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 21971
95 % 6 15 4542 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 6 15 4575
70 % 30 190 130
50 % 30 190 158
40 % 30 190 168
30 % 30 193 183
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 39 869
95 % 8 45 813 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 8 45 847
70 % 8 45 897
50 % 8 45 946
40 % 8 45 972
30 % 8 45 952
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 1485
95 % 8 34 1107 Flexibility: Low
Max RMSD: 5.3, Avg RMSD: 1.2
PDBFlex
90 % 244 844 2
70 % 742 2696 1
50 % 1527 5473 1
40 % 1782 6175 1
30 % 2162 7645 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 1210
95 % 6 26 1444 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 6 26 1471
70 % 736 2655 2
50 % 1528 5473 1
40 % 1783 6175 1
30 % 2163 7645 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