HEADER TRANSFERASE 10-MAR-21 7NTR TITLE CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC BRANCHED-CHAIN AMINOTRANSFERASE TITLE 2 (BCAT1) IN COMPLEX WITH PLP AND SUBSTRATE MIMIC 3-PHENYLPROPIONATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BRANCHED-CHAIN-AMINO-ACID AMINOTRANSFERASE, CYTOSOLIC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BCAT(C),PROTEIN ECA39,BCAT1; COMPND 5 EC: 2.6.1.42; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: S379R ENGINEERED SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BCAT1, BCT1, ECA39; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BRANCHED-CHAIN-AMINO-ACID AMINOTRANSFERASE, CYTOSOLIC, PYRIDOXAL- KEYWDS 2 PHOSPHATE-DEPENDENT AMINOTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR R.C.HILLIG REVDAT 4 31-JAN-24 7NTR 1 REMARK REVDAT 3 23-NOV-22 7NTR 1 JRNL REVDAT 2 02-NOV-22 7NTR 1 JRNL REVDAT 1 21-SEP-22 7NTR 0 JRNL AUTH J.GUNTHER,R.C.HILLIG,K.ZIMMERMANN,S.KAULFUSS,C.LEMOS, JRNL AUTH 2 D.NGUYEN,H.REHWINKEL,M.HABGOOD,C.LECHNER,R.NEUHAUS,U.GANZER, JRNL AUTH 3 M.DREWES,J.CHAI,L.BOUCHE JRNL TITL BAY-069, A NOVEL (TRIFLUOROMETHYL)PYRIMIDINEDIONE-BASED JRNL TITL 2 BCAT1/2 INHIBITOR AND CHEMICAL PROBE. JRNL REF J.MED.CHEM. V. 65 14366 2022 JRNL REFN ISSN 0022-2623 JRNL PMID 36261130 JRNL DOI 10.1021/ACS.JMEDCHEM.2C00441 REMARK 2 REMARK 2 RESOLUTION. 2.23 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.23 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 36147 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 + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1900 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.23 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.29 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2625 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2400 REMARK 3 BIN FREE R VALUE SET COUNT : 136 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5724 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 401 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : 0.87000 REMARK 3 B33 (A**2) : -0.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.290 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.228 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.163 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.366 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6008 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5667 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8188 ; 1.683 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13072 ; 0.866 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 747 ; 6.728 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 264 ;39.101 ;24.242 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1009 ;16.758 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;18.827 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 901 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6745 