HEADER OXIDOREDUCTASE 15-JUL-03 1OJS OBSLTE 22-DEC-09 1OJS 2X0I TITLE 2.9 A RESOLUTION STRUCTURE OF MALATE DEHYDROGENASE FROM TITLE 2 ARCHAEOGLOBUS FULGIDUS IN COMPLEX WITH NADH. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALATE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MDH; COMPND 5 EC: 1.1.1.37; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 224325; SOURCE 4 STRAIN: VC-16, DSMZ 4304; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ONE SHOT; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSJS1240 KEYWDS HYPERTHERMOPHILIC, MALATE DEHYDROGENASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.IRIMIA,D.MADERN,G.ZACCAI,F.M.D.VELLIEUX,A.KARSHIKOFF, AUTHOR 2 G.TIBBELIN,R.LADENSTEIN,T.LIEN,N.-K.BIRKELAND REVDAT 3 22-DEC-09 1OJS 1 OBSLTE REVDAT 2 24-FEB-09 1OJS 1 VERSN REVDAT 1 15-JUL-04 1OJS 0 JRNL AUTH A.IRIMIA,F.M.D.VELLIEUX,D.MADERN,G.ZACCAI, JRNL AUTH 2 A.KARSHIKOFF,G.TIBBELIN,R.LADENSTEIN,T.LIEN, JRNL AUTH 3 N.-K.BIRKELAND JRNL TITL THE 2.9A RESOLUTION CRYSTAL STRUCTURE OF MALATE JRNL TITL 2 DEHYDROGENASE FROM ARCHAEOGLOBUS FULGIDUS: JRNL TITL 3 MECHANISMS OF OLIGOMERISATION AND THERMAL JRNL TITL 4 STABILISATION. JRNL REF J.MOL.BIOL. V. 335 343 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 14659762 JRNL DOI 10.1016/J.JMB.2003.10.054 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.MADERN,C.EBEL,H.A.DALE,T.LIEN,I.H.STEEN, REMARK 1 AUTH 2 N.-K.BIRKELAND,G.ZACCAI REMARK 1 TITL DIFFERENCES IN THE OLIGOMERIC STATE OF THE REMARK 1 TITL 2 [LDH-LIKE] L-MALDH FROM THE HYPERTHERMOPHILIC REMARK 1 TITL 3 ARCHAEA METHANOCOCCUS JANNASCHII AND ARCHAEOGLOBUS REMARK 1 TITL 4 FULGIDUS REMARK 1 REF BIOCHEMISTRY V. 40 10310 2001 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 11513609 REMARK 1 DOI 10.1021/BI010168C REMARK 1 REFERENCE 2 REMARK 1 AUTH A.S.LANGELANDSVIK,I.H.STEEN,N.K.BIRKELAND,T.LIEN REMARK 1 TITL PROPERTIES AND PRIMARY STRUCTURE OF A THERMOSTABLE REMARK 1 TITL 2 L-MALATE DEHYDROGENASE FROM ARCHAEOGLOBUS FULGIDUS REMARK 1 REF ARCH.MICROBIOL. V. 168 59 1997 REMARK 1 REFN ISSN 0302-8933 REMARK 1 PMID 9211715 REMARK 1 DOI 10.1007/S002030050470 REMARK 2 REMARK 2 RESOLUTION. 2.9 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.908 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.761 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.0 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 0.0 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 84.2 REMARK 3 NUMBER OF REFLECTIONS : 8937 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) : 0.186 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.5 REMARK 3 FREE R VALUE TEST SET COUNT : 492 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.01 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 56.6 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 942 REMARK 3 BIN R VALUE (WORKING SET) : 0.221 REMARK 3 BIN FREE R VALUE : 0.244 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.3 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 42 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.038 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2237 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 85 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 67.24 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.7 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -11.49 REMARK 3 B22 (A**2) : -11.49 REMARK 3 B33 (A**2) : 22.99 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : 0.26 REMARK 3 LOW RESOLUTION CUTOFF (A) : 6.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.26 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.6 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.1 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.16 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) : 1.38 ; 1.50 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.46 ; 2.00 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.28 ; 2.00 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.72 ; 2.50 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.365492 REMARK 3 BSOL : 56.9086 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NAD.