PDB Short entry for 2VGZ HEADER TRANSFERASE 16-NOV-07 2VGZ TITLE CRYSTAL STRUCTURE OF HUMAN KYNURENINE AMINOTRANSFERASE II COMPND MOL_ID: 1; COMPND 2 MOLECULE: KYNURENINE/ALPHA-AMINOADIPATE AMINOTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 2-425; COMPND 5 SYNONYM: KYNURENINE AMINOTRANSFERASE II, KAT/AADAT, COMPND 6 KYNURENINE--OXOGLUTARATE TRANSAMINASE II, KYNURENINE--OXOGLUTARATE COMPND 7 AMINOTRANSFERASE II, 2-AMINOADIPATE TRANSAMINASE, 2-AMINOADIPATE COMPND 8 AMINOTRANSFERASE, ALPHA-AMINOADIPATE AMINOTRANSFERASE, AADAT; COMPND 9 EC: 2.6.1.39, 2.6.1.7; COMPND 10 ENGINEERED: 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 MULTIFUNCTIONAL ENZYME, TRANSIT PEPTIDE, AMINOTRANSFERASE, PYRIDOXAL KEYWDS 2 PHOSPHATE, PLP ENZYME, KYNURENINE, TRANSFERASE, MITOCHONDRION EXPDTA X-RAY DIFFRACTION AUTHOR F.ROSSI,S.GARAVAGLIA,V.MONTALBANO,M.A.WALSH,M.RIZZI REVDAT 5 09-DEC-15 2VGZ 1 COMPND KEYWDS JRNL REMARK REVDAT 5 2 VERSN SEQRES HET MODRES REVDAT 5 3 HETNAM HETSYN FORMUL LINK REVDAT 5 4 SITE ATOM TER HETATM REVDAT 5 5 CONECT MASTER REVDAT 4 24-FEB-09 2VGZ 1 VERSN REVDAT 3 01-APR-08 2VGZ 1 REMARK HETATM REVDAT 2 19-FEB-08 2VGZ 1 JRNL REVDAT 1 04-DEC-07 2VGZ 0 JRNL AUTH F.ROSSI,S.GARAVAGLIA,V.MONTALBANO,M.A.WALSH,M.RIZZI JRNL TITL CRYSTAL STRUCTURE OF HUMAN KYNURENINE AMINOTRANSFERASE II, JRNL TITL 2 A DRUG TARGET FOR THE TREATMENT OF SCHIZOPHRENIA. JRNL REF J.BIOL.CHEM. V. 283 3559 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18056996 JRNL DOI 10.1074/JBC.M707925200 REMARK 2 REMARK 2 RESOLUTION. 2.3 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 40255 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2161 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2914 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6475 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 403 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.317 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.237 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.159 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.355 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6683 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9072 ; 1.675 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 822 ; 6.565 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 284 ;42.077 ;24.789 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1144 ;16.615 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;17.978 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1002 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5028 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3045 ; 0.227 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4546 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 457 ; 0.179 ; 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): 33 ; 0.282 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.185 ; 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): 4196 ; 1.019 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6714 ; 1.811 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2757 ; 2.858 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2358 ; 4.584 ; 4.500 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 : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. RESIDUES FROM -3 TO -1 AT THE N-TERMINI IN REMARK 3 BOTH MONOMERS BELONGS TO THE HISTIDINE TAG REMARK 4 REMARK 4 2VGZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-NOV-07. REMARK 100 THE PDBE ID CODE IS EBI-34442. 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 : NULL 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) : 0.99 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41797 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.30 REMARK 200 RESOLUTION RANGE LOW (A) : 20.