2026-09-23 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY RCSB RCSB 2026-09-09 2026-09-23 2026-09-23 2026-09-23 National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) R01AI190168 United States National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM124204 United States AAV2 Rep68(delta1-209)/capsid/DNA complex Kaelber JT Barnakov V Shen J Escalante CR virion, replicase, VIRUS Kaelber JT Barnakov V Shen J Hernandez K Tarbox HJ Khan A Escalante CR Insights into the AAV packaging mechanism: Cryo-EM Structure of the AAV2 Rep-Capsid Packaging Complex To Be Published 0353 EMD-76510 other EM volume
analogous experiment with crosslinked protein & absent DNA
 38ok FULLOVERLAP PDB 12KG unspecified
analogous experiment with crosslinked protein & absent DNA
 EMDB EMD-76510 other EM volume
analogous experiment with crosslinked protein & absent DNA
 EMDB EMD-79003 associated EM volume
AAV2 Rep68(delta1-209)/capsid/DNA complex
 adeno-associated virus 2 adeno-associated virus 2 0 1 3 adeno-associated virus 2 Srivastava/1982 Homo sapiens 6.2 280.0 1 VIRUS-LIKE PARTICLE STRAIN false true Protein Rep68 Adeno-associated virus 2 Srivastava/1982 0.031403645
Deletion construct lacking residues 1-209 from AAV2 rep68
6 Escherichia coli BL21(DE3) LEVO APVIRSKTSARYMELVGWLVDKGITSEKQWIQEDQASYISFNAASNSRSQIKAALDNAGKIMSLTKTAPDYLVGQQPVED ISSNRIYKILELNGYDPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDK MVIWWEEGKMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFELTR RLDHDFGKVTKQEVKDFFRWAKDHVVEVEHEFYVKKGG P03132 3.6.4.12 ssDNA synthetic construct 0.001215713 1 (DN)(DN)(DN)(DN)(DN)(DN)(DN) DNA Capsid protein VP1 Adeno-associated virus 2 Srivastava/1982 0.058027894999999996 5 Homo sapiens LEVO GNWHCDSTWMGDRVITTSTRTWALPTYNNHLYKQISSQSGASNDNHYFGYSTPWGYFDFNRFHCHFSPRDWQRLINNNWG FRPKRLNFKLFNIQVKEVTQNDGTTTIANNLTSTVQVFTDSEYQLPYVLGSAHQGCLPPFPADVFMVPQYGYLTLNNGSQ AVGRSSFYCLEYFPSQMLRTGNNFTFSYTFEDVPFHSSYAHSQSLDRLMNPLIDQYLYYLSRTNTPSGTTTQSRLQFSQA GASDIRDQSRNWLPGPCYRQQRVSKTSADNNNSEYSWTGATKYHLNGRDSLVNPGPAMASHKDDEEKFFPQSGVLIFGKQ GSEKTNVDIEKVMITDEEEIRTTNPVATEQYGSVSTNLQRGNRQAATADVNTQGVLPGMVWQDRDVYLQGPIWAKIPHTD GHFHPSPLMGGFGLKHPPPQILIKNTPVPANPSTTFSAAKFASFITQYSTGQVSVEIEWELQKENSKRWNPEIQYTSNYN KSVNVDFTVDTNGVYSEPRPIGTRYLTRNL P03135 ADENOSINE-5'-DIPHOSPHATE 0.000427201 8 ADP PYROPHOSPHATE 2- 0.000175959 1 POP MAGNESIUM ION 2.4305e-05 10 MG PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER 0.0005232469999999999 2 AGS singleParticle particle 7.4 137.0 NaCl sodium chloride 2.7 KCl potassium chloride 10.0 Na2HPO4 sodium phosphate dibasic 1.8 KH2PO4 potassium phosphate monobasic 5.0 MgCl2 magnesium chloride 5.0 C10H12N5O12P3S ATPgammaS
PBS plus ATPgammaS and MgCl2
 UltrAuFoil R2/2 GOLD 200 GOLD HOLEY ARRAY GLOW DISCHARGE AIR 0.039 ETHANE 95 297 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.6 0.4 1.6 2.5 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 10 GATAN K3 BIOQUANTUM (6k x 4k) 5760 4092 1 21603 64.96 1 73031
template picking of icosahedral particles, before symmetry expansion
 cryoSPARC 4.5.3 PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstruction of similar map, undeposited
 1 C1 FOURIER SPACE 2.93 FSC 0.143 CUT-OFF cryoSPARC 4.5.3
symmetry-expanded particles post-classification
249955 PROJECTION MATCHING cryoSPARC 4.5.3 PROJECTION MATCHING cryoSPARC 4.5.3 28 92895.0 cryoSPARC 4.5.3 emd_79003.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 756 756 756 0 0 0 756 756 756 487.62 487.62 487.62 90.0 90.0 90.0 X Y Z -0.2775766 0.5466949 0.002816866 0.029602163 0.645 0.645 0.645 0.15 AUTHOR Reconstruction of non-subtracted particles with orientations/positions mapped back from the Additional Map 12KG PDB experimental model FLEXIBLE FIT REAL emd_79003_msk_1.map emd_79003_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 600 600 600 0 0 0 600 600 600 487.62 487.62 487.62 90.0 90.0 90.0 X Y Z -0.466885 0.9235787 0.002210684 0.016511979 0.8127 0.8127 0.8127 AUTHOR Reconstruction of capsid-subtracted particles showing higher resolution in the rep/DNA region emd_79003_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 756 756 756 0 0 0 756 756 756 487.62 487.62 487.62 90.0 90.0 90.0 X Y Z -0.66926014 0.85224605 0.0015839591 0.078060485 0.645 0.645 0.645 AUTHOR emd_79003_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 756 756 756 0 0 0 756 756 756 487.62 487.62 487.62 90.0 90.0 90.0 X Y Z -0.7644148 0.902142 0.0015776047 0.07788978 0.645 0.645 0.645 AUTHOR