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. 2023 Apr 22;161:106971. doi: 10.1016/j.compbiomed.2023.106971

Table 5.

Protein-ligand interactions of the representative centroid complex of each cluster that falls within the stable region (RMSD) of the trajectories in every complex.

Target Ligand Cluster Hydrogen Bond
Hydrophobic Interaction
Halogen Bonds
Salt Bridge
Residue Sidechain Distance (H-A, Å) Distance (D-A, Å) Residue Distance (Å) Residue Sidechain Distance (Å) Residue Distance (Å)
I7L
Batefenterol
C2
GLU108 FALSE 2.09 2.97 LEU109 3.70
ASN295 TRUE 3.51 3.88 TYR238 3.63
LYS243 3.78




ILE298
3.73





C3
SER078 FALSE 2.52 3.46 LEU077 3.87
SER078 TRUE 2.41 3.21 ARG099 3.73 GLU108 TRUE 2.87
SER078 TRUE 2.96 3.81 PRO264 3.66
ARG099 TRUE 3.40 4.10 PHE267 3.64
TYR100 TRUE 2.47 3.35 PHE275 3.70
GLU108 FALSE 1.79 2.76 PHE278 3.83
ILE298 3.77




ILE316
3.62





C4
HIS076 FALSE 2.89 3.41 ARG099 3.81 GLU108 TRUE 2.62
SER078 FALSE 3.25 3.69 LEU109 3.53
SER078 TRUE 2.37 3.21 ASN262 3.97
SER078 TRUE 3.13 4.06 PHE267 3.89
ARG099 TRUE 3.02 3.44 PHE275 3.89
ARG099 TRUE 3.08 4.06 ILE316 3.76
ASN262
TRUE
3.37
4.04







Burixafor
C2
THR111 TRUE 2.74 3.55 VAL047 3.55 ASP297 4.61
SER200 FALSE 3.03 4.01 PRO064 3.91
LYS206 TRUE 2.65 3.38
LYS243 TRUE 3.23 3.76
ASN293 FALSE 2.13 2.96
THR294 TRUE 3.03 3.94
ASN295
TRUE
1.81
2.77







C3
THR111 TRUE 2.86 3.59 TYR046 3.49
THR111 TRUE 2.99 3.59 LYS050 3.55
LYS243 TRUE 3.63 4.08 TYR051 3.58
VAL060 3.97




PRO064
3.84





Eluxadoline
C2
THR111 TRUE 1.99 2.89 LYS243 5.00
SER240
FALSE
2.20
3.18







C3
SER240 FALSE 2.04 3.02 TYR046 3.81 LYS243 4.37
HIS241 FALSE 3.16 3.48 ILE113 3.64
TYR238 3.76
LEU239 3.70




LEU239
3.83





Top1B
Batefenterol
C1
ARG223 TRUE 3.42 3.87 LEU122 3.94
ARG223 FALSE 3.06 3.85 LEU122 3.67
HIS265 TRUE 3.02 3.48 PHE131 3.40
TYR274 FALSE 1.78 2.76 PHE131 3.90
LEU146 3.90
GLU205 3.66
VAL208 3.78
VAL208 3.79
ARG223 3.32




VAL227
3.96





C2
MET126 FALSE 2.30 3.26 LEU122 3.84
ILE129 FALSE 2.03 2.90 ARG130 3.88
ARG130 TRUE 3.17 3.76 PHE131 3.58
ARG130 TRUE 3.18 3.76 VAL208 3.47
PHE131 FALSE 2.46 3.39 ILE212 3.63
GLY132 FALSE 2.33 3.09 LEU222 3.53
TYR136 TRUE 3.07 4.00
TYR136 TRUE 3.40 4.00
GLU261
FALSE
2.75
3.24







Burixafor
C1
PHE128 FALSE 3.18 3.85 PHE128 3.57
ARG130 TRUE 2.88 3.44 PHE128 3.85
HIS172 TRUE 2.31 3.06 ILE129 3.79
PHE164 3.29
HIS172 3.97
PHE174 3.99




TYR233
3.74





C2
MET126 FALSE 2.02 2.97 ILE129 3.92
ARG130 FALSE 2.75 3.39 PHE164 3.62
GLU173 FALSE 2.02 2.94 VAL175 3.60
ARG223 TRUE 1.80 2.75
ARG223
TRUE
1.89
2.80







Eluxadoline
C1
ARG130 FALSE 3.06 3.56 HIS172 3.87
PHE131 FALSE 2.02 3.02
ARG223 TRUE 3.17 4.03
THR230 TRUE 1.86 2.84
VAL262
FALSE
1.86
2.73







C2
ARG130 FALSE 2.81 3.30
PHE131 FALSE 1.71 2.69 ARG223 4.80
ARG223 TRUE 2.22 3.01
VAL262 FALSE 2.22 2.90
GLY264
FALSE
2.49
3.15







C5
ARG130 FALSE 2.24 2.97 ARG130 3.80
PHE131 FALSE 2.22 3.20 PHE164 3.88
VAL262 FALSE 1.93 2.91 HIS172 3.72
VAL263
FALSE
2.80
3.79







VETFS Batefenterol
C1
ARG262 TRUE 1.65 2.65 PHE271 3.47 ASP443 5.20
ASP272 FALSE 2.38 3.36 TYR276 3.90
TYR276 3.92




THR444
3.78





C2
TYR258 TRUE 1.97 2.88 ASP272 3.72 ASP443 5.07
ARG262 TRUE 3.14 3.84 MET275 3.78
ARG262 TRUE 2.38 3.30 TYR477 3.61
ASP272
FALSE
2.10
3.06







C3
ARG262 TRUE 1.86 2.82 PHE271 3.60 LYS273 TRUE 3.59 ASP443 5.25
ASP272 FALSE 2.10 3.09 TYR276 3.53
TYR276 3.62
ASP443 3.91




TYR477
3.54





Burixafor
C3
ASN170 TRUE 2.93 3.63 PHE445 3.88
ASN497
FALSE
3.12
4.05







C4
SER166 FALSE 1.82 2.79
GLU494 TRUE 2.69 3.52 PHE445 3.88
GLU494 TRUE 2.62 3.52
ASN497
FALSE
2.25
3.09







Eluxadoline C3 ARG262 TRUE 1.95 2.88 PHE271 3.83
ARG262 TRUE 3.34 3.93 PHE271 3.68
MET275 3.67
TYR477 3.70