Analysis, comparison, visualization of contact residues & interfacial waters of antibody-antigen structures/models

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Comparison between contact residues of antibody structures 4ypgH (blue) and 1bj1H (pink)
Structure Overlap
RMSD
Z-score
#Contact Residues of 4ypgH
#Contact Residues of 1bj1H
Match Size
#Identical Residues
57.89%
0.43
9.60
19
21
11
5

Matched contact residues of antibody structures (identical residues are highlighted in red)
No.
Contact residues of 4ypgH
Region Chothia of 4ypgH
Contact residues of 1bj1H
Region Chothia of 1bj1H
1
THR H 30
CDR-H1
THR H 30
CDR-H1
2
SER H 31
CDR-H1
ASN H 31
CDR-H1
3
TYR H 32
CDR-H1
TYR H 32
CDR-H1
4
SER H 33
Framework
GLY H 33
Framework
5
TRP H 47
Framework
TRP H 47
Framework
6
TRP H 50
Framework
TRP H 50
Framework
7
SER H 52
CDR-H2
ASN H 52
CDR-H2
8
TYR H 54
CDR-H2
TYR H 54
CDR-H2
9
ASN H 55
CDR-H2
THR H 55
CDR-H2
10
ASN H 59
Framework
THR H 59
Framework
11
ASP H 99
CDR-H3
TYR H 99
CDR-H3
Matched contact residues Superimposed structures Mismatched contact residues

Comparison between contact residues of antigen structures 4ypgD (salmon) and 1bj1W (green)
Structure Overlap
RMSD
Z-score
#Contact Residues of 4ypgD
#Contact Residues of 1bj1W
Match Size
#Identical Residues
57.14%
1.00
1.07
14
17
8
1

Matched contact residues of antigen structures
No.
Contact residues of 4ypgD
Contact residues of 1bj1W
1
THR D -1
ILE W 80
2
SER D 0
GLN W 79
3
GLN D 61
HIS W 86
4
TYR D 89
TYR W 45
5
LEU D 92
ILE W 83
6
ASN D 93
ARG W 82
7
GLU D 96
HIS W 90
8
ALA D 97
ILE W 91
Matched contact residues Superimposed structures Mismatched contact residues