PDB Short entry for 3E2Z HEADER TRANSFERASE, LYASE 06-AUG-08 3E2Z TITLE CRYSTAL STRUCTURE OF MOUSE KYNURENINE AMINOTRANSFERASE III IN COMPLEX TITLE 2 WITH KYNURENINE CAVEAT 3E2Z CHIRALITY ERROR AT RESIDUE A 434. THE IDENTITY OF LIGAND KYN CAVEAT 2 3E2Z IS NOT SUPPORTED BY THE ELECTRON DENSITY. COMPND MOL_ID: 1; COMPND 2 MOLECULE: KYNURENINE-OXOGLUTARATE TRANSAMINASE 3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: KYNURENINE-OXOGLUTARATE TRANSAMINASE III, KYNURENINE COMPND 5 AMINOTRANSFERASE III, KATIII, CYSTEINE-S-CONJUGATE BETA-LYASE 2; COMPND 6 EC: 2.6.1.7, 4.4.1.13; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: KYNURENINE-OXOGLUTARATE TRANSAMINASE 3; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: KYNURENINE-OXOGLUTARATE TRANSAMINASE III, KYNURENINE COMPND 12 AMINOTRANSFERASE III, KATIII, CYSTEINE-S-CONJUGATE BETA-LYASE 2; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 GENE: CCBL2, KAT3; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PBLUEBAC4.5; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_TAXID: 10090; SOURCE 12 GENE: CCBL2, KAT3; SOURCE 13 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PBLUEBAC4.5 KEYWDS ALPHA BETA PROTEIN, PLP DEPENDENT PROTEIN, AMINOTRANSFERASE, LYASE, KEYWDS 2 PYRIDOXAL PHOSPHATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Q.HAN,R.ROBINSON,T.CAI,D.A.TAGLE,J.LI REVDAT 7 15-NOV-23 3E2Z 1 REMARK REVDAT 6 30-AUG-23 3E2Z 1 REMARK LINK REVDAT 5 01-AUG-18 3E2Z 1 CAVEAT JRNL REVDAT 4 13-JUL-11 3E2Z 1 VERSN REVDAT 3 26-MAY-09 3E2Z 1 SOURCE REVDAT 2 28-APR-09 3E2Z 1 JRNL REVDAT 1 30-DEC-08 3E2Z 0 JRNL AUTH Q.HAN,H.ROBINSON,T.CAI,D.A.TAGLE,J.LI JRNL TITL CORRECTION FOR HAN ET AL., "BIOCHEMICAL AND STRUCTURAL JRNL TITL 2 PROPERTIES OF MOUSE KYNURENINE AMINOTRANSFERASE III". JRNL REF MOL. CELL. BIOL. V. 38 2018 JRNL REFN ESSN 1098-5549 JRNL PMID 29712768 JRNL DOI 10.1128/MCB.00099-18 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Q.HAN,H.ROBINSON,T.CAI,D.A.TAGLE,J.LI REMARK 1 TITL BIOCHEMICAL AND STRUCTURAL PROPERTIES OF MOUSE KYNURENINE REMARK 1 TITL 2 AMINOTRANSFERASE III. REMARK 1 REF MOL.CELL.BIOL. V. 29 784 2009 REMARK 1 REFN ISSN 0270-7306 REMARK 1 PMID 19029248 REMARK 1 DOI 10.1128/MCB.01272-08 REMARK 2 REMARK 2 RESOLUTION. 2.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 22779 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1227 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) : 2.