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1345 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 22 A 385 REMARK 3 ORIGIN FOR THE GROUP (A): -36.3790 7.1800 17.6540 REMARK 3 T TENSOR REMARK 3 T11: 0.1043 T22: 0.0741 REMARK 3 T33: 0.2408 T12: 0.0333 REMARK 3 T13: -0.0174 T23: -0.0718 REMARK 3 L TENSOR REMARK 3 L11: 0.9504 L22: 0.3635 REMARK 3 L33: 0.8041 L12: 0.0210 REMARK 3 L13: -0.3529 L23: -0.0900 REMARK 3 S TENSOR REMARK 3 S11: -0.0021 S12: -0.0415 S13: 0.1874 REMARK 3 S21: -0.0178 S22: -0.0320 S23: 0.0246 REMARK 3 S31: -0.1200 S32: -0.1840 S33: 0.0341 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 24 B 385 REMARK 3 ORIGIN FOR THE GROUP (A): -11.3450 -11.5080 4.4520 REMARK 3 T TENSOR REMARK 3 T11: 0.0773 T22: 0.0132 REMARK 3 T33: 0.1777 T12: -0.0038 REMARK 3 T13: 0.0087 T23: -0.0248 REMARK 3 L TENSOR REMARK 3 L11: 1.0374 L22: 0.6399 REMARK 3 L33: 0.9987 L12: -0.5243 REMARK 3 L13: 0.3611 L23: -0.3233 REMARK 3 S TENSOR REMARK 3 S11: 0.0026 S12: 0.0183 S13: 0.0959 REMARK 3 S21: -0.0070 S22: -0.0342 S23: -0.0905 REMARK 3 S31: 0.0825 S32: 0.0817 S33: 0.0317 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES: WITH TLS ADDED REMARK 4 REMARK 4 7NTR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1292114602. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS MARCH 30, 2013 REMARK 200 DATA SCALING SOFTWARE : XSCALE JULY 4, 2012 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39094 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.210 REMARK 200 RESOLUTION RANGE LOW (A) : 75.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.8600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.890 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2ABJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN AT 17 MG/ML IN 10 MILLIMOLAR REMARK 280 TRIS-HCL PH 8.0, 100 MILLIMOLAR NACL, 3 MILLIMOLAR DTT. REMARK 280 PREINCUBATED OVER NIGHT WITH 10 MILLIMOLAR 3-PHENYL-PROPIONATE REMARK 280 AND 3 MILLIMOLAR DTT. DROPS MADE FROM 1 MICROLITER PROTEIN AND 1 REMARK 280 MICROLITER RESERVOIR (225 MILLIMOLAR MGCL2, 16-20 % (W/V) PEG REMARK 280 3350. CRYO: RESERVOIR SOLUTION COMPLEMENTED WITH 20 % (V/V) REMARK 280 GLYCEROL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 33.42200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.07900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.89750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.07900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.42200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.89750 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 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: 6910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 GLY A -2 REMARK 465 PRO A -1 REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 ASP A 3 REMARK 465 CYS A 4 REMARK 465 SER A 5 REMARK 465 ASN A 6 REMARK 465 GLY A 7 REMARK 465 CYS A 8 REMARK 465 SER A 9 REMARK 465 ALA A 10 REMARK 