HEADER OXIDOREDUCTASE 31-MAY-02 1LWD TITLE CRYSTAL STRUCTURE OF NADP-DEPENDENT ISOCITRATE DEHYDROGENASE FROM TITLE 2 PORCINE HEART MITOCHONDRIA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOCITRATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: OXALOSUCCINATE DECARBOXYLASE, IDH, NADP+-SPECIFIC ICDH, IDP, COMPND 5 ICD-M; COMPND 6 EC: 1.1.1.42; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 ORGAN: HEART; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TB1; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMALCIDP1 KEYWDS TRICARBOXYLIC ACID CYCLE, OXIDOREDUCTASE, NADP EXPDTA X-RAY DIFFRACTION AUTHOR C.CECCARELLI,B.J.BAHNSON REVDAT 4 03-APR-24 1LWD 1 REMARK REVDAT 3 14-FEB-24 1LWD 1 REMARK LINK REVDAT 2 24-FEB-09 1LWD 1 VERSN REVDAT 1 13-NOV-02 1LWD 0 JRNL AUTH C.CECCARELLI,N.B.GRODSKY,N.ARIYARATNE,R.F.COLMAN,B.J.BAHNSON JRNL TITL CRYSTAL STRUCTURE OF PORCINE MITOCHONDRIAL NADP+-DEPENDENT JRNL TITL 2 ISOCITRATE DEHYDROGENASE COMPLEXED WITH MN2+ AND ISOCITRATE JRNL REF J.BIOL.CHEM. V. 277 43454 2002 JRNL REFN ISSN 0021-9258 JRNL PMID 12207025 JRNL DOI 10.1074/JBC.M207306200 REMARK 2 REMARK 2 RESOLUTION. 1.85 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.23 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) (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 77739 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) : 0.182 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 7728 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 10267 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 1153 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.009 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6570 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 715 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.20000 REMARK 3 B22 (A**2) : -1.01000 REMARK 3 B33 (A**2) : 2.21000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.20 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) : 0.24 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.21 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.760 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) : 1.160 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.740 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.030 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.020 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 46.69 REMARK 3 REMARK 3 NCS MODEL : RESTRAINED REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : 0.066 ; 50 REMARK 3 GROUP 1 B-FACTOR (A**2) : 1.936 ; 2 REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : ISOCITRATE.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : ISOCITRATE.