TABLE 2.

Selective CD8 escape mutations observed in chronic Gag and Pol HLA-B57 epitopes

Subject or groupSequence for the following epitope:
Gag B57-TW10aGag B57-IW9bPol B57-SW10cPol B57-IW9dGag B57-QW9eGag B57-KF11ePol B57-KF9e
ConsensusTSTLQEQYGWAISPRTLNAWfSTTVKAACWWIVLPEKDSWQASQEVKNWKAFSPEVIPMFKTAVQMAVF
AC-38--N-----A--L---------N---------M------------------------------------
PRLS22--N-----T--L-------------------E------------------------------------
PRLS12--N-----A--L---------NAL-------E------------------------------------
MS--N-----A-P----------N-------------------T--------------------------
CN 641 114--N-----A-PL---------NA-----------D------T--------------------------
F719--N-------PL---------N---------------------D-----N---------R--------
EB 570 825--N-----A-PL---------AA--------M----E-----------------I-------------
RRM--N-----A------------N---------M--N------T--------------------------
7780--N-------P----------N-------------------------------------
696----------P----------N---------E------------------------------------
AC-57--N-----A------------NV--------K---------------------------L
LANL clade Bg----------(52/61)----------(35/59)----------(25/39)---------(31/40)---------(35/59)-----------(57/62)---------(38/41)
--------N-(5/61)P---------(11/59)-A--------(5/39)-M-------(5/40)----D----(16/59)-----K-----(2/62)----H----(1/41)
--------A-(3/61)-L--------(8/59)--A-------(3/39)-T-------(2/40)--T------(4/59)------I----(1/62)-R-------(1/41)
--N-----A-(1/61)P--------R(1/59)GA--R-----(2/39)----H----(1/40)-CT-D----(2/59)------M----(1/62)--------L(1/41)
--------R-(1/61)P--A--F---(1/59)-N--------(1/39)-K----E--(1/40)--------R(1/59)------G----(1/62)
------H---(1/61)------F---(1/59)-NA-------(1/39)--T-D----(1/59)
---A------(1/59)-NS-------(1/39)
S---------(1/59)-AA-------(1/39)
  • a For T242N and G248A, P < 0.0001.

  • b For A146P, P < 0.05; for I147L, P < 0.01.

  • c For T840N, P < 0.0005; T841A is not statistically significant.

  • d For V401K, P < 0.005.

  • e Mutations at this epitope are not statistically significant.

  • f A CD8 escape processing mutation (A→P) immediately 5′ of B57-IW9 (underlined) has been described previously (17).

  • g The predominant form of each epitope in the LANL HIV Sequence Database is boldfaced. The number of viruses with a particular sequence/total viruses is given in parentheses.