HEADER OXIDOREDUCTASE 30-JUN-06 2HJI TITLE STRUCTURAL MODEL FOR THE FE-CONTAINING ISOFORM OF ACIREDUCTONE TITLE 2 DIOXYGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E-2/E-2' PROTEIN; COMPND 3 CHAIN: A; COMPND 4 EC: 1.13.11.54; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA OXYTOCA; SOURCE 3 ORGANISM_TAXID: 571; SOURCE 4 STRAIN: ATCC 8724; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS DIOXYGENASE, NON-HEME IRON, ISOZYME, METHIONINE SALVAGE, STRUCTURAL KEYWDS 2 ENTROPY, OXIDOREDUCTASE EXPDTA SOLUTION NMR NUMMDL 14 AUTHOR T.C.POCHAPSKY,T.JU,M.J.MARONEY,S.C.CHAI REVDAT 4 29-MAY-24 2HJI 1 REMARK REVDAT 3 09-MAR-22 2HJI 1 REMARK LINK REVDAT 2 24-FEB-09 2HJI 1 VERSN REVDAT 1 24-OCT-06 2HJI 0 JRNL AUTH T.JU,R.B.GOLDSMITH,S.C.CHAI,M.J.MARONEY,S.S.POCHAPSKY, JRNL AUTH 2 T.C.POCHAPSKY JRNL TITL ONE PROTEIN, TWO ENZYMES REVISITED: A STRUCTURAL ENTROPY JRNL TITL 2 SWITCH INTERCONVERTS THE TWO ISOFORMS OF ACIREDUCTONE JRNL TITL 3 DIOXYGENASE JRNL REF J.MOL.BIOL. V. 363 823 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16989860 JRNL DOI 10.1016/J.JMB.2006.08.060 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.DAI,P.WENSINK,R.A.ABELES REMARK 1 TITL ONE PROTEIN, TWO ENZYMES. REMARK 1 REF J.BIOL.CHEM. V. 274 1193 1999 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 9880484 REMARK 1 DOI 10.1074/JBC.274.3.1193 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER A. T. ETALL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ONLY RESIDUES 1-156 ARE INCLUDED IN REMARK 3 STRUCTURAL MODELS, AS RESIDUES 157-179 ARE DISORDERED IN REMARK 3 SOLUTION. REMARK 4 REMARK 4 2HJI COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038414. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 50 MM KPI REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : UNIFORM 15N, 13C LABELED, 1 MM REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : RESTRAINED SIMULATED ANNEALING REMARK 210 USING TORSIONAL DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 14 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRUM, REMARK 210 STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: RESIDUAL DIPOLAR COUPLINGS OBTAINED USING FILAMENTOUS REMARK 210 PHAGE (FD) AND C12E5 POLYOL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-14 REMARK 465 RES C SSSEQI REMARK 465 ASP A 157 REMARK 465 ASN A 158 REMARK 465 PRO A 159 REMARK 465 GLU A 160 REMARK 465 GLY A 161 REMARK 465 TRP A 162 REMARK 465 ILE A 163 REMARK 465 ALA A 164 REMARK 465 GLN A 165 REMARK 465 PHE A 166 REMARK 465 THR A 167 REMARK 465 GLY A 168 REMARK 465 ASP A 169 REMARK 465 ASP A 170 REMARK 465 ILE A 171 REMARK 465 ALA A 172 REMARK 465 SER A 173 REMARK 465 ALA A 174 REMARK 465 TYR A 175 REMARK 465 PRO A 176 REMARK 465 ARG A 177 REMARK 465 LEU A 178 REMARK 465 ALA A 179 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 SER A 14 103.68 -48.61 REMARK 500 1 LEU A 64 -75.04 -55.84 REMARK 500 1 LYS A 68 -165.24 39.65 REMARK 500 1 TYR A 70 95.75 43.09 REMARK 500 1 GLN A 71 -72.55 -43.57 REMARK 500 1 PRO A 83 -1.72 -47.84 REMARK 500 1 ASP A 119 41.99 -99.98 REMARK 500 1 LYS A 128 11.89 -59.66 REMARK 500 1 ASP A 130 -146.29 -114.51 REMARK 500 1 HIS A 137 -3.47 68.36 REMARK 500 1 MET A 144 -76.23 -92.63 REMARK 500 1 GLU A 147 52.56 -109.19 REMARK 500 2 TRP A 16 107.09 -163.02 REMARK 500 2 LEU A 64 -73.65 -56.77 REMARK 500 2 LYS A 68 179.11 43.68 REMARK 500 2 TYR A 70 163.29 53.61 REMARK 500 2 GLN A 71 -72.16 -84.65 REMARK 500 2 ASP A 81 34.71 -86.58 REMARK 500 2 LYS A 128 -8.99 -51.65 REMARK 500 2 HIS A 137 -3.58 58.90 REMARK 500 2 GLU A 147 50.02 -107.76 REMARK 500 3 TRP A 16 109.71 -165.08 REMARK 500 3 ALA A 46 -61.24 -99.11 REMARK 500 3 LEU A 64 -78.46 -56.43 REMARK 500 3 LYS A 68 178.52 47.06 REMARK 500 3 