2PYJ
Phi29 dna polymerase complexed with primer-template dna and incoming nucleotide substrates (ternary complex)
PDB DOI: 10.2210/pdb2pyj/pdb
Classification: REPLICATION, TRANSFERASE/DNA Organism(s): Streptomyces Ambofaciens (Strain Atcc 23877 / 3486 / Dsm 40053 / Jcm 4204 / Nbrc 12836 / Nrrl B-2516) , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.)
Deposited: 2007-05-16 Deposition Author(s): Berman, A.J. , Blanco, L. , De Vega, M. , Goodman, J.L. , Kamtekar, S. , Lazaro, J.M. , Salas, M. , Steitz, T.A.
Experimental Data Snapshot
Method: X-RAY DIFFRACTION Resolution: 2.03 Å
Phi29 dna polymerase complexed with primer-template dna and incoming nucleotide substrates (ternary complex)
Berman, A.J. , Blanco, L. , De Vega, M. , Goodman, J.L. , Kamtekar, S. , Lazaro, J.M. , Salas, M. , Steitz, T.A.
Primary Citation of Related Structures: 2PYJ
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 5'-d(GACTGCTTA(DOC)-3' | x | 10 | NA | GACTGCTTAC |
| 5'-d(GACTGCTTA(DOC)-3' | q | 10 | NA | GACTGCTTAC |
| 5'-d(GACTGCTTA(DOC)-3' | j | 10 | NA | GACTGCTTAC |
| 5'-d(ACACGTAAGCAGTC)-3' | y | 14 | NA | ACACGTAAGCAGTC |
| 5'-d(ACACGTAAGCAGTC)-3' | r | 14 | NA | ACACGTAAGCAGTC |
| 5'-d(ACACGTAAGCAGTC)-3' | k | 14 | NA | ACACGTAAGCAGTC |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| DNA polymerase | A | 575 | Streptomyces Ambofaciens (Strain Atcc 23877 / 3486 / Dsm 40053 / Jcm 4204 / Nbrc 12836 / Nrrl B-2516) , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) | MKHMPRKMYSCAFETTTKVEDCRVWAYGYMNIEDHSEYKIGNSLDEFMAWVLKVQADLYFHNLKFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMIDICLGYKGKRKIHTVIYDSLKKLPFPVKKIAKDFKLTVLKGDIDYHKERPVGYKITPEEYAYIKNDIQIIAEALLIQFKQGLDRMTAGSDSLKGFKDIITTKKFKKVFPTLSLGLDKEVRYAYRGGFTWLNDRFKEKEIGEGMVFDVNSLYPAQMYSRLLPYGEPIVFEGKYVWDEDYPLHIQHIRCEFELKEGYIPTIQIKRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFKATTGLFKDFIDKWTYIKTTSEGAIKQLAKLMLNSLYGKFASNPDVTGKVPYLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAAQACYDRIIYCDTDSIHLTGTEIPDVIKDIVDPKKLGYWAHESTFKRAKYLRQKTYIQDIYMKEVDGKLVEGSPDDYTDIKFSVKCAGMTDKIKKEVTFENFKVGFSRKMKPKPVQVPGGVVLVDDTFTIK |
| DNA polymerase | B | 575 | Streptomyces Ambofaciens (Strain Atcc 23877 / 3486 / Dsm 40053 / Jcm 4204 / Nbrc 12836 / Nrrl B-2516) , Rhodobacter Sphaeroides (Strain Atcc 17023 / Dsm 158 / Jcm 6121 / Nbrc 12203 / Ncimb 8253 / Ath 2.4.1.) | MKHMPRKMYSCAFETTTKVEDCRVWAYGYMNIEDHSEYKIGNSLDEFMAWVLKVQADLYFHNLKFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMIDICLGYKGKRKIHTVIYDSLKKLPFPVKKIAKDFKLTVLKGDIDYHKERPVGYKITPEEYAYIKNDIQIIAEALLIQFKQGLDRMTAGSDSLKGFKDIITTKKFKKVFPTLSLGLDKEVRYAYRGGFTWLNDRFKEKEIGEGMVFDVNSLYPAQMYSRLLPYGEPIVFEGKYVWDEDYPLHIQHIRCEFELKEGYIPTIQIKRSRFYKGNEYLKSSGGEIADLWLSNVDLELMKEHYDLYNVEYISGLKFKATTGLFKDFIDKWTYIKTTSEGAIKQLAKLMLNSLYGKFASNPDVTGKVPYLKENGALGFRLGEEETKDPVYTPMGVFITAWARYTTITAAQACYDRIIYCDTDSIHLTGTEIPDVIKDIVDPKKLGYWAHESTFKRAKYLRQKTYIQDIYMKEVDGKLVEGSPDDYTDIKFSVKCAGMTDKIKKEVTFENFKVGFSRKMKPKPVQVPGGVVLVDDTFTIK |
Experimental Data
Method: X-RAY DIFFRACTION
Deposited Date: 2007-05-16 Deposition Author(s): Berman, A.J. , Blanco, L. , De Vega, M. , Goodman, J.L. , Kamtekar, S. , Lazaro, J.M. , Salas, M. , Steitz, T.A.