1NVA - Header Asymmetric Unit

HEADER LYASE 03-FEB-03 1NVA

TITLE CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN TITLE 2 COMPLEX WITH ZN2+ AND ADP

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-DEHYDROQUINATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHQS; COMPND 5 EC: 4.2.3.4; COMPND 6 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMERICELLA NIDULANS; SOURCE 3 ORGANISM_TAXID: 162425; SOURCE 4 GENE: AROMA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: GLW38 (AROB-); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PTRC99A; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTR51

KEYWDS SHIKIMATE PATHWAY, AROMATIC AMINO ACID BIOSYNTHESIS, DHQS, KEYWDS 2 OPEN FORM, FORM D, DOMAIN MOVEMENT, CYCLASE, LYASE

EXPDTA X-RAY DIFFRACTION

AUTHOR C.E.NICHOLS,J.REN,H.K.LAMB,A.R.HAWKINS,D.K.STAMMERS

REVDAT 2 24-FEB-09 1NVA 1 VERSN REVDAT 1 18-MAR-03 1NVA 0

JRNL AUTH C.E.NICHOLS,J.REN,H.K.LAMB,A.R.HAWKINS,D.K.STAMMERS JRNL TITL LIGAND-INDUCED CONFORMATIONAL CHANGES AND A JRNL TITL 2 MECHANISM FOR DOMAIN CLOSURE IN ASPERGILLUS JRNL TITL 3 NIDULANS DEHYDROQUINATE SYNTHASE JRNL REF J.MOL.BIOL. V. 327 129 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12614613 JRNL DOI 10.1016/S0022-2836(03)00086-X

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.E.NICHOLS,J.REN,H.LAMB,F.HALDANE,A.R.HAWKINS, REMARK 1 AUTH 2 D.K.STAMMERS REMARK 1 TITL IDENTIFICATION OF MANY CRYSTAL FORMS OF REMARK 1 TITL 2 ASPERGILLUS NIDULANS DEHYDROQUINATE SYNTHASE REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 306 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444900019429

REMARK 2 REMARK 2 RESOLUTION. 2.62 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 22806 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2264 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.71 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3840 REMARK 3 BIN FREE R VALUE : 0.4270 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 192 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5836 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 253 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 66.48 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.54 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.46 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.62 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.75 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1NVA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-FEB-03. REMARK 100 THE RCSB ID CODE IS RCSB018242.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MULTILAYER OPTICS REMARK 200 OPTICS : OSMIC MULTILAYER REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22806 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.620 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.480 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.0600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.14 REMARK 200 R MERGE FOR SHELL (I) : 0.40900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1NRX REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG6000, MPD, ETHYLENE GLYCOL, REMARK 280 HEPES, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.45500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL

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 300 REMARK: THE CRYSTALLOGRAPHIC DIMER IS EQUIVALENT TO THE REMARK 300 BIOLOGICAL DIMER

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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ASN A 3 REMARK 465 ASP A 257 REMARK 465 GLU A 258 REMARK 465 ARG A 259 REMARK 465 GLU A 260 REMARK 465 LYS A 356 REMARK 465 LYS A 357 REMARK 465 ASN A 358 REMARK 465 ASP A 359 REMARK 465 GLY A 360 REMARK 465 PRO A 393 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ASN B 3 REMARK 465 GLU B 258 REMARK 465 ARG B 259 REMARK 465 GLU B 260 REMARK 465 LYS B 357 REMARK 465 ASN B 358 REMARK 465 ASP B 359 REMARK 465 PRO B 393

REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS(M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 355 O REMARK 470 ALA A 392 O REMARK 470 ASP B 257 O REMARK 470 LYS B 356 O REMARK 470 ALA B 392 O

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 GLU A 13 -6.52 -58.59 REMARK 500 SER A 14 -53.21 -7.41 REMARK 500 VAL A 26 -72.63 -27.14 REMARK 500 ASP A 146 -76.81 -134.37 REMARK 500 ALA A 154 171.30 174.18 REMARK 500 SER A 202 -37.02 -142.84 REMARK 500 PHE A 232 50.55 -106.13 REMARK 500 GLU A 233 -71.68 -38.80 REMARK 500 ASP A 331 154.03 -41.42 REMARK 500 ALA A 339 49.59 31.09 REMARK 500 THR A 377 31.41 -83.53 REMARK 500 ARG A 378 -177.63 -173.33 REMARK 500 SER B 14 -51.45 -164.08 REMARK 500 TYR B 25 -67.18 -109.66 REMARK 500 VAL B 26 -73.53 -26.69 REMARK 500 PRO B 68 174.74 -54.44 REMARK 500 ASP B 146 -74.45 -134.23 REMARK 500 ALA B 154 171.42 172.82 REMARK 500 SER B 202 -38.03 -142.55 REMARK 500 ALA B 214 -80.95 -47.71 REMARK 500 GLU B 215 -36.25 -33.38 REMARK 500 PHE B 232 51.22 -107.00 REMARK 500 GLU B 233 -71.06 -39.92 REMARK 500 ALA B 256 30.96 -64.05 REMARK 500 ALA B 339 24.61 48.91 REMARK 500 LEU B 354 -3.78 -51.20 REMARK 500 THR B 377 33.50 -85.83 REMARK 500 ARG B 378 -178.98 -173.83 REMARK 500 REMARK 500 REMARK: NULL

REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B1436 DISTANCE = 5.41 ANGSTROMS REMARK 525 HOH A1475 DISTANCE = 5.09 ANGSTROMS REMARK 525 HOH A1511 DISTANCE = 7.55 ANGSTROMS REMARK 525 HOH B1524 DISTANCE = 5.23 ANGSTROMS

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 ZN A 600 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 194 OE1 REMARK 620 2 HIS A 271 NE2 105.2 REMARK 620 3 HIS A 287 NE2 91.7 90.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 194 OE1 REMARK 620 2 HIS B 271 NE2 106.7 REMARK 620 3 HIS B 287 NE2 90.8 95.7 REMARK 620 N 1 2

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 600 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 601 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 602 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1400 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 1401

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NR5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+, NAD AND CARBAPHOSPHONATE, CRYSTAL FORM REMARK 900 C, CLOSED FORM WITH COFACTOR REMARK 900 RELATED ID: 1NRX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+ AND NAD, CRYSTAL FORM F, OPEN FORM WITH REMARK 900 COFACTOR REMARK 900 RELATED ID: 1NVE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+ AND NAD, CRYSTAL FORM E, OPEN FORM WITH REMARK 900 COFACTOR REMARK 900 RELATED ID: 1NVD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+ AND CARBAPHOSPHONATE, CRYSTAL FORM B, REMARK 900 CLOSED FORM WITH SUBSTRATE ANALOGUE AND REDUCED COFACTOR REMARK 900 RELATED ID: 1NVB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+ AND CARBAPHOSPHONATE, CRYSTAL FORM C, REMARK 900 CLOSED FORM WITH SUBSTRATE ANALOGUE AND REDUCED CO-FACTOR REMARK 900 RELATED ID: 1NUA RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+, APO, CRYSTAL FORM D, OPEN FORM REMARK 900 RELATED ID: 1NVF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-DEHYDROQUINATE SYNTHASE (DHQS) IN REMARK 900 COMPLEX WITH ZN2+, ADP AND CARBAPHOSPHONATE, CRYSTAL FORM REMARK 900 H, CLOSED FORM WITH CO-FACTOR ANALOGUE AND SUBSTRATE REMARK 900 ANALOGUE