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.4 REMARK 200 R MERGE (I) : 0.07 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.50 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.4 REMARK 200 R MERGE FOR SHELL (I) : 0.18 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX-SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 49.81550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 77.47800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 49.81550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 77.47800 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: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 8550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.2 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 ILE A 19 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 ILE B 19 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 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 VAL A 284 O 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 NE2 GLN A 62 O HOH A 2039 1.66 REMARK 500 C GLU B -1 N ASN B 2 1.98 REMARK 500 O PRO B 18 O HOH B 2018 2.19 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 O HOH B 2204 O HOH B 2204 2665 1.29 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 A -1 C ASN A 2 N 1.136 REMARK 500 CYS A 112 CB CYS A 112 SG -0.131 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 ASN A 2 C - N - CA ANGL. DEV. = -46.6 DEGREES REMARK 500 ASP A 110 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG B 399 NE - CZ - NH2 ANGL. DEV. = -3.3 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 GLU A -1 -29.35 -39.57 REMARK 500 TYR A 74 150.24 -44.78 REMARK 500 ASN A 96 64.07 35.28 REMARK 500 ASP A 162 -153.44 -140.86 REMARK 500 ASN A 189 59.09 -112.45 REMARK 500 SER A 266 124.22 175.83 REMARK 500 SER A 291 -93.65 -127.50 REMARK 500 LEU A 293 -46.15 71.59 REMARK 500 GLU A 372 -50.42 -138.76 REMARK 500 GLU A 423 7.17 -59.13 REMARK 500 SER A 424 64.64 -163.53 REMARK 500 SER B 17 52.31 -142.05 REMARK 500 GLU B 56 -81.69 -22.05 REMARK 500 ASN B 96 62.82 36.67 REMARK 500 GLU B 163 -8.79 -59.87 REMARK 500 SER B 176 -9.92 -59.29 REMARK 500 SER B 266 135.38 -172.60 REMARK 500 SER B 291 -93.51 -122.53 REMARK 500 LEU B 293 -46.03 72.49 REMARK 500 SER B 296 121.67 -36.84 REMARK 500 GLU B 372 -74.58 -72.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LEU A -2 25.0 L L OUTSIDE RANGE 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 A1263 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B1263 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1426 DBREF 2VGZ A -3 -1 PDB 2VGZ 2VGZ -3 -1 DBREF 2VGZ A 2 425 UNP Q8N5Z0 AADAT_HUMAN 2 425 DBREF 2VGZ B -3 -1 PDB 2VGZ 2VGZ -3 -1 DBREF 2VGZ B 2 425 UNP Q8N5Z0 AADAT_HUMAN 2 425 SEQRES 1 A 427 MET LEU GLU ASN TYR ALA ARG PHE ILE THR ALA ALA SER SEQRES 2 A 427 ALA ALA ARG ASN PRO SER PRO ILE ARG THR MET THR ASP SEQRES 3 A 427 ILE LEU SER ARG GLY PRO LYS SER MET ILE SER LEU ALA SEQRES 4 A 427 GLY GLY LEU PRO ASN PRO ASN MET PHE PRO PHE LYS THR SEQRES 5 A 427 ALA VAL ILE THR VAL GLU ASN GLY LYS THR ILE GLN PHE SEQRES 6 A 427 GLY GLU GLU MET MET LYS ARG ALA LEU GLN TYR SER PRO SEQRES 7 A 427 SER ALA GLY ILE PRO GLU LEU LEU SER TRP LEU LYS GLN SEQRES 8 A 427 LEU GLN ILE LYS LEU HIS ASN PRO PRO THR ILE HIS TYR SEQRES 9 A 427 PRO PRO SER GLN GLY GLN MET ASP LEU CYS VAL THR SER SEQRES 10 A 427 GLY SER GLN GLN GLY LEU CYS LYS VAL PHE GLU MET ILE SEQRES 11 A 427 ILE ASN PRO GLY ASP ASN VAL LEU LEU ASP GLU PRO ALA SEQRES 12 A 427 TYR SER GLY THR LEU GLN SER LEU HIS PRO LEU GLY CYS SEQRES 13 A 427 ASN ILE ILE ASN VAL ALA SER ASP GLU SER GLY ILE VAL SEQRES 14 A 427 PRO ASP SER LEU ARG ASP ILE LEU SER ARG TRP LYS PRO SEQRES 15 A 427 GLU ASP ALA LYS ASN PRO GLN LYS ASN THR PRO LYS PHE SEQRES 16 A 427 LEU TYR THR VAL PRO ASN GLY ASN ASN PRO THR GLY ASN SEQRES 17 A 427 SER LEU THR SER GLU ARG LYS LYS GLU ILE TYR GLU LEU SEQRES 18 A 427 ALA ARG LYS TYR ASP PHE LEU ILE ILE GLU