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 35296
95 % 1 2 22633 Flexibility: Low
Max RMSD: 0.6, Avg RMSD: 0.6
PDBFlex
90 % 1 2 21963
70 % 70 130 184
50 % 70 130 225
40 % 70 130 242
30 % 70 133 251
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 38 733
95 % 20 43 881 Flexibility: Low
Max RMSD: 2.4, Avg RMSD: 1.2
PDBFlex
90 % 20 43 915
70 % 20 43 944
50 % 20 43 976
40 % 20 43 1006
30 % 20 43 990
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 15993
95 % 92 209 56 Flexibility: Low
Max RMSD: 6.5, Avg RMSD: 2.2
PDBFlex
90 % 438 788 2
70 % 1361 2474 1
50 % 2781 5011 1
40 % 2781 5011 1
30 % 3222 5941 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 15930
95 % 2 5 9612 Flexibility: Low
Max RMSD: 1.4, Avg RMSD: 1.0
PDBFlex
90 % 2 5 9512
70 % 1349 2424 2
50 % 2782 5011 1
40 % 2782 5011 1
30 % 3223 5941 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 4PUB 2 L DX-2930 LIGHT CHAIN 9606
13 6B14 2 L Light chain of Fab BL3-6S97N 10090
14 5XHG 1 A, C polypeptide(L) 562
15 6BI2 2 L, M Trastuzumab Anti-HER2 Fab Light Chain 9606
16 5TDO 1 A, C anti-HER2 Fab Light Chain 9606
17 3P0Y 3 L Fab DL11 light chain 9606
18 6AOD 1 A FXIa Antibody FAB Light Chain 9606
19 6ELE 2 B, L fAB light chain 9606
20 3NAC 1 L Fab15 Mut7 light chain 9606
21 5WUV 1 L light chain 9606
22 5TDP 1 A, C anti-HER2 Fab Light Chain 9606
23 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
24 5XKU 2 B HNIgGA6 light chain 9606
25 3SOB 1 L antibody light chain 9606
26 4KQ3 1 L CNTO3186 light chain Fab 9606
27 3HC0 2 B, L IMMUNOGLOBULIN IGG1 FAB, HEAVY CHAIN 9606
28 6ELJ 2 B, L fAB light chain 9606
29 5JW5 2 B, L MEDI8852 Light chain 9606
30 5VAG 2 B Light chain of antibody m826 9606
31 6ELL 2 B, L fAB light chain 9606
32 2HFF 1 A, L CB2 Fab, light chain 9606
33 1VGE 1 L TR1.9 FAB FAB FRAGMENT OF A HUMAN IGG1 KAPPA AUTOANTIBODY 9606
34 5GGV 1 L light chain 9606
35 5BJZ 3 H, L Synthetic antibody, Fab fragment, Light Chain 9606
36 2R8S 2 L Fab light chain 10090
37 4HKZ 1 A Trastuzumab light chain 9606
38 5ITB 2 L anti-RSV F Fab 14N4 Light chain 9606
39 4KMT 1 L light chain O12/KAPPA Fab 9606
40 6BLI 2 B, E, H, K CB002.5 Fab Light Chain 9606
41 4XTR 3 D, F Antibody Light chain 32630
42 1RZ7 1 L Fab 48d light chain 9606
43 3PGF 3 L SAB Light Chain 9606
44 2QQN 3 L Antibody light chain 9606
45 4OGY 3 L, N DX-2930 LIGHT CHAIN 9606
46 5CZX 3 D, L 20358 Fab light chain 9606
47 6BI0 2 L, M Trastuzumab anti-HER2 Fab Light Chain 9606
48 3GRW 2 L Fab light chain 9606
49 6B3K 2 L Light chain of Fab BL3-6 10090
50 6AYZ 2 C, D Fab Light Chain 9606