DBREF 1NVA A 1 393 UNP P07547 ARO1_EMENI 1 393 DBREF 1NVA B 1 393 UNP P07547 ARO1_EMENI 1 393

SEQRES 1 A 393 MET SER ASN PRO THR LYS ILE SER ILE LEU GLY ARG GLU SEQRES 2 A 393 SER ILE ILE ALA ASP PHE GLY LEU TRP ARG ASN TYR VAL SEQRES 3 A 393 ALA LYS ASP LEU ILE SER ASP CYS SER SER THR THR TYR SEQRES 4 A 393 VAL LEU VAL THR ASP THR ASN ILE GLY SER ILE TYR THR SEQRES 5 A 393 PRO SER PHE GLU GLU ALA PHE ARG LYS ARG ALA ALA GLU SEQRES 6 A 393 ILE THR PRO SER PRO ARG LEU LEU ILE TYR ASN ARG PRO SEQRES 7 A 393 PRO GLY GLU VAL SER LYS SER ARG GLN THR LYS ALA ASP SEQRES 8 A 393 ILE GLU ASP TRP MET LEU SER GLN ASN PRO PRO CYS GLY SEQRES 9 A 393 ARG ASP THR VAL VAL ILE ALA LEU GLY GLY GLY VAL ILE SEQRES 10 A 393 GLY ASP LEU THR GLY PHE VAL ALA SER THR TYR MET ARG SEQRES 11 A 393 GLY VAL ARG TYR VAL GLN VAL PRO THR THR LEU LEU ALA SEQRES 12 A 393 MET VAL ASP SER SER ILE GLY GLY LYS THR ALA ILE ASP SEQRES 13 A 393 THR PRO LEU GLY LYS ASN LEU ILE GLY ALA ILE TRP GLN SEQRES 14 A 393 PRO THR LYS ILE TYR ILE ASP LEU GLU PHE LEU GLU THR SEQRES 15 A 393 LEU PRO VAL ARG GLU PHE ILE ASN GLY MET ALA GLU VAL SEQRES 16 A 393 ILE LYS THR ALA ALA ILE SER SER GLU GLU GLU PHE THR SEQRES 17 A 393 ALA LEU GLU GLU ASN ALA GLU THR ILE LEU LYS ALA VAL SEQRES 18 A 393 ARG ARG GLU VAL THR PRO GLY GLU HIS ARG PHE GLU GLY SEQRES 19 A 393 THR GLU GLU ILE LEU LYS ALA ARG ILE LEU ALA SER ALA SEQRES 20 A 393 ARG HIS LYS ALA TYR VAL VAL SER ALA ASP GLU ARG GLU SEQRES 21 A 393 GLY GLY LEU ARG ASN LEU LEU ASN TRP GLY HIS SER ILE SEQRES 22 A 393 GLY HIS ALA ILE GLU ALA ILE LEU THR PRO GLN ILE LEU SEQRES 23 A 393 HIS GLY GLU CYS VAL ALA ILE GLY MET VAL LYS GLU ALA SEQRES 24 A 393 GLU LEU ALA ARG HIS LEU GLY ILE LEU LYS GLY VAL ALA SEQRES 25 A 393 VAL SER ARG ILE VAL LYS CYS LEU ALA ALA TYR GLY LEU SEQRES 26 A 393 PRO THR SER LEU LYS ASP ALA ARG ILE ARG LYS LEU THR SEQRES 27 A 393 ALA GLY LYS HIS CYS SER VAL ASP GLN LEU MET PHE ASN SEQRES 28 A 393 MET ALA LEU ASP LYS LYS ASN ASP GLY PRO LYS LYS LYS SEQRES 29 A 393 ILE VAL LEU LEU SER ALA ILE GLY THR PRO TYR GLU THR SEQRES 30 A 393 ARG ALA SER VAL VAL ALA ASN GLU ASP ILE ARG VAL VAL SEQRES 31 A 393 LEU ALA PRO SEQRES 1 B 393 MET SER ASN PRO THR LYS ILE SER ILE LEU GLY ARG GLU SEQRES 2 B 393 SER ILE ILE ALA ASP PHE GLY LEU TRP ARG ASN TYR VAL SEQRES 3 B 393 ALA LYS ASP LEU ILE SER ASP CYS SER SER THR THR TYR SEQRES 4 B 393 VAL LEU VAL THR ASP THR ASN ILE GLY SER ILE TYR THR SEQRES 5 B 393 PRO SER PHE GLU GLU ALA PHE ARG LYS ARG ALA ALA GLU SEQRES 6 B 393 ILE THR PRO SER PRO ARG LEU LEU ILE TYR ASN ARG PRO SEQRES 7 B 393 PRO GLY GLU VAL SER LYS SER ARG GLN THR LYS ALA ASP SEQRES 8 B 393 ILE GLU ASP TRP MET LEU SER GLN ASN PRO PRO CYS GLY SEQRES 9 B 393 ARG ASP THR VAL VAL ILE ALA LEU GLY GLY GLY VAL ILE SEQRES 10 B 393 GLY ASP LEU THR GLY PHE VAL ALA SER THR TYR MET ARG SEQRES 11 B 393 GLY VAL ARG TYR VAL GLN VAL PRO THR THR LEU LEU ALA SEQRES 12 B 393 MET VAL ASP SER SER ILE GLY GLY LYS THR ALA ILE ASP SEQRES 13 B 393 THR PRO LEU GLY LYS ASN LEU ILE GLY ALA ILE TRP GLN SEQRES 14 B 393 PRO THR LYS ILE TYR ILE ASP LEU GLU PHE LEU GLU THR SEQRES 15 B 393 LEU PRO VAL ARG GLU PHE ILE ASN GLY MET ALA GLU VAL SEQRES 16 B 393 ILE LYS THR ALA ALA ILE SER SER GLU GLU GLU PHE THR SEQRES 17 B 393 ALA LEU GLU GLU ASN ALA GLU THR ILE LEU LYS ALA VAL SEQRES 18 B 393 ARG ARG GLU VAL THR PRO GLY GLU HIS ARG PHE GLU GLY SEQRES 19 B 393 THR GLU GLU ILE LEU LYS ALA ARG ILE LEU ALA SER ALA SEQRES 20 B 393 ARG HIS LYS ALA TYR VAL VAL SER ALA ASP GLU ARG GLU SEQRES 21 B 393 GLY GLY LEU ARG ASN LEU LEU ASN TRP GLY HIS SER ILE SEQRES 22 B 393 GLY HIS ALA ILE GLU ALA ILE LEU THR PRO GLN ILE LEU SEQRES 23 B 393 HIS GLY GLU CYS VAL ALA ILE GLY MET VAL LYS GLU ALA SEQRES 24 B 393 GLU LEU ALA ARG HIS LEU GLY ILE LEU LYS GLY VAL ALA SEQRES 25 B 393 VAL SER ARG ILE VAL LYS CYS LEU ALA ALA TYR GLY LEU SEQRES 26 B 393 PRO THR SER LEU LYS ASP ALA ARG ILE ARG LYS LEU THR SEQRES 27 B 393 ALA GLY LYS HIS CYS SER VAL ASP GLN LEU MET PHE ASN SEQRES 28 B 393 MET ALA LEU ASP LYS LYS ASN ASP GLY PRO LYS LYS LYS SEQRES 29 B 393 ILE VAL LEU LEU SER ALA ILE GLY THR PRO TYR GLU THR SEQRES 30 B 393 ARG ALA SER VAL VAL ALA ASN GLU ASP ILE ARG VAL VAL SEQRES 31 B 393 LEU ALA PRO

