V101_R0.8931.00
130_A286_P0.8901.00
386_E401_R0.8891.00
232_G271_T0.8841.00
94_G169_S0.8831.00
104_Q148_L0.8831.00
83_S87_D0.8811.00
145_L148_L0.8811.00
162_F187_R0.8771.00
316_I334_L0.8731.00
281_D290_S0.8721.00
239_H242_H0.8671.00
44_L47_L0.8651.00
389_E393_Q0.8651.00
37_T40_T0.8641.00
183_D323_N0.8631.00
58_L61_E0.8621.00
243_Q248_W0.8621.00
325_G329_A0.8601.00
86_A89_G0.8601.00
164_L194_Q0.8551.00
97_E100_C0.8541.00
304_F333_G0.8521.00
398_L402_V0.8521.00
277_L281_D0.8511.00
111_T199_K0.8511.00
200_L224_A0.8501.00
359_Y362_G0.8491.00
346_G374_G0.8481.00
200_L204_E0.8461.00
121_T140_I0.8461.00
40_T44_L0.8461.00
63_L69_I0.8461.00
43_G47_L0.8441.00
357_A361_N0.8421.00
358_R362_G0.8421.00
302_H317_N0.8421.00
378_A387_Q0.8411.00
279_L283_A0.8401.00
197_A224_A0.8401.00
45_D70_V0.8391.00
182_E356_L0.8381.00
388_T394_A0.8371.00
125_E129_A0.8371.00
394_A398_L0.8361.00
216_A220_P0.8361.00
353_F357_A0.8351.00
372_R389_E0.8341.00
214_D232_G0.8331.00
109_A202_I0.8311.00
215_D271_T0.8301.00
193_Q196_R0.8221.00
62_W66_A0.8191.00
378_A382_P0.8181.00
249_L260_K0.8141.00
119_V275_A0.8121.00
77_L86_A0.8121.00
243_Q246_E0.8031.00
192_L196_R0.7981.00
130_A280_A0.7971.00
33_R66_A0.7961.00
352_D355_P0.7941.00
212_N215_D0.7911.00
214_D233_V0.7911.00
233_V240_L0.7891.00
209_C226_E0.7871.00
250_R253_G0.7861.00
96_I99_F0.7861.00
260_K291_L0.7861.00
314_R407_M0.7791.00
336_V407_M0.7751.00
258_N288_A0.7741.00
120_T136_V0.7731.00
97_E169_S0.7731.00
95_D98_L0.7681.00
119_V276_A0.7661.00
59_N63_L0.7641.00
94_G97_E0.7631.00
159_L172_A0.7631.00
149_D152_C0.7591.00
197_A200_L0.7571.00
39_M44_L0.7571.00
164_L197_A0.7521.00
364_N367_L0.7521.00
50_A53_R0.7511.00
277_L287_R0.7471.00
91_E101_R0.7441.00
395_M399_A0.7421.00
213_A218_T0.7411.00
219_M223_G0.7381.00
181_T192_L0.7381.00
331_L342_L0.7371.00
107_I157_L0.7371.00
121_T300_L0.7361.00
316_I407_M0.7361.00
238_Y253_G0.7331.00
31_T43_G0.7321.00
188_Y198_A0.7311.00
219_M230_S0.7281.00
285_L290_S0.7281.00
93_V97_E0.7271.00
56_G59_N0.7271.00
88_A92_I0.7251.00
338_G406_D0.7241.00
264_L297_F0.7231.00
335_H340_L0.7201.00
321_A411_S0.7171.00
312_G405_G0.7171.00
373_D376_Q0.7161.00
232_G239_H0.7161.00
346_G373_D0.7151.00
210_V279_L0.7141.00
368_Y388_T0.7121.00
124_G135_G0.7091.00
37_T58_L0.7081.00
124_G156_V0.7051.00
290_S293_A0.7031.00
48_P59_N0.7031.00
354_S376_Q0.7031.00
168_S204_E0.7001.00
165_E198_A0.7001.00
93_V98_L0.7001.00
193_Q220_P0.6991.00
64_M88_A0.6981.00
192_L195_Y0.6981.00
268_H329_A0.6971.00
358_R384_V0.6971.00
164_L187_R0.6971.00
345_G412_P0.6951.00
133_N152_C0.6951.00
120_T156_V0.6941.00
182_E325_G0.6941.00
391_M395_M0.6941.00
89_G92_I0.6931.00
232_G236_G0.6921.00
144_A147_L0.6911.00
161_S198_A0.6911.00
212_N231_F0.6901.00
222_R230_S0.6891.00
126_M130_A0.6851.00
45_D49_E0.6831.00
243_Q261_E0.6821.00
341_H402_V0.6811.00
180_V192_L0.6741.00
178_L231_F0.6731.00
343_L408_V0.6731.00
229_V238_Y0.6721.00
82_L85_A0.6701.00
343_L410_L0.6691.00
123_V156_V0.6671.00
314_R338_G0.6661.00
60_D63_L0.6661.00
375_A378_A0.6661.00
343_L398_L0.6651.00
58_L63_L0.6611.00
213_A232_G0.6611.00
177_I196_R0.6611.00
311_N404_P0.6591.00
233_V274_L0.6551.00
267_Q270_Y0.6551.00
321_A330_A0.6551.00
334_L409_L0.6531.00
321_A326_S0.6531.00
47_L89_G0.6511.00
175_A206_A0.6431.00
355_P358_R0.6361.00
43_G46_K0.6351.00
93_V96_I0.6341.00
108_V127_A0.6331.00
128_K133_N0.6331.00
