HEADER OXIDOREDUCTASE 28-SEP-99 1D3A TITLE CRYSTAL STRUCTURE OF THE WILD TYPE HALOPHILIC MALATE DEHYDROGENASE IN TITLE 2 THE APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: HALOPHILIC MALATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.37; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HALOARCULA MARISMORTUI; SOURCE 3 ORGANISM_TAXID: 2238; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PET11D KEYWDS ROSSMANN FOLD AND 3 SORTS OF COMPLEX SALT BRIDGES, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.B.RICHARD,D.MADERN,E.GARCIN,G.ZACCAI REVDAT 7 07-FEB-24 1D3A 1 REMARK LINK REVDAT 6 09-APR-14 1D3A 1 JRNL REVDAT 5 13-JUL-11 1D3A 1 VERSN REVDAT 4 24-FEB-09 1D3A 1 VERSN REVDAT 3 01-APR-03 1D3A 1 JRNL REVDAT 2 28-JUN-00 1D3A 1 SOURCE REVDAT 1 20-MAR-00 1D3A 0 JRNL AUTH S.B.RICHARD,D.MADERN,E.GARCIN,G.ZACCAI JRNL TITL HALOPHILIC ADAPTATION: NOVEL SOLVENT PROTEIN INTERACTIONS JRNL TITL 2 OBSERVED IN THE 2.9 AND 2.6 A RESOLUTION STRUCTURES OF THE JRNL TITL 3 WILD TYPE AND A MUTANT OF MALATE DEHYDROGENASE FROM JRNL TITL 4 HALOARCULA MARISMORTUI. JRNL REF BIOCHEMISTRY V. 39 992 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10653643 JRNL DOI 10.1021/BI991001A REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.B.RICHARD,F.BONNETE,O.DYM,G.ZACCAI REMARK 1 TITL PROTOCOL 21: THE MPD-NACL-H2O SYSTEM FOR THE CRYSTALLIZATION REMARK 1 TITL 2 OF HALOPHILIC PROTEINS REMARK 1 REF ARCHAEA : A LABORATORY 149 1995 REMARK 1 REF 2 MANUAL. V.[1]. HALOPHILES REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH O.DYM,M.MEVARECH,J.L.SUSSMAN REMARK 1 TITL STRUCTURAL FEATURES STABILIZING HALOPHILIC MALATE REMARK 1 TITL 2 DEHYDROGENASE FROM AN ARCHAEBACTERIUM REMARK 1 REF SCIENCE V. 267 1344 1995 REMARK 1 REFN ISSN 0036-8075 REMARK 1 REFERENCE 3 REMARK 1 AUTH D.MADERN,C.PFISTER,G.ZACCAI REMARK 1 TITL MUTATION AT A SINGLE AMINO ACID ENHANCES THE HALOPHILIC REMARK 1 TITL 2 BEHAVIOUR OF MALATE DEHYDROGENASE FROM HALOARCULA REMARK 1 TITL 3 MARISMORTUI IN PHYSIOLOGICAL SALTS REMARK 1 REF EUR.J.BIOCHEM. V. 230 1088 1995 REMARK 1 REFN ISSN 0014-2956 REMARK 1 REFERENCE 4 REMARK 1 AUTH F.CENDRIN,J.CHROBOCZEK,G.ZACCAI,H.EISENBERG,M.MEVARECH REMARK 1 TITL CLONING, SEQUENCING, AND EXPRESSION IN ESCHERICHIA COLI OF REMARK 1 TITL 2 THE GENE CODING FOR MALATE DEHYDROGENASE OF THE EXTREMELY REMARK 1 TITL 3 HALOPHILIC ARCHAEBACTERIUM HALOARCULA MARISMORTUI REMARK 1 REF BIOCHEMISTRY V. 32 4308 1993 REMARK 1 REFN ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. 2.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.4 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) : 2.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2600643.310 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 20523 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) : 0.202 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1003 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.016 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.04 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3222 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE : 0.3830 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 169 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.036 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4602 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 32 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 82.