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER_REP.TOP REMARK 3 TOPOLOGY FILE 3 : NAD.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OJS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-JUL-03. REMARK 100 THE PDBE ID CODE IS EBI-13070. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : DIAMOND CRYSTALS REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : BIOMOL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8949 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.908 REMARK 200 RESOLUTION RANGE LOW (A) : 59.761 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 83.6 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.04820 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 45.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.09520 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2HLP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.6 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: INITIAL PROTEIN DROPLET: REMARK 280 16 MG/ML PROTEIN, 10 MM NADH, 20 M RESERVOIR: REMARK 280 1.6 M AMMONIUM SULPHATE, 20% (V/V) GLYCEROL, 80 M REMARK 280 DROPLET: EQUAL VOLUMES OF INITIAL PROTEIN DROPLET REMARK 280 AND RESERVOIR WERE MIXED. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 35.64700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 56.48200 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 56.48200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 17.82350 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 56.48200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 56.48200 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 53.47050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 56.48200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.48200 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 17.82350 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 56.48200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.48200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 53.47050 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 35.64700 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 GENERATING THE BIOMOLECULE 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: PQS 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 HOH A2002 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 CATALYTIC ACTIVITY: (S)-MALATE + NAD(+) = OXALOACETATE + NADH. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 132B C PRO A 132A N 3.694 REMARK 500 ARG A 187B C ILE A 187A N 4.191 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 MET A 107 N - CA - C ANGL. DEV. = 17.0 DEGREES REMARK 500 GLU A 132B CA - C - N ANGL. DEV. = -60.3 DEGREES REMARK 500 GLU A 132B O - C - N ANGL. DEV. = 46.4 DEGREES REMARK 500 PRO A 132A C - N - CA ANGL. DEV. = -49.2 DEGREES REMARK 500 ARG A 187B CA - C - N ANGL. DEV. = -71.6 DEGREES REMARK 500 ARG A 187B O - C - N ANGL. DEV. = -32.6 DEGREES REMARK 500 ILE A 187A C - N - CA ANGL. DEV. = -87.5 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 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 TYR A 85 -8.18 -47.84 REMARK 500 LYS A 103 -110.24 -155.93 REMARK 500 MET A 107 111.27 4.28 REMARK 500 THR A 108 133.06 -14.95 REMARK 500 ASN A 130 -43.74 -141.68 REMARK 500 THR A 139 128.84 -39.65 REMARK 500 ARG A 157 -4.70 -56.28 REMARK 500 ALA A 189 93.70 -172.20 REMARK 500 LYS A 203 -36.46 -39.19 REMARK 500 PHE A 208 149.53 -173.38 REMARK 500 GLU A 226 -72.49 -59.75 REMARK 500 ILE A 247 -65.25 -124.14 REMARK 500 ASP A 264 51.70 39.19 REMARK 500 VAL A 302 109.82 -54.38 REMARK 500 SER A 308 154.25 -46.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 132B PRO A 132A 42.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 187B 21.