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
100 % 1 1 29404
95 % 1 2 18964
90 % 1 2 18451
70 % 66 120 165
50 % 66 120 196
40 % 66 120 211
30 % 66 123 222
Entity #2 | Chains: C,D
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 17 34 702
95 % 20 39 783
90 % 20 39 819
70 % 20 39 865
50 % 20 39 930
40 % 20 39 956
30 % 20 39 951
Entity #3 | Chains: L,O
FAB 48D LIGHT CHAIN protein, length: 213 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 4 13152
95 % 48 131 75
90 % 252 476 4
70 % 870 1568 3
50 % 2126 3813 1
40 % 2127 3814 1
30 % 2444 4537 1
Entity #4 | Chains: H,P
FAB 48D HEAVY CHAIN protein, length: 220 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 2 4 13103
95 % 2 5 7971
90 % 2 5 7909
70 % 1037 1850 1
50 % 2127 3813 1
40 % 2128 3814 1
30 % 2445 4537 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.


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 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 Envelope glycoprotein gp160 unp residues 43-486 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 2NXY 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
19 3SE9 1 G HIV-1 Clade AE strain 93TH057 gp120 Core gp120 with trancations 11676
20 2NY2 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
21 4DKO 1 A, C HIV-1 gp120 core 11676
22 4RZ8 1 A, B, C, D Envelope glycoprotein gp120 UNP residues 43-122, 201-303, 325-486 11676
23 2NY4 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
24 2NY3 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
25 5FA2 1 A, B gp120 9606
26 2NY1 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
27 4K0A 1 A HIV-1 YU2 gp120 glycoprotein 11676
28 4LSP 1 G HIV-1 CLADE A/E STRAIN 93TH057 GP120 11676
29 2NXZ 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
30 4DVS 1 A, B glycoprotein gp120 unp residues 43-122, 201-303, 325-486 11676
31 4LAJ 1 A, B, F, J HIV-1 YU2 gp120 envelope glycoprotein 11676
32 4OM1 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
33 4OLZ 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
34 4DVW 1 A, B Envelope glycoprotein gp160 unp residues 43-486 11676
35 4DKV 1 A, B HIV-1 gp120 core Chimera residues 44-492 11676
36 5F96 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
37 4LSU 1 G HIV-1 CLADE A/E STRAIN 93TH057 GP120 11676
38 4OLU 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
39 4OLX 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
40 4XNY 1 G Envelope glycoprotein gp160,Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 195-297, 319-481 11676
41 2NY0 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
42 4LSQ 1 G ENVELOPE GLYCOPROTEIN GP120 WITH LOOP D AND V5 FROM STRAIN 3415_V1_C1 11676
43 4RWY 1 A HIV-1 YU2 gp120 11676
44 1YYM 1 G, P Exterior membrane glycoprotein(GP120) core 11676
45 4OM0 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
46 4LSR 1 G ENVELOPE GLYCOPROTEIN GP120 WITH LOOP D AND V5 FROM STRAIN ker_2018_11 11676
47 2I5Y 1 G, P Exterior membrane glycoprotein(GP120) CORE 12721
48 2NY7 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
49 4OLY 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
50 3IDX 1 G HIV-1 HxBc2 gp120 core 11676
51 4DVT 1 A, B Envelope glycoprotein gp160 unp residues 43-122, 201-303, 325-486 11676
52 4DVX 1 A, B Envelope glycoprotein gp160 unp residues 43-486 11676
53 4YDJ 1 G, I Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP residues 43-122, 201-303, 325-486 11676
54 2I60 1 G, P EXTERIOR MEMBRANE GLYCOPROTEIN(GP120) CORE 11676
55 4I54 1 A, B HIV-1 glycoprotein 11676
56 2NY5 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
57 4LST 1 G ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
58 3U7Y 2 G Envelope glycoprotein gp160 gp120 core (UNP RESIDUES 43-122, 201-303, 325-486) 11676