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NCS RESTRAINTS WERE APPLIED TO 3074 OF REMARK 3 3285 PAIRS OF ATOMS IN THE A AND B SUBUNITS OF THE PROTEIN. SEE REMARK 3 REMARK 295 FOR RESIDUES AND SIDE CHAIN ATOMS OMITTED FROM NCS REMARK 3 RESTRAINTS. REMARK 4 REMARK 4 1LWD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUN-02. REMARK 100 THE DEPOSITION ID IS D_1000016343. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-99 REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 7.70 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 RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88689 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 3.767 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.64 REMARK 200 R MERGE FOR SHELL (I) : 0.96300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: ISOMORPHOUS SE-MET CRYSTAL STRUCTURE REMARK 200 REMARK 200 REMARK: THE STRUCTURE OF THE SE-MET CRYSTAL WAS SOLVED BY REMARK 200 MULTIWAVELENGTH ANOMALOUS DIFFRACTION (MAD). THE THREE- REMARK 200 WAVELENGTH MAD EXPERIMENT WAS PERFORMED ON BEAMLINE X12-C AT THE REMARK 200 NSLS, BROOKHAVEN NATIONAL LABORATORY. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MG/ML PROTEIN, 100 MM REMARK 280 TRIETHANOLAMINE CHLORIDE PH 7.7, 150 MM SODIUM SULFATE, 8 MM REMARK 280 ISOCITRATE, 4 MM MANGANESE SULFATE, 20% PEG 6000, 3% GLYCEROL, REMARK 280 PH 7.70, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 68.93000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.28450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.93000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 56.28450 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 300 REMARK: THE BIOLOGICALLY FUNCTIONAL MOLECULE IS A DIMER FORMED BY REMARK 300 SUBUNITS A AND B, EACH OF WHICH IS PRESENT IN THE REMARK 300 CRYSTALLOGRAPHIC ASYMMETRIC UNIT 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: 8440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -83.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1058 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1012 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1033 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1121 LIES ON A SPECIAL POSITION. 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 79 C - N - CA ANGL. DEV. = 9.0 DEGREES REMARK 500 PRO B 79 C - N - CA ANGL. DEV. = 9.0 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 2 -141.84 -160.26 REMARK 500 GLU A 18 -132.10 39.58 REMARK 500 ILE A 32 -67.02 -95.02 REMARK 500 SER A 69 -13.35 78.10 REMARK 500 ASP A 138 -138.94 58.30 REMARK 500 LYS A 141 34.02 -141.19 REMARK 500 TYR A 171 144.34 -174.98 REMARK 500 ALA A 175 -152.97 -159.80 REMARK 500 LEU A 290 65.92 -111.47 REMARK 500 HIS A 309 -169.65 -102.44 REMARK 500 SER A 326 68.28 -117.56 REMARK 500 LEU A 383 -18.91 -44.72 REMARK 500 ASN A 385 18.25 -145.98 REMARK 500 