GREMLIN Database
YBIS - Probable L,D-transpeptidase YbiS
UniProt: P0AAX8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13324
Length: 306 (289)
Sequences: 557 (347)
Seq/√Len: 20.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
96_T234_I5.0881.00
140_T188_G4.8231.00
144_R186_Y4.5301.00
131_G207_S4.4261.00
107_E239_K4.2901.00
160_E208_H3.8901.00
155_A159_A3.7651.00
111_Y239_K3.4271.00
250_I291_L3.4201.00
180_M192_A3.3851.00
107_E111_Y3.0050.99
123_L220_F2.4900.97
91_L122_V2.4900.97
132_K208_H2.4660.97
158_H170_A2.3390.96
126_G207_S2.3330.96
152_T174_A2.3260.96
105_S187_I2.2560.95
242_T248_R2.2490.95
186_Y192_A2.2320.95
92_I241_T2.2150.95
201_G206_V2.1500.94
48_G80_K2.1340.94
96_T113_Y2.1250.94
58_A67_M2.1080.93
142_V185_L2.1040.93
215_N219_K2.0900.93
202_I206_V2.0770.93
157_M208_H2.0140.92
36_L92_I1.9910.91
212_R239_K1.9650.91
184_A218_I1.9420.90
152_T171_V1.9230.90
67_M85_L1.9130.89
58_A216_E1.9090.89
148_G182_L1.8720.88
150_T174_A1.8710.88
103_I211_V1.8490.88
161_Y166_E1.8380.87
251_E302_P1.8270.87
154_T157_M1.8210.87
35_R241_T1.7360.84
75_D78_L1.7220.83
250_I294_A1.7200.83
130_L207_S1.7070.83
125_I211_V1.7010.83
58_A199_N1.6850.82
291_L305_L1.6770.82
111_Y234_I1.6770.82
129_Q160_E1.6760.82
63_G201_G1.6360.80
43_I60_Y1.5950.78
184_A192_A1.5830.78
288_Q291_L1.5770.78
156_K208_H1.5750.77
22_A37_V1.5490.76
132_K137_N1.5070.74
159_A163_A1.5030.74
57_A67_M1.4780.73
154_T190_L1.4750.73
49_N180_M1.4690.72
139_T230_R1.4530.71
75_D200_F1.4470.71
54_E214_R1.4380.71
45_I48_G1.4090.69
153_P158_H1.4070.69
139_T232_Q1.4030.69
286_V291_L1.3900.68
162_R167_P1.3890.68
156_K190_L1.3520.66
63_G75_D1.3450.65
250_I305_L1.3420.65
199_N202_I1.3390.65
126_G131_G1.3360.65
37_V91_L1.3290.64
37_V60_Y1.3240.64
48_G81_G1.3070.63
87_I222_F1.2850.62
123_L192_A1.2640.60
84_V113_Y1.2580.60
162_R303_V1.2490.59
78_L200_F1.2490.59
17_G21_T1.2370.59
183_Y223_E1.2250.58
235_D256_L1.2220.58
105_S233_F1.2160.57
219_K223_E1.2120.57
132_K160_E1.2100.57
96_T236_E1.2000.56
65_S76_T1.1980.56
58_A214_R1.1950.56
36_L249_Y1.1930.56
30_P114_P1.1870.55
101_I142_V1.1860.55
227_V287_D1.1760.55
153_P212_R1.1720.54
203_G231_V1.1720.54
193_I213_L1.1700.54
187_I192_A1.1680.54
16_V23_S1.1630.54
116_G142_V1.1550.53
63_G72_P1.1520.53
107_E212_R1.1450.53
12_A17_G1.1430.53
88_P109_R1.1420.52
185_L249_Y1.1400.52
27_Y37_V1.1380.52
146_K227_V1.1370.52
187_I191_Y1.1370.52
50_T81_G1.1330.52
74_V83_T1.1050.50
93_L100_G1.1040.50
92_I263_F1.1030.50
134_T211_V1.0890.49
252_V294_A1.0890.49
11_A14_A1.0880.49
201_G204_L1.0830.49
148_G228_G1.0800.48
40_N125_I1.0770.48
158_H168_L1.0640.47
251_E298_R1.0570.47
292_D295_I1.0540.47
226_P229_T1.0520.47
238_V288_Q1.0510.47
45_I82_G1.0450.46
29_L114_P1.0410.46
30_P188_G1.0400.46
108_M207_S1.0320.45
73_G303_V1.0260.45
26_T43_I1.0240.45
31_T98_H1.0230.45
49_N56_F1.0170.44
53_L67_M1.0160.44
37_V266_Q1.0140.44
187_I215_N1.0130.44
102_V173_P1.0120.44
242_T246_G1.0120.44
76_T131_G1.0100.44
110_L197_N1.0090.44
69_E254_N1.0090.44
110_L246_G1.0090.44
141_K227_V1.0060.44
182_L215_N1.0040.43
45_I80_K1.0030.43
55_Y77_F1.0020.43
