GREMLIN Database
YCFS - Probable L,D-transpeptidase YcfS
UniProt: P75954 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13437
Length: 320 (293)
Sequences: 559 (344)
Seq/√Len: 20.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
99_A241_I5.6331.00
144_T192_A5.1331.00
148_D190_R4.8671.00
134_G214_S4.4481.00
110_E246_K4.4041.00
159_A163_A3.9931.00
114_Y246_K3.5941.00
184_M199_L3.5111.00
164_R215_S3.4341.00
257_V296_M3.3241.00
110_E114_Y3.1761.00
95_L248_S2.6750.98
129_G214_S2.6360.98
126_Y227_T2.5820.98
94_T125_V2.5500.98
26_A41_V2.5420.98
135_G215_S2.4630.97
222_D226_K2.3940.97
156_T178_A2.3810.96
61_K70_L2.3780.96
162_R174_A2.3420.96
156_T175_V2.2900.96
208_G213_V2.2890.96
219_R246_K2.2450.95
99_A116_Y2.2400.95
161_I215_S2.1600.94
154_T178_A2.0890.93
190_R199_L2.0700.92
108_I191_L2.0120.91
249_A255_R1.9860.91
128_I218_I1.9590.90
61_K223_D1.9460.90
60_A70_L1.9440.90
188_A225_I1.9430.90
53_G83_R1.9160.89
209_I213_V1.9080.89
70_L88_L1.8980.89
133_L214_S1.8480.87
146_V189_I1.8430.87
61_K206_D1.8300.87
257_V310_V1.8300.87
152_N186_H1.8030.86
258_E307_P1.8010.86
257_V299_V1.7990.86
158_T161_I1.7840.85
78_D81_V1.7810.85
49_V53_G1.7810.85
165_Y170_I1.7750.85
114_Y241_I1.7750.85
106_I218_I1.7460.84
66_G208_G1.7330.83
157_P162_R1.6580.81
291_T296_M1.6340.80
142_M193_A1.6050.78
47_H63_Y1.6010.78
20_V27_K1.5940.78
160_N215_S1.5830.77
78_D207_F1.5760.77
39_R248_S1.5380.75
66_G78_D1.4830.72
149_K192_A1.4760.72
188_A199_L1.4640.71
57_E221_R1.4500.71
166_K171_E1.4240.69
129_G134_G1.4030.68
35_P101_R1.4000.68
132_Q164_R1.3820.67
79_P134_G1.3740.66
143_V239_N1.3680.66
163_A167_A1.3660.66
87_V116_Y1.3590.65
16_F22_L1.3580.65
187_H230_S1.3550.65
200_L220_L1.3520.65
143_V237_K1.3430.65
110_E219_R1.3200.63
293_A296_M1.3190.63
126_Y199_L1.3100.63
226_K230_S1.3060.62
54_G184_M1.3040.62
135_G164_R1.2900.61
40_L95_L1.2870.61
104_I146_V1.2820.61
108_I240_I1.2770.61
191_L198_Y1.2760.60
61_K221_R1.2750.60
53_G84_A1.2500.59
245_I293_A1.2480.59
242_N263_L1.2420.58
206_D209_I1.2410.58
21_A25_P1.2360.58
81_V207_F1.2350.58
41_V94_T1.2300.58
58_A80_Y1.2170.57
208_G211_M1.2160.57
49_V84_A1.2030.56
296_M310_V1.2020.56
157_P219_R1.1840.55
166_K308_V1.1770.54
68_L79_P1.1730.54
150_R234_P1.1720.54
77_V86_S1.1670.54
249_A253_G1.1490.52
210_G238_V1.1430.52
297_Q300_M1.1330.51
113_L253_G1.1270.51
76_G308_V1.1230.51
258_E303_R1.1110.50
145_T234_P1.1060.50
69_A211_M1.1040.49
157_P198_Y1.1040.49
292_D298_H1.1020.49
96_L209_I1.0970.49
135_G142_M1.0960.49
22_L25_P1.0950.49
139_T218_I1.0930.49
157_P246_K1.0920.49
260_H307_P1.0880.48
22_L26_A1.0840.48
159_A174_A1.0820.48
99_A243_T1.0750.48
72_Q261_Q1.0700.47
56_L70_L1.0690.47
189_I226_K1.0650.47
40_L93_Q1.0610.47
165_Y207_F1.0580.46
69_A248_S1.0550.46
98_D243_T1.0510.46
60_A221_R1.0510.46
152_N235_G1.0400.45
111_L214_S1.0400.45
30_T47_H1.0250.44
101_R199_L1.0190.44
114_Y220_L1.0130.44
130_I134_G1.0050.43
233_T236_T1.0040.43
271_P308_V1.0020.43
254_A309_D1.0020.43
67_F147_S1.0000.43
91_P112_R0.9990.43
131_G219_R0.9840.42
259_V299_V0.9820.42
105_V177_P0.9810.42
42_G241_I0.9760.41
49_V253_G0.9730.41
189_I256_L0.9670.41
145_T235_G0.9660.41