GLU B 18 -129.33 39.22 REMARK 500 SER B 69 -11.30 79.67 REMARK 500 ASP B 138 -139.46 58.08 REMARK 500 LYS B 141 32.24 -142.31 REMARK 500 TYR B 171 149.73 -172.97 REMARK 500 ALA B 175 -156.65 -159.88 REMARK 500 LEU B 290 67.25 -112.00 REMARK 500 LYS B 301 -29.77 -142.56 REMARK 500 SER B 326 69.29 -118.80 REMARK 500 LEU B 383 -19.76 -44.09 REMARK 500 ASN B 385 18.02 -145.72 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 MN B 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 252 OD2 REMARK 620 2 ASP B 275 OD1 102.4 REMARK 620 3 ICT B 702 O7 84.3 108.9 REMARK 620 4 ICT B 702 O2 156.4 84.4 72.1 REMARK 620 5 HOH B1002 O 116.7 86.5 151.4 86.1 REMARK 620 6 HOH B1004 O 79.8 165.6 85.4 99.3 80.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 275 OD1 REMARK 620 2 ICT A 701 O2 85.6 REMARK 620 3 ICT A 701 O7 109.3 71.9 REMARK 620 4 HOH A1001 O 87.4 86.8 151.3 REMARK 620 5 HOH A1003 O 167.8 94.8 82.3 80.5 REMARK 620 6 ASP B 252 OD2 101.2 157.6 85.7 114.6 83.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: MN1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE OF ISOCITRATE DEHYDROGENASE IS WHERE REMARK 800 OXIDATIVE DECARBOXYLATION OF ISOCITRATE TAKES PLACE. REMARK 800 REMARK 800 SITE_IDENTIFIER: MN2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE OF ISOCITRATE DEHYDROGENASE IS WHERE REMARK 800 OXIDATIVE DECARBOXYLATION OF ISOCITRATE TAKES PLACE. REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ICT A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ICT B 702 DBREF 1LWD A 1 413 UNP P33198 IDHP_PIG 9 421 DBREF 1LWD B 1 413 UNP P33198 IDHP_PIG 9 421 SEQRES 1 A 413 ALA ASP GLN ARG ILE LYS VAL ALA LYS PRO VAL VAL GLU SEQRES 2 A 413 MET ASP GLY ASP GLU MET THR ARG ILE ILE TRP GLN PHE SEQRES 3 A 413 ILE LYS GLU LYS LEU ILE LEU PRO HIS VAL ASP VAL GLN SEQRES 4 A 413 LEU LYS TYR PHE ASP LEU GLY LEU PRO ASN ARG ASP GLN SEQRES 5 A 413 THR ASN ASP GLN VAL THR ILE ASP SER ALA LEU ALA THR SEQRES 6 A 413 GLN LYS TYR SER VAL ALA VAL LYS CYS ALA THR ILE THR SEQRES 7 A 413 PRO ASP GLU ALA ARG VAL GLU GLU PHE LYS LEU LYS LYS SEQRES 8 A 413 MET TRP LYS SER PRO ASN GLY THR ILE ARG ASN ILE LEU SEQRES 9 A 413 GLY GLY THR VAL PHE ARG GLU PRO ILE ILE CYS LYS ASN SEQRES 10 A 413 ILE PRO ARG LEU VAL PRO GLY TRP THR LYS PRO ILE THR SEQRES 11 A 413 ILE GLY ARG HIS ALA HIS GLY ASP GLN TYR LYS ALA THR SEQRES 12 A 413 ASP PHE VAL VAL ASP ARG ALA GLY THR PHE LYS ILE VAL SEQRES 13 A 413 PHE THR PRO LYS ASP GLY SER SER ALA LYS GLN TRP GLU SEQRES 14 A 413 VAL TYR ASN PHE PRO ALA GLY GLY VAL GLY MET GLY MET SEQRES 15 A 413 TYR ASN THR ASP GLU SER ILE SER GLY PHE ALA HIS SER SEQRES 16 A 413 CYS PHE GLN TYR ALA ILE GLN LYS LYS TRP PRO LEU TYR SEQRES 17 A 413 MET SER THR LYS ASN THR ILE LEU LYS ALA TYR ASP GLY SEQRES 18 A 413 ARG PHE