161_Y200_F0.9990.43
66_N241_T0.9940.43
287_D293_E0.9920.43
187_I211_V0.9840.42
15_V19_C0.9840.42
253_H302_P0.9830.42
153_P191_Y0.9820.42
95_D236_E0.9790.42
185_L219_K0.9780.42
108_M146_K0.9690.41
64_L143_E0.9670.41
153_P239_K0.9660.41
294_A303_V0.9630.41
25_V61_Q0.9630.41
74_V106_A0.9590.41
56_F224_K0.9590.41
57_A214_R0.9570.40
64_L76_T0.9570.40
74_V79_P0.9560.40
54_E58_A0.9470.40
66_N204_L0.9460.40
36_L90_Q0.9450.40
66_N305_L0.9380.39
36_L241_T0.9310.39
42_V84_V0.9230.38
37_V106_A0.9150.38
155_A170_A0.9120.38
45_I81_G0.9120.38
148_G183_Y0.9120.38
135_P165_G0.9100.38
128_G212_R0.9050.37
127_I131_G0.9050.37
247_S304_R0.9040.37
20_S44_T0.9020.37
87_I220_F0.9000.37
48_G180_M0.8990.37
141_K228_G0.8970.37
205_R235_D0.8810.36
146_K186_Y0.8740.35
30_P140_T0.8720.35
80_K83_T0.8710.35
13_F19_C0.8710.35
101_I225_V0.8700.35
170_A287_D0.8640.35
79_P88_P0.8640.35
111_Y213_L0.8630.35
112_Y229_T0.8590.34
87_I233_F0.8550.34
70_A88_P0.8540.34
139_T228_G0.8390.33
63_G109_R0.8380.33
87_I183_Y0.8300.33
12_A18_F0.8270.33
213_L218_I0.8250.32
206_V302_P0.8240.32
140_T256_L0.8170.32
113_Y234_I0.8140.32
93_L202_I0.8140.32
158_H212_R0.8120.32
293_E297_N0.8020.31
163_A285_D0.8000.31
76_T126_G0.7980.31
38_G88_P0.7950.31
143_E186_Y0.7920.31
98_H153_P0.7890.30
41_Q89_Q0.7860.30
132_K190_L0.7840.30
109_R203_G0.7830.30
20_S23_S0.7820.30
239_K251_E0.7800.30
34_S202_I0.7780.30
160_E206_V0.7750.30
48_G172_V0.7730.30
269_V272_T0.7720.30
161_Y201_G0.7720.30
235_D255_P0.7710.29
137_N199_N0.7670.29
99_E116_G0.7660.29
12_A20_S0.7660.29
21_T59_E0.7660.29
55_Y166_E0.7620.29
97_V114_P0.7620.29
191_Y300_G0.7590.29
248_R290_V0.7580.29
198_A298_R0.7570.29
128_G300_G0.7540.29
18_F21_T0.7530.29
241_T258_T0.7510.28
202_I207_S0.7480.28
133_D197_N0.7460.28
163_A171_V0.7450.28
26_T286_V0.7430.28
98_H192_A0.7400.28
121_I220_F0.7330.27
137_N215_N0.7310.27
128_G187_I0.7310.27
142_V261_A0.7300.27
168_L187_I0.7290.27
129_Q132_K0.7270.27
173_P212_R0.7260.27
172_V233_F0.7250.27
66_N161_Y0.7240.27
36_L83_T0.7220.27
70_A186_Y0.7190.27
183_Y219_K0.7190.27
153_P200_F0.7180.27
147_A183_Y0.7170.27
34_S244_P0.7170.27
89_Q159_A0.7160.27
85_L154_T0.7150.27
35_R125_I0.7150.27
63_G88_P0.7080.26
35_R98_H0.7070.26
213_L291_L0.7060.26
205_R246_G0.7020.26
65_S105_S0.7010.26
36_L277_V0.7000.26
37_V183_Y0.6980.26
108_M208_H0.6950.26
45_I246_G0.6940.25
161_Y198_A0.6940.25
31_T147_A0.6920.25
26_T117_T0.6910.25
158_H239_K0.6910.25
88_P203_G0.6870.25
22_A31_T0.6850.25
156_K160_E0.6830.25
154_T189_R0.6820.25
164_A177_D0.6810.25
180_M202_I0.6730.24
134_T199_N0.6710.24
62_M267_E0.6700.24
128_G191_Y0.6700.24
128_G218_I0.6690.24
141_K230_R0.6680.24
44_T148_G0.6670.24
126_G195_G0.6660.24
183_Y218_I0.6650.24
105_S197_N0.6650.24
13_F21_T0.6650.24
18_F22_A0.6640.24
107_E153_P0.6620.24
92_I119_T0.6610.24
72_P213_L0.6580.24
77_F214_R0.6570.24
100_G120_V0.6570.24
25_V286_V0.6540.24
253_H298_R0.6500.23
170_A226_P0.6430.23
70_A229_T0.6410.23
61_Q233_F0.6400.23
56_F157_M0.6370.23
134_T219_K0.6350.23
202_I216_E0.6340.23
37_V122_V0.6340.23
195_G221_L0.6330.23
185_L278_Q0.6330.23
161_Y168_L0.6310.22
