HEADER TRANSFERASE 20-JUN-06 2HDK TITLE CRYSTAL STRUCTURE OF CYS315ALA-CYS318ALA MUTANT OF HUMAN MITOCHONDRIAL TITLE 2 BRANCHED CHAIN AMINOTRANSFERASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BRANCHED-CHAIN-AMINO-ACID AMINOTRANSFERASE, MITOCHONDRIAL; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BCATM, PLACENTAL PROTEIN 18, PP18, MITOCHONDRIAL BRANCHED COMPND 5 CHAIN AMINOTRANSFERASE; COMPND 6 EC: 2.6.1.42; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS D-AMINOACID AMINOTRANSFERASE-LIKE PLP-DEPENDENT ENZYMES, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.H.YENNAWAR,S.M.HUTSON REVDAT 6 20-OCT-21 2HDK 1 REMARK SEQADV LINK REVDAT 5 18-OCT-17 2HDK 1 REMARK REVDAT 4 13-JUL-11 2HDK 1 VERSN REVDAT 3 24-FEB-09 2HDK 1 VERSN REVDAT 2 09-JAN-07 2HDK 1 JRNL REVDAT 1 24-OCT-06 2HDK 0 JRNL AUTH N.H.YENNAWAR,M.M.ISLAM,M.CONWAY,R.WALLIN,S.M.HUTSON JRNL TITL HUMAN MITOCHONDRIAL BRANCHED CHAIN AMINOTRANSFERASE ISOZYME: JRNL TITL 2 STRUCTURAL ROLE OF THE CXXC CENTER IN CATALYSIS. JRNL REF J.BIOL.CHEM. V. 281 39660 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 17050531 JRNL DOI 10.1074/JBC.M607552200 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 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) (%) : 87.2 REMARK 3 NUMBER OF REFLECTIONS : 26816 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1850 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 37 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.42 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 477 REMARK 3 BIN R VALUE (WORKING SET) : 0.2930 REMARK 3 BIN FREE R VALUE : 0.3810 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 35 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5794 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 142 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.27500 REMARK 3 B22 (A**2) : -5.16200 REMARK 3 B33 (A**2) : -0.11300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.50700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.020 REMARK 3 BOND ANGLES (DEGREES) : 2.038 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 12.35 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.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ACY+GLYC.PAR REMARK 3 PARAMETER FILE 4 : KIC.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HDK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000038227. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-02 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91609 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28489 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.65600 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: MOLECULAR REPLACEMENT 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 (%): 49.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22 TO 30 % PEG1500, 100MM HEPES, 20MM REMARK 280 DTT, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 56.09350 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 295 REMARK 295 NON-CRYSTALLOGRAPHIC SYMMETRY REMARK 295 THE TRANSFORMATIONS PRESENTED ON THE MTRIX RECORDS BELOW REMARK 295 DESCRIBE NON-CRYSTALLOGRAPHIC RELATIONSHIPS AMONG ATOMS REMARK 295 IN THIS ENTRY. APPLYING THE APPROPRIATE MTRIX REMARK 295 TRANSFORMATION TO THE RESIDUES LISTED FIRST WILL YIELD REMARK 295 APPROXIMATE COORDINATES FOR THE RESIDUES LISTED SECOND. REMARK 295 APPLIED TO TRANSFORMED TO REMARK 295 TRANSFORM CHAIN RESIDUES CHAIN RESIDUES RMSD REMARK 295 SSS REMARK 295 M 1 A 1 .. 365 B 501 .. 865 0.74 REMARK 295 WHERE SSS -> COLUMNS 8-10 OF MTRIX RECORDS 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 BIOLOGICAL ASSEMBLY IS THE DEPOSITED DIMER IN THE REMARK 300 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: 6290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 ALA A 1 REMARK 465 SER A 2 REMARK 465 ALA B 501 REMARK 465 SER B 502 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 CYS A 168 CB CYS A 168 SG -0.125 REMARK 500 CYS B 668 CB CYS B 668 SG -0.102 REMARK 500 TRP B 694 CB TRP B 694 CG 0.119 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 LEU A 74 CA - CB - CG ANGL. DEV. = 16.6 DEGREES REMARK 500 LEU A 163 CA - CB - CG ANGL. DEV. = 14.3 DEGREES REMARK 500 LEU B 574 CA - CB - CG ANGL. DEV. = 16.6 DEGREES REMARK 500 PHE B 674 N - CA - C ANGL. DEV. = -23.1 DEGREES REMARK 500 ARG B 692 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG B 692 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG B 789 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 789 NE - CZ - NH2 ANGL. DEV. = -3.2 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 PRO A 22 92.44 -4.90 REMARK 500 PRO A 24 25.08 -62.14 REMARK 500 ASN A 44 -147.77 -150.94 REMARK 500 GLN A 86 7.55 59.61 REMARK 500 ARG A 92 52.64 32.50 REMARK 500 GLN A 316 -84.22 76.25 REMARK 500 ASP A 327 7.01 59.70 REMARK 500 PRO A 333 27.77 -69.28 REMARK 500 GLN B 586 10.21 55.64 REMARK 500 ARG B 592 53.38 30.70 REMARK 500 ASN B 649 35.03 -140.41 REMARK 500 ALA B 672 -73.77 69.90 REMARK 500 TYR B 673 90.89 94.93 REMARK 500 PRO B 675 -54.78 -7.53 REMARK 500 SER B 678 -68.09 27.90 REMARK 500 THR B 736 -62.99 -121.05 REMARK 500 GLN B 816 -85.67 74.96 REMARK 500 PRO B 833 27.73 -75.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 325 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE COI B 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EKF RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF HUMAN BRANCHED CHAIN AMINO ACID REMARK 900 AMINOTRANSFERASE (MITOCHONDRIAL) COMPLEXED WITH PYRIDOXAL-5'- REMARK 900 PHOSPHATE AT 1.95 ANGSTROMS (ORTHORHOMBIC FORM) REMARK 900 RELATED ID: 1EKP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN BRANCHED CHAIN AMINO