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1085 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 64.12 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6521 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 83 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.371 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.925 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6764 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9185 ; 2.205 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 818 ; 9.897 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 284 ;39.919 ;24.225 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1136 ;22.060 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;18.992 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1000 ; 0.357 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5094 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3330 ; 0.279 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4617 ; 0.339 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 316 ; 0.176 ; 0.200 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): 40 ; 0.238 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.195 ; 0.200 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): 4110 ; 1.036 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6676 ; 1.903 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2654 ; 2.970 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2509 ; 4.514 ; 4.500 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 : NULL 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: NULL REMARK 4 REMARK 4 3E2Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000048809. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0809 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24119 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 11.90 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.39000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2ZJG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21% PEG 400, 150 MM CACL2, 10% REMARK 280 GLYCEROL, 100 MM HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 116.75050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.74500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.74500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 175.12575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.74500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.74500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 58.37525 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.74500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.74500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 175.12575 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.74500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.74500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 58.37525 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 116.75050 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: 5790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.4 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 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 THR A 256 CB THR A 256 OG1 0.122 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 B 60 CB - CA - C ANGL. DEV. = 16.1 DEGREES REMARK 500 ALA B 61 N - CA - CB ANGL. DEV. = 9.0 DEGREES REMARK 500 ASP B 387 CB - CA - C ANGL. DEV. = 12.6 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 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 LEU A 60 -87.11 -77.50 REMARK 500 ALA A 89 -57.81 -26.39 REMARK 500 ASP A 93 -57.56 -25.44 REMARK 500 TYR A 98 138.80 -37.82 REMARK 500 SER A 192 2.30 -66.90 REMARK 500 SER A 310 -86.97 -119.53 REMARK 500 TYR A 312 -110.02 75.48 REMARK 500 ARG A 332 20.30 -143.05 REMARK 500 LEU A 381 -25.46 -143.37 REMARK 500 ASP A 384 45.13 -99.05 REMARK 500 LYS A 407 15.55 81.17 REMARK 500 ILE A 434 51.69 -68.24 REMARK 500 THR B 58 14.14 -67.81 REMARK 500 ALA B 61 -27.98 -148.93 REMARK 500 ASP B 63 149.07 -39.09 REMARK 500 ARG B 100 118.83 -30.23 REMARK 500 SER B 191 -40.66 -28.94 REMARK 500 ASP B 241 76.21 62.60 REMARK 500 SER B 310 -71.44 -128.03 REMARK 500 TYR B 312 -106.59 53.49 REMARK 500 CYS B 338 122.71 -39.86 REMARK 500 ASP B 387 -56.27 -24.07 REMARK 500 LYS B 420 -56.55 -27.91 REMARK 500 SER B 438 -57.12 -26.33 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 ASP A 384 LEU A 385 121.06 REMARK 500 LEU A 385 SER A 386 131.01 REMARK 500 ASP A 387 MET A 388 123.06 REMARK 500 LEU B 60 ALA B 61 143.45 REMARK 500 ASN B 219 PRO B 220 36.72 REMARK 500 LEU B 381 GLY B 382 -145.68 REMARK 500 GLY B 382 ALA B 383 -116.62 REMARK 500 ALA B 383 ASP B 384 -103.46 REMARK 500 ASP B 384 LEU B 385 149.06 REMARK 500 ASN B 389 SER B 390 147.25 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 KYN A 456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PMP B 456 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KYN B 457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 459 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3E2F RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MOUSE KYNURENINE AMINOTRANSFERASE III, PLP- REMARK 900 BOUND FORM REMARK 900 RELATED ID: 3E2Y RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MOUSE KYNURENINE AMINOTRANSFERASE III IN REMARK 900 COMPLEX WITH GLUTAMINE DBREF 3E2Z A 42 451 UNP Q71RI9 KAT3_MOUSE 42 451 DBREF 3E2Z B 42 451 UNP Q71RI9 KAT3_MOUSE 42 451 SEQRES 1 A 410 ASN ALA LYS ARG ILE GLU GLY LEU ASP SER ASN VAL TRP SEQRES 2 A 410 VAL GLU PHE THR LYS LEU ALA ALA ASP PRO SER VAL VAL SEQRES 3 A 410 ASN LEU GLY GLN GLY PHE PRO ASP ILE SER PRO PRO SER SEQRES 4 A 410 TYR VAL LYS GLU GLU LEU SER LYS ALA ALA PHE ILE ASP SEQRES 5 A 410 ASN MET ASN GLN TYR THR ARG GLY PHE GLY HIS PRO ALA SEQRES 6 A 410 LEU VAL LYS ALA LEU SER CYS LEU TYR GLY LYS ILE TYR SEQRES 7 A 410 GLN ARG GLN ILE ASP PRO ASN GLU GLU ILE LEU VAL ALA SEQRES 8 A 410 VAL GLY ALA TYR GLY SER LEU PHE ASN SER ILE GLN GLY SEQRES 9 A 410 LEU VAL ASP PRO GLY ASP GLU VAL ILE ILE MET