87_I253_H0.6260.22
202_I252_V0.6250.22
141_K299_S0.6250.22
106_A269_V0.6180.22
198_A206_V0.6170.22
189_R233_F0.6160.22
74_V78_L0.6150.22
171_V174_A0.6100.22
238_V252_V0.6070.21
116_G139_T0.6070.21
93_L120_V0.6070.21
77_F132_K0.6030.21
199_N215_N0.6030.21
44_T290_V0.6000.21
153_P213_L0.6000.21
63_G77_F0.5990.21
219_K256_L0.5990.21
64_L195_G0.5950.21
107_E218_I0.5940.21
13_F250_I0.5940.21
63_G79_P0.5920.21
64_L68_M0.5910.21
65_S108_M0.5900.21
104_N107_E0.5900.21
46_P113_Y0.5890.21
238_V250_I0.5880.21
251_E300_G0.5870.21
287_D290_V0.5860.20
26_T121_I0.5840.20
76_T207_S0.5840.20
65_S199_N0.5840.20
14_A19_C0.5830.20
97_V305_L0.5830.20
168_L251_E0.5830.20
241_T244_P0.5820.20
128_G134_T0.5790.20
252_V295_I0.5790.20
35_R68_M0.5780.20
42_V167_P0.5770.20
93_L155_A0.5770.20
169_P192_A0.5770.20
57_A202_I0.5760.20
13_F23_S0.5750.20
165_G204_L0.5750.20
48_G77_F0.5740.20
168_L206_V0.5710.20
113_Y188_G0.5710.20
71_N169_P0.5700.20
56_F202_I0.5690.20
54_E77_F0.5680.20
161_Y167_P0.5680.20
135_P251_E0.5670.20
72_P109_R0.5670.20
105_S148_G0.5660.20
58_A215_N0.5650.20
97_V273_L0.5630.20
62_M68_M0.5630.20
28_P31_T0.5630.20
162_R172_V0.5620.19
29_L98_H0.5610.19
136_I141_K0.5610.19
192_A204_L0.5590.19
145_K237_P0.5590.19
16_V277_V0.5580.19
117_T141_K0.5580.19
15_V23_S0.5570.19
15_V18_F0.5560.19
13_F162_R0.5560.19
180_M300_G0.5550.19
29_L97_V0.5550.19
267_E276_S0.5540.19
246_G257_S0.5530.19
69_E78_L0.5520.19
108_M186_Y0.5510.19
150_T171_V0.5490.19
43_I77_F0.5470.19
157_M254_N0.5450.19
144_R190_L0.5440.19
24_A111_Y0.5420.19
166_E204_L0.5420.19
176_P228_G0.5420.19
110_L193_I0.5410.19
251_E294_A0.5400.19
68_M153_P0.5400.19
172_V212_R0.5400.19
136_I236_E0.5390.19
13_F20_S0.5360.18
113_Y121_I0.5350.18
21_T279_T0.5350.18
187_I195_G0.5330.18
212_R300_G0.5320.18
11_A15_V0.5280.18
207_S257_S0.5280.18
205_R256_L0.5280.18
142_V246_G0.5270.18
72_P77_F0.5270.18
53_L125_I0.5270.18
76_T87_I0.5250.18
87_I200_F0.5250.18
225_V229_T0.5250.18
147_A240_A0.5240.18
145_K227_V0.5230.18
176_P273_L0.5230.18
46_P49_N0.5220.18
143_E156_K0.5210.18
296_K305_L0.5210.18
42_V86_N0.5200.18
103_I221_L0.5200.18
146_K233_F0.5190.18
182_L226_P0.5180.18
46_P78_L0.5160.18
122_V216_E0.5150.18
110_L205_R0.5150.18
187_I218_I0.5140.18
43_I92_I0.5140.18
61_Q286_V0.5100.17
19_C23_S0.5100.17
67_M184_A0.5100.17
117_T275_K0.5090.17
292_D296_K0.5090.17
156_K198_A0.5080.17
171_V249_Y0.5060.17
145_K221_L0.5040.17
168_L183_Y0.5020.17
66_N122_V0.5020.17
201_G219_K0.5020.17
126_G130_L0.5010.17
142_V290_V0.5010.17
227_V296_K0.5010.17
41_Q87_I0.5010.17
58_A137_N0.5000.17
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  
4lzhA 1 0.8987 100 0.402 Contact Map
4xvoA 1 0.6405 100 0.664 Contact Map
4jmnA 1 0.6405 100 0.666 Contact Map
4a1kA 2 0.5359 100 0.68 Contact Map
4k73A 1 0.6144 100 0.74 Contact Map
3vypA 1 0.7484 100 0.754 Contact Map
1zatA 1 0.6797 100 0.762 Contact Map
4qtfA 2 0.7778 100 0.767 Contact Map
5bmqA 3 0.5784 100 0.773 Contact Map
4xxtA 1 0.6144 100 0.784 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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