HEADER LYASE 09-APR-98 1DQS TITLE CRYSTAL STRUCTURE OF DEHYDROQUINATE SYNTHASE (DHQS) COMPLEXED WITH TITLE 2 CARBAPHOSPHONATE, NAD+ AND ZN2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (3-DEHYDROQUINATE SYNTHASE); COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN OF THE PENTAFUNCTIONAL AROM PROTEIN; COMPND 5 SYNONYM: DHQS, 3-DEOXY-D-ARABINO-HEPTULOSONATE-7-PHOSPHATE PHOSPHATE- COMPND 6 LYASE (CYCLIZING); COMPND 7 EC: 4.6.1.3; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: DHQS IS A DIMER, WITH ONE NAD+, ONE ZN2+ AND ONE COMPND 10 SUBSTRATE ANALOGUE INHIBITOR (CARBAPHOSPHONATE, CRB) BOUND PER COMPND 11 MONOMER SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMERICELLA NIDULANS; SOURCE 3 ORGANISM_TAXID: 162425; SOURCE 4 STRAIN: R153; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: PART OF AROMA; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: GLW38 (AROB-) FROM THE GLASGOW CULTURE SOURCE 10 COLLECTION; SOURCE 11 EXPRESSION_SYSTEM_CELLULAR_LOCATION: CYTOPLASM; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_VECTOR: PTRC99A; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PTR51; SOURCE 15 EXPRESSION_SYSTEM_GENE: PART OF AROMA KEYWDS SHIKIMATE PATHWAY ENZYME, MULTI-STEP ENZYME, OXIDOREDUCTASE, KEYWDS 2 PHOSPHATE ELIMINATION, INTRA MOLECULAR ALDOL CONDENSATION, NAD+ KEYWDS 3 BINDING, ZN2+ BINDING, LYASE, CYCLASE, AROMATIC AMINO ACID KEYWDS 4 BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR E.P.CARPENTER,A.R.HAWKINS,J.W.FROST,K.A.BROWN REVDAT 4 27-DEC-23 1DQS 1 REMARK LINK REVDAT 3 04-OCT-17 1DQS 1 REMARK REVDAT 2 24-FEB-09 1DQS 1 VERSN REVDAT 1 26-JUL-99 1DQS 0 JRNL AUTH E.P.CARPENTER,A.R.HAWKINS,J.W.FROST,K.A.BROWN JRNL TITL STRUCTURE OF DEHYDROQUINATE SYNTHASE REVEALS AN ACTIVE SITE JRNL TITL 2 CAPABLE OF MULTISTEP CATALYSIS. JRNL REF NATURE V. 394 299 1998 JRNL REFN ISSN 0028-0836 JRNL PMID 9685163 JRNL DOI 10.1038/28431 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.D.MOORE,M.A.SKINNER,D.R.SWATMAN,A.R.HAWKINS,K.A.BROWN REMARK 1 TITL REACTIVATION OF 3-DEHYDROQUINATE SYNTHASE BY LANTHANIDE REMARK 1 TITL 2 CATIONS REMARK 1 REF J.AM.CHEM.SOC. V. 120 7105 1998 REMARK 1 REFN ISSN 0002-7863 REMARK 1 DOI 10.1021/JA974220X REMARK 1 REFERENCE 2 REMARK 1 AUTH J.L.MONTCHAMP,J.W.FROST REMARK 1 TITL CYCLOHEXENYL AND CYCLOHEXYLIDENE INHIBITORS OF REMARK 1 TITL 2 3-DEHYDROQUINATE SYNTHASE: ACTIVE SITE INTERACTIONS RELEVANT REMARK 1 TITL 3 TO ENZYME MECHANISM AND INHIBITOR DESIGN REMARK 1 REF J.AM.CHEM.SOC. V. 119 7645 1997 REMARK 1 REFN ISSN 0002-7863 REMARK 1 DOI 10.1021/JA961771Z REMARK 1 REFERENCE 3 REMARK 1 AUTH J.D.MOORE,J.R.COGGINS,R.VIRDEN,A.R.HAWKINS REMARK 1 TITL EFFICIENT INDEPENDENT ACTIVITY OF A MONOMERIC, REMARK 1 TITL 2 MONOFUNCTIONAL DEHYDROQUINATE SYNTHASE DERIVED FROM THE REMARK 1 TITL 3 N-TERMINUS OF THE PENTAFUNCTIONAL AROM PROTEIN OF REMARK 1 TITL 4 ASPERGILLUS NIDULANS REMARK 1 REF BIOCHEM.J. V. 301 297 1994 REMARK 1 REFN ISSN 0264-6021 REMARK 1 REFERENCE 4 REMARK 1 AUTH A.R.HAWKINS,H.K.LAMB,J.D.MOORE,I.G.CHARLES,C.F.ROBERTS REMARK 1 TITL THE PRE-CHORISMATE (SHIKIMATE) AND QUINATE PATHWAYS IN REMARK 1 TITL 