VAL PRO SEQRES 10 A 410 PHE TYR ASP CYS TYR GLU PRO MET VAL ARG MET ALA GLY SEQRES 11 A 410 ALA VAL PRO VAL PHE ILE PRO LEU ARG SER LYS PRO THR SEQRES 12 A 410 ASP GLY MET LYS TRP THR SER SER ASP TRP THR PHE ASP SEQRES 13 A 410 PRO ARG GLU LEU GLU SER LYS PHE SER SER LYS THR LYS SEQRES 14 A 410 ALA ILE ILE LEU ASN THR PRO HIS ASN PRO LEU GLY LYS SEQRES 15 A 410 VAL TYR THR ARG GLN GLU LEU GLN VAL ILE ALA ASP LEU SEQRES 16 A 410 CYS VAL LYS HIS ASP THR LEU CYS ILE SER ASP GLU VAL SEQRES 17 A 410 TYR GLU TRP LEU VAL TYR THR GLY HIS THR HIS VAL LYS SEQRES 18 A 410 ILE ALA THR LEU PRO GLY MET TRP GLU ARG THR ILE THR SEQRES 19 A 410 ILE GLY SER ALA GLY LLP THR PHE SER VAL THR GLY TRP SEQRES 20 A 410 LYS LEU GLY TRP SER ILE GLY PRO ALA HIS LEU ILE LYS SEQRES 21 A 410 HIS LEU GLN THR VAL GLN GLN ASN SER PHE TYR THR CYS SEQRES 22 A 410 ALA THR PRO LEU GLN ALA ALA LEU ALA GLU ALA PHE TRP SEQRES 23 A 410 ILE ASP ILE LYS ARG MET ASP ASP PRO GLU CYS TYR PHE SEQRES 24 A 410 ASN SER LEU PRO LYS GLU LEU GLU VAL LYS ARG ASP ARG SEQRES 25 A 410 MET VAL ARG LEU LEU ASN SER VAL GLY LEU LYS PRO ILE SEQRES 26 A 410 VAL PRO ASP GLY GLY TYR PHE ILE ILE ALA ASP VAL SER SEQRES 27 A 410 SER LEU GLY ALA ASP LEU SER ASP MET ASN SER ASP GLU SEQRES 28 A 410 PRO TYR ASP TYR LYS PHE VAL LYS TRP MET THR LYS HIS SEQRES 29 A 410 LYS LYS LEU THR ALA ILE PRO VAL SER ALA PHE CYS ASP SEQRES 30 A 410 SER LYS SER LYS PRO HIS PHE GLU LYS LEU VAL ARG PHE SEQRES 31 A 410 CYS PHE ILE LYS LYS ASP SER THR LEU ASP ALA ALA GLU SEQRES 32 A 410 GLU ILE PHE ARG ALA TRP ASN SEQRES 1 B 410 ASN ALA LYS ARG ILE GLU GLY LEU ASP SER ASN VAL TRP SEQRES 2 B 410 VAL GLU PHE THR LYS LEU ALA ALA ASP PRO SER VAL VAL SEQRES 3 B 410 ASN LEU GLY GLN GLY PHE PRO ASP ILE SER PRO PRO SER SEQRES 4 B 410 TYR VAL LYS GLU GLU LEU SER LYS ALA ALA PHE ILE ASP SEQRES 5 B 410 ASN MET ASN GLN TYR THR ARG GLY PHE GLY HIS PRO ALA SEQRES 6 B 410 LEU VAL LYS ALA LEU SER CYS LEU TYR GLY LYS ILE TYR SEQRES 7 B 410 GLN ARG GLN ILE ASP PRO ASN GLU GLU ILE LEU VAL ALA SEQRES 8 B 410 VAL GLY ALA TYR GLY SER LEU PHE ASN SER ILE GLN GLY SEQRES 9 B 410 LEU VAL ASP PRO GLY ASP GLU VAL ILE ILE MET VAL PRO SEQRES 10 B 410 PHE TYR ASP CYS TYR GLU PRO MET VAL ARG MET ALA GLY SEQRES 11 B 410 ALA VAL PRO VAL PHE ILE PRO LEU ARG SER LYS PRO THR SEQRES 12 B 410 ASP GLY MET LYS TRP THR SER SER ASP TRP THR PHE ASP SEQRES 13 B 410 PRO ARG GLU LEU GLU SER LYS PHE SER SER LYS THR LYS SEQRES 14 B 410 ALA ILE ILE LEU ASN THR PRO HIS ASN PRO LEU GLY LYS SEQRES 15 B 410 VAL TYR THR ARG GLN GLU LEU GLN VAL ILE ALA ASP LEU SEQRES 16 B 410 CYS VAL LYS HIS ASP THR LEU CYS ILE SER ASP GLU VAL SEQRES 17 B 410 TYR GLU TRP LEU VAL TYR THR GLY HIS THR HIS VAL LYS SEQRES 18 B 410 ILE ALA THR LEU PRO GLY MET TRP GLU ARG THR ILE THR SEQRES 19 B 410 ILE GLY SER ALA GLY LYS THR PHE SER