Structural classification of CDR-H3 in antibodies

被引:139
作者
Shirai, H [1 ]
Kidera, A [1 ]
Nakamura, H [1 ]
机构
[1] BIOMOL ENGN RES INST,DEPT BIOINFORMAT,SUITA,OSAKA 565,JAPAN
关键词
antibody; complementarity determining region; loop modeling; structure classification;
D O I
10.1016/S0014-5793(96)01252-5
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Large varieties in the lengths and the amino acid sequences of the third complementarity determining region of the antibody heavy chain (CDR-H3) have made it difficult to establish a relationship between the sequences and the tertiary structures, in contrast to the other CDRs, which are classified by their canonical structures. A total of 55 CDR-H3 segments from ,veil determined crystal structures were analyzed, and we have derived several remarkable rules, which could partly govern the CDR-H3 conformation dependence on the sequence. Since the rules are physically reasonable, they are expected to be applicable to structural modeling and design of antibodies.
引用
收藏
页码:1 / 8
页数:8
相关论文
共 41 条
[1]  
Bajorath J, 1996, PROTEINS, V24, P152, DOI 10.1002/(SICI)1097-0134(199602)24:2<152::AID-PROT2>3.0.CO
[2]  
2-L
[3]  
BARRY MM, 1994, J BIOL CHEM, V269, P3623
[4]   PROTEIN DATA BANK - COMPUTER-BASED ARCHIVAL FILE FOR MACROMOLECULAR STRUCTURES [J].
BERNSTEIN, FC ;
KOETZLE, TF ;
WILLIAMS, GJB ;
MEYER, EF ;
BRICE, MD ;
RODGERS, JR ;
KENNARD, O ;
SHIMANOUCHI, T ;
TASUMI, M .
JOURNAL OF MOLECULAR BIOLOGY, 1977, 112 (03) :535-542
[5]   STRUCTURE OF ANTIBODY HYPERVARIABLE LOOPS REPRODUCED BY A CONFORMATIONAL SEARCH ALGORITHM [J].
BRUCCOLERI, RE ;
HABER, E ;
NOVOTNY, J .
NATURE, 1988, 335 (6190) :564-568
[6]   SIGNIFICANT STRUCTURAL AND FUNCTIONAL CHANGE OF AN ANTIGEN-BINDING SITE BY A DISTANT AMINO-ACID SUBSTITUTION - PROPOSAL OF A STRUCTURAL MECHANISM [J].
CHIEN, NC ;
ROBERTS, VA ;
GIUSTI, AM ;
SCHARFF, MD ;
GETZOFF, ED .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1989, 86 (14) :5532-5536
[7]   CANONICAL STRUCTURES FOR THE HYPERVARIABLE REGIONS OF IMMUNOGLOBULINS [J].
CHOTHIA, C ;
LESK, AM .
JOURNAL OF MOLECULAR BIOLOGY, 1987, 196 (04) :901-917
[8]   CONFORMATIONS OF IMMUNOGLOBULIN HYPERVARIABLE REGIONS [J].
CHOTHIA, C ;
LESK, AM ;
TRAMONTANO, A ;
LEVITT, M ;
SMITHGILL, SJ ;
AIR, G ;
SHERIFF, S ;
PADLAN, EA ;
DAVIES, D ;
TULIP, WR ;
COLMAN, PM ;
SPINELLI, S ;
ALZARI, PM ;
POLJAK, RJ .
NATURE, 1989, 342 (6252) :877-883
[9]   STRUCTURAL REPERTOIRE OF THE HUMAN V(H) SEGMENTS [J].
CHOTHIA, C ;
LESK, AM ;
GHERARDI, E ;
TOMLINSON, IM ;
WALTER, G ;
MARKS, JD ;
LLEWELYN, MB ;
WINTER, G .
JOURNAL OF MOLECULAR BIOLOGY, 1992, 227 (03) :799-817
[10]  
Chou P Y, 1978, Adv Enzymol Relat Areas Mol Biol, V47, P45