ACID REMARK 900 AMINOTRANSFERASE (MITOCHONDRIAL) COMPLEXED WITH PYRIDOXAL- 5'- REMARK 900 PHOSPHATE AT 2.5 ANGSTROMS (MONOCLINIC FORM) REMARK 900 RELATED ID: 1EKV RELATED DB: PDB REMARK 900 HUMAN BRANCHED CHAIN AMINO ACID AMINOTRANSFERASE (MITOCHONDRIAL): REMARK 900 THREE DIMENSIONAL STRUCTURE OF ENZYME INACTIVATED BY TRIS BOUND TO REMARK 900 THE PYRIDOXAL-5'-PHOSPHATE ON ONE END AND ACTIVE SITE LYS202 NZ ON REMARK 900 THE OTHER. REMARK 900 RELATED ID: 1KTA RELATED DB: PDB REMARK 900 HUMAN BRANCHED CHAIN AMINO ACID AMINOTRANSFERASE: THREE DIMENSIONAL REMARK 900 STRUCTURE OF THE ENZYME IN ITS PYRIDOXAMINE PHOSPHATE FORM. REMARK 900 RELATED ID: 1KT8 RELATED DB: PDB REMARK 900 HUMAN BRANCHED CHAIN AMINO ACID AMINOTRANSFERASE (MITOCHONDRIAL): REMARK 900 THREE DIMENSIONAL STRUCTURE OF ENZYME IN ITS KETIMINE FORM WITH THE REMARK 900 SUBSTRATE L-ISOLEUCINE REMARK 900 RELATED ID: 2A1H RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF HUMAN MITOCHONDRIAL BRANCHED CHAIN REMARK 900 AMINOTRANSFERASE (BCATM) COMPLEXED WITH GABAPENTIN REMARK 900 RELATED ID: 2HG8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYS315ALA MUTANT OF HUMAN MITOCHONDRIAL REMARK 900 BRANCHED CHAIN AMINOTRANSFERASE COMPLEXED WITH ITS SUBSTRATE MIMIC, REMARK 900 N-METHYL LEUCINE. REMARK 900 RELATED ID: 2HGX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYS315ALA MUTANT OF HUMAN MITOCHONDRIAL REMARK 900 BRANCHED CHAIN AMINOTRANSFERASE REMARK 900 RELATED ID: 2HHF RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF OXIDIZED HUMAN MITOCHONDRIAL BRANCHED REMARK 900 CHAIN AMINOTRANSFERASE (HBCATM) REMARK 900 RELATED ID: 2HGW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYS318ALA MUTANT OF HUMAN MITOCHONDRIAL REMARK 900 BRANCHED CHAIN AMINOTRANSFERASE DBREF 2HDK A 1 365 UNP O15382 BCAT2_HUMAN 28 392 DBREF 2HDK B 501 865 UNP O15382 BCAT2_HUMAN 28 392 SEQADV 2HDK ARG A 159 UNP O15382 THR 186 CONFLICT SEQADV 2HDK ALA A 315 UNP O15382 CYS 342 ENGINEERED MUTATION SEQADV 2HDK ALA A 318 UNP O15382 CYS 345 ENGINEERED MUTATION SEQADV 2HDK ARG B 659 UNP O15382 THR 186 CONFLICT SEQADV 2HDK ALA B 815 UNP O15382 CYS 342 ENGINEERED MUTATION SEQADV 2HDK ALA B 818 UNP O15382 CYS 345 ENGINEERED MUTATION SEQRES 1 A 365 ALA SER SER SER PHE LYS ALA ALA ASP LEU GLN LEU GLU SEQRES 2 A 365 MET THR GLN LYS PRO HIS LYS LYS PRO GLY PRO GLY GLU SEQRES 3 A 365 PRO LEU VAL PHE GLY LYS THR PHE THR ASP HIS MET LEU SEQRES 4 A 365 MET VAL GLU TRP ASN ASP LYS GLY TRP GLY GLN PRO ARG SEQRES 5 A 365 ILE GLN PRO PHE GLN ASN LEU THR LEU HIS PRO ALA SER SEQRES 6 A 365 SER SER LEU HIS TYR SER LEU GLN LEU PHE GLU GLY MET SEQRES 7 A 365 LYS ALA PHE LYS GLY LYS ASP GLN GLN VAL ARG LEU PHE SEQRES 8 A 365 ARG PRO TRP LEU ASN MET ASP ARG MET LEU ARG SER ALA SEQRES 9 A 365 MET ARG LEU CYS LEU PRO SER PHE ASP LYS LEU GLU LEU SEQRES 10 A 365 LEU GLU CYS ILE ARG