465 GLU A 11 REMARK 465 CYS A 12 REMARK 465 THR A 13 REMARK 465 GLY A 14 REMARK 465 GLU A 15 REMARK 465 GLY A 16 REMARK 465 GLY A 17 REMARK 465 SER A 18 REMARK 465 LYS A 19 REMARK 465 GLU A 20 REMARK 465 VAL A 21 REMARK 465 SER A 196 REMARK 465 GLY A 197 REMARK 465 THR A 198 REMARK 465 GLY B -2 REMARK 465 PRO B -1 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 ASP B 3 REMARK 465 CYS B 4 REMARK 465 SER B 5 REMARK 465 ASN B 6 REMARK 465 GLY B 7 REMARK 465 CYS B 8 REMARK 465 SER B 9 REMARK 465 ALA B 10 REMARK 465 GLU B 11 REMARK 465 CYS B 12 REMARK 465 THR B 13 REMARK 465 GLY B 14 REMARK 465 GLU B 15 REMARK 465 GLY B 16 REMARK 465 GLY B 17 REMARK 465 SER B 18 REMARK 465 LYS B 19 REMARK 465 GLU B 20 REMARK 465 VAL B 21 REMARK 465 SER B 195 REMARK 465 SER B 196 REMARK 465 GLY B 197 REMARK 465 THR B 198 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 360 CG CD CE NZ REMARK 470 GLU B 378 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OH TYR A 227 O3 PLP A 402 2.01 REMARK 500 OG SER A 386 O HOH A 502 2.06 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 ARG A 292 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 292 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 309 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 309 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 CYS A 335 CB - CA - C ANGL. DEV. = 10.8 DEGREES REMARK 500 LEU B 98 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 ARG B 376 NE - CZ - NH2 ANGL. DEV. = -3.1 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 SER A 155 139.18 -176.41 REMARK 500 PHE A 194 -140.80 -122.35 REMARK 500 THR A 256 -60.10 -106.06 REMARK 500 VAL A 336 -72.16 65.90 REMARK 500 ARG A 379 146.36 -171.85 REMARK 500 SER B 155 142.89 -170.86 REMARK 500 LYS B 222 57.92 -92.12 REMARK 500 HIS B 253 60.35 61.47 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 MG B 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 133 OD2 REMARK 620 2 HOH B 508 O 78.8 REMARK 620 3 HOH B 519 O 69.4 93.6 REMARK 620 4 HOH B 531 O 88.6 163.1 92.5 REMARK 620 5 HOH B 546 O 168.5 91.2 117.2 100.1 REMARK 620 6 HOH B 618 O 81.8 78.7 151.2 88.4 90.9 REMARK 620 N 1 2 3 4 5 DBREF 7NTR A 1 386 UNP P54687 BCAT1_HUMAN 1 386 DBREF 7NTR B 1 386 UNP P54687 BCAT1_HUMAN 1 386 SEQADV 7NTR GLY A -2 UNP P54687 EXPRESSION TAG SEQADV 7NTR PRO A -1 UNP P54687 EXPRESSION TAG SEQADV 7NTR GLY A 0 UNP P54687 EXPRESSION TAG SEQADV 7NTR ARG A 379 UNP P54687 SER 379 ENGINEERED MUTATION SEQADV 7NTR GLY B -2 UNP P54687 EXPRESSION TAG SEQADV 7NTR PRO B -1 UNP P54687 EXPRESSION TAG SEQADV 7NTR GLY B 0 UNP P54687 EXPRESSION TAG SEQADV 7NTR ARG B 379 UNP P54687 SER 379 ENGINEERED MUTATION SEQRES 1 A 389 GLY PRO GLY MET LYS ASP CYS SER ASN GLY CYS SER ALA SEQRES 2 A 389 GLU CYS THR GLY GLU GLY GLY SER LYS GLU VAL VAL GLY SEQRES 3 A 389 THR PHE LYS ALA LYS ASP LEU ILE VAL THR PRO ALA THR SEQRES 4 A 389 ILE LEU LYS GLU LYS PRO ASP PRO ASN ASN LEU