Sequence Similarity Clusters for the Entities in PDB 2NXZ

Entity #1 | Chains: A
ENVELOPE GLYCOPROTEIN GP120 protein, length: 317 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 4 4 21733
95 % 6 15 4452 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 6 15 4495
70 % 30 188 128
50 % 30 188 156
40 % 30 188 169
30 % 30 191 181
Entity #2 | Chains: B
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 8 39 839
95 % 8 45 812 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 8 45 842
70 % 8 45 884
50 % 8 45 933
40 % 8 45 958
30 % 8 45 942
Entity #3 | Chains: C
ANTIBODY 17B, LIGHT CHAIN protein, length: 214 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 22 1460
95 % 8 34 1090 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 237 819 2
70 % 725 2637 1
50 % 1498 5362 1
40 % 1750 6051 1
30 % 2130 7514 1
Entity #4 | Chains: D
ANTIBODY 17B, HEAVY CHAIN protein, length: 229 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 6 26 1176
95 % 6 26 1398 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 6 26 1426
70 % 722 2600 2
50 % 1499 5362 1
40 % 1751 6051 1
30 % 2131 7514 1

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 2NXY 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
2 2NY2 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
3 2NY4 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
4 2NY3 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
5 2NY1 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
6 2NXZ 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
7 2NY0 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
8 1YYM 3 H, R antibody 17b heavy chain ANTIGEN-BINDING FRAGMENT, FAB 9606
9 2I5Y 3 H, R Antibody 17B Heavy chain ANTIGEN-BINDING FRAGMENT, FAB 9606
10 1RZ8 2 B, D Fab 17b heavy chain 9606
11 2I60 3 H, R ANTIBODY 17B HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
12 2NY5 4 H ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
13 1RZJ 4 H ANTIBODY 17B, HEAVY CHAIN FAB 9606
14 1GC1 4 H ANTIBODY 17B MONOCLONAL ANTIBODY 17B BINDS TO A CD4-INDUCED SITE ON GP120 ANTIGEN-BINDING FRAGMENT, FAB 9606
15 1G9M 4 H ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
16 1YYL 3 H, R antibody 17b heavy chain ANTIGEN-BINDING FRAGMENT, FAB 9606
17 2NY6 4 D ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
18 1RZK 4 H ANTIBODY 17B, HEAVY CHAIN FAB 9606
19 1G9N 4 H ANTIBODY 17B, HEAVY CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
20 4JM2 4 D 17b Heavy chain Fab 9606
21 4RQS 3 D 17b Fab Heavy Chain 9606
22 6CM3 5 K, M, O 17b Fab heavy chain 9606
23 5VN3 5 H, K, M 17b Fab heavy chain 9606
24 5THR 5 M, N, O 17b Fab VH domain 9606
25 5A8H 4 D, J, P FAB OF BROADLY NEUTRALIZING ANTIBODY 17B 9606
26 5A7X 4 D, H, L FAB OF BROADLY NEUTRALIZING ANTIBODY 17B 9606