2 FILAMENTOUS FUNGI: THEORETICAL AND PRACTICAL ASPECTS REMARK 1 REF J.GEN.MICROBIOL. V. 139 2891 1993 REMARK 1 REFN ISSN 0022-1287 REMARK 1 REFERENCE 5 REMARK 1 AUTH J.P.VAN DEN HOMBERGH,J.D.MOORE,I.G.CHARLES,A.R.HAWKINS REMARK 1 TITL OVERPRODUCTION IN ESCHERICHIA COLI OF THE DEHYDROQUINATE REMARK 1 TITL 2 SYNTHASE DOMAIN OF THE ASPERGILLUS NIDULANS PENTAFUNCTIONAL REMARK 1 TITL 3 AROM PROTEIN REMARK 1 REF BIOCHEM.J. V. 284 861 1992 REMARK 1 REFN ISSN 0264-6021 REMARK 1 REFERENCE 6 REMARK 1 AUTH S.L.BENDER,T.WIDLANSKI,J.R.KNOWLES REMARK 1 TITL DEHYDROQUINATE SYNTHASE: THE USE OF SUBSTRATE ANALOGUES TO REMARK 1 TITL 2 PROBE THE EARLY STEPS OF THE CATALYZED REACTION REMARK 1 REF BIOCHEMISTRY V. 28 7560 1989 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 7 REMARK 1 AUTH P.R.SRINIVASEN,J.ROTHCHILD,D.B.SPRINSON REMARK 1 TITL THE ENZYMATIC CONVERSION OF 3-DEOXY-D-ARABINO-HEPTULOSINIC REMARK 1 TITL 2 ACID 7-PHOSPHATE TO 5-DEHYDROQUINATE REMARK 1 REF J.BIOL.CHEM. V. 238 3176 1963 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 64534 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 + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3385 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5696 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 125 REMARK 3 SOLVENT ATOMS : 718 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.22 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.58 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.012 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.029 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.032 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.119 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.175 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.180 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : 0.000 ; 15.000 REMARK 3 PLANAR (DEGREES) : 4.000 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 15.200; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 24.700; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.301 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.763 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.617 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.280 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1DQS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000001213. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : FEB-96 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX7.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79632 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: MLPHARE, HASSP, DMMULTI, ENVAT REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 33.83850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.75650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.40500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.75650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.83850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.40500 REMARK 290 SMTRY3 4 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 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: 