Table 5

B pocket structures of reference panel alleles.

Residues1

Key residues

Reference panel allele(s)

Associated supertype(s)

Specificity


YDSVENIFNY

DENIFNY

B*0801-2

B08

Undefined

YFAVMEKVHC

FMEKVHC

A*0207

A02

Small and aliphatic

YFAVMEKVHF

FMEKVHF

A*0217

A02

Small and aliphatic

YFAVMEKVHY

FMEKVHY

A*0201-4

A02

Small and aliphatic

YFAVMENMHY

FMENMHY

A*0101

A01

Small and aliphatic

YFAVMENVHY

FMENVHY

A*3201, A*7401

A01 A03

Small and aliphatic

YFAVMENVQY

FMENVQY

A*0301

A03

Small and aliphatic

YHSVTEISNS

HTEISNS

B*3701

B44

Acidic

YHSVTNISNY

HTNISNY

B*1801

B44

Acidic

YHTVEEICKY

HEEICKY

B*2702-7, B*2709

B27

Basic

YHTVENICKY

HENICKY

B*7301

B27

Basic

YHTVKEISNY

HKEISNY

B*4001-2, B*4006, B*4501

B44

Acidic

YSAVMEKVHF

SMEKVHF

A*2301, A*2402

A24

Aromatic and aliphatic

YSAVMENVHY

SMENVHY

A*3002-4

A01

Small and aliphatic

YSAVMENVQY

SMENVQY

A*3001

A01 A03

Small and aliphatic

YTAVMENVHY

TMENVHY

A*3101

A03

Small and aliphatic

YTAVMNNVHY

TMNNVHY

A*3301, A*3303

A03

Small and aliphatic

YTAVMQNVQY

TMQNVQY

A*2902

A01 A24

Small, aliphatic and aromatic

YYAVENIYQY

YENIYQY

B*5501-2, B*5601

B07

Proline

YYAVGNIYQY

YGNIYQY

B*5401

B07

Proline

YYAVMEISNY

YMEISNY

B*1501, B*1512

B62

Aliphatic

YYAVMEKVHY

YMEKVHY

A*0205, A*0206, A*0214

A02

Small and aliphatic

YYAVMEKYQY

YMEKYQY

B*4601

B62

Aliphatic

YYAVMENMSY

YMENMSY

B*1516-17, B*5701-2

B58

Small

YYAVMENVQY

YMENVQY

A*1101

A03

Small and aliphatic

YYAVMNIFNY

YMNIFNY

B*1508

B07

Proline

YYAVMNISNY

YMNISNY

B*1502, B*1513

B62

Aliphatic

YYAVMNNVHY

YMNNVHY

A*2601-3

A01

Small and aliphatic

YYAVMNNVQY

YMNNVQY

A*6601, A*6801-2, A*6901

A02 A03

Small and aliphatic

YYAVTEISNY

YTEISNY

B*5201

B62

Aliphatic

YYAVTENMSY

YTENMSY

B*5801-2

B58

Small

YYAVTNIFNY

YTNIFNY

B*3501, B*3503, B*5101-3, B*5301, B*7801

B07

Proline

YYSVEEISNY

YEEISNY

B*1503, B*3902, B*4801

B27

Basic

YYSVENICNS

YENICNS

B*3909

B27

Basic

YYSVENICNY

YENICNY

B*1402, B*1509-10, B*1518, B*3801, B*3901

B27

Basic

YYSVENIYNY

YENIYNY

B*0703

B07

Proline

YYSVENIYQY

YENIYQY

B*0702, B*0705, B*4201, B*6701

B07

Proline

YYTVKEISNY

YKEISNY

B*4402-3

B44

Acidic


1. Based on data presented in Saper et al, and Madden (see Methods), the MHC residues utilized as constituting the B pocket are: 7, 9, 24, 34, 45, 63, 66, 67, 70, and 99. Key residues are those in positions 9, 45, 63, 66, 67, 70, and 99.

Sidney et al. BMC Immunology 2008 9:1   doi:10.1186/1471-2172-9-1

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