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 36912
95 % 1 2 26619 Flexibility: No
Max RMSD: 0.4, Avg RMSD: 0.4
PDBFlex
90 % 1 2 25670
70 % 73 207 127
50 % 73 207 147
40 % 73 207 161
30 % 73 210 177
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 % 19 40 873
95 % 20 46 828 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 20 46 859
70 % 20 46 909
50 % 20 46 953
40 % 20 46 983
30 % 20 46 963
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 18077
95 % 100 214 68 Flexibility: Low
Max RMSD: 1.5, Avg RMSD: 0.9
PDBFlex
90 % 469 865 2
70 % 1484 2765 1
50 % 3053 5625 1
40 % 3484 6382 1
30 % 4269 7934 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 17862
95 % 2 5 10881 Flexibility: Low
Max RMSD: 1.6, Avg RMSD: 1.1
PDBFlex
90 % 2 5 10719
70 % 1480 2728 2
50 % 3054 5625 1
40 % 3485 6382 1
30 % 4270 7934 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 5UCB 2 L Fab Light Chain 9606
2 3HC4 2 L IMMUNOGLOBULIN IGG1 FAB, LIGHT CHAIN 9606
3 5UEA 3 B, L Fab Light Chain 9606
4 5TDN 1 A, C anti-HER2 Fab Light Chain 9606
5 3NCJ 1 L Fab15 Mut8 light chain 9606
6 3HC3 2 L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
7 3NA9 1 L Fab15 light chain 9606
8 5UEK 3 L Fab 12E Light Chain 9606
9 3NAA 1 L Fab15 Mut5 light chain 9606
10 6BHZ 2 L, M Trastuzumab Anti-HER2 Fab Light Chain D185A 9606
11 5IT2 2 L light chain 9606
12 6B14 2 L Light chain of Fab BL3-6S97N 10090
13 5VKD 3 L Fab light chain 9606
14 5XHG 1 A, C polypeptide(L) 10090
15 5U4R 2 B, L VRC 315 53-1A09 Fab Light chain 9606
16 6BI2 2 L, M Trastuzumab Anti-HER2 Fab Light Chain 9606
17 5TDO 1 A, C anti-HER2 Fab Light Chain 9606
18 3P0Y 3 L Fab DL11 light chain 9606
19 6AOD 1 A FXIa Antibody FAB Light Chain 9606
20 6ELE 2 B, L fAB light chain 9606
21 3NAC 1 L Fab15 Mut7 light chain 9606
22 5WUV 1 L light chain 9606
23 5TDP 1 A, C anti-HER2 Fab Light Chain 9606
24 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
25 5XKU 2 B HNIgGA6 light chain 9606
26 3SOB 1 L antibody light chain 9606
27 4KQ3 1 L CNTO3186 light chain Fab 9606
28 3HC0 2 B, L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
29 6ELJ 2 B, L fAB light chain 9606
30 6CBV 2 L Light Chain, Fab fragment 9606
31 5JW5 2 B, L MEDI8852 Light chain 9606
32 5VAG 2 B Light chain of antibody m826 9606
33 6ELL 2 B, L fAB light chain 9606
34 2HFF 1 A, L CB2 Fab, light chain 9606
35 5GGV 1 L light chain 9606
36 5BJZ 3 H, L Synthetic antibody, Fab fragment, Light Chain 9606
37 2R8S 2 L Fab light chain 10090
38 4HKZ 1 A Trastuzumab light chain 9606
39 6DB8 3 L Fab-Light chain 32630
40 6MED 2 B, D, I antibody HEPC3 Light Chain 9606
41 4KMT 1 L light chain O12/KAPPA Fab 9606
42 6CW3 2 B, D antibody light chain 9606
