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 Structural variation in cluster
100 % 1 1 34272
95 % 1 2 21971 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 1 2 21344
70 % 69 128 181
50 % 69 128 223
40 % 69 128 241
30 % 69 131 249
Entity #2 | Chains: C,D
T-cell surface glycoprotein CD4 protein, length: 184 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 17 38 715
95 % 20 43 854 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 20 43 884
70 % 20 43 915
50 % 20 43 958
40 % 20 43 985
30 % 20 43 962
Entity #3 | Chains: L,O
FAB 48D LIGHT CHAIN protein, length: 213 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 4 15445
95 % 69 171 68 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.2
PDBFlex
90 % 396 729 3
70 % 1293 2362 1
50 % 2641 4781 1
40 % 2641 4781 1
30 % 3024 5635 1
Entity #4 | Chains: H,P
FAB 48D HEAVY CHAIN protein, length: 220 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 2 4 15384
95 % 2 5 9328 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 2 5 9228
70 % 1280 2311 2
50 % 2642 4781 1
40 % 2642 4781 1
30 % 3025 5635 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.

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Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 3HC4 2 L IMMUNOGLOBULIN IGG1 FAB, LIGHT CHAIN 9606
2 5TDN 1 A, C anti-HER2 Fab Light Chain 9606
3 3NCJ 1 L Fab15 Mut8 light chain 9606
4 3HC3 2 L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
5 3NA9 1 L Fab15 light chain 9606
6 3NAA 1 L Fab15 Mut5 light chain 9606
7 5IT2 2 L light chain 9606
8 5TDO 1 A, C anti-HER2 Fab Light Chain 9606
9 3P0Y 3 L Fab DL11 light chain 9606
10 6ELE 2 B, L fAB light chain 9606
11 3NAC 1 L Fab15 Mut7 light chain 9606
12 5WUV 1 L light chain 9606
13 5TDP 1 A, C anti-HER2 Fab Light Chain 9606
14 1L7I 1 L chimera of Fab2C4: "humanized" murine monoclonal antibody The chimera consists of the human Ig and the original murine sequence light chain (residues 1-214) 9606
15 5XKU 2 B HNIgGA6 light chain 9606
16 3SOB 1 L antibody light chain 9606
17 4KQ3 1 L CNTO3186 light chain Fab 9606
18 3HC0 2 B, L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
19 6ELJ 2 B, L fAB light chain 9606
20 5JW5 2 B, L MEDI8852 Light chain 9606
21 6ELL 2 B, L fAB light chain 9606
22 2HFF 1 A, L CB2 Fab, light chain 9606
23 1VGE 1 L TR1.9 FAB FAB FRAGMENT OF A HUMAN IGG1 KAPPA AUTOANTIBODY 9606
24 5GGV 1 L light chain 9606
25 2R8S 2 L Fab light chain 10090
26 4HKZ 1 A Trastuzumab light chain 9606
27 4KMT 1 L light chain O12/KAPPA Fab 9606
28 4XTR 3 D, F Antibody Light chain 32630
29 1RZ7 1 L Fab 48d light chain 9606
30 3PGF 3 L SAB Light Chain 9606
31 2QQN 3 L Antibody light chain 9606
32 5CZX 3 D, L 20358 Fab light chain 9606
33 3GRW 2 L Fab light chain 9606
34 4LKC 1 A Fab fragment of PCSK9 antibody 9606
35 4KZD 2 L BL3-6 Fab antibody, light chain 10090
36 4XH2 2 B, D, F, I, K, L Fab Light Chain 9606
37 6EMJ 2 B, L fAb light chain 9606
38 3PNW 1 A, D, G, J, M, P, S, V FAB light chain 32630
39 4NRX 3 B, E, L m66 Light Chain 9606
40 3HI6 3 L, Y light chain of Fab fragment of AL-57 against alpha L I domain 9606
41 4ZFG 3 L Fragment antigen binding 5A12 light chain 9606