ARG LEU ILE GLU VAL ASP LYS ASP SEQRES 11 A 365 TRP VAL PRO ASP ALA ALA GLY THR SER LEU TYR VAL ARG SEQRES 12 A 365 PRO VAL LEU ILE GLY ASN GLU PRO SER LEU GLY VAL SER SEQRES 13 A 365 GLN PRO ARG ARG ALA LEU LEU PHE VAL ILE LEU CYS PRO SEQRES 14 A 365 VAL GLY ALA TYR PHE PRO GLY GLY SER VAL THR PRO VAL SEQRES 15 A 365 SER LEU LEU ALA ASP PRO ALA PHE ILE ARG ALA TRP VAL SEQRES 16 A 365 GLY GLY VAL GLY ASN TYR LYS LEU GLY GLY ASN TYR GLY SEQRES 17 A 365 PRO THR VAL LEU VAL GLN GLN GLU ALA LEU LYS ARG GLY SEQRES 18 A 365 CYS GLU GLN VAL LEU TRP LEU TYR GLY PRO ASP HIS GLN SEQRES 19 A 365 LEU THR GLU VAL GLY THR MET ASN ILE PHE VAL TYR TRP SEQRES 20 A 365 THR HIS GLU ASP GLY VAL LEU GLU LEU VAL THR PRO PRO SEQRES 21 A 365 LEU ASN GLY VAL ILE LEU PRO GLY VAL VAL ARG GLN SER SEQRES 22 A 365 LEU LEU ASP MET ALA GLN THR TRP GLY GLU PHE ARG VAL SEQRES 23 A 365 VAL GLU ARG THR ILE THR MET LYS GLN LEU LEU ARG ALA SEQRES 24 A 365 LEU GLU GLU GLY ARG VAL ARG GLU VAL PHE GLY SER GLY SEQRES 25 A 365 THR ALA ALA GLN VAL ALA PRO VAL HIS ARG ILE LEU TYR SEQRES 26 A 365 LYS ASP ARG ASN LEU HIS ILE PRO THR MET GLU ASN GLY SEQRES 27 A 365 PRO GLU LEU ILE LEU ARG PHE GLN LYS GLU LEU LYS GLU SEQRES 28 A 365 ILE GLN TYR GLY ILE ARG ALA HIS GLU TRP MET PHE PRO SEQRES 29 A 365 VAL SEQRES 1 B 365 ALA SER SER SER PHE LYS ALA ALA ASP LEU GLN LEU GLU SEQRES 2 B 365 MET THR GLN LYS PRO HIS LYS LYS PRO GLY PRO GLY GLU SEQRES 3 B 365 PRO LEU VAL PHE GLY LYS THR PHE THR ASP HIS MET LEU SEQRES 4 B 365 MET VAL GLU TRP ASN ASP LYS GLY TRP GLY GLN PRO ARG SEQRES 5 B 365 ILE GLN PRO PHE GLN ASN LEU THR LEU HIS PRO ALA SER SEQRES 6 B 365 SER SER LEU HIS TYR SER LEU GLN LEU PHE GLU GLY MET SEQRES 7 B 365 LYS ALA PHE LYS GLY LYS ASP GLN GLN VAL ARG LEU PHE SEQRES 8 B 365 ARG PRO TRP LEU ASN MET ASP ARG MET LEU ARG SER ALA SEQRES 9 B 365 MET ARG LEU CYS LEU PRO SER PHE ASP LYS LEU GLU LEU SEQRES 10 B 365 LEU GLU CYS ILE ARG ARG LEU ILE GLU VAL ASP LYS ASP SEQRES 11 B 365 TRP VAL PRO ASP ALA ALA GLY THR SER LEU TYR VAL ARG SEQRES 12 B 365 PRO VAL LEU ILE GLY ASN GLU PRO SER LEU GLY VAL SER SEQRES 13 B 365 GLN PRO ARG ARG ALA LEU LEU PHE VAL ILE LEU CYS PRO SEQRES 14 B 365 VAL GLY ALA TYR PHE PRO GLY GLY SER VAL THR PRO VAL SEQRES 15 B 365 SER LEU LEU ALA ASP PRO ALA PHE ILE ARG ALA TRP VAL SEQRES 16 B 365 GLY GLY VAL GLY ASN TYR LYS LEU GLY GLY ASN TYR GLY SEQRES 17 B 365 PRO THR VAL LEU VAL GLN GLN GLU ALA LEU LYS ARG GLY SEQRES 18 B 365 CYS GLU GLN VAL LEU TRP LEU TYR GLY PRO ASP HIS GLN SEQRES 19 B 365 LEU THR GLU VAL GLY THR MET ASN ILE PHE VAL TYR TRP SEQRES 20 B 365 THR HIS GLU ASP GLY VAL LEU GLU LEU VAL THR PRO PRO SEQRES 21 B 365 LEU ASN GLY VAL ILE LEU PRO GLY VAL VAL ARG GLN SER SEQRES 22 B 365 LEU LEU ASP MET ALA GLN THR TRP GLY GLU PHE ARG VAL SEQRES 23 B 365 VAL GLU ARG THR ILE THR MET LYS GLN LEU LEU ARG ALA SEQRES 24 B 