43 6BLI 2 B, E, H, K CB002.5 Fab Light Chain 9606
44 4XTR 3 D, F Antibody Light chain 32630
45 1RZ7 1 L Fab 48d light chain 9606
46 3PGF 3 L SAB Light Chain 9606
47 2QQN 3 L Antibody light chain 9606
48 5CZX 3 D, L 20358 Fab light chain 9606
49 6BI0 2 L, M Trastuzumab anti-HER2 Fab Light Chain 9606
50 3GRW 2 L Fab light chain 9606
51 6B3K 2 L Light chain of Fab BL3-6 10090
52 6AYZ 2 C, D Fab Light Chain 9606
53 4KZD 2 L BL3-6 Fab antibody, light chain 10090
54 4XH2 2 B, D, F, I, K, L Fab Light Chain 9606
55 6B6Z 1 A, C Apo Fab Light Chain 9606
56 6EMJ 2 B, L fAb light chain 9606
57 6CNR 1 L Aducanumab light chain 9606
58 3PNW 1 A, D, G, J, M, P, S, V FAB light chain 32630
59 4NRX 3 B, E, L m66 Light Chain 9606
60 6DB9 3 L Fab-Light-Chain 32630
61 3HI6 3 L, Y light chain of Fab fragment of AL-57 against alpha L I domain 9606
62 4ZFG 3 L Fragment antigen binding 5A12 light chain 9606
63 2R0L 1 L antibody light chain 32630
64 5BK1 2 D, L Synthetic antibody, Fab fragment, Light Chain 9606
65 5VZ1 1 A, C Apo Antibody Fab Light Chain 9606
66 5OD8 2 B B2 Fab fragment - Light chain 9606
67 5GGU 2 B, L light chain 9606
68 5W2B 2 L Fab Light Chain 9606
69 6CO3 1 L Fab light chain 9606
70 6DF0 1 L 4G10-4D5 Antibody Light chain 32630
71 6DF1 1 L Anti-phosphotyrosine antibody 4G10-4D5 heavy chain 9606
72 3L95 1 A, L anti-NRR1 fab fragment light chain 9606
73 4KZE 2 L BL3-6 Fab antibody, light chain 10090
74 4XVU 3 D, F, J, L Antibody light chain 32630
75 3NAB 1 L Fab15 Mut6 light chain 9606
76 4Q9Q 2 L Fab BL3-6, LIGHT CHAIN 10090
77 4WV1 3 A, D Fab light chain 9606
78 5EII 2 B, L Fab Light Chain 9606
79 4UB0 2 L IgG1, light chain 9606
80 1FVD 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
81 1BJ1 1 J, L Fab fragment, light chain HUMANIZED VERSION OF A MONOCLONAL MURINE ANTI-VEGF ANTIBODY 10090
82 6BFT 1 B, L Avastin Light Chain Fab fragment mutant 9606
83 4K94 1 L Fab19 heavy chain 9606
84 5VEB 2 B, L anti-CDH6 Fab light chain 9606
85 5E08 2 L Fab Light Chain 9606
86 6AZ2 3 E, F Fab Light Chain 9606
87 1CZ8 2 L, X LIGHT CHAIN OF NEUTRALIZING ANTIBODY MUTATED FORM OF A HUMANIZED MURINE ANTIBODY LIGHT CHAIN 10090
88 4XAK 3 E, L Light chain of neutralizing antibody m336 9606
89 6DF2 1 A, L Anti-phosphotyrosine antibody c310-4D5 heavy chain 32630
90 4EDW 2 L tanezumab Fab light chain 9606
91 1FVE 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
92 2H9G 1 A, L Fab BdF1, light chain Fab fragment 9606
93 4G7V 2 L fragment antibody light chain 9606
94 5EU7 3 C, D FAB light chain 9606
95 3BDY 2 L Fab Fragment -Light Chain 9606
96 3FZU 1 D, L immunoglobulin IgG1 Fab, light chain 9606
97 3K2U 4 L Antibody, Fab fragment, Light Chain 9606
98 5VSH 2 B, D, F, L CH1/Clambda Fab light chain 9606
