Sequence Similarity Clusters for the Entities in PDB 3VI4

Entity #1 | Chains: A,C
Integrin alpha-5 protein, length: 632 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 20961
95 % 2 2 19881 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 1.1
PDBFlex
90 % 2 2 19419
70 % 2 2 17981
50 % 4 9 5848
40 % 4 9 5802
30 % 4 12 4110
Entity #2 | Chains: B,D
Integrin beta-1 protein, length: 454 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 26717
95 % 6 6 10398 Flexibility: Low
Max RMSD: 2.1, Avg RMSD: 1.1
PDBFlex
90 % 6 6 10284
70 % 6 6 9937
50 % 6 6 9067
40 % 35 43 1038
30 % 35 43 1087
Entity #3 | Chains: E,L
SG/19 Fab fragment (Light chain) protein, length: 219 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 26718
95 % 10 14 3833 Flexibility: Low
Max RMSD: 4.4, Avg RMSD: 2.3
PDBFlex
90 % 15 19 3007
70 % 1720 2416 2
50 % 2139 3067 2
40 % 2139 3067 2
30 % 4346 6228 1
Entity #4 | Chains: F,H
SG/19 Fab fragment (Heavy chain) protein, length: 218 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 2 26719
95 % 2 2 20483 Flexibility: No
Max RMSD: 0.5, Avg RMSD: 0.4
PDBFlex
90 % 10 14 3245
70 % 2068 2965 1
50 % 2178 3117 1
40 % 2178 3117 1
30 % 4347 6228 1
Entity #5 | Chains: G,I
RGD peptide protein, length: 5 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name

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 1MJU 1 L IMMUNOGLOBULIN MS6-12 Fab fragment, LIGHT CHAIN 10090
2 1MJ8 1 L IMMUNOGLOBULIN MS6-126 Fab Fragment, LIGHT CHAIN 10090
3 6QNK 1 A, C FAB light chain 10090
4 1MJJ 1 A, L IMMUNOGLOBULIN MS6-12 Fab fragment, LIGHT CHAIN 10090
5 1MIE 1 L IMMUNOGLOBULIN MS5-393 Fab fragment, LIGHT CHAIN 10090
6 1MH5 1 A, L IMMUNOGLOBULIN MS6-164 Fab fragment, LIGHT CHAIN 10090
7 1MJ7 1 L IMMUNOGLOBULIN MS5-393 Fab fragment, LIGHT CHAIN 10090
8 4PB9 2 L Ab64 light chain 10090
9 3VI3 3 E, L SG/19 Fab fragment (Light chain) 10090
10 3VI4 3 E, L SG/19 Fab fragment (Light chain) 10090
11 1AE6 1 L IGG CTM01 FAB (LIGHT CHAIN) EACH OF THE FOUR DOMAINS ADOPT THE IMMUNOGLOBULIN SUPERFAMILY FOLD FAB FRAGMENT 10090
12 5T5F 3 L Monoclonal antibody Jar5 light chain 10090
13 3QUM 2 L, M Fab 5D3D11 Light Chain 10090
14 6QNO 4 L Fab antibody fragment light chain 10090