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.17000 REMARK 3 B22 (A**2) : 17.61000 REMARK 3 B33 (A**2) : -14.44000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM SIGMAA (A) : 0.49 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) : 0.44 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.67 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.900 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 5.740 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 8.180 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 8.030 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 10.720; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : PARA.INP REMARK 3 PARAMETER FILE 3 : CIS_PEPTIDE_DIM.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: USING MAXIMUM LIKELIHOOD REMARK 3 TARGET USING AMPLITUDES REMARK 4 REMARK 4 1D3A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1000009750. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-98 REMARK 200 TEMPERATURE (KELVIN) : 284.0 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LURE REMARK 200 BEAMLINE : DW32 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.975 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 : NULL REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99423 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.940 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.33200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD-NACL-H2O SYSTEM, PH 7.6, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.72500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.72500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 57.89000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.66500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 57.89000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.66500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.72500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 57.89000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.66500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.72500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 57.89000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.66500 REMARK 290 SMTRY3 8 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 12500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 43510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 115.78000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 188.17500 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 CG ARG B 102 CD1 LEU B 112 2.03 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 ARG A 43 -7.56 -58.37 REMARK 500 GLU A 129 32.80 -93.99 REMARK 500 HIS A 130 -12.04 -157.61 REMARK 500 SER A 139 129.77 -28.43 REMARK 500 VAL A 160 78.86 -111.48 REMARK 500 GLU A 241 -61.14 -103.74 REMARK 500 GLU A 247 -70.90 -140.53 REMARK 500 ALA A 251 -70.04 -41.99 REMARK 500 GLU A 276 55.29 -144.59 REMARK 500 GLU A 301 149.41 174.03 REMARK 500 GLN A 325 -34.71 -39.66 REMARK 500 ILE A 329 32.60 -87.79 REMARK 500 TYR B 85 -21.88 -39.91 REMARK 500 THR B 88 30.64 -76.78 REMARK 500 HIS B 130 -19.36 -146.58 REMARK 500 ALA B 152 8.69 -64.88 REMARK 500 VAL B 160 68.87 -110.44 REMARK 500 GLU B 241 -64.90 -109.29 REMARK 500 GLU B 247 -71.06 -129.09 REMARK 500 ILE B 261 -70.03 -69.90 REMARK 500 GLU B 278 131.29 -31.84 REMARK 500 ALA B 286 108.18 -165.72 REMARK 500 GLU B 301 149.51 169.62 REMARK 500 GLU B 320 -73.56 -67.78 REMARK 500 LYS B 321 -42.19 -29.21 REMARK 500 ILE B 329 31.57 -86.80 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 NA A 332 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 247 OE2 REMARK 620 2 GLU B 247 OE2 119.