365 LEU GLU GLU GLY ARG VAL ARG GLU VAL PHE GLY SER GLY SEQRES 25 B 365 THR ALA ALA GLN VAL ALA PRO VAL HIS ARG ILE LEU TYR SEQRES 26 B 365 LYS ASP ARG ASN LEU HIS ILE PRO THR MET GLU ASN GLY SEQRES 27 B 365 PRO GLU LEU ILE LEU ARG PHE GLN LYS GLU LEU LYS GLU SEQRES 28 B 365 ILE GLN TYR GLY ILE ARG ALA HIS GLU TRP MET PHE PRO SEQRES 29 B 365 VAL HET PLP A 400 15 HET ACY A1001 4 HET PLP B 401 15 HET COI B 900 9 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM ACY ACETIC ACID HETNAM COI 2-OXO-4-METHYLPENTANOIC ACID HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN COI ALPHA-KETOISOCAPROIC ACID FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 4 ACY C2 H4 O2 FORMUL 6 COI C6 H10 O3 FORMUL 7 HOH *142(H2 O) HELIX 1 1 LYS A 6 LEU A 10 5 5 HELIX 2 2 SER A 65 TYR A 70 1 6 HELIX 3 3 ARG A 92 LEU A 107 1 16 HELIX 4 4 ASP A 113 ASP A 128 1 16 HELIX 5 5 LYS A 129 VAL A 132 5 4 HELIX 6 6 PHE A 174 SER A 178 5 5 HELIX 7 7 LEU A 203 GLY A 208 5 6 HELIX 8 8 PRO A 209 ARG A 220 1 12 HELIX 9 9 GLY A 268 GLY A 282 1 15 HELIX 10 10 THR A 292 GLU A 302 1 11 HELIX 11 11 PRO A 339 TYR A 354 1 16 HELIX 12 12 LYS B 506 LEU B 510 5 5 HELIX 13 13 SER B 565 TYR B 570 1 6 HELIX 14 14 ARG B 592 LEU B 607 1 16 HELIX 15 15 ASP B 613 ASP B 628 1 16 HELIX 16 16 LYS B 629 VAL B 632 5 4 HELIX 17 17 LEU B 703 GLY B 708 5 6 HELIX 18 18 PRO B 709 ARG B 720 1 12 HELIX 19 19 GLY B 768 GLY B 782 1 15 HELIX 20 20 THR B 792 GLU B 802 1 11 HELIX 21 21 THR B 834 GLY B 838 5 5 HELIX 22 22 PRO B 839 TYR B 854 1 16 SHEET 1 A 6 GLN A 11 LEU A 12 0 SHEET 2 A 6 ARG A 52 PRO A 55 1 O ILE A 53 N GLN A 11 SHEET 3 A 6 HIS A 37 ASN A 44 -1 N MET A 40 O ARG A 52 SHEET 4 A 6 ALA A 161 VAL A 170 -1 O LEU A 163 N VAL A 41 SHEET 5 A 6 SER A 139 GLY A 148 -1 N TYR A 141 O CYS A 168 SHEET 6 A 6 GLN A 73 PHE A 75 -1 N LEU A 74 O LEU A 146 SHEET 1 B 7 GLY A 47 TRP A 48 0 SHEET 2 B 7 HIS A 37 ASN A 44 -1 N ASN A 44 O GLY A 47 SHEET 3 B 7 ALA A 161 VAL A 170 -1 O LEU A 163 N VAL A 41 SHEET 4 B 7 SER A 139 GLY A 148 -1 N TYR A 141 O CYS A 168 SHEET 5 B 7 MET A 78 LYS A 82 -1 N MET A 78 O VAL A 142 SHEET 6 B 7 VAL A 88 PHE A 91 -1 O ARG A 89 N PHE A 81 SHEET 7 B 7 MET A 362 PRO A 364 -1 O PHE A 363 N LEU A 90 SHEET 1 C 2 LEU A 59 LEU A 61 0 SHEET 2 C 2 LEU B 559 LEU B 561 -1 O LEU B 559 N LEU A 61 SHEET 1 D 8 ARG A 285 GLU A 288 0 SHEET 2 D 8 LEU A 254 THR A 258 1 N LEU A 256 O ARG A 285 SHEET 3 D 8 MET A 241 THR A 248 -1 N TRP A 247 O GLU A 255 SHEET 4 D 8 GLN A 234 VAL A 238 -1 N VAL A 238 O MET A 241 SHEET 5 D 8 GLN A 224 TYR A 229 -1 N TRP A 227 O GLU A 237 SHEET 6 D 8 VAL A 182 ALA A 186 1 N LEU A 185 O LEU A 226 SHEET 7 D 8 GLN A 316 TYR A 325 1 O LEU A 324 N LEU A 184 SHEET 8 D 8 ARG A 328 HIS A 331 -1 O ARG A 328 N TYR A 325 SHEET 1 E 6 ARG A 285 GLU A 288 0 SHEET 2 E 6 LEU A 254 THR A 258 1 N LEU A 256 O ARG A 285 SHEET 3 E 6 MET A 241 