PDB Short entry for 2XH1 HEADER TRANSFERASE 08-JUN-10 2XH1 TITLE CRYSTAL STRUCTURE OF HUMAN KAT II-INHIBITOR COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: KYNURENINE/ALPHA-AMINOADIPATE AMINOTRANSFERASE, COMPND 3 MITOCHONDRIAL; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: KYNURENINE AMINOTRANSFERASE II, KYNURENINE--OXOGLUTARATE COMPND 6 AMINOTRANSFERASE II, KYNURENINE--OXOGLUTARATE TRANSAMINASE II, 2- COMPND 7 AMINOADIPATE TRANSAMINASE, 2-AMINOADIPATE AMINOTRANSFERASE, ALPHA- COMPND 8 AMINOADIPATE AMINOTRANSFERASE, AADAT; COMPND 9 EC: 2.6.1.7, 2.6.1.39; COMPND 10 ENGINEERED: YES; COMPND 11 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET16B KEYWDS TRANSFERASE, COVALENT INHIBITION EXPDTA X-RAY DIFFRACTION AUTHOR F.ROSSI,V.CASAZZA,S.GARAVAGLIA,K.V.SATHYASAIKUMAR,R.SCHWARCZ, AUTHOR 2 S.I.KOJIMA,K.OKUWAKI,S.I.ONO,Y.KAJII,M.RIZZI REVDAT 3 20-DEC-23 2XH1 1 REMARK LINK REVDAT 2 26-OCT-11 2XH1 1 JRNL REMARK VERSN REVDAT 1 28-JUL-10 2XH1 0 JRNL AUTH F.ROSSI,V.CASAZZA,S.GARAVAGLIA,K.V.SATHYASAIKUMAR, JRNL AUTH 2 R.SCHWARCZ,S.I.KOJIMA,K.OKUWAKI,S.I.ONO,Y.KAJII,M.RIZZI JRNL TITL CRYSTAL STRUCTURE-BASED SELECTIVE TARGETING OF THE PYRIDOXAL JRNL TITL 2 5'-PHSOSPHATE DEPENDENT ENZYME KYNURENINE AMINOTRANSFERASE JRNL TITL 3 II FOR COGNITIVE ENHANCEMENT JRNL REF J.MED.CHEM. V. 53 5684 2010 JRNL REFN ISSN 0022-2623 JRNL PMID 20684605 JRNL DOI 10.1021/JM100464K REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 53172 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1113 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3846 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1980 REMARK 3 BIN FREE R VALUE SET COUNT : 68 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6467 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 89 REMARK 3 SOLVENT ATOMS : 416 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.81000 REMARK 3 B22 (A**2) : -0.47000 REMARK 3 B33 (A**2) : -0.34000 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): 0.209 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.185 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.583 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6722 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9139 ; 1.795 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 820 ; 6.941 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 284 ;43.159 ;24.789 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1136 ;17.867 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;19.735 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1004 ; 0.147 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5068 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3051 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4584 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 