VAL THR GLY TRP SEQRES 20 B 410 LYS LEU GLY TRP SER ILE GLY PRO ALA HIS LEU ILE LYS SEQRES 21 B 410 HIS LEU GLN THR VAL GLN GLN ASN SER PHE TYR THR CYS SEQRES 22 B 410 ALA THR PRO LEU GLN ALA ALA LEU ALA GLU ALA PHE TRP SEQRES 23 B 410 ILE ASP ILE LYS ARG MET ASP ASP PRO GLU CYS TYR PHE SEQRES 24 B 410 ASN SER LEU PRO LYS GLU LEU GLU VAL LYS ARG ASP ARG SEQRES 25 B 410 MET VAL ARG LEU LEU ASN SER VAL GLY LEU LYS PRO ILE SEQRES 26 B 410 VAL PRO ASP GLY GLY TYR PHE ILE ILE ALA ASP VAL SER SEQRES 27 B 410 SER LEU GLY ALA ASP LEU SER ASP MET ASN SER ASP GLU SEQRES 28 B 410 PRO TYR ASP TYR LYS PHE VAL LYS TRP MET THR LYS HIS SEQRES 29 B 410 LYS LYS LEU THR ALA ILE PRO VAL SER ALA PHE CYS ASP SEQRES 30 B 410 SER LYS SER LYS PRO HIS PHE GLU LYS LEU VAL ARG PHE SEQRES 31 B 410 CYS PHE ILE LYS LYS ASP SER THR LEU ASP ALA ALA GLU SEQRES 32 B 410 GLU ILE PHE ARG ALA TRP ASN MODRES 3E2Z LLP A 281 LYS HET LLP A 281 24 HET KYN A 456 15 HET GOL A 457 6 HET GOL A 458 6 HET PMP B 456 16 HET KYN B 457 15 HET GOL B 458 6 HET GOL B 459 6 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM KYN (2S)-2-AMINO-4-(2-AMINOPHENYL)-4-OXOBUTANOIC ACID HETNAM GOL GLYCEROL HETNAM PMP 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN KYN L-KYNURENINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN PMP PYRIDOXAMINE-5'-PHOSPHATE FORMUL 1 LLP C14 H22 N3 O7 P FORMUL 3 KYN 2(C10 H12 N2 O3) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 6 PMP C8 H13 N2 O5 P FORMUL 10 HOH *83(H2 O) HELIX 1 1 ALA A 43 GLU A 47 5 5 HELIX 2 2 ASN A 52 PHE A 57 1 6 HELIX 3 3 THR A 58 ASP A 63 5 6 HELIX 4 4 PRO A 79 ILE A 92 1 14 HELIX 5 5 ASP A 93 GLN A 97 5 5 HELIX 6 6 HIS A 104 GLN A 120 1 17 HELIX 7 7 GLY A 134 VAL A 147 1 14 HELIX 8 8 CYS A 162 ALA A 170 1 9 HELIX 9 9 THR A 190 SER A 192 5 3 HELIX 10 10 ASP A 197 SER A 203 1 7 HELIX 11 11 THR A 226 ASP A 241 1 16 HELIX 12 12 LYS A 262 LEU A 266 5 5 HELIX 13 13 MET A 269 GLU A 271 5 3 HELIX 14 14 ALA A 279 SER A 284 1 6 HELIX 15 15 VAL A 285 TRP A 288 5 4 HELIX 16 16 PRO A 296 ASN A 309 1 14 HELIX 17 17 ALA A 315 LYS A 331 1 17 HELIX 18 18 CYS A 338 VAL A 361 1 24 HELIX 19 19 PRO A 393 LYS A 407 1 15 HELIX 20 20 SER A 414 CYS A 417 5 4 HELIX 21 21 ASP A 418 PHE A 425 5 8 HELIX 22 22 LYS A 436 ALA A 449 1 14 HELIX 23 23 ALA B 43 GLU B 47 5 5 HELIX 24 24 ASN B 52 PHE B 57 1 6 HELIX 25 25 PRO B 79 PHE B 91 1 13 HELIX 26 26 ILE B 92 GLN B 97 5 6 HELIX 27 27 HIS B 104 TYR B 119 1 16 HELIX 28 28 GLY B 134 VAL B 147 1 14 HELIX 29 29 CYS B 162 ALA B 170 1 9 HELIX 30 30 THR B 190 SER B 192 5 3 HELIX 31 31 ASP B 197 SER B 203 1 7 HELIX 32 32 THR B 226 ASP B 241 1 16 HELIX 33 33 LYS B 262 LEU B 266 5 5 HELIX 34 34 MET B 269 GLU B 271 5 3 HELIX 35 35 ALA B 279 PHE B 283 1 5 HELIX 36 36 PRO B 296 ASN B 309 1 14 HELIX 37 37 ALA B 315 LYS B 331 1 17 HELIX 38 38 CYS B 