Sequence Similarity Clusters for the Entities in PDB 3JWD

Entity #1 | Chains: A,B
HIV-1 GP120 ENVELOPE GLYCOPROTEIN protein, length: 379 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 1 34257
95 % 1 2 24778 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 1 2 23937
70 % 70 177 135
50 % 70 177 165
40 % 70 177 179
30 % 70 180 196
Entity #2 | Chains: C,D
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 19 38 853
95 % 20 43 875 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 20 43 906
70 % 20 43 935
50 % 20 43 983
40 % 20 43 997
30 % 20 43 994
Entity #3 | Chains: L,O
FAB 48D LIGHT CHAIN protein, length: 213 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 4 16716
95 % 2 5 10072 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.2
PDBFlex
90 % 419 761 2
70 % 1377 2516 1
50 % 2817 5101 1
40 % 3215 5750 1
30 % 3940 7168 1
Entity #4 | Chains: H,P
FAB 48D HEAVY CHAIN protein, length: 220 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 4 16507
95 % 2 5 10047 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 2 5 9918
70 % 1368 2475 2
50 % 2818 5101 1
40 % 3216 5750 1
30 % 3941 7168 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 4H8W 4 C T-cell surface glycoprotein CD4 9606
2 2NXY 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
3 2NY2 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
4 1CDY 1 A T-CELL SURFACE GLYCOPROTEIN CD4 D1D2 FRAGMENT 9606
5 2NY4 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
6 2NY3 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
7 2NY1 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
8 2NXZ 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
9 3O2D 3 A T-cell surface glycoprotein CD4 UNP residues 26-207 9606
10 3CD4 1 A T CELL SURFACE GLYCOPROTEIN CD4 9606
11 2NY0 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
12 1CDH 1 A T CELL SURFACE GLYCOPROTEIN CD4 9606
13 1CDU 1 A T-CELL SURFACE GLYCOPROTEIN CD4 D1D2 FRAGMENT 9606
14 1CDJ 1 A T-CELL SURFACE GLYCOPROTEIN CD4 WILD TYPE, 110K FORM D1D2 FRAGMENT 9606
15 2NY5 2 C T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
16 1RZJ 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
17 1GC1 2 C CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
18 1G9M 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
19 3JWD 2 C, D T-cell surface glycoprotein CD4 9606
20 1CDI 1 A T CELL SURFACE GLYCOPROTEIN CD4 9606
21 2NY6 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
22 1RZK 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
23 1G9N 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
24 2QAD 2 B, F T-cell surface glycoprotein CD4 D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS 9606
25 5CAY 2 B T-cell surface glycoprotein CD4 domains 1 and 2 (UNP residues 26-208) 9606
26 4R2G 2 B, F, H, L T-cell surface glycoprotein CD4 9606
27 4JM2 6 F T-cell surface glycoprotein CD4 Ig-like V-type and C2-type 1 domains (UNP residues 26-208) 9606
28 3JWO 2 C T-cell surface glycoprotein CD4 9606
29 2B4C 2 C T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606
30 4RQS 1 B 2-domain CD4 9606
31 4R4H 2 B T-cell surface glycoprotein CD4 UNP residues 26-203 9606
32 1JL4 4 D T-CELL SURFACE GLYCOPROTEIN CD4 9606
33 5VN3 4 C, E, F T-cell surface glycoprotein CD4 9606
34 3JCB 4 D T-cell surface glycoprotein CD4 UNP residues 26-200 9606
35 3JCC 4 D T-cell surface glycoprotein CD4 UNP residues 26-200 9606
36 5A8H 2 B, H, N T-CELL SURFACE GLYCOPROTEIN CD4 SOLUBLE CD4 D1-D2 DOMAINS, RESIDUES26-208 9606
37 5A7X 2 B, F, J T-CELL SURFACE GLYCOPROTEIN CD4 9606
38 3J70 3 C, O, T T-cell surface glycoprotein CD4 UNP residues 26-208 9606