448 ; 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): 44 ; 0.278 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.149 ; 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): 4174 ; 1.117 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6694 ; 1.888 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2906 ; 2.776 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2445 ; 4.355 ; 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 : BABINET MODEL WITH 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. REMARK 4 REMARK 4 2XH1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1290044188. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.981 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53172 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 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: PDB ENTRY 2R2N REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 49.16150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 76.42850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 49.16150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 76.42850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.1 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, MET 1 TO GLU REMARK 400 ENGINEERED RESIDUE IN CHAIN B, MET 1 TO GLU 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 ARG A 20 REMARK 465 THR A 21 REMARK 465 MET A 22 REMARK 465 THR A 23 REMARK 465 ASP A 24 REMARK 465 ILE A 25 REMARK 465 LEU A 26 REMARK 465 SER A 27 REMARK 465 ARG A 28 REMARK 465 GLY A 29 REMARK 465 PRO A 30 REMARK 465 LYS A 31 REMARK 465 SER A 32 REMARK 465 ARG B 20 REMARK 465 THR B 21 REMARK 465 MET B 22 REMARK 465 THR B 23 REMARK 465 ASP B 24 REMARK 465 ILE B 25 REMARK 465 LEU B 26 REMARK 465 SER B 27 REMARK 465 ARG B 28 REMARK 465 GLY B 29 REMARK 465 PRO B 30 REMARK 465 LYS B 31 REMARK 465 SER B 32 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 B 195 OD2 ASP B 230 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU A 211 OE1 GLU A 211 2565 1.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 282 CD GLU B 282 OE1 0.071 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 ASP A 169 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 270 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LEU A 380 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 GLY B 107 C - N - CA ANGL. DEV. = -19.8 DEGREES REMARK 500 LEU B 137 CA - CB - CG ANGL. DEV. = 18.1 DEGREES REMARK 500 ARG B 283 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG B 283 NE - CZ - NH2 ANGL. DEV. = -4.6 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 PRO A 18 21.78 -77.73 REMARK 500 ASN A 96 65.30 28.72 REMARK 500 ASP A 162 -154.49 -146.93 REMARK 500 ASN A 189 48.74 -98.92 REMARK 500 LYS A 240 15.61 58.04 REMARK 500 