TYR A 70 92.76 -41.14 REMARK 500 3 GLN A 71 36.02 -153.38 REMARK 500 3 ASP A 101 -166.49 -65.96 REMARK 500 3 LYS A 128 4.64 -56.27 REMARK 500 3 ASP A 130 -152.54 -111.70 REMARK 500 3 GLU A 147 67.28 -117.02 REMARK 500 4 TRP A 16 104.62 -163.75 REMARK 500 4 ALA A 40 58.18 -95.80 REMARK 500 4 LEU A 64 -79.05 -57.59 REMARK 500 4 LYS A 68 170.22 49.33 REMARK 500 4 TYR A 70 150.46 -44.08 REMARK 500 4 GLN A 71 -75.15 -71.21 REMARK 500 4 ASP A 101 -164.02 -69.85 REMARK 500 4 LYS A 128 5.58 -54.26 REMARK 500 4 ASP A 130 -148.51 -115.82 REMARK 500 4 HIS A 137 6.09 56.63 REMARK 500 5 TRP A 16 108.83 -165.78 REMARK 500 5 LEU A 64 -80.06 -56.38 REMARK 500 5 LYS A 68 -167.75 42.68 REMARK 500 5 TYR A 70 -116.97 42.52 REMARK 500 5 GLN A 71 -88.11 -176.87 REMARK 500 5 ASP A 101 -165.52 -70.22 REMARK 500 5 ASP A 119 34.59 -99.34 REMARK 500 5 LYS A 128 9.59 -56.35 REMARK 500 5 ASP A 130 -147.19 -112.65 REMARK 500 REMARK 500 THIS ENTRY HAS 149 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A 180 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 96 NE2 REMARK 620 2 HIS A 98 NE2 90.0 REMARK 620 3 GLU A 102 OE2 176.0 87.0 REMARK 620 4 HIS A 140 NE2 90.7 89.4 92.0 REMARK 620 5 HOH A 181 O 87.2 90.1 90.1 177.8 REMARK 620 6 HOH A 182 O 92.2 177.7 90.8 89.9 90.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A 180 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZRR RELATED DB: PDB REMARK 900 REFINED SOLUTION STRUCTURAL MODEL FOR NI-CONTAINING ACIREDUCTONE REMARK 900 DIOXYGENASE (ARD) REMARK 900 RELATED ID: 1VR3 RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF ARD FROM MUS MUSCULUS DBREF 2HJI A 1 179 UNP Q9ZFE7 Q9ZFE7_KLEOX 1 179 SEQRES 1 A 179 SER ALA LEU THR ILE PHE SER VAL LYS ASP PRO GLN ASN SEQRES 2 A 179 SER LEU TRP HIS SER THR ASN ALA GLU GLU ILE GLN GLN SEQRES 3 A 179 GLN LEU ASN ALA LYS GLY VAL ARG PHE GLU ARG TRP GLN SEQRES 4 A 179 ALA ASP ARG ASP LEU GLY ALA ALA PRO THR ALA GLU THR SEQRES 5 A 179 VAL ILE ALA ALA TYR GLN HIS ALA ILE ASP LYS LEU VAL SEQRES 6 A 179 ALA GLU LYS GLY TYR GLN SER TRP ASP VAL ILE SER LEU SEQRES 7 A 179 ARG ALA ASP ASN PRO GLN LYS GLU ALA LEU ARG GLU LYS SEQRES 8 A 179 PHE LEU ASN GLU HIS THR HIS GLY GLU ASP GLU VAL ARG SEQRES 9 A 179 PHE PHE VAL GLU GLY ALA GLY LEU PHE CYS LEU HIS ILE SEQRES 10 A 179 GLY ASP GLU VAL PHE GLN VAL LEU CYS GLU LYS ASN ASP SEQRES 11 A 179 LEU ILE SER VAL PRO ALA HIS THR PRO HIS TRP PHE ASP SEQRES 12 A 179 MET GLY SER GLU PRO ASN PHE THR ALA ILE ARG ILE PHE SEQRES 13 A 179 ASP ASN PRO GLU GLY TRP ILE ALA GLN PHE THR GLY ASP SEQRES 14 A 179 ASP ILE ALA SER ALA TYR PRO ARG LEU ALA HET FE2 A 180 1 HETNAM FE2 FE (II) ION FORMUL 2 FE2 FE 2+ FORMUL 3 HOH *2(H2 O) HELIX 1 1 ASN A 20 ALA A 30 1 11 HELIX 2 2 THR A 49 TYR A 57 1 9 HELIX 3 3 TYR A 57 VAL A 65 1 9 HELIX 4 4 PRO A 83 LEU A 93 1 11 SHEET 1 A 5 TRP A 16 SER A 18 0 SHEET 2 A 5 ALA A 2 SER A 7 -1 N ILE A 5 O TRP A 16 SHEET 3 A 5 GLU A 120 GLU A 127 -1 O GLN A 123 N THR A 4 SHEET 4 A 5 ALA A 110 HIS A 116 -1 N LEU A 115 O PHE A 122 SHEET 5 A 5 HIS A 140 ASP A 143 -1 O ASP A 143 N LEU A 112 SHEET 1 B 5 ARG A 34 GLU A 36 0 SHEET 2 B 5 LEU A 131 SER A 133 -1 O LEU A 131 N GLU A 36 SHEET 3 B 5 VAL A 103 GLU A 108 -1 N ARG A 104 O ILE A 132 SHEET 4 B 5 THR A 151 PHE A 156 -1 O THR A 151 N GLU A 108 SHEET 5 B 5 SER A 72 VAL A 75 -1 N ASP A 74 O ARG A 154 LINK NE2 HIS A 96 FE FE2 A 180 1555 1555 2.18 LINK NE2 HIS A 98 FE FE2 A 180 1555 1555 2.17 LINK OE2 GLU A 102 FE FE2 A 180 1555 1555 2.00 LINK NE2 HIS A 140 FE FE2 A 180 1555 1555 2.17 LINK FE FE2 A 180 O HOH A 181 1555 1555 2.00 LINK FE FE2 A 180 O HOH A 182 1555 1555 2.00 SITE 1 AC1 6 HIS A 96 HIS A 98 GLU A 102 HIS A 140 SITE 2 AC1 6 HOH A 181 HOH A 182 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 MODEL 1