191_L199_L0.9660.41
142_M192_A0.9660.41
104_I232_V0.9650.41
112_R210_G0.9510.40
102_E119_G0.9460.39
150_R190_R0.9430.39
16_F21_A0.9280.38
77_V109_A0.9240.38
29_N64_N0.9220.38
147_S192_A0.9200.38
212_R242_N0.9140.37
299_V308_V0.9130.37
57_E61_K0.8930.36
186_H222_D0.8910.36
49_V85_G0.8890.36
277_T281_A0.8850.36
164_R170_I0.8840.36
152_N187_H0.8760.35
46_F87_V0.8730.35
19_A27_K0.8650.34
116_Y241_I0.8640.34
77_V82_P0.8590.34
147_S190_R0.8590.34
167_A175_V0.8570.34
83_R86_S0.8570.34
248_S265_E0.8550.34
131_G198_Y0.8490.33
181_D226_K0.8470.33
298_H302_V0.8420.33
69_A310_V0.8420.33
269_D274_L0.8410.33
143_V235_G0.8400.33
162_R219_R0.8380.33
246_K258_E0.8370.33
131_G305_G0.8370.33
90_I229_F0.8350.33
177_P219_R0.8340.33
73_A236_T0.8340.33
119_G279_N0.8310.32
21_A24_L0.8300.32
59_I231_Q0.8290.32
162_R172_L0.8270.32
55_S84_A0.8260.32
45_K92_L0.8260.32
40_L256_L0.8240.32
175_V178_A0.8220.32
144_T263_L0.8210.32
209_I214_S0.8160.32
135_G195_G0.8140.31
174_A292_D0.8130.31
165_Y205_A0.8100.31
49_V83_R0.8090.31
91_P210_G0.8090.31
220_L296_M0.8030.31
213_V307_P0.8020.31
140_P169_G0.7990.31
116_Y192_A0.7970.31
33_L37_G0.7970.31
73_A91_P0.7960.30
100_P117_P0.7900.30
16_F24_L0.7900.30
54_G59_I0.7880.30
16_F20_V0.7860.30
15_T18_A0.7840.30
242_N262_P0.7810.30
90_I240_I0.7810.30
80_Y135_G0.7800.30
146_V152_N0.7770.29
56_L128_I0.7760.29
24_L28_A0.7730.29
209_I259_V0.7720.29
295_V299_V0.7710.29
82_P85_G0.7660.29
139_T226_K0.7590.28
79_P129_G0.7560.28
234_P292_D0.7550.28
14_F18_A0.7530.28
163_A291_T0.7490.28
33_L117_P0.7480.28
96_L103_G0.7480.28
110_E157_P0.7480.28
66_G112_R0.7470.28
142_M222_D0.7470.28
111_L150_R0.7460.28
73_A190_R0.7460.28
172_L213_V0.7450.28
109_A129_G0.7430.28
44_N128_I0.7420.28
120_K257_V0.7390.27
68_L108_I0.7380.27
64_N291_T0.7350.27
66_G75_P0.7330.27
195_G240_I0.7310.27
163_A299_V0.7300.27
115_Y236_T0.7210.27
255_R295_V0.7150.26
240_I292_D0.7140.26
80_Y211_M0.7090.26
41_V109_A0.7080.26
260_H303_R0.7070.26
253_G264_S0.7040.26
195_G215_S0.7020.26
20_V26_A0.7000.25
19_A23_A0.7000.25
50_E53_G0.6980.25
184_M209_I0.6970.25
206_D222_D0.6960.25
110_E225_I0.6930.25
52_D83_R0.6910.25
226_K263_L0.6890.25
129_G202_G0.6880.25
172_L191_L0.6870.25
142_M206_D0.6860.25
67_F202_G0.6850.25
172_L258_E0.6840.25
157_P207_F0.6830.25
119_G229_F0.6820.25
66_G80_Y0.6810.25
157_P220_L0.6800.24
113_L204_N0.6800.24
112_R238_V0.6790.24
131_G225_I0.6780.24
59_I161_I0.6780.24
66_G210_G0.6760.24
160_N164_R0.6760.24
60_A209_I0.6720.24
258_E299_V0.6720.24
129_G133_L0.6700.24
67_F79_P0.6690.24
212_R253_G0.6680.24
273_L310_V0.6680.24
124_T227_T0.6660.24
79_P214_S0.6650.24
165_Y208_G0.6620.24
17_A23_A0.6610.24
101_R157_P0.6590.24
82_P91_P0.6580.23
164_R168_Q0.6580.23
14_F21_A0.6550.23
24_L27_K0.6540.23
111_L215_S0.6540.23
145_T237_K0.6520.23
77_V81_V0.6520.23
189_I229_F0.6500.23
95_L122_S0.6480.23
19_A241_I0.6480.23
14_F19_A0.6480.23
90_I187_H0.6450.23
259_V309_D0.6450.23
191_L222_D0.6430.23
96_L159_A0.6420.23
131_G191_L0.6370.22
71_L157_P0.6340.22
169_G211_M0.6340.22
92_L163_A0.6330.22
168_Q181_D0.6320.22
158_T184_M0.6290.22
121_N259_V0.6270.22
166_K176_V0.6260.22