59 4DKU 1 A, B HIV-1 gp120 core Chimera residue 44-492 11676
60 4S1Q 1 G HIV-1 gp120 core residue 44-492 11676
61 4OLV 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
62 1RZJ 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
63 4LSS 1 G envelope glycoprotein GP120 11676
64 1GC1 1 G ENVELOPE PROTEIN GP120 CORE 11676
65 1G9M 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
66 3JWD 1 A, B HIV-1 GP120 ENVELOPE GLYCOPROTEIN 11676
67 4YE4 1 G HT593.1 gp120 HIV-1 clade B gp120 core 12721
68 3NGB 1 A, D, G, I Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
69 4OLW 1 G Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
70 4DVR 1 G glycoprotein gp120 unp residues 83-123; 199-301; 324-492 11676
71 5F9W 1 A, G clade A/E 93TH057 HIV-1 gp120 core 11676
72 1YYL 1 G, P Exterior membrane glycoprotein(GP120) core 11676
73 2NY6 1 A ENVELOPE GLYCOPROTEIN GP120 CORE 11676
74 4JKP 1 G gp120 11676
75 4JPV 1 G HIV-1 CLADE A STRAIN 93TH057 GP120 WITH LOOP d AND LOOPD V5 REPLACED FROM HIV STRAIN 3415V1 11676
76 4I53 1 A, B HIV-1 glycoprotein 11676
77 3HI1 1 G, J Glycoprotein 120 11676
78 1RZK 1 G ENVELOPE GLYCOPROTEIN GP120 part of Envelope polyprotein GP160 CORE 11676
79 1G9N 1 G ENVELOPE GLYCOPROTEIN GP120 CORE 11676
80 4JPW 1 G HIV-1 CLADE A/E STRAIN 73TH057 GP120 WITH MUTATION H375S 11676
81 4JB9 1 G clade A/E 93TH057 HIV-1 gp120 core 11676
82 3TGR 1 A, B HIV-1 clade C1086 gp120 11676
83 3TGS 1 A, B HIV-1 clade C1086 gp120 core 11676
84 3RJQ 1 A C186 gp120 11676
85 5F4L 1 A, B ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
86 4JAN 1 G, I ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
87 3IDY 1 A, G HIV-1 HxBc2 gp120 core 11676
88 5FEC 3 C, D, G, I 426c.TM4deltaV1-3 gp120 11676
89 5F4P 1 A, D ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
90 5F4U 1 A, B ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
91 2QAD 1 A, E Envelope glycoprotein gp160 CORE WITH V3 11676
92 5F4R 1 A, C ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
93 5CAY 1 G Envelope glycoprotein gp120 core from ST strain of HIV-2 11709
94 4P9H 2 G Envelope glycoprotein gp120 GP120 CORE, (UNP RESIDUES 43-122, 201-303, 325-486) 11676
95 4R2G 1 A, E, K, O Surface protein gp160 11676
96 4RFO 1 G HIV-1 clade A/E gp120 11676
97 4JM2 5 E gp120 core with mini V3 loop 11676
98 5I9Q 1 A, G 426c.TM4dV1-3 p120 11676
99 4RX4 1 E, G HIV-1 Clade A Q842.d12 gp120 11676
100 4JDT 1 G gp120 GP120 CORE 11676
101 4LSV 1 G envelope glycoprotein GP120 11676
102 4YDI 1 G Envelope glycoprotein gp160 UNP residues 43-122, 191-293, 315-482 11676
103 3LQA 2 G Envelope glycoprotein gp160 11676
104 4S1R 1 G clade A/E 93TH057 HIV-1 gp120 core residue 44-492 11676
105 4XNZ 1 A, D, G Envelope glycoprotein gp160,Envelope glycoprotein gp160 UNP RESIDUES 43-122, 201-303, 325-486 11676
106 4RFN 1 A, G HIV-1 CLADE A/E 93TH057 (H375S) GP120 11676
107 4S1S 1 G clade A/E 93TH057 HIV-1 gp120 core residue 44-492 11676
108 4R4F 1 A HIV-1 Env gp120 11676
109 3JWO 1 A HIV-1 GP120 ENVELOPE GLYCOPROTEIN 9606
110 5CD5 1 A 93TH057 HIV-1 gp120 core 11676
111 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
112 5IGX 1 G 426c.TM1deltaV1-3 gp120 11676
113 3TGQ 1 A, B, C, D HIV-1 YU2 gp120 11676
114 2B4C 1 G envelope glycoprotein CORE with V3 11676
115 4R4N 1 A, B, E, I, M, P, S, V HIV-1 gp120 11676
116 3TIH 1 A, B, C, D HIV-1 clade C ZM109F.PB4 gp120 11676
117 4RQS 4 G HIV-1 YU2 gp120 core chimeric protein 9606
118 4R4H 1 A HIV-1 Env gp120 11676
119 3FUS 1 A EXTERIOR MEMBRANE GLYCOPROTEIN GP120 GP120 CORE, RESIDUES 66-109, 209-311, 342-502 11723
120 5F6J 1 E, G ENVELOPE GLYCOPROTEIN GP120 of HIV-1 clade C 11676
121 2BF1 1 A EXTERIOR MEMBRANE GLYCOPROTEIN GP120 GP120 CORE, RESIDUES 66-109,209-311,342-502 11723
122 5A8H 1 A, G, M HIV-1 GP120 11676
123 5A7X 1 A, E, I HIV-1 YU2 GP120 11676