110_I176_T0.6321.00
163_Q187_R0.6321.00
121_T125_E0.6311.00
315_W408_V0.6311.00
31_T52_E0.6291.00
288_A291_L0.6281.00
372_R375_A0.6281.00
270_Y274_L0.6231.00
264_L269_N0.6221.00
330_A411_S0.6211.00
277_L294_L0.6191.00
328_E360_L0.6181.00
71_A82_L0.6181.00
335_H363_D0.6181.00
310_H313_V0.6171.00
252_K256_V0.6161.00
122_L276_A0.6161.00
134_V148_L0.6161.00
185_M189_P0.6161.00
54_H62_W0.6141.00
105_A148_L0.6141.00
35_M53_R0.6141.00
266_G269_N0.6131.00
341_H398_L0.6121.00
114_N326_S0.6111.00
356_L360_L0.6101.00
353_F356_L0.6101.00
73_P76_A0.6091.00
348_G351_A0.6091.00
196_R221_I0.6051.00
219_M222_R0.6051.00
274_L278_A0.6051.00
278_A282_A0.6041.00
30_V45_D0.6011.00
247_T270_Y0.6011.00
332_N363_D0.5991.00
114_N181_T0.5981.00
323_N326_S0.5971.00
370_F391_M0.5971.00
105_A155_Y0.5971.00
210_V229_V0.5971.00
343_L394_A0.5961.00
304_F330_A0.5941.00
98_L171_Q0.5941.00
68_L93_V0.5931.00
133_N151_E0.5931.00
81_S84_A0.5931.00
218_T222_R0.5921.00
79_H82_L0.5901.00
88_A93_V0.5891.00
331_L364_N0.5881.00
36_D39_M0.5881.00
127_A280_A0.5881.00
161_S167_T0.5831.00
185_M191_G0.5831.00
242_H259_V0.5831.00
108_V154_L0.5791.00
308_L314_R0.5781.00
40_T66_A0.5761.00
358_R380_L0.5761.00
337_D407_M0.5751.00
369_C385_A0.5721.00
173_V206_A0.5721.00
164_L201_R0.5711.00
118_T122_L0.5701.00
90_I94_G0.5701.00
144_A148_L0.5701.00
332_N364_N0.5691.00
98_L101_R0.5691.00
338_G405_G0.5681.00
55_T58_L0.5681.00
171_Q205_N0.5661.00
360_L364_N0.5651.00
85_A88_A0.5641.00
255_K258_N0.5631.00
69_I81_S0.5631.00
339_T367_L0.5621.00
43_G55_T0.5601.00
95_D100_C0.5591.00
57_S73_P0.5591.00
262_M294_L0.5571.00
348_G353_F0.5561.00
287_R290_S0.5561.00
218_T221_I0.5561.00
60_D84_A0.5561.00
365_V403_Q0.5541.00
56_G72_S0.5541.00
279_L282_A0.5541.00
124_G143_P0.5541.00
92_I99_F0.5521.00
277_L291_L0.5511.00
235_M239_H0.5491.00
134_V138_G0.5481.00
110_I119_V0.5471.00
232_G235_M0.5451.00
162_F186_D0.5441.00
62_W65_A0.5431.00
46_K49_E0.5431.00
126_M285_L0.5421.00
340_L365_V0.5411.00
167_T201_R0.5411.00
164_L188_Y0.5401.00
121_T301_P0.5391.00
346_G376_Q0.5371.00
206_A226_E0.5371.00
202_I205_N0.5361.00
134_V152_C0.5351.00
32_P41_P0.5341.00
74_G85_A0.5311.00
89_G93_V0.5291.00
103_A171_Q0.5281.00
334_L407_M0.5271.00
253_G287_R0.5271.00
103_A106_P0.5271.00
118_T297_F0.5241.00
315_W410_L0.5231.00
317_N410_L0.5231.00
228_C232_G0.5221.00
327_T360_L0.5201.00
289_S293_A0.5201.00
78_A83_S0.5191.00
307_V317_N0.5191.00
260_K273_A0.5181.00
74_G77_L0.5171.00
374_G387_Q0.5171.00
162_F166_T0.5171.00
72_S75_I0.5171.00
348_G376_Q0.5171.00
357_A360_L0.5160.99
365_V406_D0.5150.99
57_S61_E0.5130.99
165_E169_S0.5120.99
80_P84_A0.5110.99
173_V208_V0.5100.99
65_A88_A0.5080.99
147_L155_Y0.5070.99
102_E171_Q0.5060.99
244_Q247_T0.5060.99
165_E187_R0.5050.99
236_G240_L0.5050.99
353_F414_C0.5050.99
396_R399_A0.5040.99
213_A234_N0.5010.99
114_N179_N0.5000.99
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  
2x5oA 1 0.9954 100 0.146 Contact Map
3lk7A 1 0.984 100 0.201 Contact Map
4bucA 1 0.9406 100 0.236 Contact Map
3hn7A 1 0.9566 100 0.303 Contact Map
1p3dA 1 0.9635 100 0.309 Contact Map
4hv4A 1 0.9635 100 0.32 Contact Map
4c12A 2 0.9726 100 0.328 Contact Map
1j6uA 1 0.9201 100 0.331 Contact Map
4qdiA 1 0.9452 100 0.338 Contact Map
4cvkA 1 0.9247 100 0.339 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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