VAL PHE SEQRES 5 A 389 GLY THR VAL PHE THR ASP HIS MET LEU THR VAL GLU TRP SEQRES 6 A 389 SER SER GLU PHE GLY TRP GLU LYS PRO HIS ILE LYS PRO SEQRES 7 A 389 LEU GLN ASN LEU SER LEU HIS PRO GLY SER SER ALA LEU SEQRES 8 A 389 HIS TYR ALA VAL GLU LEU PHE GLU GLY LEU LYS ALA PHE SEQRES 9 A 389 ARG GLY VAL ASP ASN LYS ILE ARG LEU PHE GLN PRO ASN SEQRES 10 A 389 LEU ASN MET ASP ARG MET TYR ARG SER ALA VAL ARG ALA SEQRES 11 A 389 THR LEU PRO VAL PHE ASP LYS GLU GLU LEU LEU GLU CYS SEQRES 12 A 389 ILE GLN GLN LEU VAL LYS LEU ASP GLN GLU TRP VAL PRO SEQRES 13 A 389 TYR SER THR SER ALA SER LEU TYR ILE ARG PRO THR PHE SEQRES 14 A 389 ILE GLY THR GLU PRO SER LEU GLY VAL LYS LYS PRO THR SEQRES 15 A 389 LYS ALA LEU LEU PHE VAL LEU LEU SER PRO VAL GLY PRO SEQRES 16 A 389 TYR PHE SER SER GLY THR PHE ASN PRO VAL SER LEU TRP SEQRES 17 A 389 ALA ASN PRO LYS TYR VAL ARG ALA TRP LYS GLY GLY THR SEQRES 18 A 389 GLY ASP CYS LYS MET GLY GLY ASN TYR GLY SER SER LEU SEQRES 19 A 389 PHE ALA GLN CYS GLU ALA VAL ASP ASN GLY CYS GLN GLN SEQRES 20 A 389 VAL LEU TRP LEU TYR GLY GLU ASP HIS GLN ILE THR GLU SEQRES 21 A 389 VAL GLY THR MET ASN LEU PHE LEU TYR TRP ILE ASN GLU SEQRES 22 A 389 ASP GLY GLU GLU GLU LEU ALA THR PRO PRO LEU ASP GLY SEQRES 23 A 389 ILE ILE LEU PRO GLY VAL THR ARG ARG CYS ILE LEU ASP SEQRES 24 A 389 LEU ALA HIS GLN TRP GLY GLU PHE LYS VAL SER GLU ARG SEQRES 25 A 389 TYR LEU THR MET ASP ASP LEU THR THR ALA LEU GLU GLY SEQRES 26 A 389 ASN ARG VAL ARG GLU MET PHE GLY SER GLY THR ALA CYS SEQRES 27 A 389 VAL VAL CYS PRO VAL SER ASP ILE LEU TYR LYS GLY GLU SEQRES 28 A 389 THR ILE HIS ILE PRO THR MET GLU ASN GLY PRO LYS LEU SEQRES 29 A 389 ALA SER ARG ILE LEU SER LYS LEU THR ASP ILE GLN TYR SEQRES 30 A 389 GLY ARG GLU GLU ARG ASP TRP THR ILE VAL LEU SER SEQRES 1 B 389 GLY PRO GLY MET LYS ASP CYS SER ASN GLY CYS SER ALA SEQRES 2 B 389 GLU CYS THR GLY GLU GLY GLY SER LYS GLU VAL VAL GLY SEQRES 3 B 389 THR PHE LYS ALA LYS ASP LEU ILE VAL THR PRO ALA THR SEQRES 4 B 389 ILE LEU LYS GLU LYS PRO ASP PRO ASN ASN LEU VAL PHE SEQRES 5 B 389 GLY THR VAL PHE THR ASP HIS MET LEU THR VAL GLU TRP SEQRES 6 B 389 SER SER GLU PHE GLY TRP GLU LYS PRO HIS ILE LYS PRO SEQRES 7 B 389 LEU GLN ASN LEU SER LEU HIS PRO GLY SER SER ALA LEU SEQRES 8 B 389 HIS TYR ALA VAL GLU LEU PHE GLU GLY LEU LYS ALA PHE SEQRES 9 B 389 ARG GLY VAL ASP ASN LYS ILE ARG LEU PHE GLN PRO ASN SEQRES 10 B 389 LEU ASN MET ASP ARG MET TYR ARG SER ALA VAL ARG ALA SEQRES 11 B 389 THR LEU PRO VAL PHE ASP LYS GLU GLU LEU LEU GLU CYS SEQRES 12 B 389 ILE GLN GLN LEU VAL LYS LEU ASP GLN GLU TRP VAL PRO SEQRES 13 B 389 TYR SER THR SER ALA SER LEU TYR ILE ARG PRO THR PHE SEQRES 14 B 389 ILE GLY THR GLU PRO SER LEU GLY VAL LYS LYS PRO THR SEQRES 15 B 389 LYS ALA LEU LEU PHE VAL LEU LEU SER PRO VAL GLY PRO SEQRES 16 B 389 TYR PHE SER SER GLY THR PHE ASN PRO VAL SER LEU TRP SEQRES 17 B 389 ALA ASN PRO LYS TYR VAL ARG ALA TRP LYS GLY GLY THR SEQRES 