SER A 266 128.98 -177.86 REMARK 500 SER A 291 -90.51 -116.80 REMARK 500 LEU A 293 -55.22 77.94 REMARK 500 GLU A 372 -63.13 -124.78 REMARK 500 PRO B 18 -166.30 -67.83 REMARK 500 TYR B 74 151.46 -48.10 REMARK 500 ASN B 96 66.17 32.82 REMARK 500 ASP B 162 -152.72 -142.65 REMARK 500 ASN B 189 57.95 -92.06 REMARK 500 LYS B 240 13.29 -54.58 REMARK 500 ILE B 265 -54.00 -120.34 REMARK 500 SER B 266 125.70 -175.23 REMARK 500 SER B 291 -87.29 -120.84 REMARK 500 LEU B 293 -49.13 63.18 REMARK 500 MET B 354 14.82 -141.74 REMARK 500 GLU B 371 -66.21 -99.97 REMARK 500 MET B 377 -80.40 -102.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A -1 ASN A 2 123.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 BF5-PLP: COVALENT LINK BETWEEN THE PLP COFACTOR AND REMARK 600 THE SYNTHETIC INHIBITOR NAMED BFF-122. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF5 A 1426 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 1427 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF5 B 1426 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 1427 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 1428 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1428 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VGZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN KYNURENINE AMINOTRANSFERASE II REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEGMENT 20-32 IS MISSING FROM THE COORDINATES FILE. REMARK 999 THE FIRST RESIDUE IS A GLU THAT REPLACES A MET AS A RESULT REMARK 999 OF CLONING STRATEGY DBREF 2XH1 A -1 425 UNP Q8N5Z0 AADAT_HUMAN 1 425 DBREF 2XH1 B -1 425 UNP Q8N5Z0 AADAT_HUMAN 1 425 SEQADV 2XH1 GLU A -1 UNP Q8N5Z0 MET 1 ENGINEERED MUTATION SEQADV 2XH1 GLU B -1 UNP Q8N5Z0 MET 1 ENGINEERED MUTATION SEQRES 1 A 425 GLU ASN TYR ALA ARG PHE ILE THR ALA ALA SER ALA ALA SEQRES 2 A 425 ARG ASN PRO SER PRO ILE ARG THR MET THR ASP ILE LEU SEQRES 3 A 425 SER ARG GLY PRO LYS SER MET ILE SER LEU ALA GLY GLY SEQRES 4 A 425 LEU PRO ASN PRO ASN MET PHE PRO PHE LYS THR ALA VAL SEQRES 5 A 425 ILE THR VAL GLU ASN GLY LYS THR ILE GLN PHE GLY GLU SEQRES 6 A 425 GLU MET MET LYS ARG ALA LEU GLN TYR SER PRO SER ALA SEQRES 7 A 425 GLY ILE PRO GLU LEU LEU SER TRP LEU LYS GLN LEU GLN SEQRES 8 A 425 ILE LYS LEU HIS ASN PRO PRO THR ILE HIS TYR PRO PRO SEQRES 9 A 425 SER GLN GLY GLN MET ASP LEU CYS VAL THR SER GLY SER SEQRES 10 A 425 GLN GLN GLY LEU CYS LYS VAL PHE GLU MET ILE ILE ASN SEQRES 11 A 425 PRO GLY ASP ASN VAL LEU LEU ASP GLU PRO ALA TYR SER SEQRES 12 A 425 GLY THR LEU GLN SER LEU HIS PRO LEU GLY CYS ASN ILE SEQRES 13 A 425 ILE ASN VAL ALA SER ASP GLU SER GLY ILE VAL PRO ASP SEQRES 14 A 425 SER LEU ARG ASP ILE LEU SER ARG TRP LYS PRO GLU ASP SEQRES 15 A 425 ALA LYS ASN PRO GLN LYS ASN THR PRO LYS PHE LEU TYR SEQRES 16 A 425 THR VAL PRO ASN GLY ASN ASN