LYS ASP ILE PHE GLN GLU ILE PHE GLU LYS HIS SEQRES 19 A 413 TYR LYS THR ASP PHE ASP LYS TYR LYS ILE TRP TYR GLU SEQRES 20 A 413 HIS ARG LEU ILE ASP ASP MET VAL ALA GLN VAL LEU LYS SEQRES 21 A 413 SER SER GLY GLY PHE VAL TRP ALA CYS LYS ASN TYR ASP SEQRES 22 A 413 GLY ASP VAL GLN SER ASP ILE LEU ALA GLN GLY PHE GLY SEQRES 23 A 413 SER LEU GLY LEU MET THR SER VAL LEU VAL CYS PRO ASP SEQRES 24 A 413 GLY LYS THR ILE GLU ALA GLU ALA ALA HIS GLY THR VAL SEQRES 25 A 413 THR ARG HIS TYR ARG GLU HIS GLN LYS GLY ARG PRO THR SEQRES 26 A 413 SER THR ASN PRO ILE ALA SER ILE PHE ALA TRP THR ARG SEQRES 27 A 413 GLY LEU GLU HIS ARG GLY LYS LEU ASP GLY ASN GLN ASP SEQRES 28 A 413 LEU ILE ARG PHE ALA GLN THR LEU GLU LYS VAL CYS VAL SEQRES 29 A 413 GLU THR VAL GLU SER GLY ALA MET THR LYS ASP LEU ALA SEQRES 30 A 413 GLY CYS ILE HIS GLY LEU SER ASN VAL LYS LEU ASN GLU SEQRES 31 A 413 HIS PHE LEU ASN THR SER ASP PHE LEU ASP THR ILE LYS SEQRES 32 A 413 SER ASN LEU ASP ARG ALA LEU GLY ARG GLN SEQRES 1 B 413 ALA ASP GLN ARG ILE LYS VAL ALA LYS PRO VAL VAL GLU SEQRES 2 B 413 MET ASP GLY ASP GLU MET THR ARG ILE ILE TRP GLN PHE SEQRES 3 B 413 ILE LYS GLU LYS LEU ILE LEU PRO HIS VAL ASP VAL GLN SEQRES 4 B 413 LEU LYS TYR PHE ASP LEU GLY LEU PRO ASN ARG ASP GLN SEQRES 5 B 413 THR ASN ASP GLN VAL THR ILE ASP SER ALA LEU ALA THR SEQRES 6 B 413 GLN LYS TYR SER VAL ALA VAL LYS CYS ALA THR ILE THR SEQRES 7 B 413 PRO ASP GLU ALA ARG VAL GLU GLU PHE LYS LEU LYS LYS SEQRES 8 B 413 MET TRP LYS SER PRO ASN GLY THR ILE ARG ASN ILE LEU SEQRES 9 B 413 GLY GLY THR VAL PHE ARG GLU PRO ILE ILE CYS LYS ASN SEQRES 10 B 413 ILE PRO ARG LEU VAL PRO GLY TRP THR LYS PRO ILE THR SEQRES 11 B 413 ILE GLY ARG HIS ALA HIS GLY ASP GLN TYR LYS ALA THR SEQRES 12 B 413 ASP PHE VAL VAL ASP ARG ALA GLY THR PHE LYS ILE VAL SEQRES 13 B 413 PHE THR PRO LYS ASP GLY SER SER ALA LYS GLN TRP GLU SEQRES 14 B 413 VAL TYR ASN PHE PRO ALA GLY GLY VAL GLY MET GLY MET SEQRES 15 B 413 TYR ASN THR ASP GLU SER ILE SER GLY PHE ALA HIS SER SEQRES 16 B 413 CYS PHE GLN TYR ALA ILE GLN LYS LYS TRP PRO LEU TYR SEQRES 17 B 413 MET SER THR LYS ASN THR ILE LEU LYS ALA TYR ASP GLY SEQRES 18 B 413 ARG PHE LYS ASP ILE PHE GLN GLU ILE PHE GLU LYS HIS SEQRES 19 B 413 TYR LYS THR ASP PHE ASP LYS TYR LYS ILE TRP TYR GLU SEQRES 20 B 413 HIS ARG LEU ILE ASP ASP MET VAL ALA GLN VAL LEU LYS SEQRES 21 B 413 SER SER GLY GLY PHE VAL TRP ALA CYS LYS ASN TYR ASP SEQRES 22 B 413 GLY ASP VAL GLN SER ASP ILE LEU ALA GLN GLY PHE GLY SEQRES 23 B 413 SER LEU GLY LEU MET THR SER VAL LEU VAL CYS PRO ASP SEQRES 24 B 413 GLY LYS THR ILE GLU ALA GLU ALA ALA HIS GLY THR VAL SEQRES 25 B 413 THR ARG HIS TYR ARG GLU HIS GLN LYS GLY ARG PRO THR SEQRES 26 B 413 SER THR ASN PRO ILE ALA SER ILE PHE ALA TRP THR ARG SEQRES 27 B 413 GLY LEU GLU HIS