7360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -109.0 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 GLU A 224 REMARK 465 VAL A 225 REMARK 465 THR A 226 REMARK 465 PRO A 227 REMARK 465 GLY A 228 REMARK 465 GLU A 229 REMARK 465 HIS A 230 REMARK 465 ALA A 392 REMARK 465 PRO A 393 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLU B 224 REMARK 465 VAL B 225 REMARK 465 THR B 226 REMARK 465 PRO B 227 REMARK 465 GLY B 228 REMARK 465 GLU B 229 REMARK 465 HIS B 230 REMARK 465 ARG B 231 REMARK 465 PHE B 232 REMARK 465 GLU B 233 REMARK 465 GLY B 234 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 LYS A 6 CD CE NZ REMARK 470 ARG A 12 NE CZ NH1 NH2 REMARK 470 GLU A 13 CD OE1 OE2 REMARK 470 LYS A 28 CD CE NZ REMARK 470 GLU A 57 OE1 OE2 REMARK 470 ARG A 60 CZ NH1 NH2 REMARK 470 LYS A 61 CG CD CE NZ REMARK 470 ARG A 62 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 65 CG CD OE1 OE2 REMARK 470 THR A 67 OG1 CG2 REMARK 470 ARG A 77 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 215 CD OE1 OE2 REMARK 470 LEU A 218 CD1 CD2 REMARK 470 LYS A 219 CD CE NZ REMARK 470 ARG A 223 NE CZ NH1 NH2 REMARK 470 GLU A 233 CG CD OE1 OE2 REMARK 470 GLU A 236 CG CD OE1 OE2 REMARK 470 GLU A 237 CD OE1 OE2 REMARK 470 ILE A 238 CG1 CG2 CD1 REMARK 470 LYS A 240 CD CE NZ REMARK 470 LYS A 309 CG CD CE NZ REMARK 470 LYS A 318 CD CE NZ REMARK 470 LYS A 336 CG CD CE NZ REMARK 470 GLU A 385 CG CD OE1 OE2 REMARK 470 ASN B 3 OD1 ND2 REMARK 470 ARG B 12 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 28 CD CE NZ REMARK 470 ARG B 60 CZ NH1 NH2 REMARK 470 LYS B 61 CG CD CE NZ REMARK 470 ARG B 62 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 65 CG CD OE1 OE2 REMARK 470 ARG B 77 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 87 OE1 NE2 REMARK 470 GLU B 215 CD OE1 OE2 REMARK 470 LYS B 219 CE NZ REMARK 470 ARG B 223 CG CD NE CZ NH1 NH2 REMARK 470 THR B 235 OG1 CG2 REMARK 470 GLU B 236 OE1 OE2 REMARK 470 LYS B 318 NZ REMARK 470 LYS B 336 CG CD CE NZ REMARK 470 HIS B 342 ND1 CD2 CE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH B 1257 O HOH B 1258 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 105 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 106 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 133 NE - CZ - NH1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 133 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 259 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 264 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 264 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 388 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 TYR B 39 CB - CG - CD2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG B 186 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 259 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP B 346 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 378 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG B 388 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES 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 ASP A 18 138.76 -176.58 REMARK 500 ASP A 146 -71.77 -148.67 REMARK 500 SER A 202 -30.13 -132.87 REMARK 500 THR A 377 37.08 -87.13 REMARK 500 ASP B 18 147.53 -175.05 REMARK 500 ASP B 146 -70.17 -148.20 REMARK 500 SER B 202 -9.79 -150.80 REMARK 500 ASP B 257 62.05 -152.85 REMARK 500 THR B 377 48.66 -90.48 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 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 194 OE2 REMARK 620 2 HIS A 271 NE2 122.1 REMARK 620 3 HIS A 287 NE2 94.3 106.3 REMARK 620 4 CRB A 401 O4 86.3 92.3 157.5 REMARK 620 5 CRB A 401 O5 143.4 91.6 88.6 77.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 194 OE2 REMARK 620 2 HIS B 271 NE2 124.1 REMARK 620 3 HIS B 287 NE2 94.0 101.4 REMARK 620 4 CRB B 401 O4 87.3 93.4 161.1 REMARK 620 5 CRB B 401 O5 140.2 93.2 91.3 75.9 REMARK 620 N 1 2 3 4 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 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CRB A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CRB B 401 DBREF 1DQS A 1 393 UNP P07547 ARO1_EMENI 1 393 DBREF 1DQS 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 402 1 HET CL A 403 1 HET NAD A 400 44 HET CRB A 401 17 HET ZN B 402 1 HET NAD B 400 44 HET CRB B 401 17 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM CRB [1R-(1ALPHA,3BETA,4ALPHA,5BETA)]-5-(PHOSPHONOMETHYL)-1, HETNAM 2 CRB 3,4-TRIHYDROXYCYCLOHEXANE-1-CARBOXYLIC ACID HETSYN CRB CARBAPHOSPHONATE FORMUL 3 ZN 2(ZN 2+) FORMUL 4 CL CL 1- FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 6 CRB 2(C8 H15 O8 P) FORMUL 10 HOH *718(H2 O) HELIX 1 1 LEU A 21 ASN A 24 1 4 HELIX 2 2 VAL A 26 ASP A 33 1 8 HELIX 3 3 GLY A 48 ARG A 62 1 15 HELIX 4 4 GLU A 81 SER A 83 5 3 HELIX 5 5 ARG A 86 LEU A 97 1 12 HELIX 6 6 GLY A 115 ARG A 130 1 16 HELIX 7 7 LEU A 141 VAL A 145 1 5 HELIX 8 8 LEU A 177 THR A 182 5 6 HELIX 9 9 VAL A 185 ALA A 200 1 16 HELIX 10 10 GLU A 204 ARG A 222 1 19 HELIX 11 11 GLU A 233 ALA A 256 5 24 HELIX 12 12 LEU A 263 ASN A 268 5 6 HELIX 13 13 HIS A 271 LEU A 281 1 11 HELIX 14 14 HIS A 287 HIS A 304 1 18 HELIX 15 15 GLY A 310 TYR A 323 1 14 HELIX 16 16 ALA A 332 LEU A 337 1 6 HELIX 17 17 VAL A 345 LEU A 354 1 10 HELIX 18 18 ASN A 384 VAL A 389 1 6 HELIX 19 19 LEU B 21 ASN B 24 1 4 HELIX 20 20 VAL B 26 ASP B 33 1 8 HELIX 21 21 THR B 45 ARG B 62 1 18 HELIX 22 22 GLU B 81 SER B 83 5 3 HELIX 23 23 ARG B 86 LEU B 97 1 12 HELIX 24 24 GLY B 115 ARG B 130 1 16 HELIX 25 25 LEU B 141 VAL B 145 1 5 HELIX 26 26 LEU B 177 THR B 182 5 6 HELIX 27 27 VAL B 185 ALA B 200 1 16 HELIX 28 28 GLU B 204 ARG B 222 1 19 HELIX 29 29 GLU B 236 ALA B 256 1 21 HELIX 30 30 LEU B 263 ASN B 268 5 6 HELIX 31 31 HIS B 271 LEU B 281 1 11 HELIX 32 32 HIS B 287 HIS B 304 1 18 HELIX 33 33 GLY B 310 TYR B 323 1 14 HELIX 34 34 ALA B 332 LEU B 337 1 6 HELIX 35 35 VAL B 345 LEU B 354 1 10 HELIX 36 36 ASN B 384 VAL B 390 1 7 SHEET 1 A 3 THR A 5 ILE A 7 0 SHEET 2 A 3 ILE A 15 ALA A 17 -1 N ALA A 17 O THR A 5 SHEET 3 A 3 ILE A 173 ILE A 175 1 N ILE A 173 O ILE A 16 SHEET 1 B 4 ARG A 71 ARG A 77 0 SHEET 2 B 4 THR A 38 ASP A 44 1 N TYR A 39 O ARG A 71 SHEET 3 B 4 VAL A 108 GLY A 113 1 N VAL A 108 O VAL A 40 SHEET 4 B 4 ARG A 133 PRO A 138 1 N ARG A 133 O VAL A 109 SHEET 1 C 2 LYS A 152 ILE A 155 0 SHEET 2 C 