99 2HFG 1 L CB3s Fab light chain (kappa) 9606
100 3JWD 3 L, O FAB 48D LIGHT CHAIN 9606
101 4JQI 3 L Fab30 light chain 10090
102 3U30 2 B, E Light chain Fab 9606
103 5I15 1 L FAB LIGHT CHAIN 9606
104 2FJF 1 A, C, E, G, J, L, M, O, Q, S, U, W Light Chain of a VEGF binding Antibody 9606
105 5I1E 1 L FAB LIGHT CHAIN 9606
106 2QQK 3 L Antibody Light Chain 9606
107 4RRP 1 A, B, C, D, E, F Fab antibody, light chain 9606
108 4XGZ 2 B, D, F, I, K, L, N, P, R, T, V, X FAB LIGHT CHAIN 9606
109 1N8Z 1 A Herceptin Fab (antibody) - light chain 10090
110 5BK2 3 D, L sAB Light Chain 9606
111 1TZH 2 A, L Fab YADS1 Light Chain 10090
112 5BO1 3 L, M Fab light chain 9606
113 4M6O 1 L CNTO7309 light chain 9606
114 4DVR 2 L Fab 48d Light chain 9606
115 4XWO 3 D, F, J, L, P, R, V, X Antibody light chain 32630
116 4ZFF 2 B, L Fragment antigen binding (Fab) 5A12 Light chain 9606
117 3HI5 2 L light chain of Fab fragment of AL-57 against alpha L I domain 9606
118 6BGT 2 A Herceptin light chain mutant 9606
119 3DVG 1 A Human IgG1 fab fragment light chain 9606
120 2FGW 1 L H52 FAB (LIGHT CHAIN) 9606
121 2FJG 2 A, L Fab light chain 9606
122 4DKF 3 L, M FAb2 Light Chain 9606
123 1HEZ 1 A, C KAPPA LIGHT CHAIN OF IG 1-214 9606
124 6MEJ 5 L antibody HEPC3 Light Chain 9606
125 3EFD 1 L FabL 10090
126 4LF3 1 A, D Fab heavy chain 10090
127 5K59 4 F, L Fab light chain 9606
128 5F3H 2 B, D, F, H humanized RK35 antibody light chain 10090
129 4G7Y 2 L Fragment antibody light chain 9606
130 4PY8 4 J antibody 3.1 light chain Fab 9606
131 3DVN 1 A, L Human IgG1 fab fragment light chain 9606
132 4NNP 3 L, Y Light chain of antagonistic fab fragment 9606
133 4ERS 1 L Fab light chain 9606
134 1DEE 1 A, C, E IGM RF 2A2 FAB LIGHT CHAIN 9606
135 2WUC 5 L FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
136 6CYF 2 C, E, L, T IgG1 antibody, kappa light chain 9606
137 4PY7 2 B, J antibody 3.1 light chain Fab 9606
138 1TZI 1 A Fab YADS2 Light Chain 10090
139 4YK4 1 B, Y 641 I-9 VLCL antibody 9606
140 6MEI 3 L antibody HEPC3 Light Chain 9606
141 3R1G 3 L FAB of YW412.8.31 antibody light chain 9606
142 2QQL 3 L Antibody Light Chain 9606
143 4MXV 2 E, L, X anti-Lymphotoxin alpha antibody light chain Fab 9606
144 3WD5 2 L Adalimumab Light Chain 9606
145 5GZO 3 D, L Antibody light chain 9606
146 2WUB 4 L, Q FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
147 6CW2 4 B antibody light chain 9606
148 3BE1 3 L Fab Fragment-Light Chain 9606
149 2FJH 2 A, L Fab fragment light chain 9606
150 5XEZ 3 D, L Antibody, mAb1, light chain 9606
151 4K9E 1 L light chain 10090
152 3P0V 1 L, M Fab DL11 light chain 9606
153 3HMX 3 L USTEKINUMAB FAB LIGHT CHAIN 9606
154 6I04 3 D, L Fab light chain 9606