42 2R0L 1 L antibody light chain 32630
43 5GGU 2 B, L light chain 9606
44 3BN9 2 C, E E2 Fab Light Chain 9606
45 3L95 1 A, L anti-NRR1 fab fragment light chain 9606
46 4KZE 2 L BL3-6 Fab antibody, light chain 10090
47 4XVU 3 D, F, J, L Antibody light chain 32630
48 3NAB 1 L Fab15 Mut6 light chain 9606
49 4Q9Q 2 L Fab BL3-6, LIGHT CHAIN 10090
50 4WV1 3 A, D Fab light chain 9606
51 5EII 2 B, L Fab Light Chain 9606
52 4UB0 2 L IgG1, light chain 9606
53 1FVD 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
54 1BJ1 1 J, L FAB FRAGMENT HUMANIZED VERSION OF A MONOCLONAL MURINE ANTI-VEGF ANTIBODY 10090
55 4K94 1 L Fab19 heavy chain 9606
56 5VEB 2 B, L anti-CDH6 Fab light chain 9606
57 5E08 2 L Fab Light Chain 9606
58 1CZ8 2 L, X LIGHT CHAIN OF NEUTRALIZING ANTIBODY MUTATED FORM OF A HUMANIZED MURINE ANTIBODY LIGHT CHAIN 10090
59 4XAK 3 E, L Light chain of neutralizing antibody m336 9606
60 4EDW 2 L tanezumab Fab light chain 9606
61 1FVE 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
62 2H9G 1 A, L Fab BdF1, light chain Fab fragment 9606
63 4G7V 2 L fragment antibody light chain 9606
64 5EU7 3 C, D FAB light chain 9606
65 3FZU 1 D, L immunoglobulin IgG1 Fab, light chain 9606
66 3K2U 4 L Antibody, Fab fragment, Light Chain 9606
67 5VSH 2 B, D, F, L CH1/Clambda Fab light chain 9606
68 2HFG 1 L CB3s Fab light chain (kappa) 9606
69 3JWD 3 L, O FAB 48D LIGHT CHAIN 9606
70 4JQI 3 L Fab30 light chain 10090
71 3U30 2 B, E Light chain Fab 9606
72 5I15 1 L FAB LIGHT CHAIN 9606
73 2FJF 1 A, C, E, G, J, L, M, O, Q, S, U, W Light Chain of a VEGF binding Antibody 9606
74 5I1E 1 L FAB LIGHT CHAIN 9606
75 2QQK 3 L Antibody Light Chain 9606
76 4RRP 1 A, B, C, D, E, F Fab antibody, light chain 9606
77 4XGZ 2 B, D, F, I, K, L, N, P, R, T, V, X FAB LIGHT CHAIN 9606
78 1N8Z 1 A Herceptin Fab (antibody) - light chain 10090
79 1TZH 2 A, L Fab YADS1 Light Chain 10090
80 5BO1 3 L, M Fab light chain 9606
81 4M6O 1 L CNTO7309 light chain 9606
82 4DVR 2 L Fab 48d Light chain 9606
83 4XWO 3 D, F, J, L, P, R, V, X Antibody light chain 32630
84 4ZFF 2 B, L Fragment antigen binding (Fab) 5A12 Light chain 9606
85 3HI5 2 L light chain of Fab fragment of AL-57 against alpha L I domain 9606
86 3DVG 1 A Human IgG1 fab fragment light chain 9606
87 2FGW 1 L H52 FAB (LIGHT CHAIN) 9606
88 2FJG 2 A, L Fab light chain 9606
89 4DKF 3 L, M FAb2 Light Chain 9606
90 1HEZ 1 A, C KAPPA LIGHT CHAIN OF IG 1-214 9606
91 3EFD 1 L FabL 10090
92 4LF3 1 A, D Fab heavy chain 10090
93 5K59 4 F, L Fab light chain 9606
94 5F3H 2 B, D, F, H humanized RK35 antibody light chain 10090
95 4G7Y 2 L Fragment antibody light chain 9606
96 4PY8 4 J antibody 3.1 light chain Fab 9606
97 3DVN 1 A, L Human IgG1 fab fragment light chain 9606
98 3UC0 3 L, M Light chain, monoclonal antibody 5H2 Fab 9598
99 4NNP 3 L, Y Light chain of antagonistic fab fragment 9606
100 4ERS 1 L Fab light chain 9606
101 1DEE 1 A, C, E IGM RF 2A2 FAB LIGHT CHAIN 9606
102 2WUC 5 L FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
103 4PY7 2 B, J antibody 3.1 light chain Fab 9606
104 4K8R 3 C Fab1, light chain 9606
105 1TZI 1 A Fab YADS2 Light Chain 10090
106 4YK4 1 B, Y 641 I-9 VLCL antibody 9606
