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An Information Portal to 111558 Biological Macromolecular Structures

Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility
Sequence Clustering and Redundancy Reduction Results
3JWD
Cluster # 739 Members. Sequence cutoff: 95% Cluster size: 38 sequences
Rank   PDB id Entity id Chains Description Details Taxonomy EC Number
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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 3S5L 4 G, H T-cell surface glycoprotein CD4 CD4 9606  
13 1CDH 1 A T CELL SURFACE GLYCOPROTEIN CD4 9606  
14 1CDU 1 A T-CELL SURFACE GLYCOPROTEIN CD4 D1D2 FRAGMENT 9606  
15 1CDJ 1 A T-CELL SURFACE GLYCOPROTEIN CD4 WILD TYPE, 110K FORM D1D2 FRAGMENT 9606  
16 2NY5 2 C T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
17 1RZJ 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
18 1GC1 2 C CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
19 1G9M 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
20 3JWD 2 C, D T-cell surface glycoprotein CD4 9606  
21 3S4S 4 G, H T-cell surface glycoprotein CD4 UNP residues 26-203 9606  
22 1CDI 1 A T CELL SURFACE GLYCOPROTEIN CD4 9606  
23 2NY6 2 B T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
24 1RZK 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
25 1G9N 2 C T-CELL SURFACE GLYCOPROTEIN CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
26 2QAD 2 B, F T-cell surface glycoprotein CD4 D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS 9606  
27 4P9H 1 C T-cell surface glycoprotein CD4 CD4 D1D2 9606  
28 4R2G 2 B, F, H, L T-cell surface glycoprotein CD4 9606  
29 4JM2 6 F T-cell surface glycoprotein CD4 Ig-like V-type and C2-type 1 domains (UNP residues 26-208) 9606  
30 3LQA 1 C T-cell surface glycoprotein CD4 9606  
31 3JWO 2 C T-cell surface glycoprotein CD4 9606  
32 2B4C 2 C T-cell surface glycoprotein CD4 D1D2, N-TERMINAL TWO DOMAIN FRAGMENT 9606  
33 4RQS 1 B 2-domain CD4 10029  
34 4R4H 2 B T-cell surface glycoprotein CD4 UNP residues 26-203 9606  
35 1JL4 4 D T-CELL SURFACE GLYCOPROTEIN CD4 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  
 
Sequence Clusters for the Sequence Entities in PDB 3JWD
Entity #1: Chains: A,B - HIV-1 GP120 ENVELOPE GLYCOPROTEIN protein, length: 379 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 27471
95% 1 2 17773
90% 1 2 17301
70% 46 75 274
50% 46 75 308
40% 46 75 337
30% 46 75 347
Entity #2: Chains: C,D - T-cell surface glycoprotein CD4 protein, length: 184 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 17 33 683
95% 20 38 739
90% 20 38 780
70% 20 38 822
50% 20 38 893
40% 20 38 922
30% 20 38 915
Entity #3: Chains: L,O - FAB 48D LIGHT CHAIN protein, length: 213 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 4 12305
95% 47 126 68
90% 231 431 4
70% 801 1445 3
50% 1936 3457 1
40% 1937 3458 1
30% 2187 4083 1
Entity #4: Chains: H,P - FAB 48D HEAVY CHAIN protein, length: 220 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 4 12261
95% 2 5 7488
90% 2 5 7427
70% 943 1672 1
50% 1937 3457 1
40% 1938 3458 1
30% 2188 4083 1
 

Documentation

Click here for more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB.