2026-02-11 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES em_admin pdbx_database_related _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin pdbx_database_related _em_admin.last_update RCSB RCSB 2025-09-08 2026-02-04 2026-02-04 2026-02-11 National Science Foundation (NSF, United States) 2223480 United States UK Research and Innovation (UKRI) 2223480 United Kingdom Biotechnology and Biological Sciences Research Council (BBSRC) 2223480 United Kingdom attLsym bound serine integrase complex in the dimeric state Shin H Pigli Y Pena Reyes T Fuller JR Olorunniji FJ Rice PA Site-specific DNA Recombinase, Large serine integrase, DNA binding domains, Recombinase, Resolvase, Zinc ribbon recombinase, RECOMBINATION Shin H Pigli Y Pena Reyes T Fuller JR Olorunniji FJ Rice PA Structural basis of directionality control in large serine integrases Biorxiv US 2025 39803483 doi:10.1101/2025.01.03.631226 2692-8205 0353 EMD-47220 other EM volume
consensus map of 9DXJ
 EMD-47206 other EM volume
focused map (half complex) of 9DXJ and 9DXH (full complexes)
 EMD-47205 other EM volume
consensus map of 9DXH
 EMD-47181 other EM volume
consensus map of 9DXF
 EMD-47178 other EM volume
focused map (half complex) of 9DXF and 9DXD
 EMD-47175 other EM volume
consensus map of 9DXD
 9y66 FULLOVERLAP PDB 9DXG unspecified
attPmm bound large serine integraes and RDF complex in the dimeric state
 PDB 9DXF unspecified
attLmm bound large serine integrase and RDF complex in the post-rotation state
 PDB 9DXD unspecified
attLmm bound large serine integrase and RDF complex in the pre-rotation state
 PDB 9DXK unspecified
attPmm bound large serine integrase complex in the tetrameric state
 PDB 9DXJ unspecified
attPmm and attBmm bound large serine integrase complex in the post-rotation state
 PDB 9DXH unspecified
attPmm and attBmm bound large serine integrase complex in the pre-rotation state
 EMDB EMD-47220 other EM volume
consensus map of 9DXJ
 EMDB EMD-47206 other EM volume
focused map (half complex) of 9DXJ and 9DXH (full complexes)
 EMDB EMD-47205 other EM volume
consensus map of 9DXH
 EMDB EMD-47181 other EM volume
consensus map of 9DXF
 EMDB EMD-47178 other EM volume
focused map (half complex) of 9DXF and 9DXD
 EMDB EMD-47175 other EM volume
consensus map of 9DXD
 EMDB EMD-72552 associated EM volume
attLmm bound serine integrase complex in the dimeric state
 Dimeric complex of attLsym bound large serine integrases Dimeric complex of attLsym bound large serine integrases 0 1 2 3
DNAs synthesized from Integrated DNA Technologies (IDT)