2 ILE A 164 ILE A 167 -1 N ALA A 166 O THR A 153 SHEET 1 D 7 THR B 5 ILE B 7 0 SHEET 2 D 7 ILE B 15 ALA B 17 -1 N ALA B 17 O THR B 5 SHEET 3 D 7 LYS B 172 ILE B 175 1 N ILE B 173 O ILE B 16 SHEET 4 D 7 ARG B 133 PRO B 138 1 N GLN B 136 O LYS B 172 SHEET 5 D 7 VAL B 108 GLY B 113 1 N VAL B 109 O ARG B 133 SHEET 6 D 7 THR B 38 ASP B 44 1 N VAL B 40 O VAL B 108 SHEET 7 D 7 ARG B 71 ARG B 77 1 N ARG B 71 O TYR B 39 SHEET 1 E 2 LYS B 152 ILE B 155 0 SHEET 2 E 2 ILE B 164 ILE B 167 -1 N ALA B 166 O THR B 153 LINK OE2 GLU A 194 ZN ZN A 402 1555 1555 1.92 LINK NE2 HIS A 271 ZN ZN A 402 1555 1555 1.93 LINK NE2 HIS A 287 ZN ZN A 402 1555 1555 2.11 LINK O4 CRB A 401 ZN ZN A 402 1555 1555 2.22 LINK O5 CRB A 401 ZN ZN A 402 1555 1555 2.32 LINK OE2 GLU B 194 ZN ZN B 402 1555 1555 1.97 LINK NE2 HIS B 271 ZN ZN B 402 1555 1555 2.01 LINK NE2 HIS B 287 ZN ZN B 402 1555 1555 2.13 LINK O4 CRB B 401 ZN ZN B 402 1555 1555 2.20 LINK O5 CRB B 401 ZN ZN B 402 1555 1555 2.23 CISPEP 1 THR A 67 PRO A 68 0 -2.19 CISPEP 2 ASN A 100 PRO A 101 0 0.00 CISPEP 3 THR A 282 PRO A 283 0 2.33 CISPEP 4 THR B 67 PRO B 68 0 -4.67 CISPEP 5 ASN B 100 PRO B 101 0 3.63 CISPEP 6 THR B 282 PRO B 283 0 -1.14 SITE 1 AC1 5 GLU A 194 HIS A 271 HIS A 287 NAD A 400 SITE 2 AC1 5 CRB A 401 SITE 1 AC2 3 LYS A 89 HOH A 558 LYS B 89 SITE 1 AC3 5 GLU B 194 HIS B 271 HIS B 287 NAD B 400 SITE 2 AC3 5 CRB B 401 SITE 1 AC4 37 ASP A 44 ASN A 46 ILE A 47 GLU A 81 SITE 2 AC4 37 LYS A 84 GLY A 114 GLY A 115 VAL A 116 SITE 3 AC4 37 ASP A 119 THR A 139 THR A 140 LEU A 142 SITE 4 AC4 37 ASP A 146 SER A 147 LYS A 152 LYS A 161 SITE 5 AC4 37 PHE A 179 THR A 182 LEU A 183 PRO A 184 SITE 6 AC4 37 GLU A 187 ASN A 190 GLU A 194 LYS A 250 SITE 7 AC4 37 HIS A 287 CRB A 401 ZN A 402 HOH A 525 SITE 8 AC4 37 HOH A 534 HOH A 555 HOH A 556 HOH A 575 SITE 9 AC4 37 HOH A 598 HOH A 599 HOH A 641 HOH A1007 SITE 10 AC4 37 HOH A1028 SITE 1 AC5 19 ASP A 146 LYS A 152 ASN A 162 GLU A 194 SITE 2 AC5 19 LYS A 197 LYS A 250 ARG A 264 LEU A 267 SITE 3 AC5 19 ASN A 268 HIS A 271 HIS A 275 HIS A 287 SITE 4 AC5 19 LYS A 356 NAD A 400 ZN A 402 HOH A1007 SITE 5 AC5 19 HOH A1020 HOH A1033 ARG B 130 SITE 1 AC6 36 ASP B 44 ASN B 46 ILE B 47 GLU B 81 SITE 2 AC6 36 LYS B 84 GLY B 114 GLY B 115 VAL B 116 SITE 3 AC6 36 ASP B 119 THR B 139 THR B 140 LEU B 142 SITE 4 AC6 36 ASP B 146 SER B 147 LYS B 152 LYS B 161 SITE 5 AC6 36 PHE B 179 THR B 182 LEU B 183 PRO B 184 SITE 6 AC6 36 GLU B 187 ASN B 190 GLU B 194 LYS B 250 SITE 7 AC6 36 HIS B 287 CRB B 401 ZN B 402 HOH B 507 SITE 8 AC6 36 HOH B 528 HOH B1025 HOH B1034 HOH B1055 SITE 9 AC6 36 HOH B1056 HOH B1075 HOH B1098 HOH B1099 SITE 1 AC7 19 ARG A 130 ASP B 146 LYS B 152 ASN B 162 SITE 2 AC7 19 GLU B 194 LYS B 197 LYS B 250 ARG B 264 SITE 3 AC7 19 LEU B 267 ASN B 268 HIS B 271 HIS B 275 SITE 4 AC7 19 HIS B 287 LYS B 356 NAD B 400 ZN B 402 SITE 5 AC7 19 HOH B 507 HOH B 520 HOH B 533 CRYST1 67.677 80.810 143.513 90.00 90.00 90.00 P 21 21 21 8 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 0.014776 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012375 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006968 0.00000