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structure nameCRYSTAL STRUCTURE OF HIV-1 REVERSE TRANSCRIPTASE COVALENTLY TETHERED TO DNA TEMPLATE-PRIMER SOLVED TO 2.8 ANGSTROMS
(REVERSE TRANSCRIPTASE)
referenceArnold et al. J.Virol. 78 3387 2004
sourceHUMAN IMMUNODEFICIENCY VIRUS 1
experimentX-ray (resolution=2.80, R-factor=0.239)
structural superfamilyDNA/RNA polymerases;Ribonuclease H-like;
sequence familyReverse transcriptase connection domain; Reverse transcriptase RNAdependent DNA; RNase H; Reverse transcriptase thumb domain;
multimeric complexes1hys_AB 1j5o_AB 1n5y_AB 1n6q_AB 1r0a_AB 1rtd_AB 1rtd_CD 1t03_AB 1t05_AB 2hmi_AB 3jsm_AB 3jyt_AB 3kjv_AB 3kk1_AB 3kk2_AB 3kk3_AB 3kle_AB 3kle_EF 3kle_MN 3klf_AB 3klf_EF 3klf_MN 3klg_AB 3klg_EF 3klh_AB 3v4i_AB 3v4i_CD 3v6d_AB 3v6d_CD 3v81_AB 3v81_CD 4b3o_AB 4b3p_AB 4b3q_AB 4pqu_AB 4pqu_CD 4puo_AB 4puo_CD 4pwd_AB 4pwd_CD 4q0b_AB 4q0b_CD 4r5p_AB 4r5p_CD 5d3g_AB 5d3g_CD 5hlf_AB 5hlf_CD 5hp1_AB 5hp1_CD 5hro_AB 5hro_CD 5i3u_AB 5i3u_CD 5i42_AB 5i42_CD 5j2m_AB 5j2n_AB 5j2p_AB 5j2q_AB 5txl_AB 5txl_CD 5txm_AB 5txm_CD 5txn_AB 5txn_CD 5txo_AB 5txo_CD 5txp_AB 5txp_CD 5xn0_AB 5xn0_CD 5xn1_AB 5xn1_CD 5xn2_AB 5xn2_CD 6amo_AB 6amo_CD 6an2_AB 6an2_CD 6an8_AB 6an8_CD 6anq_AB 6anq_CD 6asw_AB 6asw_CD 6avm_AB 6avm_CD 6avt_AB 6avt_CD 6bsg_AB 6bsh_AB 6bsi_AB 6bsj_AB 6ik9_AB 6ik9_CD 6ika_AB 6ika_CD 6kdj_AB 6kdj_CD 6kdk_AB 6kdk_CD 6kdm_AB 6kdm_CD 6kdn_AB 6kdn_CD 6kdo_AB 6kdo_CD 6o9e_AB 6o9e_CD 6or7_AB 6otz_AB 6oun_AB 6p1i_AB 6p1x_AB 6p2g_AB 6uir_AB 6uis_AB 6uit_AB 6ujx_AB 6ujy_AB 6ujz_AB 6uk0_AB 6vug_AB 6wpf_AB 6wph_AB 6wpj_AB 7ahx_AB 7ahx_CD 7aid_AB 7aid_CD 7aif_AB 7aif_CD 7aig_AB 7aig_CD 7aii_AB 7aii_CD 7aij_AB 7aij_CD 7dbm_AB 7dbm_CD 7dbn_AB 7dbn_CD 7lri_AB 7lri_CD 7lrm_AB 7lrm_CD 7lrx_AB 7lrx_CD 7lry_AB 7lry_CD 7lsk_AB 7lsk_CD 7ot6_AB 7ot6_CD 7ota_AB 7ota_CD 7otk_AB 7otk_CD 7otn_AB 7otn_CD 7otx_AB 7otx_CD 7otz_AB 7otz_CD 7out_AB 7out_CD 7oxq_AB 7oxq_CD 7oz2_AB 7oz2_CD 7oz5_AB 7oz5_CD 7ozw_AB 7p15_AB 7z24_AB 7z29_AB 7z2d_AB 7z2e_AB 7z2g_AB 7z2h_AB 8x1z_AB 8x1z_CD 8x20_AB 8x20_CD 8x21_AB 8x21_CD 8x22_AB 8x22_CD
redundant complexes3jyt 1n5y 1t03 1rtd 1hys 1n6q 2hmi 3jsm 1t05 1j5o
reference complex7ozw_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureIYPYMRRR

Estimated binding specificities ?

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# IC=4.960 IC/col=0.292 n_of_columns=17 specificity:   
A |   9   7  24  24  24  24  24   0   7  24  24  24  24  24  24   7   0
C |   7  73  24  24  24  24  24   0  73  24  24  24  24  24  24  75   0
G |   7   7  24  24  24  24  24   0   7  24  24  24  24  24  24   7  96
T |  73   9  24  24  24  24  24  96   9  24  24  24  24  24  24   7   0
scan!

Dendrogram of similar interfaces ?

matrix format
  
  WGTTKTFGICKTLADGRGIGYTQAPTYGMCRCRT----RC------------   L                +----------------1r0a_A    
                                                               +----------1 
  --------------DGRT----------------------------------       +-2          +----------------3fsi_A    
                                                             ! ! 
  --------------------------------------------------NC     --3 +---------------------------3i8d_A    
                                                             ! 
  ----------------------------------RGRG--WAECRGRGWC--   L   +----------------------------1gcc_A

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updated Thu Jan 8 19:00:12 2026