51 4LKC 1 A Fab fragment of PCSK9 antibody 9606
52 4KZD 2 L BL3-6 Fab antibody, light chain 10090
53 4XH2 2 B, D, F, I, K, L Fab Light Chain 9606
54 6EMJ 2 B, L fAb light chain 9606
55 3PNW 1 A, D, G, J, M, P, S, V FAB light chain 32630
56 4NRX 3 B, E, L m66 Light Chain 9606
57 3HI6 3 L, Y light chain of Fab fragment of AL-57 against alpha L I domain 9606
58 4ZFG 3 L Fragment antigen binding 5A12 light chain 9606
59 2R0L 1 L antibody light chain 32630
60 5BK1 2 D, L Synthetic antibody, Fab fragment, Light Chain 9606
61 5GGU 2 B, L light chain 9606
62 3BN9 2 C, E E2 Fab Light Chain 9606
63 3L95 1 A, L anti-NRR1 fab fragment light chain 9606
64 4OGX 3 L DX-2930 LIGHT CHAIN 9606
65 4KZE 2 L BL3-6 Fab antibody, light chain 10090
66 4XVU 3 D, F, J, L Antibody light chain 32630
67 3NAB 1 L Fab15 Mut6 light chain 9606
68 4Q9Q 2 L Fab BL3-6, LIGHT CHAIN 10090
69 4WV1 3 A, D Fab light chain 9606
70 5EII 2 B, L Fab Light Chain 9606
71 4UB0 2 L IgG1, light chain 9606
72 1FVD 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
73 1BJ1 1 J, L FAB FRAGMENT HUMANIZED VERSION OF A MONOCLONAL MURINE ANTI-VEGF ANTIBODY 10090
74 4K94 1 L Fab19 heavy chain 9606
75 4ZD3 2 L 679-14-14E06 Fab fragment light chain 9606
76 5VEB 2 B, L anti-CDH6 Fab light chain 9606
77 5E08 2 L Fab Light Chain 9606
78 6AZ2 3 E, F Fab Light Chain 9606
79 1CZ8 2 L, X LIGHT CHAIN OF NEUTRALIZING ANTIBODY MUTATED FORM OF A HUMANIZED MURINE ANTIBODY LIGHT CHAIN 10090
80 4XAK 3 E, L Light chain of neutralizing antibody m336 9606
81 4EDW 2 L tanezumab Fab light chain 9606
82 1FVE 1 A, C IGG1-KAPPA 4D5 FAB (LIGHT CHAIN) 9606
83 2H9G 1 A, L Fab BdF1, light chain Fab fragment 9606
84 4G7V 2 L fragment antibody light chain 9606
85 5EU7 3 C, D FAB light chain 9606
86 1DFB 1 L IGG1-KAPPA 3D6 FAB (LIGHT CHAIN) 9606
87 4U6V 2 L, M Fab, antigen binding fragment, light chain 9606
88 3FZU 1 D, L immunoglobulin IgG1 Fab, light chain 9606
89 3K2U 4 L Antibody, Fab fragment, Light Chain 9606
90 5VSH 2 B, D, F, L CH1/Clambda Fab light chain 9606
91 2HFG 1 L CB3s Fab light chain (kappa) 9606
92 3JWD 3 L, O FAB 48D LIGHT CHAIN 9606
93 4JQI 3 L Fab30 light chain 10090
94 3SKJ 1 L, M Antibody, light chain 9606
95 3U30 2 B, E Light chain Fab 9606
96 5I15 1 L FAB LIGHT CHAIN 9606
97 2FJF 1 A, C, E, G, J, L, M, O, Q, S, U, W Light Chain of a VEGF binding Antibody 9606
98 5I1E 1 L FAB LIGHT CHAIN 9606
99 2QQK 3 L Antibody Light Chain 9606
100 4RRP 1 A, B, C, D, E, F Fab antibody, light chain 9606
101 4XGZ 2 B, D, F, I, K, L, N, P, R, T, V, X FAB LIGHT CHAIN 9606
