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 22017
95 % 6 15 4552 Flexibility: Medium
Max RMSD: 16.1, Avg RMSD: 5.5
PDBFlex
90 % 6 15 4584
70 % 30 192 130
50 % 30 192 157
40 % 30 192 168
30 % 30 195 184
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 40 854
95 % 8 46 804 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 8 46 836
70 % 8 46 887
50 % 8 46 935
40 % 8 46 960
30 % 8 46 943
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 1484
95 % 8 34 1108 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 % 2164 7653 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 1209
95 % 6 26 1446 Flexibility: Low
Max RMSD: 3.9, Avg RMSD: 1.0
PDBFlex
90 % 6 26 1473
70 % 736 2655 2
50 % 1528 5473 1
40 % 1783 6175 1
30 % 2165 7653 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 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
2 2NY2 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
3 2NY4 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
4 2NY3 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
5 2NY1 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
6 2NXZ 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
7 2NY0 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
8 1YYM 2 L, Q antibody 17b light chain ANTIGEN-BINDING FRAGMENT, FAB 9606
9 2I5Y 2 L, Q Antibody 17B Light chain ANTIGEN-BINDING FRAGMENT, FAB 9606
10 1RZ8 1 A, C Fab 17b light chain 9606
11 2I60 2 L, Q ANTIBODY 17B LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
12 2NY5 3 L ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
13 1RZJ 3 L ANTIBODY 17B, LIGHT CHAIN FAB 9606
14 1YYL 2 L, Q antibody 17b light chain ANTIGEN-BINDING FRAGMENT, FAB 9606
15 2NY6 3 C ANTIBODY 17B, LIGHT CHAIN ANTIGEN-BINDING FRAGMENT, FAB 9606
16 1RZK 3 L ANTIBODY 17B, LIGHT CHAIN FAB 9606
17 4JM2 3 C 17b Light chain Fab 9606
18 4RQS 2 C 17b Fab Light Chain 9606
19 6CM3 4 J, L, N 17b Fab light chain 9606
20 5THR 4 J, K, L 17b Fab VL domain 9606
21 5A8H 3 C, I, O FAB OF BROADLY NEUTRALIZING ANTIBODY 17B 9606
22 5A7X 3 C, G, K FAB OF BROADLY NEUTRALIZING ANTIBODY 17B 9606