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Crystal structure of HIV-1 JR-FL gp120 core protein containing the third variable region (V3) complexed with CD4 and the X5 antibody
Sequence Clustering and Redundancy Reduction Results
2B4C
Sequence Clusters for the Sequence Entities in PDB 2B4C
Entity #1: Chains: G - envelope glycoprotein protein, length: 344 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 1 1 42891
95% 1 1 31162
90% 2 2 21007
70% 28 29 1090
50% 28 29 1149
40% 28 29 1176
30% 28 31 1074
Entity #2: Chains: C - T-cell surface glycoprotein CD4 protein, length: 181 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 27 30 850
95% 32 35 954
90% 32 35 973
70% 32 35 1005
50% 32 35 1046
40% 32 35 1076
30% 32 35 1055
Entity #3: Chains: L - anti-HIV-1 gp120 immunoglobulin X5 light chain protein, length: 215 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 2 21513
95% 2 2 18069
90% 373 389 4
70% 1308 1349 3
50% 3114 3210 1
40% 3115 3211 1
30% 3686 3793 1
Entity #4: Chains: H - anti-HIV-1 gp120 immunoglobulin X5 heavy chain protein, length: 235 [Blast  ]
Cluster Sequence Similarity Cutoff Rank   Nr. of chains in Cluster Cluster Nr.  
100% 2 2 21169
95% 2 2 17806
90% 2 2 17335
70% 1505 1548 2
50% 3115 3210 1
40% 3116 3211 1
30% 3687 3793 1
 

Documentation

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