HEADER OXIDOREDUCTASE 15-JUL-03 1OJU OBSLTE 22-DEC-09 1OJU 2X0J TITLE 2.8 A RESOLUTION STRUCTURE OF MALATE DEHYDROGENASE FROM TITLE 2 ARCHAEOGLOBUS FULGIDUS IN COMPLEX WITH ETHENO-NAD. 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.VELLIEUX,A.KARSHIKOFF, AUTHOR 2 G.TIBBELIN,R.LADENSTEIN,T.LIEN,N.K.BIRKELAND REVDAT 3 22-DEC-09 1OJU 1 OBSLTE REVDAT 2 24-FEB-09 1OJU 1 VERSN REVDAT 1 15-JUL-04 1OJU 0 JRNL AUTH A.IRIMIA,F.M.VELLIEUX,D.MADERN,G.ZACCAI, JRNL AUTH 2 A.KARSHIKOFFG.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. 2.79 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) : 2.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.73 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) (%) : 90.8 REMARK 3 NUMBER OF REFLECTIONS : 10823 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) : 0.1987 REMARK 3 FREE R VALUE : 0.2319 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 94.6 REMARK 3 FREE R VALUE TEST SET COUNT : 10238 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 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) : 2.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.96 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.5 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 69 REMARK 3 BIN R VALUE (WORKING SET) : 0.316 REMARK 3 BIN FREE R VALUE : 0.279 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 95.3 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 1385 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.007 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 : 51 REMARK 3 SOLVENT ATOMS : 100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.2 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.9 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.96 REMARK 3 B22 (A**2) : -10.96 REMARK 3 B33 (A**2) : 21.93 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) : 0.40 REMARK 3 ESD FROM SIGMAA (A) : 0.39 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) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.36 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.8 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.5 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.09 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) : 1.53 ; 1.50 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.67 ; 2.00 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.56 ; 2.00 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.98 ; 2.50 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.346136 REMARK 3 BSOL : 54.9087 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 : ENA.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 : ENA.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 1OJU 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-13078. 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 : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 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 : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : BIOMOL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10861 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.786 REMARK 200 RESOLUTION RANGE LOW (A) : 35.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.9 REMARK 200 DATA REDUNDANCY : 15.500 REMARK 200 R MERGE (I) : 0.04590 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 43.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 REMARK 200 R MERGE FOR SHELL (I) : 0.15060 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 12.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: INITIAL PROTEIN DROPLET: 22 MG/ML REMARK 280 PROTEIN, 10 MM ETHENO-NAD RESERVOIR:1.6 % (W/V) REMARK 280 POLYETHYLENE GLYCOL 8000, 0.8 M LISO4 DROPLET: REMARK 280 EQUAL VOLUMES OF INITIAL PROTEIN DROPLET AND RESER 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 35.30000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 56.49500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 56.49500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 17.65000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 56.49500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 56.49500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.95000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 56.49500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.49500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 17.65000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 56.49500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.49500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 52.95000 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 35.30000 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 A2044 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 3.708 REMARK 500 ARG A 187B C ILE A 187A N 4.044 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 PRO A 105 C - N - CA ANGL. DEV. = 16.8 DEGREES REMARK 500 GLY A 106 N - CA - C ANGL. DEV. = -16.2 DEGREES REMARK 500 ARG A 109 NE - CZ - NH1 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG A 109 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 109 NH1 - CZ - NH2 ANGL. DEV. = 8.4 DEGREES REMARK 500 GLU A 132B CA - C - N ANGL. DEV. = -64.1 DEGREES REMARK 500 GLU A 132B O - C - N ANGL. DEV. = 46.8 DEGREES REMARK 500 PRO A 132A C - N - CA ANGL. DEV. = -47.9 DEGREES REMARK 500 ARG A 187B CA - C - N ANGL. DEV. = -67.4 DEGREES REMARK 500 ARG A 187B O - C - N ANGL. DEV. = -29.9 DEGREES REMARK 500 ILE A 187A C - N - CA ANGL. DEV. = -85.6 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 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 SER A 91 110.50 -35.42 REMARK 500 ALA A 101 -158.69 -117.73 REMARK 500 LYS A 103 73.72 -104.48 REMARK 500 MET A 107 -67.89 -109.72 REMARK 500 THR A 108 145.37 113.88 REMARK 500 ASN A 130 -28.98 -140.18 REMARK 500 ALA A 189 105.61 -164.69 REMARK 500 VAL A 220 -123.24 -108.12 REMARK 500 ASP A 224 77.61 178.87 REMARK 500 TRP A 225 -19.18 -49.02 REMARK 500 ILE A 247 -70.86 -125.08 REMARK 500 ASP A 264 49.14 35.01 REMARK 500 ASN A 284 41.52 36.72 REMARK 500 SER A 308 170.38 -53.48 REMARK 500 GLU A 328 -15.45 -50.00 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 45.19 REMARK 500 ARG A 187B ILE A 187A 141.56 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 23.73 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 ENA A1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NCA A1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OJS RELATED DB: PDB REMARK 900 2.9 A RESOLUTION STRUCTURE OF MALATE REMARK 900 DEHYDROGENASE FROM ARCHAEOGLOBUS FULGIDUS IN REMARK 900 COMPLEX WITH NADH. 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 1OJU 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 ENA A1000 37 HET NCA A1001 9 HETNAM SO4 SULFATE ION HETNAM ENA ETHENO-NAD HETNAM NCA NICOTINAMIDE FORMUL 2 SO4 O4 S 2- FORMUL 3 ENA C17 H23 N5 O14 P2 FORMUL 3 NCA C6 H6 N2 O FORMUL 4 HOH *100(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 PHE A 234 1 11 HELIX 9 9 VAL A 235 GLY A 244 1 10 HELIX 10 10 ILE A 247 GLU A 263 1 17 HELIX 11 11 GLU A 278 GLY A 280 5 3 HELIX 12 12 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 LINK C9' ENA A1000 N1 NCA A1001 1555 1555 1.48 CISPEP 1 ASN A 140 PRO A 141 0 -1.65 SITE 1 AC1 5 ARG A 171 HIS A 195 ALA A 236 THR A 246 SITE 2 AC1 5 NCA A1001 SITE 1 AC2 15 GLY A 30 ARG A 31 VAL A 32 ASP A 53 SITE 2 AC2 15 ILE A 54 LEU A 58 TYR A 85 THR A 97 SITE 3 AC2 15 ALA A 98 GLY A 99 ILE A 119 ASN A 140 SITE 4 AC2 15 NCA A1001 HOH A2007 HOH A2100 SITE 1 AC3 9 VAL A 138 ASN A 140 MET A 163 LEU A 167 SITE 2 AC3 9 HIS A 195 THR A 246 PRO A 250 ENA A1000 SITE 3 AC3 9 SO4 A2000 CRYST1 112.990 112.990 70.600 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 0.008850 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008850 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014164 0.00000