18 B 389 GLY ASP CYS LYS MET GLY GLY ASN TYR GLY SER SER LEU SEQRES 19 B 389 PHE ALA GLN CYS GLU ALA VAL ASP ASN GLY CYS GLN GLN SEQRES 20 B 389 VAL LEU TRP LEU TYR GLY GLU ASP HIS GLN ILE THR GLU SEQRES 21 B 389 VAL GLY THR MET ASN LEU PHE LEU TYR TRP ILE ASN GLU SEQRES 22 B 389 ASP GLY GLU GLU GLU LEU ALA THR PRO PRO LEU ASP GLY SEQRES 23 B 389 ILE ILE LEU PRO GLY VAL THR ARG ARG CYS ILE LEU ASP SEQRES 24 B 389 LEU ALA HIS GLN TRP GLY GLU PHE LYS VAL SER GLU ARG SEQRES 25 B 389 TYR LEU THR MET ASP ASP LEU THR THR ALA LEU GLU GLY SEQRES 26 B 389 ASN ARG VAL ARG GLU MET PHE GLY SER GLY THR ALA CYS SEQRES 27 B 389 VAL VAL CYS PRO VAL SER ASP ILE LEU TYR LYS GLY GLU SEQRES 28 B 389 THR ILE HIS ILE PRO THR MET GLU ASN GLY PRO LYS LEU SEQRES 29 B 389 ALA SER ARG ILE LEU SER LYS LEU THR ASP ILE GLN TYR SEQRES 30 B 389 GLY ARG GLU GLU ARG ASP TRP THR ILE VAL LEU SER HET HCI A 401 11 HET PLP A 402 15 HET HCI B 401 11 HET PLP B 402 15 HET MG B 403 1 HETNAM HCI HYDROCINNAMIC ACID HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETSYN HCI 3PP; 3-PHENYLPROPIONIC ACID HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 HCI 2(C9 H10 O2) FORMUL 4 PLP 2(C8 H10 N O6 P) FORMUL 7 MG MG 2+ FORMUL 8 HOH *401(H2 O) HELIX 1 AA1 LYS A 26 LEU A 30 5 5 HELIX 2 AA2 SER A 85 TYR A 90 1 6 HELIX 3 AA3 GLN A 112 THR A 128 1 17 HELIX 4 AA4 ASP A 133 ASP A 148 1 16 HELIX 5 AA5 GLN A 149 VAL A 152 5 4 HELIX 6 AA6 MET A 223 SER A 229 5 7 HELIX 7 AA7 SER A 230 ASP A 239 1 10 HELIX 8 AA8 GLY A 288 GLY A 302 1 15 HELIX 9 AA9 THR A 312 GLY A 322 1 11 HELIX 10 AB1 PRO A 353 GLY A 358 5 6 HELIX 11 AB2 PRO A 359 TYR A 374 1 16 HELIX 12 AB3 LYS B 26 LEU B 30 5 5 HELIX 13 AB4 SER B 85 TYR B 90 1 6 HELIX 14 AB5 GLN B 112 THR B 128 1 17 HELIX 15 AB6 ASP B 133 ASP B 148 1 16 HELIX 16 AB7 GLN B 149 VAL B 152 5 4 HELIX 17 AB8 GLY B 224 SER B 229 1 6 HELIX 18 AB9 SER B 230 ASN B 240 1 11 HELIX 19 AC1 GLY B 288 GLY B 302 1 15 HELIX 20 AC2 THR B 312 GLY B 322 1 11 HELIX 21 AC3 PRO B 353 GLY B 358 5 6 HELIX 22 AC4 PRO B 359 TYR B 374 1 16 SHEET 1 AA1 6 ILE A 31 VAL A 32 0 SHEET 2 AA1 6 HIS A 72 PRO A 75 1 O ILE A 73 N ILE A 31 SHEET 3 AA1 6 HIS A 56 SER A 63 -1 N THR A 59 O HIS A 72 SHEET 4 AA1 6 LYS A 180 VAL A 190 -1 O LEU A 183 N VAL A 60 SHEET 5 AA1 6 SER A 159 GLY A 168 -1 N THR A 165 O PHE A 184 SHEET 6 AA1 6 GLU A 93 PHE A 95 -1 N LEU A 94 O PHE A 166 SHEET 1 AA2 7 GLY A 67 TRP A 68 0 SHEET 2 AA2 7 HIS A 56 SER A 63 -1 N SER A 63 O GLY A 67 SHEET 3 AA2 7 LYS A 180 VAL A 190 -1 O LEU A 183 N VAL A 60 SHEET 4 AA2 7 SER A 159 GLY A 168 -1 N THR A 165 O PHE A 184 SHEET 5 AA2 7 LEU A 98 ARG A 102 -1 N LEU A 98 O ILE A 162 SHEET 6 AA2 7 ILE A 108 PHE A 111 -1 O ARG A 109 N PHE A 101 SHEET 7 AA2 7 THR A 382 VAL A 384 -1 O ILE A 383 N LEU A 110 SHEET 1 AA3 2 LEU A 79 LEU A 81 0 SHEET 2 AA3 2 LEU B 79 LEU B 81 -1 O LEU B 81 N LEU A 79 SHEET 1 AA4 8 LYS A 305 GLU A 308 0 SHEET 2 AA4 8 GLU A 274 THR A 278 1 N LEU A 