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 33849
95 % 1 2 21722 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 1 2 21104
70 % 69 126 178
50 % 69 126 223
40 % 69 126 242
30 % 69 129 248
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 38 704
95 % 20 43 836 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.1
PDBFlex
90 % 20 43 867
70 % 20 43 900
50 % 20 43 948
40 % 20 43 972
30 % 20 43 945
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 15235
95 % 63 165 69 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.3
PDBFlex
90 % 380 701 3
70 % 1245 2287 1
50 % 2545 4633 1
40 % 2545 4633 1
30 % 2920 5461 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 15172
95 % 2 5 9210 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.1
PDBFlex
90 % 2 5 9120
70 % 1237 2244 2
50 % 2546 4633 1
40 % 2546 4633 1
30 % 2921 5461 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 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 3NAC 1 L Fab15 Mut7 light chain 9606
11 5WUV 1 L light chain 9606
12 5TDP 1 A, C anti-HER2 Fab Light Chain 9606
13 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
14 3SOB 1 L antibody light chain 9606
15 4KQ3 1 L CNTO3186 light chain Fab 9606
16 3HC0 2 B, L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
17 5JW5 2 B, L MEDI8852 Light chain 9606
18 2HFF 1 A, L CB2 Fab, light chain 9606
19 1VGE 1 L TR1.9 FAB FAB FRAGMENT OF A HUMAN IGG1 KAPPA AUTOANTIBODY 9606
20 5GGV 1 L light chain 9606
21 2R8S 2 L Fab light chain 10090
22 4HKZ 1 A Trastuzumab light chain 9606
23 4KMT 1 L light chain O12/KAPPA Fab 9606
24 4XTR 3 D, F Antibody Light chain 32630
25 1RZ7 1 L Fab 48d light chain 9606
26 3PGF 3 L SAB Light Chain 9606
27 2QQN 3 L Antibody light chain 9606
28 5CZX 3 D, L 20358 Fab light chain 9606
29 3GRW 2 L Fab light chain 9606
30 4LKC 1 A Fab fragment of PCSK9 antibody 9606
31 4KZD 2 L BL3-6 Fab antibody, light chain 10090
32 4XH2 2 B, D, F, I, K, L Fab Light Chain 9606
33 3PNW 1 A, D, G, J, M, P, S, V FAB light chain 32630
34 4NRX 3 B, E, L m66 Light Chain 9606
35 3HI6 3 L, Y light chain of Fab fragment of AL-57 against alpha L I domain 9606
36 4ZFG 3 L Fragment antigen binding 5A12 light chain 9606
37 2R0L 1 L antibody light chain 32630
38 5GGU 2 B, L light chain 9606
39 3BN9 2 C, E E2 Fab Light Chain 9606
40 3L95 1 A, L anti-NRR1 fab fragment light chain 9606
41 4KZE 2 L BL3-6 Fab antibody, light chain 10090
42 4XVU 3 D, F, J, L Antibody light chain 32630
43 3NAB 1 L Fab15 Mut6 light chain 9606
44 4Q9Q 2 L Fab BL3-6, LIGHT CHAIN 10090
45 4WV1 3 A, D Fab light chain 9606
46 5EII 2 B, L Fab Light Chain 9606
47 4UB0 2 L IgG1, light chain 9606
48 1FVD 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
49 1BJ1 1 J, L FAB FRAGMENT HUMANIZED VERSION OF A MONOCLONAL MURINE ANTI-VEGF ANTIBODY 10090