102 1N8Z 1 A Herceptin Fab (antibody) - light chain 10090
103 5BK2 3 D, L sAB Light Chain 9606
104 1TZH 2 A, L Fab YADS1 Light Chain 10090
105 5BO1 3 L, M Fab light chain 9606
106 4M6O 1 L CNTO7309 light chain 9606
107 4DVR 2 L Fab 48d Light chain 9606
108 4XWO 3 D, F, J, L, P, R, V, X Antibody light chain 32630
109 4ZFF 2 B, L Fragment antigen binding (Fab) 5A12 Light chain 9606
110 3HI5 2 L light chain of Fab fragment of AL-57 against alpha L I domain 9606
111 3DVG 1 A Human IgG1 fab fragment light chain 9606
112 2FGW 1 L H52 FAB (LIGHT CHAIN) 9606
113 2FJG 2 A, L Fab light chain 9606
114 4DKF 3 L, M FAb2 Light Chain 9606
115 1HEZ 1 A, C KAPPA LIGHT CHAIN OF IG 1-214 9606
116 3EFD 1 L FabL 10090
117 4LF3 1 A, D Fab heavy chain 10090
118 5K59 4 F, L Fab light chain 9606
119 5F3H 2 B, D, F, H humanized RK35 antibody light chain 10090
120 4G7Y 2 L Fragment antibody light chain 9606
121 4PY8 4 J antibody 3.1 light chain Fab 9606
122 3DVN 1 A, L Human IgG1 fab fragment light chain 9606
123 3UC0 3 L, M Light chain, monoclonal antibody 5H2 Fab 9598
124 4NNP 3 L, Y Light chain of antagonistic fab fragment 9606
125 4ERS 1 L Fab light chain 9606
126 1DEE 1 A, C, E IGM RF 2A2 FAB LIGHT CHAIN 9606
127 2WUC 5 L FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
128 4PY7 2 B, J antibody 3.1 light chain Fab 9606
129 4K8R 3 C Fab1, light chain 9606
130 1TZI 1 A Fab YADS2 Light Chain 10090
131 4YK4 1 B, Y 641 I-9 VLCL antibody 9606
132 3R1G 3 L FAB of YW412.8.31 antibody light chain 9606
133 2QQL 3 L Antibody Light Chain 9606
134 4MXV 2 E, L, X anti-Lymphotoxin alpha antibody light chain Fab 9606
135 3WD5 2 L Adalimumab Light Chain 9606
136 5GZO 3 D, L Antibody light chain 9606
137 2WUB 4 L, Q FAB FRAGMENT FAB40.DELTATRP LIGHT CHAIN 9606
138 2FJH 2 A, L Fab fragment light chain 9606
139 5XEZ 3 D, L Antibody, mAb1, light chain 9606
140 4K9E 1 L light chain 10090
141 3P0V 1 L, M Fab DL11 light chain 9606
142 5VIG 2 B, L Fab light chain 9606
143 3HMX 3 L USTEKINUMAB FAB LIGHT CHAIN 9606
144 5VYF 1 A, L Antibody light chain 10090
145 5WUX 2 B, D, L light 9606
146 4I18 1 B, L antibody light chain Fab 10090
147 4Q9R 2 L Fab BL3-6, LIGHT CHAIN 10090
148 3IVK 1 B, L Fab light chain man 10090
149 5I19 1 L FAB LIGHT CHAIN 9606
150 5X8L 2 K, L, M, N, O atezolizumab light chain 9606
151 1RZI 1 A, C, E, G, I, K, M, O Fab 47e light chain 9606
152 2R56 2 L, M IgE Fab Fragment, light chain 9606
153 6APB 3 L ADI-14359 Fab Light Chain 9606
154 5CZV 3 L Fab 20350 light chain 9606
155 5XF1 3 D, L Antibody mAb1 Light chain 9606