338 SER B 360 1 23 HELIX 39 39 PRO B 393 LYS B 407 1 15 HELIX 40 40 SER B 414 CYS B 417 5 4 HELIX 41 41 SER B 421 PHE B 425 5 5 HELIX 42 42 LYS B 436 ALA B 449 1 14 SHEET 1 A 2 VAL A 67 ASN A 68 0 SHEET 2 A 2 LEU A 408 THR A 409 1 O THR A 409 N VAL A 67 SHEET 1 B 7 ILE A 129 VAL A 133 0 SHEET 2 B 7 LEU A 290 ILE A 294 -1 O GLY A 291 N ALA A 132 SHEET 3 B 7 THR A 273 SER A 278 -1 N THR A 275 O ILE A 294 SHEET 4 B 7 LEU A 243 ASP A 247 1 N SER A 246 O ILE A 274 SHEET 5 B 7 THR A 209 ASN A 215 1 N LEU A 214 O ASP A 247 SHEET 6 B 7 GLU A 152 VAL A 157 1 N ILE A 154 O ILE A 213 SHEET 7 B 7 VAL A 173 PRO A 178 1 O VAL A 175 N VAL A 153 SHEET 1 C 2 ARG A 180 SER A 181 0 SHEET 2 C 2 TRP A 194 THR A 195 -1 O THR A 195 N ARG A 180 SHEET 1 D 4 LYS A 364 ILE A 366 0 SHEET 2 D 4 PHE A 373 ASP A 377 -1 O ILE A 375 N ILE A 366 SHEET 3 D 4 LEU A 428 CYS A 432 -1 O VAL A 429 N ALA A 376 SHEET 4 D 4 ILE A 411 PRO A 412 -1 N ILE A 411 O ARG A 430 SHEET 1 E 2 VAL B 67 ASN B 68 0 SHEET 2 E 2 LEU B 408 THR B 409 1 O THR B 409 N VAL B 67 SHEET 1 F 7 ILE B 129 VAL B 133 0 SHEET 2 F 7 LEU B 290 ILE B 294 -1 O GLY B 291 N ALA B 132 SHEET 3 F 7 THR B 273 SER B 278 -1 N THR B 275 O ILE B 294 SHEET 4 F 7 LEU B 243 ASP B 247 1 N SER B 246 O ILE B 274 SHEET 5 F 7 THR B 209 ASN B 215 1 N LYS B 210 O LEU B 243 SHEET 6 F 7 GLU B 152 VAL B 157 1 N ILE B 154 O ILE B 213 SHEET 7 F 7 VAL B 173 PRO B 178 1 O VAL B 175 N ILE B 155 SHEET 1 G 2 ARG B 180 SER B 181 0 SHEET 2 G 2 TRP B 194 THR B 195 -1 O THR B 195 N ARG B 180 SHEET 1 H 4 LYS B 364 ILE B 366 0 SHEET 2 H 4 PHE B 373 ASP B 377 -1 O ASP B 377 N LYS B 364 SHEET 3 H 4 LEU B 428 CYS B 432 -1 O PHE B 431 N ILE B 374 SHEET 4 H 4 ILE B 411 PRO B 412 -1 N ILE B 411 O ARG B 430 LINK C GLY A 280 N LLP A 281 1555 1555 1.33 LINK C LLP A 281 N THR A 282 1555 1555 1.32 CISPEP 1 VAL A 157 PRO A 158 0 0.50 CISPEP 2 THR A 216 PRO A 217 0 -13.48 CISPEP 3 ASN A 219 PRO A 220 0 8.47 CISPEP 4 VAL B 157 PRO B 158 0 -3.31 CISPEP 5 THR B 216 PRO B 217 0 6.06 SITE 1 AC1 8 TRP A 54 GLY A 72 TYR A 160 ASN A 219 SITE 2 AC1 8 LLP A 281 ARG A 430 TYR B 98 TYR B 312 SITE 1 AC2 14 TYR A 98 GLY B 134 ALA B 135 TYR B 136 SITE 2 AC2 14 TYR B 160 TYR B 163 ASN B 215 ASN B 219 SITE 3 AC2 14 ASP B 247 TYR B 250 SER B 278 LYS B 281 SITE 4 AC2 14 LYS B 289 KYN B 457 SITE 1 AC3 8 TYR A 98 TYR A 312 TRP B 54 GLY B 72 SITE 2 AC3 8 TYR B 160 ASN B 219 ARG B 430 PMP B 456 SITE 1 AC4 4 SER A 207 HIS A 240 ASP A 241 HOH A 460 SITE 1 AC5 3 ILE A 118 GLU A 251 TRP A 252 SITE 1 AC6 4 GLN B 231 ASP B 235 VAL B 238 PRO B 267 SITE 1 AC7 2 SER B 207 HIS B 240 CRYST1 91.490 91.490 233.501 90.00 90.00 90.00 P 43 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 0.010930 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010930 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004283 0.00000