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 332 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HLP RELATED DB: PDB REMARK 900 2HLP IS THE CRYSTAL STRUCTURE OF THE E267R MUTANT OF THE HALOPHILIC REMARK 900 MALATE DEHYDROGENASE IN THE APO FORM DBREF 1D3A A 22 330 UNP Q07841 MDH_HALMA 2 304 DBREF 1D3A B 22 330 UNP Q07841 MDH_HALMA 2 304 SEQRES 1 A 303 THR LYS VAL SER VAL VAL GLY ALA ALA GLY THR VAL GLY SEQRES 2 A 303 ALA ALA ALA GLY TYR ASN ILE ALA LEU ARG ASP ILE ALA SEQRES 3 A 303 ASP GLU VAL VAL PHE VAL ASP ILE PRO ASP LYS GLU ASP SEQRES 4 A 303 ASP THR VAL GLY GLN ALA ALA ASP THR ASN HIS GLY ILE SEQRES 5 A 303 ALA TYR ASP SER ASN THR ARG VAL ARG GLN GLY GLY TYR SEQRES 6 A 303 GLU ASP THR ALA GLY SER ASP VAL VAL VAL ILE THR ALA SEQRES 7 A 303 GLY ILE PRO ARG GLN PRO GLY GLN THR ARG ILE ASP LEU SEQRES 8 A 303 ALA GLY ASP ASN ALA PRO ILE MET GLU ASP ILE GLN SER SEQRES 9 A 303 SER LEU ASP GLU HIS ASN ASP ASP TYR ILE SER LEU THR SEQRES 10 A 303 THR SER ASN PRO VAL ASP LEU LEU ASN ARG HIS LEU TYR SEQRES 11 A 303 GLU ALA GLY ASP ARG SER ARG GLU GLN VAL ILE GLY PHE SEQRES 12 A 303 GLY GLY ARG LEU ASP SER ALA ARG PHE ARG TYR VAL LEU SEQRES 13 A 303 SER GLU GLU PHE ASP ALA PRO VAL GLN ASN VAL GLU GLY SEQRES 14 A 303 THR ILE LEU GLY GLU HIS GLY ASP ALA GLN VAL PRO VAL SEQRES 15 A 303 PHE SER LYS VAL ARG VAL ASP GLY THR ASP PRO GLU PHE SEQRES 16 A 303 SER GLY ASP GLU LYS GLU GLN LEU LEU GLY ASP LEU GLN SEQRES 17 A 303 GLU SER ALA MET ASP VAL ILE GLU ARG LYS GLY ALA THR SEQRES 18 A 303 GLU TRP GLY PRO ALA ARG GLY VAL ALA HIS MET VAL GLU SEQRES 19 A 303 ALA ILE LEU HIS ASP THR GLY GLU VAL LEU PRO ALA SER SEQRES 20 A 303 VAL LYS LEU GLU GLY GLU PHE GLY HIS GLU ASP THR ALA SEQRES 21 A 303 PHE GLY VAL PRO VAL ARG LEU GLY SER ASN GLY VAL GLU SEQRES 22 A 303 GLU ILE VAL GLU TRP ASP LEU ASP ASP TYR GLU GLN ASP SEQRES 23 A 303 LEU MET ALA ASP ALA ALA GLU LYS LEU SER ASP GLN TYR SEQRES 24 A 303 ASP LYS ILE SER SEQRES 1 B 303 THR LYS VAL SER VAL VAL GLY ALA ALA GLY THR VAL GLY SEQRES 2 B 303 ALA ALA ALA GLY TYR ASN ILE ALA LEU ARG ASP ILE ALA SEQRES 3 B 303 ASP GLU VAL VAL PHE VAL ASP ILE PRO ASP LYS GLU ASP SEQRES 4 B 303 ASP THR VAL GLY GLN ALA ALA ASP THR ASN HIS GLY ILE SEQRES 5 B 303 ALA TYR ASP SER ASN THR ARG VAL ARG GLN GLY GLY TYR SEQRES 6 B 303 GLU ASP THR ALA GLY SER ASP VAL VAL VAL ILE THR ALA SEQRES 7 B 303 GLY ILE PRO ARG GLN PRO GLY GLN THR ARG ILE ASP LEU SEQRES 8 B 303 ALA GLY ASP ASN ALA PRO ILE MET GLU ASP ILE GLN SER SEQRES 9 B 303 SER LEU ASP GLU HIS ASN ASP ASP TYR ILE SER LEU THR SEQRES 10 B 303 THR SER ASN PRO VAL ASP LEU LEU ASN ARG HIS LEU TYR SEQRES 11 B 303 GLU ALA GLY ASP ARG SER ARG GLU GLN VAL ILE GLY PHE SEQRES 12 B 303 GLY GLY ARG LEU ASP SER ALA ARG PHE ARG TYR VAL LEU SEQRES 13 B 303 SER GLU GLU PHE ASP ALA PRO VAL GLN ASN VAL GLU GLY SEQRES 14 B 303 THR ILE LEU GLY GLU HIS GLY ASP ALA GLN VAL PRO VAL SEQRES 15 B 303 PHE SER LYS VAL ARG VAL ASP GLY THR ASP PRO GLU PHE SEQRES 16 B 303 SER GLY ASP GLU LYS GLU GLN LEU LEU GLY ASP LEU GLN SEQRES 17 B 303 GLU SER ALA MET ASP VAL ILE GLU ARG LYS GLY ALA THR SEQRES 18 B 