PRO THR GLY ASN SER LEU SEQRES 17 A 425 THR SER GLU ARG LYS LYS GLU ILE TYR GLU LEU ALA ARG SEQRES 18 A 425 LYS TYR ASP PHE LEU ILE ILE GLU ASP ASP PRO TYR TYR SEQRES 19 A 425 PHE LEU GLN PHE ASN LYS PHE ARG VAL PRO THR PHE LEU SEQRES 20 A 425 SER MET ASP VAL ASP GLY ARG VAL ILE ARG ALA ASP SER SEQRES 21 A 425 PHE SER LYS ILE ILE SER SER GLY LEU ARG ILE GLY PHE SEQRES 22 A 425 LEU THR GLY PRO LYS PRO LEU ILE GLU ARG VAL ILE LEU SEQRES 23 A 425 HIS ILE GLN VAL SER THR LEU HIS PRO SER THR PHE ASN SEQRES 24 A 425 GLN LEU MET ILE SER GLN LEU LEU HIS GLU TRP GLY GLU SEQRES 25 A 425 GLU GLY PHE MET ALA HIS VAL ASP ARG VAL ILE ASP PHE SEQRES 26 A 425 TYR SER ASN GLN LYS ASP ALA ILE LEU ALA ALA ALA ASP SEQRES 27 A 425 LYS TRP LEU THR GLY LEU ALA GLU TRP HIS VAL PRO ALA SEQRES 28 A 425 ALA GLY MET PHE LEU TRP ILE LYS VAL LYS GLY ILE ASN SEQRES 29 A 425 ASP VAL LYS GLU LEU ILE GLU GLU LYS ALA VAL LYS MET SEQRES 30 A 425 GLY VAL LEU MET LEU PRO GLY ASN ALA PHE TYR VAL ASP SEQRES 31 A 425 SER SER ALA PRO SER PRO TYR LEU ARG ALA SER PHE SER SEQRES 32 A 425 SER ALA SER PRO GLU GLN MET ASP VAL ALA PHE GLN VAL SEQRES 33 A 425 LEU ALA GLN LEU ILE LYS GLU SER LEU SEQRES 1 B 425 GLU ASN TYR ALA ARG PHE ILE THR ALA ALA SER ALA ALA SEQRES 2 B 425 ARG ASN PRO SER PRO ILE ARG THR MET THR ASP ILE LEU SEQRES 3 B 425 SER ARG GLY PRO LYS SER MET ILE SER LEU ALA GLY GLY SEQRES 4 B 425 LEU PRO ASN PRO ASN MET PHE PRO PHE LYS THR ALA VAL SEQRES 5 B 425 ILE THR VAL GLU ASN GLY LYS THR ILE GLN PHE GLY GLU SEQRES 6 B 425 GLU MET MET LYS ARG ALA LEU GLN TYR SER PRO SER ALA SEQRES 7 B 425 GLY ILE PRO GLU LEU LEU SER TRP LEU LYS GLN LEU GLN SEQRES 8 B 425 ILE LYS LEU HIS ASN PRO PRO THR ILE HIS TYR PRO PRO SEQRES 9 B 425 SER GLN GLY GLN MET ASP LEU CYS VAL THR SER GLY SER SEQRES 10 B 425 GLN GLN GLY LEU CYS LYS VAL PHE GLU MET ILE ILE ASN SEQRES 11 B 425 PRO GLY ASP ASN VAL LEU LEU ASP GLU PRO ALA TYR SER SEQRES 12 B 425 GLY THR LEU GLN SER LEU HIS PRO LEU GLY CYS ASN ILE SEQRES 13 B 425 ILE ASN VAL ALA SER ASP GLU SER GLY ILE VAL PRO ASP SEQRES 14 B 425 SER LEU ARG ASP ILE LEU SER ARG TRP LYS PRO GLU ASP SEQRES 15 B 425 ALA LYS ASN PRO GLN LYS ASN THR PRO LYS PHE LEU TYR SEQRES 16 B 425 THR VAL PRO ASN GLY ASN ASN PRO THR GLY ASN SER LEU SEQRES 17 B 425 THR SER GLU ARG LYS LYS GLU ILE TYR GLU LEU ALA ARG SEQRES 18 B 425 LYS TYR ASP PHE LEU ILE ILE GLU ASP ASP PRO TYR TYR SEQRES 19 B 425 PHE LEU GLN PHE ASN LYS PHE ARG VAL PRO THR PHE LEU SEQRES 20 B 425 SER MET ASP VAL ASP GLY ARG VAL ILE ARG ALA ASP SER SEQRES 21 B 425 PHE SER LYS ILE ILE SER SER GLY LEU ARG ILE GLY PHE SEQRES 22 B 425 LEU THR GLY PRO LYS PRO LEU ILE GLU ARG VAL ILE LEU SEQRES 23 B 425 HIS ILE GLN VAL SER THR LEU HIS PRO SER THR PHE ASN SEQRES 24 B 425 GLN LEU MET ILE SER GLN LEU LEU HIS GLU TRP GLY