107 3R1G 3 L FAB of YW412.8.31 antibody light chain 9606
108 2QQL 3 L Antibody Light Chain 9606
109 4MXV 2 E, L, X anti-Lymphotoxin alpha antibody light chain Fab 9606
110 3WD5 2 L Adalimumab Light Chain 9606
111 5GZO 3 D, L Antibody light chain 9606
112 2WUB 4 L, Q FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
113 2FJH 2 A, L Fab fragment light chain 9606
114 5XEZ 3 D, L Antibody, mAb1, light chain 9606
115 4K9E 1 L light chain 10090
116 3P0V 1 L, M Fab DL11 light chain 9606
117 3HMX 3 L USTEKINUMAB FAB LIGHT CHAIN 9606
118 5WUX 2 B, D, L light 9606
119 4I18 1 B, L antibody light chain Fab 10090
120 4Q9R 2 L Fab BL3-6, LIGHT CHAIN 10090
121 3IVK 1 B, L Fab light chain man 10090
122 5I19 1 L FAB LIGHT CHAIN 9606
123 5X8L 2 K, L, M, N, O atezolizumab light chain 9606
124 1RZI 1 A, C, E, G, I, K, M, O Fab 47e light chain 9606
125 2R56 2 L, M IgE Fab Fragment, light chain 9606
126 5CZV 3 L Fab 20350 light chain 9606
127 5XF1 3 D, L Antibody mAb1 Light chain 9606
128 4P59 3 L MOR09825 Fab fragment light chain 9606
129 5XXY 2 L light chain of atezolizumab fab 9606
130 5CJO 3 L FAB light chain 10090
131 3N85 2 L Fab37 Light Chain 9606
132 3G6J 3 E, G Fab light chain 9606
133 3HMW 1 L USTEKINUMAB FAB LIGHT CHAIN 9606
134 4DKE 3 L, M FAb1.1 Light Chain 9606
135 4NRY 1 B, L m66 Heavy Chain 9606
136 5VL7 4 L Fab33 light chain 9606
137 1S78 2 C, E Pertuzumab Fab light chain 10090
138 4NYL 1 B, D, F, L Adalimumab Light Chain 9606
139 5D1Q 1 A D2-06 Light Chain 9606
140 1ZA3 1 A, L Fab-YSd1 light chain Fab light chain 9606
141 3UAJ 3 D, L Light chain, monoclonal antibody 5H2 Fab 9598
142 4IOF 3 D, F Fab-bound IDE, light chain 10090
143 4M1C 3 D, F Fab-bound IDE, light chain 9606
144 2JIX 1 A, G, L ABT-007 FAB FRAGMENT 9606
145 3ULV 2 L Fab15 light chain 9606
146 4MXW 5 L, V anti-Lymphotoxin alpha antibody light chain Fab 9606
147 5JW3 4 L MEDI8852 light chain 9606
148 5CWS 1 A, G sAB-158 Fab Light Chain 9606
149 2R0K 2 L antibody light chain of Fab58 9606
150 5C8J 2 B, D, F, H Antibody fragment, light chain OBTAINED BY PHAGE DISPLAY FROM A LIBRARY OF HUMAN IGG. ANTIBODY FRAGMENT; THE CDRS ARE COMPLETELY SYNTHETIC 9606
151 4G80 3 B, D, F, H fragment antibody light chain 9606
152 3JWO 3 L FAB 48D LIGHT CHAIN 9606
153 3P11 2 L Fab DL11 light chain 9606
154 3ULU 2 L Fab15 light chain 9606
155 4XI5 3 C Fab-94 light chain 9606
156 4Q5Z 3 J, L, N, P, R, T, V, X IDE-bound Fab, light chain 10090
157 5JW4 4 N, P, T, V, X MEDI8852 light chain 9606
158 5JW4 6 R MEDI8852 light chain 9606
159 2QR0 1 A, E, G, K, M, Q, S, W Fab-Fragment Light Chain 9606
160 3EFF 1 A, C FAB 10090
161 3PJS 1 A, C FAB light chain 10090
162 5DWU 4 L Fab - Light Chain 9606
163 4XMN 6 L Antibody 87 light chain 32630
164 4XMM 8 L Antibody 57 light chain 9606
165 3J70 2 B, N, S monoclonal antibody 17b heavy chain 9606
166 3CM9 3 L, M, N, O Ig alpha-2 chain C region 9606
167 3CHN 1 L, M, N, O Immunoglobulin kappa light chain 9606
168 2QTJ 1 L, M, N, O Kappa light chain IgA1 9606
169 2ESG 1 L, M Immunoglobulin A1 light chain 9606
170 1R70 1 A, C Human IgA2(m1) Light Chain 9606
171 1IGA 2 C, D IGA1 CHAINS A AND B, HEAVY, CHAINS C AND D, LIGHT 9606