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 MET A 107 22.7 L L OUTSIDE RANGE 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 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A2000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A3000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A1000 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE ELECTRON DENSITY WAS POOR FOR RESIDUES 102-108, WHICH REMARK 999 CORRESPOND TO THE MOBILE LOOP COVERING THE CATALYTIC SITE. DBREF 1OJS A 22 331 UNP O08349 MDH_ARCFU 1 294 SEQRES 1 A 294 MET LYS LEU GLY PHE VAL GLY ALA GLY ARG VAL GLY SER SEQRES 2 A 294 THR SER ALA PHE THR CYS LEU LEU ASN LEU ASP VAL ASP SEQRES 3 A 294 GLU ILE ALA LEU VAL ASP ILE ALA GLU ASP LEU ALA VAL SEQRES 4 A 294 GLY GLU ALA MET ASP LEU ALA HIS ALA ALA ALA GLY ILE SEQRES 5 A 294 ASP LYS TYR PRO LYS ILE VAL GLY GLY ALA ASP TYR SER SEQRES 6 A 294 LEU LEU LYS GLY SER GLU ILE ILE VAL VAL THR ALA GLY SEQRES 7 A 294 LEU ALA ARG LYS PRO GLY MET THR ARG LEU ASP LEU ALA SEQRES 8 A 294 HIS LYS ASN ALA GLY ILE ILE LYS ASP ILE ALA LYS LYS SEQRES 9 A 294 ILE VAL GLU ASN ALA PRO GLU SER LYS ILE LEU VAL VAL SEQRES 10 A 294 THR ASN PRO MET ASP VAL MET THR TYR ILE MET TRP LYS SEQRES 11 A 294 GLU SER GLY LYS PRO ARG ASN GLU VAL PHE GLY MET GLY SEQRES 12 A 294 ASN GLN LEU ASP SER GLN ARG LEU LYS GLU ARG LEU TYR SEQRES 13 A 294 ASN ALA GLY ALA ARG ASN ILE ARG ARG ALA TRP ILE ILE SEQRES 14 A 294 GLY GLU HIS GLY ASP SER MET PHE VAL ALA LYS SER LEU SEQRES 15 A 294 ALA ASP PHE ASP GLY GLU VAL ASP TRP GLU ALA VAL GLU SEQRES 16 A 294 ASN ASP VAL ARG PHE VAL ALA ALA GLU VAL ILE LYS ARG SEQRES 17 A 294 LYS GLY ALA THR ILE PHE GLY PRO ALA VAL ALA ILE TYR SEQRES 18 A 294 ARG MET VAL LYS ALA VAL VAL GLU ASP THR GLY GLU ILE SEQRES 19 A 294 ILE PRO THR SER MET ILE LEU GLN GLY GLU TYR GLY ILE SEQRES 20 A 294 GLU ASN VAL ALA VAL GLY VAL PRO ALA LYS LEU GLY LYS SEQRES 21 A 294 ASN GLY ALA GLU VAL ALA ASP ILE LYS LEU SER ASP GLU SEQRES 22 A 294 GLU ILE GLU LYS LEU ARG ASN SER ALA LYS ILE LEU ARG SEQRES 23 A 294 GLU ARG LEU GLU GLU LEU GLY TYR HET SO4 A2000 5 HET NA A3000 1 HET NAD A1000 44 HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE FORMUL 2 SO4 O4 S 2- FORMUL 3 NA NA 1+ FORMUL 4 NAD C21 H27 N7 O14 P2 FORMUL 5 HOH *85(H2 O1) HELIX 1 1 GLY A 30 LEU A 44 1 15 HELIX 2 2 ALA A 55 GLY A 71B 1 18 HELIX 3 3 ASP A 84B LYS A 89 5 6 HELIX 4 4 THR A 108 GLU A 129 1 22 HELIX 5 5 PRO A 141 SER A 153 1 13 HELIX 6 6 GLY A 164 ALA A 179 1 16 HELIX 7 7 LYS A 203 ALA A 206 5 4 HELIX 8 8 ASP A 224 GLY A 244 1 21 HELIX 9 9 ILE A 247 GLU A 263 1 17 HELIX 10 10 GLU A 278 GLY A 280 5 3 HELIX 11 11 SER A 308 GLU A 328 1 21 SHEET 1 AA 6 LYS A 77 GLY A 81 0 SHEET 2 AA 6 GLU A 48 VAL A 52 1 O ILE A 49 N VAL A 79 SHEET 3 AA 6 LYS A 23 VAL A 27 1 O LEU A 24 N ALA A 50 SHEET 4 AA 6 ILE A 93 VAL A 96 1 O ILE A 93 N GLY A 25 SHEET 5 AA 6 LYS A 134 VAL A 137 1 O LYS A 134 N ILE A 94 SHEET 6 AA 6 VAL A 160 GLY A 162 1 O PHE A 161 N VAL A 137 SHEET 1 AB 2 ILE A 191 ILE A 192 0 SHEET 2 AB 2 PHE A 200 VAL A 201 -1 O PHE A 200 N ILE A 192 SHEET 1 AC 3 ILE A 268 GLN A 276 0 SHEET 2 AC 3 GLU A 283 GLY A 294 -1 N ASN A 284 O LEU A 275 SHEET 3 AC 3 GLY A 297 VAL A 302 -1 O GLY A 297 N GLY A 294 CISPEP 1 ASN A 140 PRO A 141 0 -2.01 SITE 1 AC1 8 ASN A 140 LEU A 167 ARG A 171 HIS A 195 SITE 2 AC1 8 ARG A 233 ALA A 236 THR A 246 NAD A1000 SITE 1 AC2 1 GLY A 294 SITE 1 AC3 23 GLY A 30 ARG A 31 VAL A 32 ASP A 53 SITE 2 AC3 23 ILE A 54 LEU A 58 TYR A 85 THR A 97 SITE 3 AC3 23 ALA A 98 GLY A 99 LEU A 100 ILE A 119 SITE 4 AC3 23 VAL A 138 ASN A 140 MET A 163 LEU A 167 SITE 5 AC3 23 HIS A 195 THR A 246 PRO A 250 SO4 A2000 SITE 6 AC3 23 HOH A2017 HOH A2059 HOH A2085 CRYST1 112.964 112.964 71.294 90.00 90.00 90.00 P 41 21 2 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 0.008852 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008852 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014026 0.00000