GLU SEQRES 25 B 425 GLU GLY PHE MET ALA HIS VAL ASP ARG VAL ILE ASP PHE SEQRES 26 B 425 TYR SER ASN GLN LYS ASP ALA ILE LEU ALA ALA ALA ASP SEQRES 27 B 425 LYS TRP LEU THR GLY LEU ALA GLU TRP HIS VAL PRO ALA SEQRES 28 B 425 ALA GLY MET PHE LEU TRP ILE LYS VAL LYS GLY ILE ASN SEQRES 29 B 425 ASP VAL LYS GLU LEU ILE GLU GLU LYS ALA VAL LYS MET SEQRES 30 B 425 GLY VAL LEU MET LEU PRO GLY ASN ALA PHE TYR VAL ASP SEQRES 31 B 425 SER SER ALA PRO SER PRO TYR LEU ARG ALA SER PHE SER SEQRES 32 B 425 SER ALA SER PRO GLU GLN MET ASP VAL ALA PHE GLN VAL SEQRES 33 B 425 LEU ALA GLN LEU ILE LYS GLU SER LEU HET BF5 A1426 26 HET PLP A1427 15 HET IOD A1428 1 HET BF5 B1426 26 HET PLP B1427 15 HET GOL B1428 6 HETNAM BF5 (3S)-10-(4-AMINOPIPERAZIN-1-YL)-9-FLUORO-7-HYDROXY-3- HETNAM 2 BF5 METHYL-2,3-DIHYDRO-8H-[1,4]OXAZINO[2,3,4-IJ]QUINOLINE- HETNAM 3 BF5 6-CARBOXYLATE HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM IOD IODIDE ION HETNAM GOL GLYCEROL HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 BF5 2(C17 H19 F N4 O4) FORMUL 4 PLP 2(C8 H10 N O6 P) FORMUL 5 IOD I 1- FORMUL 8 GOL C3 H8 O3 FORMUL 9 HOH *416(H2 O) HELIX 1 1 TYR A 3 ILE A 7 5 5 HELIX 2 2 THR A 8 ALA A 13 1 6 HELIX 3 3 ASN A 42 PHE A 46 5 5 HELIX 4 4 GLY A 64 LEU A 72 1 9 HELIX 5 5 ILE A 80 ASN A 96 1 17 HELIX 6 6 PRO A 97 TYR A 102 5 6 HELIX 7 7 PRO A 103 GLY A 107 5 5 HELIX 8 8 GLY A 116 ILE A 129 1 14 HELIX 9 9 TYR A 142 HIS A 150 1 9 HELIX 10 10 PRO A 151 GLY A 153 5 3 HELIX 11 11 VAL A 167 SER A 176 1 10 HELIX 12 12 LYS A 179 ALA A 183 5 5 HELIX 13 13 THR A 209 TYR A 223 1 15 HELIX 14 14 PHE A 246 ASP A 250 5 5 HELIX 15 15 LYS A 278 VAL A 290 1 13 HELIX 16 16 SER A 296 THR A 342 1 47 HELIX 17 17 VAL A 366 GLU A 372 1 7 HELIX 18 18 GLU A 372 MET A 377 1 6 HELIX 19 19 ASN A 385 TYR A 388 5 4 HELIX 20 20 SER A 406 LEU A 425 1 20 HELIX 21 21 TYR B 3 ILE B 7 5 5 HELIX 22 22 THR B 8 ARG B 14 1 7 HELIX 23 23 ASN B 42 PHE B 46 5 5 HELIX 24 24 GLY B 64 LEU B 72 1 9 HELIX 25 25 ILE B 80 ASN B 96 1 17 HELIX 26 26 PRO B 97 TYR B 102 5 6 HELIX 27 27 GLY B 116 ILE B 129 1 14 HELIX 28 28 TYR B 142 HIS B 150 1 9 HELIX 29 29 PRO B 151 GLY B 153 5 3 HELIX 30 30 VAL B 167 SER B 176 1 10 HELIX 31 31 LYS B 179 ALA B 183 5 5 HELIX 32 32 THR B 209 TYR B 223 1 15 HELIX 33 33 PHE B 246 ASP B 250 5 5 HELIX 34 34 LYS B 278 VAL B 290 1 13 HELIX 35 35 SER B 296 THR B 342 1 47 HELIX 36 36 VAL B 366 GLU B 372 1 7 HELIX 37 37 ASN B 385 TYR B 388 5 4 HELIX 38 38 SER B 406 SER B 424 1 19 SHEET 1 AA 2 ILE A 34 SER A 35 0 SHEET 2 AA 2 VAL B 379 LEU B 380 1 N LEU B 380 O ILE A 34 SHEET 1 AB 4 ILE A 61 PHE A 63 0 SHEET 2 AB 4 PHE A 48 VAL A 55 -1 O ALA A 51 N PHE A 63 SHEET 3 AB 4 PHE B 48 VAL B 55 -1 N LYS B 49 O THR A 54 SHEET 4 AB 4 ILE B 61 PHE B 63 -1 O ILE B 61 N ILE B 53 SHEET 1 AC 7 MET A 109 THR A 114 0 