Spbetavirus SPbeta Site-specific recombinase Spbetavirus SPbeta 0.06323206599999999 2 Escherichia coli 'BL21-Gold(DE3)pLysS AG' LEVO MELKNIVNSYNITNILGYLRRSRQDMEREKRTGEDTLTEQKELMNKILTAIEIPYELKMEIGSGESIDGRPVFKECLKDL EEGKYQAIAVKEITRLSRGSYSDAGQIVNLLQSKRLIIITPYKVYDPRNPVDMRQIRFELFMAREEFEMTRERMTGAKYT YAAQGKWISGLAPYGYQLNKKTSKLDPVEDEAKVVQLIFNIFLNGLNGKDYSYTAIASHLTNLQIPTPSGKKRWNQYTIK AILQNEVYIGTVKYKVREKTKDGKRTIRPEKEQIVVQDAHAPIIDKEQFQQSQVKIANKVPLLPNKDEFELSELAGVCTC SKCGEPLSKYESKRIRKNKDGTESVYHVKSLTCKKNKCTYVRYNDVENAILDYLSSLNDLNDSTLTKHINSMLSKYEDDN SNMKTKKQMSEHLSQKEKELKNKENFIFDKYESGIYSDELFLKRKAALDEEFKELQNAKNELNGLQDTQSEIDSNTVRNN INKIIDQYHIESSSEKKNELLRMVLKDVIVNMTQKRKGPIPAQFEITPILRFNFIFDLTATNSFH O64015 attLsym Spbetavirus SPbeta 0.01943659 1 (DG)(DC)(DA)(DG)(DC)(DA)(DT)(DG)(DT)(DC)(DA)(DT)(DT)(DA)(DA)(DT)(DA)(DT)(DC)(DA) (DG)(DT)(DA)(DC)(DA)(DG)(DA)(DT)(DA)(DT)(DA)(DG)(DC)(DT)(DG)(DT)(DA)(DT)(DA)(DT) (DT)(DA)(DA)(DG)(DA)(DT)(DA)(DC)(DT)(DT)(DA)(DC)(DT)(DA)(DC)(DA)(DA)(DA)(DA)(DA) (DA)(DA)(DA) DNA attLsym Spbetavirus SPbeta 0.019386469 1 (DT)(DT)(DT)(DT)(DT)(DT)(DT)(DT)(DG)(DT)(DA)(DG)(DT)(DA)(DA)(DG)(DT)(DA)(DT)(DC) (DT)(DT)(DA)(DA)(DT)(DA)(DT)(DA)(DC)(DA)(DG)(DC)(DT)(DA)(DT)(DA)(DT)(DC)(DT)(DG) (DT)(DA)(DC)(DT)(DG)(DA)(DT)(DA)(DT)(DT)(DA)(DA)(DT)(DG)(DA)(DC)(DA)(DT)(DG)(DC) (DT)(DG)(DC) DNA ZINC ION 6.5409e-05 2 ZN singleParticle particle 8 8.0 100.0 NaCl sodium chloride 20.0 C4H11NO3 Tris
20mM Tris-HCL pH 8, 100mM NaCl
 Quantifoil R1.2/1.3 COPPER 400 CARBON HOLEY ETHANE 100 291.15 FEI VITROBOT MARK II TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.9 1.9000000000000001 GATAN K3 BIOQUANTUM (6k x 4k) 65.0 1 PHASE FLIPPING ONLY 3.31 FSC 0.143 CUT-OFF cryoSPARC 4.6.0 263209 RANDOM ASSIGNMENT cryoSPARC 4.6.0 PROJECTION MATCHING emd_72552.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 374.88 374.88 374.88 90.0 90.0 90.0 X Y Z -0.02089846 2.2580824 0.00055990345 0.016361032 1.065 1.065 1.065 0.006 AUTHOR composite map emd_72552_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 374.88 374.88 374.88 90.0 90.0 90.0 X Y Z -0.4392583 0.9613886 0.00017912145 0.01353633 1.065 1.065 1.065 AUTHOR focused map (attB side) emd_72552_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 255.6 255.6 255.6 90.0 90.0 90.0 X Y Z -0.07478847 0.21676782 0.00073888205 0.006785531 1.065 1.065 1.065 AUTHOR consensus map emd_72552_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 374.88 374.88 374.88 90.0 90.0 90.0 X Y Z -0.53433454 1.1111891 0.00011038715 0.013460482 1.065 1.065 1.065 AUTHOR focused map (Cat domains) emd_72552_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 374.88 374.88 374.88 90.0 90.0 90.0 X Y Z -0.408106 0.95493585 0.00017925072 0.012839431 1.065 1.065 1.065 AUTHOR focused map (attP side) emd_72552_additional_5.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 352 352 352 0 0 0 352 352 352 374.88 374.88 374.88 90.0 90.0 90.0 X Y Z -0.38900742 0.9429699 0.000109343026 0.012193736 1.065 1.065 1.065 AUTHOR focused map (Coiled coils) emd_72552_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 255.6 255.6 255.6 90.0 90.0 90.0 X Y Z -0.10350576 0.24763604 0.000516262 0.013292328 1.065 1.065 1.065 AUTHOR half map A emd_72552_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 240 240 240 0 0 0 240 240 240 255.6 255.6 255.6 90.0 90.0 90.0 X Y Z -0.08977763 0.2464683 0.0005189289 0.01328758 1.065 1.065 1.065 AUTHOR half map B