Sequence Similarity Clusters for the Entities in PDB 4LSQ

Entity #1 | Chains: G
ENVELOPE GLYCOPROTEIN GP120 WITH LOOP D AND V5 FROM STRAIN 3415_V1_C1 protein, length: 352 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 48948
95 % 26 60 614 Flexibility: Low
Max RMSD: 1.9, Avg RMSD: 0.8
PDBFlex
90 % 26 60 643
70 % 37 101 323
50 % 37 101 381
40 % 37 101 399
30 % 37 102 409
Entity #2 | Chains: H
HEAVY CHAIN OF ANTIBODY VRC-CH31 protein, length: 236 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 3 33128
95 % 2 3 27656 Flexibility: Low
Max RMSD: 1.0, Avg RMSD: 0.8
PDBFlex
90 % 2 3 26674
70 % 972 2805 1
50 % 1029 2949 1
40 % 1029 2949 1
30 % 2043 5899 1
Entity #3 | Chains: L
LIGHT CHAIN OF ANTIBODY VRC-CH31 WITH N70D MUTATION protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 49614
95 % 2 3 28356 Flexibility: Low
Max RMSD: 0.9, Avg RMSD: 0.7
PDBFlex
90 % 2 3 27343
70 % 788 2290 2
50 % 1002 2908 2
40 % 1002 2908 2
30 % 2044 5899 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


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Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4JZZ 1 A HIV-1 YU2 gp120 glycoprotein 11676
2 4J6R 1 G Envelope glycoprotein gp160 11676
3 4XVT 1 G ENVELOPE GLYCOPROTEIN GP120 OF HIV-1 CLADE A/E 11676
4 4JZW 1 A, G HIV-1 YU2 gp120 glycoprotein 11676
5 4XMP 1 G Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 195-297, 319-481 11676
6 4KA2 1 A HIV-1 YU2 gp120 11676
7 4YDL 1 A, G Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP residues 43-122, 201-303, 325-486 11676
8 4DKR 1 A, C HIV-1 gp120 core 11676
9 4H8W 1 G HIV-1 CLADE A/E 93TH057 (H375S) GP120 9606
10 4DKP 1 A, C clade A/E 93TH057 HIV-1 gp120 core 11676
11 3SE8 1 G HIV-1 Clade AE strain 93TH057 gp120 Core gp120 with truncations 11676
12 4DKQ 1 A clade A/E 93TH057 HIV-1 gp120 core 11676
13 3TGT 1 A HIV-1 clade A/E 93TH057 gp120 11676
14 5F9O 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
15 4DVV 1 A, B clade A/E 93TH057 HIV-1 gp120 core 11676
16 4XVS 3 G Donor 45 01dG5 coreE gp120 11676
17 4YDK 1 G Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486 11676
18 3SE9 1 G HIV-1 Clade AE strain 93TH057 gp120 Core gp120 with trancations 11676
19 4DKO 1 A, C HIV-1 gp120 core 11676
20 4RZ8 1 A, B, C, D Envelope glycoprotein gp120 UNP residues 43-122, 201-303, 325-486 11676
21 5FA2 1 A, B gp120 9606
22 4K0A 1 A HIV-1 YU2 gp120 glycoprotein 11676
23 4LSP 1 G HIV-1 CLADE A/E STRAIN 93TH057 GP120 11676
24 5U6E 1 A, B clade A/E 93TH057 HIV-1 gp120 core clade A/E 93TH057 HIV-1 gp120 core, V1/V2 and V3 region deletion, H375S 11676
25 4DVS 1 A, B clade A/E 93TH057 HIV-1 gp120 core 11676
26 4LAJ 1 A, B, F, J HIV-1 YU2 gp120 envelope glycoprotein 11676
27 4OM1 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
28 5TE7 3 G HIV-1 gp120 core 11676
29 4OLZ 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
30 4DVW 1 A, B clade A/E 93TH057 HIV-1 gp120 core 11676
31 4DKV 1 A, B HIV-1 gp120 core Chimera residues 44-492 11676
32 5F96 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
33 4LSU 1 G HIV-1 CLADE A/E STRAIN 93TH057 GP120 11676
34 4OLU 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
35 4OLX 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
36 4XNY 1 G Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 195-297, 319-481 11676
37 4LSQ 1 G ENVELOPE GLYCOPROTEIN GP120 WITH LOOP D AND V5 FROM STRAIN 3415_V1_C1 11676
38 4RWY 1 A HIV-1 YU2 gp120 11676
39 4OM0 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
40 4LSR 1 G ENVELOPE GLYCOPROTEIN GP120 WITH LOOP D AND V5 FROM STRAIN ker_2018_11 11676
41 6BF4 1 A, G HIV-1 clade AE gp120 core 11676