303 GLU TRP GLY PRO ALA ARG GLY VAL ALA HIS MET VAL GLU SEQRES 19 B 303 ALA ILE LEU HIS ASP THR GLY GLU VAL LEU PRO ALA SER SEQRES 20 B 303 VAL LYS LEU GLU GLY GLU PHE GLY HIS GLU ASP THR ALA SEQRES 21 B 303 PHE GLY VAL PRO VAL ARG LEU GLY SER ASN GLY VAL GLU SEQRES 22 B 303 GLU ILE VAL GLU TRP ASP LEU ASP ASP TYR GLU GLN ASP SEQRES 23 B 303 LEU MET ALA ASP ALA ALA GLU LYS LEU SER ASP GLN TYR SEQRES 24 B 303 ASP LYS ILE SER HET CL A 331 1 HET NA A 332 1 HET CL B 331 1 HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 3 CL 2(CL 1-) FORMUL 4 NA NA 1+ FORMUL 6 HOH *32(H2 O) HELIX 1 1 GLY A 30 ARG A 43 1 14 HELIX 2 3 LYS A 55 ALA A 71 1 17 HELIX 3 4 GLY A 84 ALA A 89 5 6 HELIX 4 5 THR A 108 GLU A 129 1 22 HELIX 5 6 PRO A 141 ALA A 152 1 12 HELIX 6 7 SER A 156 GLU A 158 5 3 HELIX 7 8 GLY A 164 PHE A 180 1 17 HELIX 8 9 PHE A 203 VAL A 206 5 4 HELIX 9 10 SER A 221 GLU A 241 1 21 HELIX 10 11 GLU A 247 HIS A 263 1 17 HELIX 11 12 GLU A 278 GLY A 280 5 3 HELIX 12 13 ASP A 308 ILE A 329 1 22 HELIX 13 14 GLY B 30 ARG B 43 1 14 HELIX 14 16 LYS B 55 ALA B 71 1 17 HELIX 15 17 THR B 108 GLU B 129 1 22 HELIX 16 18 PRO B 141 ALA B 152 1 12 HELIX 17 19 SER B 156 GLU B 158 5 3 HELIX 18 20 GLY B 164 ASP B 181 1 18 HELIX 19 21 PRO B 183 GLN B 185 5 3 HELIX 20 22 PHE B 203 VAL B 206 5 4 HELIX 21 23 SER B 221 GLU B 241 1 21 HELIX 22 24 GLU B 247 HIS B 263 1 17 HELIX 23 25 GLU B 278 GLY B 280 5 3 HELIX 24 26 ASP B 308 ILE B 329 1 22 SHEET 1 A 6 ARG A 77 GLN A 80 0 SHEET 2 A 6 GLU A 48 VAL A 52 1 N VAL A 49 O ARG A 77 SHEET 3 A 6 LYS A 23 VAL A 27 1 O VAL A 24 N VAL A 50 SHEET 4 A 6 VAL A 93 ILE A 96 1 O VAL A 93 N SER A 25 SHEET 5 A 6 ILE A 134 THR A 137 1 O ILE A 134 N VAL A 94 SHEET 6 A 6 VAL A 160 GLY A 162 1 O ILE A 161 N THR A 137 SHEET 1 B 2 VAL A 187 GLU A 188 0 SHEET 2 B 2 ARG A 207 VAL A 208 -1 O ARG A 207 N GLU A 188 SHEET 1 C 2 ILE A 191 GLY A 193 0 SHEET 2 C 2 GLN A 199 PRO A 201 -1 O VAL A 200 N LEU A 192 SHEET 1 D 3 VAL A 268 GLU A 276 0 SHEET 2 D 3 GLU A 283 GLY A 294 -1 N ASP A 284 O LEU A 275 SHEET 3 D 3 GLY A 297 ILE A 302 -1 O GLY A 297 N GLY A 294 SHEET 1 E 6 ARG B 77 GLN B 80 0 SHEET 2 E 6 GLU B 48 VAL B 52 1 N VAL B 49 O ARG B 77 SHEET 3 E 6 LYS B 23 VAL B 27 1 N VAL B 24 O GLU B 48 SHEET 4 E 6 VAL B 93 ILE B 96 1 O VAL B 93 N SER B 25 SHEET 5 E 6 ILE B 134 THR B 137 1 O ILE B 134 N VAL B 94 SHEET 6 E 6 VAL B 160 GLY B 162 1 O ILE B 161 N THR B 137 SHEET 1 F 2 VAL B 187 GLU B 188 0 SHEET 2 F 2 ARG B 207 VAL B 208 -1 O ARG B 207 N GLU B 188 SHEET 1 G 2 ILE B 191 GLY B 193 0 SHEET 2 G 2 GLN B 199 PRO B 201 -1 O VAL B 200 N LEU B 192 SHEET 1 H 3 VAL B 268 SER B 272 0 SHEET 2 H 3 GLY B 288 GLY B 294 -1 N VAL B 289 O ALA B 271 SHEET 3 H 3 GLY B 297 ILE B 302 -1 O GLY B 297 N GLY B 294 SHEET 1 I 2 LEU B 275 GLY B 277 0 SHEET 2 I 2 HIS B 282 THR B 285 -1 O HIS B 282 N GLY B 277 LINK OE2 GLU A 247 NA NA A 332 1555 1555 2.87 LINK NA NA A 332 OE2 GLU B 247 1555 1555 2.84 CISPEP 1 ASN A 140 PRO A 141 0 -0.06 CISPEP 2 ASN B 140 PRO B 141 0 -0.06 SITE 1 AC1 4 LYS A 205 ASP A 306 THR B 210B ASP B 211 SITE 1 AC2 4 THR A 210B ASP A 211 LYS B 205 ASP B 306 SITE 1 AC3 2 GLU A 247 GLU B 247 CRYST1 115.780 131.330 125.450 90.00 90.00 90.00 C 2 2 21 16 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 0.008637 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007614 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007971 0.00000