139_T206_D0.6250.22
34_P117_P0.6240.22
142_M199_L0.6240.22
90_I260_H0.6200.22
65_V71_L0.6170.22
123_V169_G0.6170.22
58_A170_I0.6170.22
116_Y124_T0.6160.22
166_K247_V0.6160.22
205_A213_V0.6140.21
113_L212_R0.6120.21
69_A165_Y0.6090.21
198_Y305_G0.6070.21
30_T37_G0.6070.21
146_V268_D0.6060.21
162_R246_K0.6050.21
37_G41_V0.6040.21
191_L202_G0.6020.21
90_I207_F0.6010.21
17_A24_L0.5980.21
189_I225_I0.5970.21
164_R211_M0.5970.21
42_G91_P0.5960.21
39_R101_R0.5940.21
31_W41_V0.5920.21
75_P112_R0.5920.21
66_G91_P0.5900.20
26_A279_N0.5880.20
191_L225_I0.5870.20
74_N173_P0.5860.20
161_I261_Q0.5840.20
41_V187_H0.5840.20
44_N95_L0.5830.20
103_G237_K0.5820.20
135_G160_N0.5820.20
96_L116_Y0.5810.20
150_R192_A0.5800.20
165_Y172_L0.5800.20
85_G184_M0.5800.20
29_N291_T0.5770.20
55_S80_Y0.5770.20
212_R263_L0.5760.20
154_T298_H0.5740.20
33_L169_G0.5730.20
70_L188_A0.5720.20
108_I152_N0.5710.20
140_P258_E0.5700.20
145_T220_L0.5690.20
61_K142_M0.5690.20
207_F258_E0.5680.20
145_T304_S0.5660.19
67_F125_V0.5650.19
69_A148_D0.5650.19
172_L187_H0.5640.19
203_T222_D0.5630.19
108_I204_N0.5620.19
227_T302_V0.5620.19
25_P187_H0.5610.19
193_A220_L0.5600.19
18_A21_A0.5600.19
184_M305_G0.5600.19
141_T243_T0.5590.19
67_F208_G0.5580.19
180_L235_G0.5580.19
48_V152_N0.5580.19
20_V282_M0.5560.19
107_N110_E0.5540.19
232_V236_T0.5530.19
258_E305_G0.5530.19
281_A285_F0.5530.19
169_G278_L0.5520.19
109_A202_G0.5510.19
176_V240_I0.5490.19
151_A187_H0.5470.19
16_F48_V0.5440.19
103_G123_V0.5440.19
172_L307_P0.5420.18
48_V295_V0.5420.18
40_L248_S0.5410.18
132_Q255_R0.5410.18
41_V63_Y0.5400.18
47_H54_G0.5400.18
65_V70_L0.5390.18
141_T145_T0.5380.18
35_P151_A0.5380.18
66_G82_P0.5370.18
139_T203_T0.5360.18
103_G117_P0.5350.18
30_T291_T0.5330.18
75_P208_G0.5310.18
149_K228_L0.5310.18
47_H95_L0.5310.18
189_I228_L0.5310.18
32_P35_P0.5300.18
36_A119_G0.5300.18
125_V223_D0.5290.18
88_L158_T0.5280.18
133_L242_N0.5270.18
22_L166_K0.5260.18
205_A303_R0.5250.18
160_N205_A0.5240.18
57_E80_Y0.5240.18
136_D204_N0.5230.18
149_K190_R0.5230.18
79_P310_V0.5230.18
32_P36_A0.5230.18
71_L80_Y0.5230.18
170_I190_R0.5220.18
30_T120_K0.5220.18
127_P253_G0.5210.18
119_G146_V0.5210.18
158_T259_V0.5210.18
136_D209_I0.5180.18
53_G80_Y0.5160.17
87_V243_T0.5160.17
47_H80_Y0.5160.17
91_P238_V0.5150.17
168_Q242_N0.5150.17
41_V125_V0.5150.17
199_L211_M0.5140.17
256_L283_Q0.5130.17
247_V286_K0.5100.17
249_A296_M0.5090.17
105_V171_E0.5090.17
33_L100_P0.5070.17
69_A125_V0.5070.17
60_A257_V0.5060.17
173_P199_L0.5060.17
16_F174_A0.5060.17
96_L115_Y0.5050.17
301_D310_V0.5040.17
178_A187_H0.5040.17
15_T23_A0.5020.17
149_K244_P0.5000.17
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 0.8531 100 0.437 Contact Map
4xvoA 1 0.6156 100 0.68 Contact Map
4jmnA 1 0.6156 100 0.683 Contact Map
4a1kA 2 0.5156 100 0.699 Contact Map
4k73A 1 0.5906 100 0.753 Contact Map
3vypA 1 0.7125 100 0.772 Contact Map
1zatA 1 0.6656 100 0.779 Contact Map
4qtfA 2 0.7625 100 0.781 Contact Map
5bmqA 3 0.5656 100 0.791 Contact Map
4lpqA 1 0.5687 99.9 0.805 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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