42 4OLY 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
43 4DVT 1 A, B clade A/E 93TH057 HIV-1 gp120 core 11676
44 4DVX 1 A, B clade A/E 93TH057 HIV-1 gp120 core 11676
45 4YDJ 1 G, I Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP residues 43-122, 201-303, 325-486 11676
46 5WB9 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
47 4I54 1 A, B HIV-1 glycoprotein 11676
48 4LST 1 G ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
49 3U7Y 2 G Envelope glycoprotein gp160 gp120 core (UNP RESIDUES 43-122, 201-303, 325-486) 11676
50 4DKU 1 A, B HIV-1 gp120 core Chimera residue 44-492 11676
51 4S1Q 1 G HIV-1 gp120 core residue 44-492 11676
52 4OLV 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
53 4LSS 1 G envelope glycoprotein GP120 11676
54 5TE6 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
55 6MFT 3 C, G Gp120 426c core, residues 44-494 9606
56 3JWD 1 A, B HIV-1 GP120 ENVELOPE GLYCOPROTEIN 11676
57 4YE4 1 G HT593.1 gp120 HIV-1 clade B gp120 core 12721
58 3NGB 1 A, D, G, I Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
59 4OLW 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
60 5F9W 1 A, G clade A/E 93TH057 HIV-1 gp120 core 11676
61 4JKP 1 G gp120 11676
62 5TE4 1 G HIV-1 clade G strain X2088 gp120 Extended core portion of HIV-1 gp120 11676
63 4JPV 1 G HIV-1 CLADE A STRAIN 93TH057 GP120 WITH LOOP d AND LOOPD V5 REPLACED FROM HIV STRAIN 3415V1 11676
64 5UEM 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
65 4I53 1 A, B HIV-1 glycoprotein 11676
66 6BCK 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
67 4JPW 1 G HIV-1 CLADE A/E STRAIN 73TH057 GP120 WITH MUTATION H375S 11676
68 4JB9 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
69 3TGR 1 A, B HIV-1 clade C1086 gp120 11676
70 3TGS 1 A, B HIV-1 clade C1086 gp120 core 11676
71 3RJQ 1 A C186 gp120 11676
72 5F4L 1 A, B ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
73 4JAN 1 G, I ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
74 5FEC 3 C, D, G, I 426c.TM4deltaV1-3 gp120 11676
75 5F4P 1 A, D ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
76 5W4L 1 A, G clade A/E 93TH057 HIV-1 gp120 core 11676
77 5F4U 1 A, B ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
78 5F4R 1 A, C ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
79 5CAY 1 G Envelope glycoprotein gp120 core from ST strain of HIV-2 11709
80 4P9H 2 G Envelope glycoprotein gp160 GP120 CORE, (UNP RESIDUES 43-122, 201-303, 325-486) 11676
81 4RFO 1 G HIV-1 clade A/E gp120 11676
82 5KJR 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
83 5I9Q 1 A, G 426c.TM4dV1-3 p120 11676
84 5T33 3 G RHPA gp120 core 12721
85 4RX4 1 E, G HIV-1 Clade A Q842.d12 gp120 11676
86 4JDT 1 G gp120 GP120 CORE 11676
87 4LSV 1 G envelope glycoprotein GP120 11676
88 4YDI 1 G Envelope glycoprotein gp160 UNP residues 43-122, 191-293, 315-482 11676
89 5UWE 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
90 4S1R 1 G clade A/E 93TH057 HIV-1 gp120 core residue 44-492 11676
91 4XNZ 1 A, D, G Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
92 4RFN 1 A, G HIV-1 CLADE A/E 93TH057 (H375S) GP120 11676
93 4S1S 1 G clade A/E 93TH057 HIV-1 gp120 core residue 44-492 11676
94 4R4F 1 A HIV-1 Env gp120 11676
95 3JWO 1 A HIV-1 GP120 ENVELOPE GLYCOPROTEIN 9606
96 5CD5 1 A 93TH057 HIV-1 gp120 core 11676
97 4YFL 1 E, G Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486 11676
98 5IGX 1 G 426c.TM1deltaV1-3 gp120 11676
99 3TGQ 1 A, B, C, D HIV-1 YU2 gp120 11676
100 4R4N 1 A, B, E, I, M, P, S, V HIV-1 gp120 11676
101 3TIH 1 A, B, C, D HIV-1 clade C ZM109F.PB4 gp120 11676
102 5F6J 1 E, G ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676