ARG GLY LYS LEU ASP GLY ASN GLN ASP SEQRES 28 B 413 LEU ILE ARG PHE ALA GLN THR LEU GLU LYS VAL CYS VAL SEQRES 29 B 413 GLU THR VAL GLU SER GLY ALA MET THR LYS ASP LEU ALA SEQRES 30 B 413 GLY CYS ILE HIS GLY LEU SER ASN VAL LYS LEU ASN GLU SEQRES 31 B 413 HIS PHE LEU ASN THR SER ASP PHE LEU ASP THR ILE LYS SEQRES 32 B 413 SER ASN LEU ASP ARG ALA LEU GLY ARG GLN HET MN A 501 1 HET ICT A 701 13 HET MN B 502 1 HET SO4 B 601 5 HET SO4 B 602 5 HET ICT B 702 13 HETNAM MN MANGANESE (II) ION HETNAM ICT ISOCITRIC ACID HETNAM SO4 SULFATE ION FORMUL 3 MN 2(MN 2+) FORMUL 4 ICT 2(C6 H8 O7) FORMUL 6 SO4 2(O4 S 2-) FORMUL 9 HOH *715(H2 O) HELIX 1 1 ASP A 17 LEU A 31 1 15 HELIX 2 2 GLY A 46 THR A 53 1 8 HELIX 3 3 ASP A 55 SER A 69 1 15 HELIX 4 4 ASP A 80 LYS A 88 1 9 HELIX 5 5 SER A 95 GLY A 105 1 11 HELIX 6 6 GLY A 137 ALA A 142 5 6 HELIX 7 7 ASP A 186 LYS A 204 1 19 HELIX 8 8 ALA A 218 TYR A 235 1 18 HELIX 9 9 TYR A 235 TYR A 242 1 8 HELIX 10 10 ILE A 251 SER A 261 1 11 HELIX 11 11 LYS A 270 GLY A 286 1 17 HELIX 12 12 VAL A 312 LYS A 321 1 10 HELIX 13 13 PRO A 329 GLY A 348 1 20 HELIX 14 14 ASN A 349 SER A 369 1 21 HELIX 15 15 THR A 373 GLY A 382 1 10 HELIX 16 16 ASN A 394 ARG A 412 1 19 HELIX 17 17 ASP B 17 LEU B 31 1 15 HELIX 18 18 GLY B 46 THR B 53 1 8 HELIX 19 19 ASP B 55 SER B 69 1 15 HELIX 20 20 ASP B 80 LYS B 88 1 9 HELIX 21 21 SER B 95 GLY B 105 1 11 HELIX 22 22 GLY B 137 ALA B 142 5 6 HELIX 23 23 ASP B 186 LYS B 204 1 19 HELIX 24 24 ALA B 218 TYR B 235 1 18 HELIX 25 25 TYR B 235 TYR B 242 1 8 HELIX 26 26 ILE B 251 SER B 261 1 11 HELIX 27 27 LYS B 270 GLY B 286 1 17 HELIX 28 28 VAL B 312 LYS B 321 1 10 HELIX 29 29 PRO B 329 GLY B 348 1 20 HELIX 30 30 ASN B 349 SER B 369 1 21 HELIX 31 31 THR B 373 GLY B 382 1 10 HELIX 32 32 ASN B 394 GLN B 413 1 20 SHEET 1 A 2 ILE A 5 LYS A 6 0 SHEET 2 A 2 VAL A 36 ASP A 37 1 O ASP A 37 N ILE A 5 SHEET 1 B10 LEU A 40 ASP A 44 0 SHEET 2 B10 VAL A 11 ASP A 15 1 N GLU A 13 O PHE A 43 SHEET 3 B10 VAL A 70 LYS A 73 1 O VAL A 70 N VAL A 12 SHEET 4 B10 ILE A 303 GLU A 306 1 O ALA A 305 N LYS A 73 SHEET 5 B10 MET A 291 VAL A 296 -1 N LEU A 295 O GLU A 304 SHEET 6 B10 THR A 107 PRO A 112 -1 N THR A 107 O VAL A 296 SHEET 7 B10 ILE A 129 HIS A 134 -1 O ARG A 133 N VAL A 108 SHEET 8 B10 PHE A 265 CYS A 269 1 O CYS A 269 N GLY A 132 SHEET 9 B10 LEU A 207 THR A 211 1 N TYR A 208 O ALA A 268 SHEET 10 B10 TYR A 246 LEU A 250 1 O ARG A 249 N MET A 209 SHEET 1 C 4 THR A 143 VAL A 147 0 SHEET 2 C 4 GLY A 177 THR A 185 -1 O GLY A 177 N VAL A 147 SHEET 3 C 4 GLY B 177 THR B 185 -1 O VAL B 178 N ASN A 184 SHEET 4 C 4 THR B 143 VAL B 147 -1 N VAL B 147 O GLY B 177 SHEET 1 D 4 LYS A 166 PHE A 173 0 SHEET 2 D 4 GLY A 151 PRO A 159 -1 N PHE A 157 O LYS A 166 SHEET 3 D 4 GLY B 151 PRO B 159 -1 O VAL B 156 N LYS A 154 SHEET 