156 4P59 3 L MOR09825 Fab fragment light chain 9606
157 5XXY 2 L light chain of atezolizumab fab 9606
158 5CJO 3 L FAB light chain 10090
159 3N85 2 L Fab37 Light Chain 9606
160 3G6J 3 E, G Fab light chain 9606
161 5GJT 3 L light chain of human neutralizing antibody 3E1 light chain of neutralizing antibody 3E1 9606
162 3HMW 1 L USTEKINUMAB FAB LIGHT CHAIN 9606
163 4DKE 3 L, M FAb1.1 Light Chain 9606
164 5VIC 2 L Fab light chain 9606
165 5GJS 3 L light chain of human neutralizing antibody 3E1 9606
166 4NRY 1 B, L m66 Heavy Chain 9606
167 5XHF 1 A, C polypeptide (L chain) 10090
168 5VL7 4 L Fab33 light chain 9606
169 1S78 2 C, E Pertuzumab Fab light chain 10090
170 4NYL 1 B, D, F, L Adalimumab Light Chain 9606
171 5D1Q 1 A D2-06 Light Chain 9606
172 1ZA3 1 A, L Fab-YSd1 light chain Fab light chain 9606
173 3UAJ 3 D, L Light chain, monoclonal antibody 5H2 Fab 9598
174 4IOF 3 D, F Fab-bound IDE, light chain 10090
175 4M1C 3 D, F Fab-bound IDE, light chain 9606
176 2JIX 1 A, G, L ABT-007 FAB FRAGMENT 9606
177 3ULV 2 L Fab15 light chain 9606
178 4MXW 5 L, V anti-Lymphotoxin alpha antibody light chain Fab 9606
179 5UOE 3 L, N, Q, T, W FAB light chain 9606
180 5JW3 4 L MEDI8852 light chain 9606
181 5CWS 1 A, G sAB-158 Fab Light Chain 9606
182 2R0K 2 L antibody light chain of Fab58 9606
183 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
184 4G80 3 B, D, F, H fragment antibody light chain 9606
185 3JWO 3 L FAB 48D LIGHT CHAIN 9606
186 3P11 2 L Fab DL11 light chain 9606
187 3ULU 2 L Fab15 light chain 9606
188 4XI5 3 C Fab-94 light chain 9606
189 5WOB 4 J, L, N, P, R, T, V, X IDE-bound Fab light chain 60742
190 5JW4 4 N, P, T, V, X MEDI8852 light chain 9606
191 5JW4 6 R MEDI8852 light chain 9606
192 2QR0 1 A, E, G, K, M, Q, S, W Fab-Fragment Light Chain 9606
193 5J3D 2 B, D, L 14N4 light chain 9606
194 3EFF 1 A, C FAB 10090
195 3PJS 1 A, C FAB light chain 10090
196 5DWU 4 L Fab - Light Chain 9606
197 4XMN 6 L Antibody 87 light chain 32630
198 4XMM 8 L Antibody 57 light chain 9606
199 6BF7 3 D, F Fab H11-E light chain 10090
200 6BF9 3 D, F Fab H11-E light chain 10090
201 6B7Z 3 D, F FAB H11 light chain 10090
202 6B70 3 D, F FAB H11-E light chain 10090
203 3J70 2 B, N, S monoclonal antibody 17b heavy chain 9606
204 3CM9 3 L, M, N, O Ig alpha-2 chain C region 9606
205 3CHN 1 L, M, N, O Immunoglobulin kappa light chain 9606
206 2QTJ 1 L, M, N, O Kappa light chain IgA1 9606
207 2ESG 1 L, M Immunoglobulin A1 light chain 9606
208 1R70 1 A, C Human IgA2(m1) Light Chain 9606
209 1IGA 2 C, D IGA1 CHAINS A AND B, HEAVY, CHAINS C AND D, LIGHT 9606