276 O SER A 307 SHEET 3 AA4 8 MET A 261 ILE A 268 -1 N LEU A 265 O ALA A 277 SHEET 4 AA4 8 GLN A 254 VAL A 258 -1 N VAL A 258 O MET A 261 SHEET 5 AA4 8 GLN A 244 TYR A 249 -1 N TYR A 249 O GLN A 254 SHEET 6 AA4 8 VAL A 202 TRP A 205 1 N TRP A 205 O LEU A 246 SHEET 7 AA4 8 VAL A 336 TYR A 345 1 O LEU A 344 N LEU A 204 SHEET 8 AA4 8 GLU A 348 HIS A 351 -1 O GLU A 348 N TYR A 345 SHEET 1 AA5 6 LYS A 305 GLU A 308 0 SHEET 2 AA5 6 GLU A 274 THR A 278 1 N LEU A 276 O SER A 307 SHEET 3 AA5 6 MET A 261 ILE A 268 -1 N LEU A 265 O ALA A 277 SHEET 4 AA5 6 VAL A 325 GLY A 332 -1 O GLU A 327 N TYR A 266 SHEET 5 AA5 6 VAL A 336 TYR A 345 -1 O VAL A 336 N GLY A 332 SHEET 6 AA5 6 GLU A 348 HIS A 351 -1 O GLU A 348 N TYR A 345 SHEET 1 AA6 6 ILE B 31 VAL B 32 0 SHEET 2 AA6 6 HIS B 72 PRO B 75 1 O ILE B 73 N ILE B 31 SHEET 3 AA6 6 HIS B 56 SER B 63 -1 N MET B 57 O LYS B 74 SHEET 4 AA6 6 LYS B 180 VAL B 190 -1 O LEU B 183 N VAL B 60 SHEET 5 AA6 6 SER B 159 GLY B 168 -1 N THR B 165 O PHE B 184 SHEET 6 AA6 6 GLU B 93 PHE B 95 -1 N LEU B 94 O PHE B 166 SHEET 1 AA7 7 GLY B 67 TRP B 68 0 SHEET 2 AA7 7 HIS B 56 SER B 63 -1 N SER B 63 O GLY B 67 SHEET 3 AA7 7 LYS B 180 VAL B 190 -1 O LEU B 183 N VAL B 60 SHEET 4 AA7 7 SER B 159 GLY B 168 -1 N THR B 165 O PHE B 184 SHEET 5 AA7 7 LEU B 98 ARG B 102 -1 N LEU B 98 O ILE B 162 SHEET 6 AA7 7 ILE B 108 PHE B 111 -1 O ARG B 109 N PHE B 101 SHEET 7 AA7 7 THR B 382 VAL B 384 -1 O ILE B 383 N LEU B 110 SHEET 1 AA8 8 LYS B 305 GLU B 308 0 SHEET 2 AA8 8 GLU B 274 THR B 278 1 N LEU B 276 O LYS B 305 SHEET 3 AA8 8 MET B 261 ILE B 268 -1 N LEU B 265 O ALA B 277 SHEET 4 AA8 8 GLN B 254 VAL B 258 -1 N VAL B 258 O MET B 261 SHEET 5 AA8 8 GLN B 244 TYR B 249 -1 N TYR B 249 O GLN B 254 SHEET 6 AA8 8 VAL B 202 TRP B 205 1 N TRP B 205 O LEU B 246 SHEET 7 AA8 8 CYS B 338 TYR B 345 1 O LEU B 344 N LEU B 204 SHEET 8 AA8 8 GLU B 348 HIS B 351 -1 O ILE B 350 N ILE B 343 SHEET 1 AA9 6 LYS B 305 GLU B 308 0 SHEET 2 AA9 6 GLU B 274 THR B 278 1 N LEU B 276 O LYS B 305 SHEET 3 AA9 6 MET B 261 ILE B 268 -1 N LEU B 265 O ALA B 277 SHEET 4 AA9 6 VAL B 325 SER B 331 -1 O GLU B 327 N TYR B 266 SHEET 5 AA9 6 CYS B 338 TYR B 345 -1 O CYS B 338 N GLY B 330 SHEET 6 AA9 6 GLU B 348 HIS B 351 -1 O ILE B 350 N ILE B 343 LINK NZ LYS A 222 C4A PLP A 402 1555 1555 1.28 LINK NZ LYS B 222 C4A PLP B 402 1555 1555 1.28 LINK OD2 ASP B 133 MG MG B 403 1555 1555 2.40 LINK MG MG B 403 O HOH B 508 1555 1555 2.15 LINK MG MG B 403 O HOH B 519 1555 1555 1.92 LINK MG MG B 403 O HOH B 531 1555 4445 2.20 LINK MG MG B 403 O HOH B 546 1555 4445 2.12 LINK MG MG B 403 O HOH B 618 1555 1555 1.97 CISPEP 1 GLY A 358 PRO A 359 0 4.17 CISPEP 2 GLY B 358 PRO B 359 0 -4.58 CRYST1 66.844 103.795 110.158 90.00 90.00 90.00 P 21 21 21 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 0.014960 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009634 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009078 0.00000