HET ZN A 600 1 HET ZN B 601 1 HET CL A 602 1 HET ADP A1400 27 HET ADP B1401 27

HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE

FORMUL 3 ZN 2(ZN 2+) FORMUL 5 CL CL 1- FORMUL 6 ADP 2(C10 H15 N5 O10 P2) FORMUL 8 HOH *253(H2 O)

HELIX 1 1 GLY A 20 TYR A 25 1 6 HELIX 2 2 TYR A 25 CYS A 34 1 10 HELIX 3 3 THR A 45 GLU A 65 1 21 HELIX 4 4 GLY A 80 LYS A 84 5 5 HELIX 5 5 SER A 85 SER A 98 1 14 HELIX 6 6 GLY A 114 TYR A 128 1 15 HELIX 7 7 MET A 129 GLY A 131 5 3 HELIX 8 8 THR A 140 ASP A 146 1 7 HELIX 9 9 GLU A 178 THR A 182 5 5 HELIX 10 10 PRO A 184 ILE A 201 1 18 HELIX 11 11 SER A 203 ARG A 223 1 21 HELIX 12 12 THR A 235 SER A 255 1 21 HELIX 13 13 ARG A 264 TRP A 269 5 6 HELIX 14 14 GLY A 270 THR A 282 1 13 HELIX 15 15 LEU A 286 LEU A 305 1 20 HELIX 16 16 LYS A 309 TYR A 323 1 15 HELIX 17 17 ASP A 331 THR A 338 1 8 HELIX 18 18 SER A 344 MET A 352 1 9 HELIX 19 19 ASN A 384 VAL A 389 1 6 HELIX 20 20 GLY B 20 TYR B 25 1 6 HELIX 21 21 TYR B 25 CYS B 34 1 10 HELIX 22 22 THR B 45 ILE B 66 1 22 HELIX 23 23 GLY B 80 LYS B 84 5 5 HELIX 24 24 SER B 85 SER B 98 1 14 HELIX 25 25 GLY B 114 TYR B 128 1 15 HELIX 26 26 MET B 129 GLY B 131 5 3 HELIX 27 27 THR B 140 ASP B 146 1 7 HELIX 28 28 GLU B 178 THR B 182 5 5 HELIX 29 29 PRO B 184 ILE B 201 1 18 HELIX 30 30 SER B 203 ARG B 222 1 20 HELIX 31 31 THR B 235 ALA B 256 1 22 HELIX 32 32 ASN B 265 TRP B 269 5 5 HELIX 33 33 GLY B 270 THR B 282 1 13 HELIX 34 34 LEU B 286 LEU B 305 1 20 HELIX 35 35 LYS B 309 TYR B 323 1 15 HELIX 36 36 ASP B 331 THR B 338 1 8 HELIX 37 37 SER B 344 MET B 352 1 9 HELIX 38 38 ASN B 384 ALA B 392 1 9