THR A 248 -1 N TRP A 247 O GLU A 255 SHEET 4 E 6 VAL A 305 GLY A 312 -1 O GLU A 307 N TYR A 246 SHEET 5 E 6 GLN A 316 TYR A 325 -1 O ALA A 318 N GLY A 310 SHEET 6 E 6 ARG A 328 HIS A 331 -1 O ARG A 328 N TYR A 325 SHEET 1 F 6 GLN B 511 LEU B 512 0 SHEET 2 F 6 ARG B 552 PRO B 555 1 O ILE B 553 N GLN B 511 SHEET 3 F 6 HIS B 537 ASN B 544 -1 N MET B 538 O GLN B 554 SHEET 4 F 6 ARG B 660 VAL B 670 -1 O LEU B 663 N VAL B 541 SHEET 5 F 6 SER B 639 GLY B 648 -1 N SER B 639 O VAL B 670 SHEET 6 F 6 GLN B 573 PHE B 575 -1 N LEU B 574 O LEU B 646 SHEET 1 G 7 GLY B 547 TRP B 548 0 SHEET 2 G 7 HIS B 537 ASN B 544 -1 N ASN B 544 O GLY B 547 SHEET 3 G 7 ARG B 660 VAL B 670 -1 O LEU B 663 N VAL B 541 SHEET 4 G 7 SER B 639 GLY B 648 -1 N SER B 639 O VAL B 670 SHEET 5 G 7 MET B 578 LYS B 582 -1 N MET B 578 O VAL B 642 SHEET 6 G 7 VAL B 588 PHE B 591 -1 O ARG B 589 N PHE B 581 SHEET 7 G 7 MET B 862 PRO B 864 -1 O PHE B 863 N LEU B 590 SHEET 1 H 8 ARG B 785 GLU B 788 0 SHEET 2 H 8 LEU B 754 THR B 758 1 N LEU B 756 O ARG B 785 SHEET 3 H 8 MET B 741 THR B 748 -1 N TRP B 747 O GLU B 755 SHEET 4 H 8 GLN B 734 VAL B 738 -1 N VAL B 738 O MET B 741 SHEET 5 H 8 GLN B 724 TYR B 729 -1 N TYR B 729 O GLN B 734 SHEET 6 H 8 VAL B 682 ALA B 686 1 N LEU B 685 O LEU B 726 SHEET 7 H 8 GLN B 816 TYR B 825 1 O LEU B 824 N LEU B 684 SHEET 8 H 8 ARG B 828 HIS B 831 -1 O ARG B 828 N TYR B 825 SHEET 1 I 6 ARG B 785 GLU B 788 0 SHEET 2 I 6 LEU B 754 THR B 758 1 N LEU B 756 O ARG B 785 SHEET 3 I 6 MET B 741 THR B 748 -1 N TRP B 747 O GLU B 755 SHEET 4 I 6 VAL B 805 GLY B 812 -1 O ARG B 806 N TYR B 746 SHEET 5 I 6 GLN B 816 TYR B 825 -1 O ALA B 818 N GLY B 810 SHEET 6 I 6 ARG B 828 HIS B 831 -1 O ARG B 828 N TYR B 825 LINK NZ LYS A 202 C4A PLP A 400 1555 1555 1.37 LINK C4A PLP B 401 NZ LYS B 702 1555 1555 1.39 CISPEP 1 GLY A 23 PRO A 24 0 0.45 CISPEP 2 GLY A 338 PRO A 339 0 -0.54 CISPEP 3 GLY B 838 PRO B 839 0 -0.66 SITE 1 AC1 15 ARG A 99 LYS A 202 TYR A 207 GLU A 237 SITE 2 AC1 15 THR A 240 ASN A 242 LEU A 266 GLY A 268 SITE 3 AC1 15 VAL A 269 VAL A 270 GLY A 312 THR A 313 SITE 4 AC1 15 HOH A1002 HOH A1034 HOH A1075 SITE 1 AC2 16 HOH B 6 HOH B 17 HOH B 86 ARG B 599 SITE 2 AC2 16 ARG B 692 LYS B 702 TYR B 707 GLU B 737 SITE 3 AC2 16 THR B 740 ASN B 742 LEU B 766 GLY B 768 SITE 4 AC2 16 VAL B 769 VAL B 770 GLY B 812 THR B 813 SITE 1 AC3 8 TYR A 70 VAL A 155 HOH B 63 ARG B 643 SITE 2 AC3 8 THR B 740 GLY B 812 THR B 813 ALA B 814 SITE 1 AC4 2 THR A 240 HOH A1039 CRYST1 59.480 112.187 60.265 90.00 96.16 90.00 P 1 21 1 4 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 0.016812 0.000000 0.001815 0.00000 SCALE2 0.000000 0.008914 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016690 0.00000 MTRIX1 1 -0.999900 -0.011200 0.003100 174.44280 1 MTRIX2 1 0.010800 -0.793200 0.608900 -1.51400 1 MTRIX3 1 -0.004400 0.608900 0.793200 0.70450 1