50 4K94 1 L Fab19 heavy chain 9606
51 5VEB 2 B, L anti-CDH6 Fab light chain 9606
52 5E08 2 L Fab Light Chain 9606
53 1CZ8 2 L, X LIGHT CHAIN OF NEUTRALIZING ANTIBODY MUTATED FORM OF A HUMANIZED MURINE ANTIBODY LIGHT CHAIN 10090
54 4XAK 3 E, L Light chain of neutralizing antibody m336 9606
55 1FVE 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
56 2H9G 1 A, L Fab BdF1, light chain Fab fragment 9606
57 4G7V 2 L fragment antibody light chain 9606
58 5EU7 3 C, D FAB light chain 9606
59 3FZU 1 D, L immunoglobulin IgG1 Fab, light chain 9606
60 3K2U 4 L Antibody, Fab fragment, Light Chain 9606
61 5VSH 2 B, D, F, L CH1/Clambda Fab light chain 9606
62 2HFG 1 L CB3s Fab light chain (kappa) 9606
63 3JWD 3 L, O FAB 48D LIGHT CHAIN 9606
64 4JQI 3 L Fab30 light chain 10090
65 3U30 2 B, E Light chain Fab 9606
66 5I15 1 L FAB LIGHT CHAIN 9606
67 2FJF 1 A, C, E, G, J, L, M, O, Q, S, U, W Light Chain of a VEGF binding Antibody 9606
68 5I1E 1 L FAB LIGHT CHAIN 9606
69 2QQK 3 L Antibody Light Chain 9606
70 4RRP 1 A, B, C, D, E, F Fab antibody, light chain 9606
71 4XGZ 2 B, D, F, I, K, L, N, P, R, T, V, X FAB LIGHT CHAIN 9606
72 1N8Z 1 A Herceptin Fab (antibody) - light chain 10090
73 1TZH 2 A, L Fab YADS1 Light Chain 10090
74 5BO1 3 L, M Fab light chain 9606
75 4M6O 1 L CNTO7309 light chain 9606
76 4DVR 2 L Fab 48d Light chain 9606
77 4XWO 3 D, F, J, L, P, R, V, X Antibody light chain 32630
78 4ZFF 2 B, L Fragment antigen binding (Fab) 5A12 Light chain 9606
79 3HI5 2 L light chain of Fab fragment of AL-57 against alpha L I domain 9606
80 3DVG 1 A Human IgG1 fab fragment light chain 9606
81 2FGW 1 L H52 FAB (LIGHT CHAIN) 9606
82 2FJG 2 A, L Fab light chain 9606
83 4DKF 3 L, M FAb2 Light Chain 9606
84 1HEZ 1 A, C KAPPA LIGHT CHAIN OF IG 1-214 9606
85 3EFD 1 L FabL 10090
86 4LF3 1 A, D Fab heavy chain 10090
87 5K59 4 F, L Fab light chain 9606
88 5F3H 2 B, D, F, H humanized RK35 antibody light chain 10090
89 4G7Y 2 L Fragment antibody light chain 9606
90 4PY8 4 J antibody 3.1 light chain Fab 9606
91 3DVN 1 A, L Human IgG1 fab fragment light chain 9606
92 3UC0 3 L, M Light chain, monoclonal antibody 5H2 Fab 9598
93 4NNP 3 L, Y Light chain of antagonistic fab fragment 9606
94 4ERS 1 L Fab light chain 9606
95 1DEE 1 A, C, E IGM RF 2A2 FAB LIGHT CHAIN 9606
96 2WUC 5 L FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
97 4PY7 2 B, J antibody 3.1 light chain Fab 9606
98 4K8R 3 C Fab1, light chain 9606
99 1TZI 1 A Fab YADS2 Light Chain 10090
100 4YK4 1 B, Y 641 I-9 VLCL antibody 9606
101 3R1G 3 L FAB of YW412.8.31 antibody light chain 9606
102 2QQL 3 L Antibody Light Chain 9606
103 4MXV 2 E, L, X anti-Lymphotoxin alpha antibody light chain Fab 9606
104 3WD5 2 L Adalimumab Light Chain 9606
105 5GZO 3 D, L Antibody light chain 9606
