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6VNP

Crystal structure of dpo4 extension past 8-oxoadenine (oxoa) and dt

PDB DOI: 10.2210/pdb6vnp/pdb

Classification: TRANSFERASE/DNA
Organism(s): Streptomyces Thermoviolaceus , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.)

Deposited: 2020-01-29
Deposition Author(s): Jung, H. , Lee, S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å

6vnp
Literature

Crystal structure of dpo4 extension past 8-oxoadenine (oxoa) and dt

Jung, H. , Lee, S.

Primary Citation of Related Structures: 6VNP


Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
DNA (5'-D(P*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*T)-3') p 14 NA GGGGGAAGGATTCT
DNA (5'-D(P*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*T)-3') b 14 NA GGGGGAAGGATTCT
DNA (5'-D(P*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*T)-3') e 14 NA GGGGGAAGGATTCT
DNA (5'-D(P*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*T)-3') h 14 NA GGGGGAAGGATTCT
DNA (5'-D(*TP*TP*CP*AP*T*(R5M)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') t 19 NA TTCATAGAATCCTTCCCCC
DNA (5'-D(*TP*TP*CP*AP*T*(R5M)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') c 19 NA TTCATAGAATCCTTCCCCC
DNA (5'-D(*TP*TP*CP*AP*T*(R5M)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') f 19 NA TTCATAGAATCCTTCCCCC
DNA (5'-D(*TP*TP*CP*AP*T*(R5M)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') i 19 NA TTCATAGAATCCTTCCCCC

Proteins
Molecule Chains Sequence Length Organism Sequence
DNA polymerase IV A 341 Streptomyces Thermoviolaceus , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI
DNA polymerase IV D 341 Streptomyces Thermoviolaceus , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI
DNA polymerase IV G 341 Streptomyces Thermoviolaceus , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI
DNA polymerase IV J 341 Streptomyces Thermoviolaceus , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI
Experimental Data

Method: X-RAY DIFFRACTION

Deposited Date: 2020-01-29
Deposition Author(s): Jung, H. , Lee, S.