HEADER HYDROLASE 25-APR-02 1J5F TITLE REVISED MODEL OF T5 5' NUCLEASE + DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXODEOXYRIBONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: T5 5' NUCLEASE, 5'EXONUCLEASE; COMPND 5 EC: 3.1.11.3; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(P*AP*TP*GP*GP*CP*AP*AP*AP*GP*TP*AP*AP*T)-3'; COMPND 8 CHAIN: Y; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: 5'- COMPND 12 D(P*CP*AP*TP*CP*TP*AP*CP*TP*AP*CP*TP*TP*TP*GP*CP*CP*AP*T)- COMPND 13 3'; COMPND 14 CHAIN: Z; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE T5; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 SYNTHETIC: YES KEYWDS FLAP ENDONUCLEASE, THEORETICAL MODEL EXPDTA THEORETICAL MODEL AUTHOR J.J.DERVAN,M.FENG,J.A.GRASBY,P.J.ARTYMIUK,T.A.CESKA, AUTHOR 2 J.R.SAYERS REVDAT 2 03-JUL-02 1J5F 1 JRNL REVDAT 1 22-MAY-02 1J5F 0 JRNL AUTH J.J.DERVAN,M.FENG,D.PATEL,J.A.GRASBY,P.J.ARTYMIUK, JRNL AUTH 2 T.A.CESKA,J.R.SAYERS JRNL TITL INTERACTIONS OF MUTANT AND WILD-TYPE FLAP JRNL TITL 2 ENDONUCLEASES WITH OLIGONUCLEOTIDE SUBSTRATES JRNL TITL 3 SUGGEST AN ALTERNATIVE MODEL OF DNA BINDING. JRNL REF PROC.NATL.ACAD.SCI.USA V. 99 8542 2002 JRNL REFN ASTM PNASA6 US ISSN 0027-8424 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE MODEL CONSISTS OF CA ONLY FOR REMARK 3 THE PROTEIN (BASED ON AN X-RAY STRUCTURE, 1EXN), SIDE CHAIN REMARK 3 COORDS FOR THE MUTATED RESIDUES, AND P ONLY FOR THE DNA. REMARK 4 REMARK 4 1J5F COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-2002. REMARK 100 THE RCSB ID CODE IS RCSB001634. REMARK 105 REMARK 105 THE PROTEIN DATA BANK HAS ADOPTED THE SACCHARIDE CHEMISTS REMARK 105 NOMENCLATURE FOR ATOMS OF THE DEOXYRIBOSE/RIBOSE MOIETY REMARK 105 RATHER THAN THAT OF THE NUCLEOSIDE CHEMISTS. THE RING REMARK 105 OXYGEN ATOM IS LABELLED O4* INSTEAD OF O1*. REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: DNA MODEL EXPERIMENTALLY BUILT INTO X-RAY REMARK 220 CRYSTALLOGRAPHIC COORDINATES OF T5 EXONUCLEASE (1EXN). REMARK 220 THE COORDINATES ARE THOSE OF A SIMPLE THEORETICAL MODEL REMARK 220 DESIGNED TO SHOW THE POSITION THAT A DNA MOLECULE MAY REMARK 220 BIND ON AN ENZYME ON THE BASIS OF MUTAGENESIS REMARK 220 EXPERIMENTS. THE MODEL CONSISTS OF CA ONLY FOR THE REMARK 220 PROTEIN (BASED ON AN X-RAY STRUCTURE, 1EXN), SIDE CHAIN REMARK 220 COORDS FOR THE MUTATED RESIDUES, AND P ONLY FOR THE DNA. REMARK 220 THE RESIDUES IN THE COORDINATES ARE THE WILD TYPE. REMARK 220 RESIDUES THAT WERE MUTATED ARE ARG 33, LYS 83, ARG 172, REMARK 220 LYS 215, ARG 216 AND LYS 241 ALL IN CHAIN A AND THEIR REMARK 220 COMPLETE (AS OPPOSED TO CA ONLY) COORDINATES ARE REMARK 220 SUPPLIED IN THE COORDINATE FILE. REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EXN RELATED DB: PDB REMARK 900 X-RAY CRYSTALLOGRAPHIC COORDINATES OF T5 EXONUCLEASE DBREF 1J5F A 20 289 UNP P06229 EXO5_BPT5 19 288 SEQRES 1 A 270 ARG ASN LEU MET ILE VAL ASP GLY THR ASN LEU GLY PHE SEQRES 2 A 270 ARG PHE LYS HIS ASN ASN SER LYS LYS PRO PHE ALA SER SEQRES 3 A 270 SER TYR VAL SER THR ILE GLN SER LEU ALA LYS SER TYR SEQRES 4 A 270 SER ALA ARG THR THR ILE VAL LEU GLY ASP LYS GLY LYS SEQRES 5 A 270 SER VAL PHE ARG LEU GLU HIS LEU PRO GLU TYR LYS GLY SEQRES 6 A 270 ASN ARG ASP GLU LYS TYR ALA GLN ARG THR GLU GLU GLU SEQRES 7 A 270 LYS ALA LEU ASP GLU GLN PHE PHE GLU TYR LEU LYS ASP SEQRES 8 A 270 ALA PHE GLU LEU CYS LYS THR THR PHE PRO THR PHE THR SEQRES 9 A 270 ILE ARG GLY VAL GLU ALA ASP ASP MET ALA ALA TYR ILE SEQRES 10 A 270 VAL LYS LEU ILE GLY HIS LEU TYR ASP HIS VAL TRP LEU SEQRES 11 A 270 ILE SER THR ASP GLY ASP TRP ASP THR LEU LEU THR ASP SEQRES 12 A 270 LYS VAL SER ARG PHE SER PHE THR THR ARG ARG GLU TYR SEQRES 13 A 270 HIS LEU ARG ASP MET TYR GLU HIS HIS ASN VAL ASP ASP SEQRES 14 A 270 VAL GLU GLN PHE ILE SER LEU LYS ALA ILE MET GLY ASP SEQRES 15 A 270 LEU GLY ASP ASN ILE ARG GLY VAL GLU GLY ILE GLY ALA SEQRES 16 A 270 LYS ARG GLY TYR ASN ILE ILE ARG GLU PHE GLY ASN VAL SEQRES 17 A 270 LEU ASP ILE ILE ASP GLN LEU PRO LEU PRO GLY LYS GLN SEQRES 18 A 270 LYS TYR ILE GLN ASN LEU ASN ALA SER GLU GLU LEU LEU SEQRES 19 A 270 PHE ARG ASN LEU ILE LEU VAL ASP LEU PRO THR TYR CYS SEQRES 20 A 270 VAL ASP ALA ILE ALA ALA VAL GLY GLN ASP VAL LEU ASP SEQRES 21 A 270 LYS PHE THR LYS ASP ILE LEU GLU ILE ALA SEQRES 1 Y 13 A T G G C A A A G T A A T SEQRES 1 Z 18 C A T C T A C T A C T T T SEQRES 2 Z 18 G C C A T HET MN 2 1 HET MN 3 1 HETNAM MN MANGANESE (II) ION FORMUL 4 MN 2(MN 2+) CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MASTER 47 0 2 0 0 0 0 6 0 0 0 24 END