106 2WUB 4 L, Q FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
107 2FJH 2 A, L Fab fragment light chain 9606
108 5XEZ 3 D, L Antibody, mAb1, light chain 9606
109 4K9E 1 L light chain 10090
110 3P0V 1 L, M Fab DL11 light chain 9606
111 3HMX 3 L USTEKINUMAB FAB LIGHT CHAIN 9606
112 5WUX 2 B, D, L light 9606
113 4I18 1 B, L antibody light chain Fab 10090
114 4Q9R 2 L Fab BL3-6, LIGHT CHAIN 10090
115 3IVK 1 B, L Fab light chain man 10090
116 5I19 1 L FAB LIGHT CHAIN 9606
117 5X8L 2 K, L, M, N, O atezolizumab light chain 9606
118 1RZI 1 A, C, E, G, I, K, M, O Fab 47e light chain 9606
119 2R56 2 L, M IgE Fab Fragment, light chain 9606
120 5CZV 3 L Fab 20350 light chain 9606
121 5XF1 3 D, L Antibody mAb1 Light chain 9606
122 4P59 3 L MOR09825 Fab fragment light chain 9606
123 5XXY 2 L light chain of atezolizumab fab 9606
124 5CJO 3 L FAB light chain 10090
125 3N85 2 L Fab37 Light Chain 9606
126 3G6J 3 E, G Fab light chain 9606
127 3HMW 1 L USTEKINUMAB FAB LIGHT CHAIN 9606
128 4DKE 3 L, M FAb1.1 Light Chain 9606
129 4NRY 1 B, L m66 Heavy Chain 9606
130 5VL7 4 L Fab33 light chain 9606
131 1S78 2 C, E Pertuzumab Fab light chain 10090
132 4NYL 1 B, D, F, L Adalimumab Light Chain 9606
133 5D1Q 1 A D2-06 Light Chain 9606
134 1ZA3 1 A, L Fab-YSd1 light chain Fab light chain 9606
135 3UAJ 3 D, L Light chain, monoclonal antibody 5H2 Fab 9598
136 4IOF 3 D, F Fab-bound IDE, light chain 10090
137 4M1C 3 D, F Fab-bound IDE, light chain 9606
138 2JIX 1 A, G, L ABT-007 FAB FRAGMENT 9606
139 3ULV 2 L Fab15 light chain 9606
140 4MXW 5 L, V anti-Lymphotoxin alpha antibody light chain Fab 9606
141 5JW3 4 L MEDI8852 light chain 9606
142 5CWS 1 A, G sAB-158 Fab Light Chain 9606
143 2R0K 2 L antibody light chain of Fab58 9606
144 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
145 4G80 3 B, D, F, H fragment antibody light chain 9606
146 3JWO 3 L FAB 48D LIGHT CHAIN 9606
147 3P11 2 L Fab DL11 light chain 9606
148 3ULU 2 L Fab15 light chain 9606
149 4XI5 3 C Fab-94 light chain 9606
150 4Q5Z 3 J, L, N, P, R, T, V, X IDE-bound Fab, light chain 10090
151 5JW4 4 N, P, T, V, X MEDI8852 light chain 9606
152 5JW4 6 R MEDI8852 light chain 9606
153 2QR0 1 A, E, G, K, M, Q, S, W Fab-Fragment Light Chain 9606
154 3EFF 1 A, C FAB 10090
155 3PJS 1 A, C FAB light chain 10090
156 5DWU 4 L Fab - Light Chain 9606
157 4XMN 6 L Antibody 87 light chain 32630
158 4XMM 8 L Antibody 57 light chain 9606
159 3J70 2 B, N, S monoclonal antibody 17b heavy chain 9606
160 3CM9 3 L, M, N, O Ig alpha-2 chain C region 9606
161 3CHN 1 L, M, N, O Immunoglobulin kappa light chain 9606
162 2QTJ 1 L, M, N, O Kappa light chain IgA1 9606
163 2ESG 1 L, M Immunoglobulin A1 light chain 9606
164 1R70 1 A, C Human IgA2(m1) Light Chain 9606
165 1IGA 2 C, D IGA1 CHAINS A AND B, HEAVY, CHAINS C AND D, LIGHT 9606