SHEET 1 A 7 THR A 5 ILE A 7 0 SHEET 2 A 7 ILE A 15 ASP A 18 -1 O ALA A 17 N THR A 5 SHEET 3 A 7 LYS A 172 ASP A 176 1 O ILE A 175 N ILE A 16 SHEET 4 A 7 ARG A 133 PRO A 138 1 N GLN A 136 O LYS A 172 SHEET 5 A 7 VAL A 108 GLY A 113 1 N VAL A 109 O VAL A 135 SHEET 6 A 7 THR A 38 ASP A 44 1 N VAL A 40 O ILE A 110 SHEET 7 A 7 ARG A 71 ARG A 77 1 O TYR A 75 N LEU A 41 SHEET 1 B 2 LYS A 152 THR A 157 0 SHEET 2 B 2 GLY A 160 ILE A 167 -1 O ILE A 164 N ILE A 155 SHEET 1 C 2 LYS A 362 ILE A 365 0 SHEET 2 C 2 SER A 380 ALA A 383 -1 O VAL A 382 N LYS A 363 SHEET 1 D 2 LEU A 368 ALA A 370 0 SHEET 2 D 2 THR A 373 PRO A 374 -1 O THR A 373 N ALA A 370 SHEET 1 E 7 THR B 5 ILE B 9 0 SHEET 2 E 7 ARG B 12 ASP B 18 -1 O ALA B 17 N THR B 5 SHEET 3 E 7 LYS B 172 ASP B 176 1 O ILE B 175 N ILE B 16 SHEET 4 E 7 ARG B 133 PRO B 138 1 N GLN B 136 O LYS B 172 SHEET 5 E 7 VAL B 108 GLY B 113 1 N VAL B 109 O VAL B 135 SHEET 6 E 7 THR B 38 ASP B 44 1 N VAL B 40 O ILE B 110 SHEET 7 E 7 ARG B 71 ARG B 77 1 O LEU B 73 N LEU B 41 SHEET 1 F 2 LYS B 152 THR B 157 0 SHEET 2 F 2 GLY B 160 ILE B 167 -1 O ILE B 164 N ILE B 155 SHEET 1 G 2 LYS B 362 ILE B 365 0 SHEET 2 G 2 SER B 380 ALA B 383 -1 O VAL B 382 N LYS B 363 SHEET 1 H 2 LEU B 368 ALA B 370 0 SHEET 2 H 2 THR B 373 PRO B 374 -1 O THR B 373 N ALA B 370

LINK ZN ZN A 600 OE1 GLU A 194 1555 1555 2.03 LINK ZN ZN A 600 NE2 HIS A 271 1555 1555 2.19 LINK ZN ZN B 601 OE1 GLU B 194 1555 1555 2.12 LINK ZN ZN B 601 NE2 HIS B 271 1555 1555 2.04 LINK ZN ZN A 600 NE2 HIS A 287 1555 1555 2.32 LINK ZN ZN B 601 NE2 HIS B 287 1555 1555 2.27

CISPEP 1 THR A 67 PRO A 68 0 -0.06 CISPEP 2 ASN A 100 PRO A 101 0 0.12 CISPEP 3 THR A 282 PRO A 283 0 -0.06 CISPEP 4 THR B 67 PRO B 68 0 0.08 CISPEP 5 ASN B 100 PRO B 101 0 -0.22 CISPEP 6 THR B 282 PRO B 283 0 -0.06

SITE 1 AC1 4 ASP A 146 GLU A 194 HIS A 271 HIS A 287 SITE 1 AC2 3 GLU B 194 HIS B 271 HIS B 287 SITE 1 AC3 3 LYS A 89 PHE A 123 LYS B 89 SITE 1 AC4 14 ASP A 44 ASN A 46 GLY A 114 GLY A 115 SITE 2 AC4 14 VAL A 116 THR A 139 THR A 140 LEU A 142 SITE 3 AC4 14 PHE A 179 THR A 182 LEU A 183 GLU A 187 SITE 4 AC4 14 HOH A1417 HOH A1428 SITE 1 AC5 13 ASP B 44 ASN B 46 ILE B 47 GLY B 114 SITE 2 AC5 13 GLY B 115 VAL B 116 THR B 139 THR B 140 SITE 3 AC5 13 LEU B 142 PHE B 179 THR B 182 LEU B 183 SITE 4 AC5 13 GLU B 187

CRYST1 41.010 68.910 137.710 90.00 94.71 90.00 P 1 21 1 4

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 0.024384 0.000000 0.002009 0.00000

SCALE2 0.000000 0.014512 0.000000 0.00000

SCALE3 0.000000 0.000000 0.007286 0.00000