155 5WUX 2 B, D, L light 9606
156 4I18 1 B, L antibody light chain Fab 10090
157 4Q9R 2 L Fab BL3-6, LIGHT CHAIN 10090
158 3IVK 1 B, L Fab light chain man 10090
159 5I19 1 L FAB LIGHT CHAIN 9606
160 5X8L 2 K, L, M, N, O atezolizumab light chain 9606
161 1RZI 1 A, C, E, G, I, K, M, O Fab 47e light chain 9606
162 2R56 2 L, M IgE Fab Fragment, light chain 9606
163 6APB 3 L ADI-14359 Fab Light Chain 9606
164 5CZV 3 L Fab 20350 light chain 9606
165 5XF1 3 D, L Antibody mAb1 Light chain 9606
166 4P59 3 L MOR09825 Fab fragment light chain 9606
167 5XXY 2 L light chain of atezolizumab fab 9606
168 5CJO 3 L FAB light chain 10090
169 3N85 2 L Fab37 Light Chain 9606
170 3G6J 3 E, G Fab light chain 9606
171 3HMW 1 L USTEKINUMAB FAB LIGHT CHAIN 9606
172 5O4G 2 A MF3958 FAB light chain 9606
173 4DKE 3 L, M FAb1.1 Light Chain 9606
174 6MEK 3 D, L HEPC3 Light Chain 9606
175 4NRY 1 B, L m66 Heavy Chain 9606
176 5XHF 1 A, C polypeptide (L chain) 10090
177 5VL7 4 L Fab33 light chain 9606
178 6DEZ 1 A, L Anti-phosphotyrosine antibody PY20-4D5 light chain 32630
179 1S78 2 C, E Pertuzumab Fab light chain 10090
180 5O4O 1 A MF3178 FAB light chain 9606
181 5D1Q 1 A D2-06 Light Chain 9606
182 1ZA3 1 A, L Fab-YSd1 light chain Fab light chain 9606
183 4IOF 3 D, F Fab-bound IDE, light chain 10090
184 4M1C 3 D, F Fab-bound IDE, light chain 9606
185 2JIX 1 A, G, L ABT-007 FAB FRAGMENT 9606
186 3ULV 2 L Fab15 light chain 9606
187 4MXW 5 L, V anti-Lymphotoxin alpha antibody light chain Fab 9606
188 5UOE 3 L, N, Q, T, W FAB light chain 9606
189 5JW3 4 L MEDI8852 light chain 9606
190 5CWS 1 A, G sAB-158 Fab Light Chain 9606
191 2R0K 2 L antibody light chain of Fab58 9606
192 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
193 4G80 3 B, D, F, H fragment antibody light chain 9606
194 3JWO 3 L FAB 48D LIGHT CHAIN 9606
195 3P11 2 L Fab DL11 light chain 9606
196 3ULU 2 L Fab15 light chain 9606
197 4XI5 3 C Fab-94 light chain 9606
198 5WOB 4 J, L, N, P, R, T, V, X IDE-bound Fab light chain 60742
199 5JW4 4 N, P, T, V, X MEDI8852 light chain 9606
200 5JW4 6 R MEDI8852 light chain 9606
201 2QR0 1 A, E, G, K, M, Q, S, W Fab-Fragment Light Chain 9606
202 3EFF 1 A, C FAB 10090
203 3PJS 1 A, C FAB light chain 10090
204 5O7P 2 A MF3178 FAB light chain 9606
205 5DWU 4 L Fab - Light Chain 9606
206 4XMN 6 L Antibody 87 light chain 32630
207 4XMM 8 L Antibody 57 light chain 9606
208 6E1K 2 C, E cat06 light chain 9606
209 6CMO 5 L Fab light chain 32630
210 6BF7 3 D, F Fab H11-E light chain 10090
211 6BF9 3 D, F Fab H11-E light chain 10090
212 6B7Z 3 D, F FAB H11 light chain 10090
213 6B70 3 D, F FAB H11-E light chain 10090
214 3J70 2 B, N, S monoclonal antibody 17b heavy chain 9606