AppA Server

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

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Comparison between contact residues of antibody structures 2cmrHL (blue) and 3ma9HL (pink)

Structure Overlap	RMSD	Z-score	#Contact Residues of 2cmrHL	#Contact Residues of 3ma9HL	Match Size	#Identical Residues
72.41%	1.08	5.46	29	30	21	12

Matched contact residues of antibody structures (identical residues are highlighted in red)

No.	Contact residues of 2cmrHL	Region Chothia of 2cmrHL	Contact residues of 3ma9HL	Region Chothia of 3ma9HL
1	SER H 30	CDR-H1	ASN H 30	CDR-H1
2	SER H 31	CDR-H1	SER H 31	CDR-H1
3	TYR H 32	CDR-H1	TYR H 32	CDR-H1
4	ALA H 33	Framework	ALA H 33	Framework
5	GLY H 50	Framework	SER H 50	Framework
6	ILE H 51	Framework	ILE H 51	Framework
7	ILE H 52	CDR-H2	ILE H 52	CDR-H2
8	ILE H 53	CDR-H2	ILE H 53	CDR-H2
9	PHE H 54	CDR-H2	PHE H 54	CDR-H2
10	GLY H 55	CDR-H2	GLY H 55	CDR-H2
11	THR H 56	CDR-H2	THR H 56	CDR-H2
12	ALA H 57	Framework	THR H 57	Framework
13	ASN H 58	Framework	ASN H 58	Framework
14	TYR H 59	Framework	TYR H 59	Framework
15	ASP H 95	CDR-H3	TYR H 98	CDR-H3
16	ASN H 96	CDR-H3	PHE H 99	CDR-H3
17	THR H 98	CDR-H3	THR H 101	CDR-H3
18	LEU H 100	CDR-H3	TYR H 105	CDR-H3
19	TRP L 32	CDR-L1	GLU L 30	CDR-L1
20	ASN L 93	CDR-L3	SER L 92	CDR-L3
21	TYR L 94	CDR-L3	VAL L 95	CDR-L3


Matched contact residues		Superimposed structures		Mismatched contact residues

Comparison between contact residues of antigen structures 2cmrA (salmon) and 3ma9A (green)

Structure Overlap	RMSD	Z-score	#Contact Residues of 2cmrA	#Contact Residues of 3ma9A	Match Size	#Identical Residues
88.00%	0.36	17.30	25	30	22	22

Matched contact residues of antigen structures

No.	Contact residues of 2cmrA	Contact residues of 3ma9A
1	VAL A 29	VAL A 205
2	ILE A 32	ILE A 208
3	LYS A 33	LYS A 209
4	GLN A 36	GLN A 212
5	ASP A 142	ASP A 54
6	ASN A 146	ASN A 58
7	THR A 149	THR A 61
8	SER A 150	SER A 62
9	HIS A 153	HIS A 65
10	GLU A 195	GLU A 19
11	HIS A 199	HIS A 23
12	LEU A 200	LEU A 24
13	GLN A 202	GLN A 26
14	LEU A 203	LEU A 27
15	THR A 204	THR A 28
16	TRP A 206	TRP A 30
17	GLY A 207	GLY A 31
18	LYS A 209	LYS A 33
19	GLN A 210	GLN A 34
20	LEU A 211	LEU A 35
21	ALA A 213	ALA A 37
22	ARG A 214	ARG A 38


Matched contact residues		Superimposed structures		Mismatched contact residues