4 D 4 LYS B 166 PHE B 173 -1 O TYR B 171 N PHE B 153 SHEET 1 E 2 ILE B 5 LYS B 6 0 SHEET 2 E 2 VAL B 36 ASP B 37 1 O ASP B 37 N ILE B 5 SHEET 1 F10 LEU B 40 ASP B 44 0 SHEET 2 F10 VAL B 11 ASP B 15 1 N GLU B 13 O PHE B 43 SHEET 3 F10 VAL B 70 LYS B 73 1 O VAL B 70 N VAL B 12 SHEET 4 F10 ILE B 303 GLU B 306 1 O ALA B 305 N LYS B 73 SHEET 5 F10 MET B 291 VAL B 296 -1 N LEU B 295 O GLU B 304 SHEET 6 F10 THR B 107 PRO B 112 -1 N THR B 107 O VAL B 296 SHEET 7 F10 ILE B 129 HIS B 134 -1 O ARG B 133 N VAL B 108 SHEET 8 F10 PHE B 265 CYS B 269 1 O CYS B 269 N GLY B 132 SHEET 9 F10 LEU B 207 THR B 211 1 N TYR B 208 O ALA B 268 SHEET 10 F10 TYR B 246 LEU B 250 1 O ARG B 249 N MET B 209 LINK OD2 ASP A 252 MN MN B 502 1555 1555 2.26 LINK OD1 ASP A 275 MN MN A 501 1555 1555 2.06 LINK MN MN A 501 O2 ICT A 701 1555 1555 2.32 LINK MN MN A 501 O7 ICT A 701 1555 1555 2.23 LINK MN MN A 501 O HOH A1001 1555 1555 2.17 LINK MN MN A 501 O HOH A1003 1555 1555 2.24 LINK MN MN A 501 OD2 ASP B 252 1555 1555 2.29 LINK OD1 ASP B 275 MN MN B 502 1555 1555 2.08 LINK MN MN B 502 O7 ICT B 702 1555 1555 2.20 LINK MN MN B 502 O2 ICT B 702 1555 1555 2.31 LINK MN MN B 502 O HOH B1002 1555 1555 2.22 LINK MN MN B 502 O HOH B1004 1555 1555 2.36 SITE 1 MN1 18 ICT A 701 THR A 78 SER A 95 ASN A 97 SITE 2 MN1 18 ARG A 101 ARG A 110 ARG A 133 TYR A 140 SITE 3 MN1 18 ASP A 275 SER A 278 ASP A 279 LYS B 212 SITE 4 MN1 18 ASP B 252 HOH A1001 HOH A1003 HOH A1005 SITE 5 MN1 18 HOH B1007 MN A 501 SITE 1 MN2 18 ICT B 702 THR B 78 SER B 95 ASN B 97 SITE 2 MN2 18 ARG B 101 ARG B 110 ARG B 133 TYR B 140 SITE 3 MN2 18 ASP B 275 SER B 278 ASP B 279 LYS A 212 SITE 4 MN2 18 ASP A 252 MN B 502 HOH B1002 HOH B1004 SITE 5 MN2 18 HOH B1006 HOH A1008 SITE 1 AC1 5 ASP A 275 ICT A 701 HOH A1001 HOH A1003 SITE 2 AC1 5 ASP B 252 SITE 1 AC2 5 ASP A 252 ASP B 275 ICT B 702 HOH B1002 SITE 2 AC2 5 HOH B1004 SITE 1 AC3 4 HIS B 315 LYS B 374 HOH B1565 HOH B1678 SITE 1 AC4 3 LYS A 321 ARG A 323 ARG B 149 SITE 1 AC5 16 THR A 78 SER A 95 ASN A 97 ARG A 101 SITE 2 AC5 16 ARG A 110 ARG A 133 TYR A 140 ASP A 275 SITE 3 AC5 16 MN A 501 HOH A1001 HOH A1003 HOH A1005 SITE 4 AC5 16 HOH A1283 LYS B 212 ASP B 252 HOH B1125 SITE 1 AC6 16 LYS A 212 ASP A 252 THR B 78 SER B 95 SITE 2 AC6 16 ASN B 97 ARG B 101 ARG B 110 ARG B 133 SITE 3 AC6 16 TYR B 140 ASP B 275 MN B 502 HOH B1002 SITE 4 AC6 16 HOH B1004 HOH B1006 HOH B1187 HOH B1324 CRYST1 137.860 112.569 66.080 90.00 97.00 90.00 C 1 2 1 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 0.007254 0.000000 0.000891 0.00000 SCALE2 0.000000 0.008883 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015247 0.00000 MTRIX1 1 -0.536880 0.631020 0.559980 7.36492 1 MTRIX2 1 0.631080 -0.140130 0.762950 -37.67679 1 MTRIX3 1 0.559910 0.763010 -0.322990 36.53458 1