SHEET 2 AC 7 GLY A 272 PRO A 277 -1 O GLY A 272 N THR A 114 SHEET 3 AC 7 VAL A 255 SER A 260 -1 O ARG A 257 N THR A 275 SHEET 4 AC 7 LEU A 226 ASP A 230 1 O ILE A 227 N ILE A 256 SHEET 5 AC 7 PHE A 193 THR A 196 1 O LEU A 194 N ILE A 228 SHEET 6 AC 7 ASN A 134 LEU A 137 1 O LEU A 136 N TYR A 195 SHEET 7 AC 7 ASN A 155 ASN A 158 1 O ASN A 155 N VAL A 135 SHEET 1 AD 2 SER A 161 ASP A 162 0 SHEET 2 AD 2 GLY A 165 ILE A 166 -1 O GLY A 165 N ASP A 162 SHEET 1 AE 4 ALA A 345 GLU A 346 0 SHEET 2 AE 4 PHE A 355 VAL A 360 -1 O LYS A 359 N GLU A 346 SHEET 3 AE 4 TYR A 397 SER A 401 -1 O LEU A 398 N ILE A 358 SHEET 4 AE 4 LEU A 382 PRO A 383 -1 O LEU A 382 N ARG A 399 SHEET 1 AF 2 VAL A 379 LEU A 380 0 SHEET 2 AF 2 ILE B 34 SER B 35 1 O ILE B 34 N LEU A 380 SHEET 1 BA 7 MET B 109 THR B 114 0 SHEET 2 BA 7 GLY B 272 PRO B 277 -1 O GLY B 272 N THR B 114 SHEET 3 BA 7 VAL B 255 SER B 260 -1 O ARG B 257 N THR B 275 SHEET 4 BA 7 LEU B 226 ASP B 230 1 O ILE B 227 N ILE B 256 SHEET 5 BA 7 PHE B 193 THR B 196 1 O LEU B 194 N ILE B 228 SHEET 6 BA 7 ASN B 134 LEU B 137 1 O LEU B 136 N TYR B 195 SHEET 7 BA 7 ASN B 155 ASN B 158 1 O ASN B 155 N VAL B 135 SHEET 1 BB 2 SER B 161 ASP B 162 0 SHEET 2 BB 2 GLY B 165 ILE B 166 -1 O GLY B 165 N ASP B 162 SHEET 1 BC 4 ALA B 345 TRP B 347 0 SHEET 2 BC 4 PHE B 355 VAL B 360 -1 O LYS B 359 N GLU B 346 SHEET 3 BC 4 TYR B 397 SER B 401 -1 O LEU B 398 N ILE B 358 SHEET 4 BC 4 LEU B 382 PRO B 383 -1 O LEU B 382 N ARG B 399 LINK N4 BF5 A1426 C4A PLP A1427 1555 1555 1.42 LINK N4 BF5 B1426 C4A PLP B1427 1555 1555 1.43 CISPEP 1 GLU A 139 PRO A 140 0 1.38 CISPEP 2 ASN A 202 PRO A 203 0 15.10 CISPEP 3 GLU B 139 PRO B 140 0 3.06 CISPEP 4 ASN B 202 PRO B 203 0 12.12 SITE 1 AC1 8 TYR A 142 PLP A1427 HOH A2240 HOH A2241 SITE 2 AC1 8 GLY B 39 LEU B 40 SER B 75 PRO B 76 SITE 1 AC2 14 SER A 117 GLN A 118 TYR A 142 ASN A 202 SITE 2 AC2 14 ASP A 230 PRO A 232 TYR A 233 SER A 260 SITE 3 AC2 14 SER A 262 LYS A 263 ARG A 270 BF5 A1426 SITE 4 AC2 14 HOH A2187 TYR B 74 SITE 1 AC3 6 GLY A 39 LEU A 40 TYR A 74 SER A 77 SITE 2 AC3 6 TYR B 142 PLP B1427 SITE 1 AC4 13 TYR A 74 SER B 117 GLN B 118 TYR B 142 SITE 2 AC4 13 ASN B 202 ASP B 230 PRO B 232 TYR B 233 SITE 3 AC4 13 SER B 260 SER B 262 LYS B 263 ARG B 270 SITE 4 AC4 13 BF5 B1426 SITE 1 AC5 4 GLN A 119 LYS A 123 GLN B 119 LYS B 123 SITE 1 AC6 6 GLU B -1 ASN B 2 SER B 105 PRO B 279 SITE 2 AC6 6 HOH B2173 HOH B2174 CRYST1 98.323 152.857 60.800 90.00 90.00 90.00 P 21 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 0.010171 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006542 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016447 0.00000 MTRIX1 1 -0.999600 -0.003480 0.028090 29.79189 1 MTRIX2 1 0.017080 -0.865390 0.490000 71.86334 1 MTRIX3 1 0.022570 0.501090 0.865100 -19.65713 1