ASP ASP PRO SEQRES 19 A 427 TYR TYR PHE LEU GLN PHE ASN LYS PHE ARG VAL PRO THR SEQRES 20 A 427 PHE LEU SER MET ASP VAL ASP GLY ARG VAL ILE ARG ALA SEQRES 21 A 427 ASP SER PHE SER LYS ILE ILE SER SER GLY LEU ARG ILE SEQRES 22 A 427 GLY PHE LEU THR GLY PRO LYS PRO LEU ILE GLU ARG VAL SEQRES 23 A 427 ILE LEU HIS ILE GLN VAL SER THR LEU HIS PRO SER THR SEQRES 24 A 427 PHE ASN GLN LEU MET ILE SER GLN LEU LEU HIS GLU TRP SEQRES 25 A 427 GLY GLU GLU GLY PHE MET ALA HIS VAL ASP ARG VAL ILE SEQRES 26 A 427 ASP PHE TYR SER ASN GLN LYS ASP ALA ILE LEU ALA ALA SEQRES 27 A 427 ALA ASP LYS TRP LEU THR GLY LEU ALA GLU TRP HIS VAL SEQRES 28 A 427 PRO ALA ALA GLY MET PHE LEU TRP ILE LYS VAL LYS GLY SEQRES 29 A 427 ILE ASN ASP VAL LYS GLU LEU ILE GLU GLU LYS ALA VAL SEQRES 30 A 427 LYS MET GLY VAL LEU MET LEU PRO GLY ASN ALA PHE TYR SEQRES 31 A 427 VAL ASP SER SER ALA PRO SER PRO TYR LEU ARG ALA SER SEQRES 32 A 427 PHE SER SER ALA SER PRO GLU GLN MET ASP VAL ALA PHE SEQRES 33 A 427 GLN VAL LEU ALA GLN LEU ILE LYS GLU SER LEU SEQRES 1 B 427 MET LEU GLU ASN TYR ALA ARG PHE ILE THR ALA ALA SER SEQRES 2 B 427 ALA ALA ARG ASN PRO SER PRO ILE ARG THR MET THR ASP SEQRES 3 B 427 ILE LEU SER ARG GLY PRO LYS SER MET ILE SER LEU ALA SEQRES 4 B 427 GLY GLY LEU PRO ASN PRO ASN MET PHE PRO PHE LYS THR SEQRES 5 B 427 ALA VAL ILE THR VAL GLU ASN GLY LYS THR ILE GLN PHE SEQRES 6 B 427 GLY GLU GLU MET MET LYS ARG ALA LEU GLN TYR SER PRO SEQRES 7 B 427 SER ALA GLY ILE PRO GLU LEU LEU SER TRP LEU LYS GLN SEQRES 8 B 427 LEU GLN ILE LYS LEU HIS ASN PRO PRO THR ILE HIS TYR SEQRES 9 B 427 PRO PRO SER GLN GLY GLN MET ASP LEU CYS VAL THR SER SEQRES 10 B 427 GLY SER GLN GLN GLY LEU CYS LYS VAL PHE GLU MET ILE SEQRES 11 B 427 ILE ASN PRO GLY ASP ASN VAL LEU LEU ASP GLU PRO ALA SEQRES 12 B 427 TYR SER GLY THR LEU GLN SER LEU HIS PRO LEU GLY CYS SEQRES 13 B 427 ASN ILE ILE ASN VAL ALA SER ASP GLU SER GLY ILE VAL SEQRES 14 B 427 PRO ASP SER LEU ARG ASP ILE LEU SER ARG TRP LYS PRO SEQRES 15 B 427 GLU ASP ALA LYS ASN PRO GLN LYS ASN THR PRO LYS PHE SEQRES 16 B 427 LEU TYR THR VAL PRO ASN GLY ASN ASN PRO THR GLY ASN SEQRES 17 B 427 SER LEU THR SER GLU ARG LYS LYS GLU ILE TYR GLU LEU SEQRES 18 B 427 ALA ARG LYS TYR ASP PHE LEU ILE ILE GLU ASP ASP PRO SEQRES 19 B 427 TYR TYR PHE LEU GLN PHE ASN LYS PHE ARG VAL PRO THR SEQRES 20 B 427 PHE LEU SER MET ASP VAL ASP GLY ARG VAL ILE ARG ALA SEQRES 21 B 427 ASP SER PHE SER LYS ILE ILE SER SER GLY LEU ARG ILE SEQRES 22 B 427 GLY PHE LEU THR GLY PRO LYS PRO LEU ILE GLU ARG VAL SEQRES 23 B 427 ILE LEU HIS ILE GLN VAL SER THR LEU HIS PRO SER THR SEQRES 24 B 427 PHE ASN GLN LEU MET ILE SER GLN LEU LEU HIS GLU TRP SEQRES 25 B 427 GLY GLU GLU GLY PHE MET ALA HIS VAL ASP ARG VAL ILE SEQRES 26 B 427 ASP PHE TYR SER ASN GLN LYS ASP ALA ILE LEU ALA ALA SEQRES 27 B 427 ALA ASP LYS TRP LEU THR GLY LEU ALA GLU TRP HIS VAL SEQRES 28 B 427 PRO ALA ALA GLY MET PHE LEU TRP ILE LYS VAL LYS GLY SEQRES 29 B 427 ILE ASN ASP VAL LYS GLU LEU ILE GLU GLU LYS ALA VAL SEQRES 30 B 427 LYS MET GLY VAL LEU MET LEU PRO GLY ASN ALA PHE TYR SEQRES 31 B 427 VAL ASP SER SER ALA PRO SER PRO TYR LEU ARG ALA SER SEQRES 32 B 427 PHE SER SER ALA SER PRO GLU GLN MET ASP VAL ALA PHE SEQRES 33 B 427 GLN VAL LEU ALA GLN LEU ILE LYS GLU SER LEU HET PLP A1263 15 HET PLP B1263 15 HET IOD A1426 1 HETNAM IOD IODIDE ION HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 IOD I 1- FORMUL 4 PLP 2(C8 H10 N O6 P) FORMUL 5 HOH *403(H2 O) HELIX 1 1 TYR A 3 ILE A 7 5 5 HELIX 2 2 THR A 8 ARG A 14 1 7 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 GLY A 116 ILE A 129 1 14 HELIX 8 8 TYR A 142 HIS A 150 1 9 HELIX 9 9 PRO A 151 GLY A 153 5 3 HELIX 10 10 VAL A 167 SER A 176 1 10 HELIX 11 11 LYS A 179 ALA A 183 5 5 HELIX 12 12 THR A 209 TYR A 223 1 15 HELIX 13 13 PHE A 246 ASP A 250 5 5 HELIX 14 14 LYS A 278 ARG A 283 1 6 HELIX 15 15 HIS A 287 SER A 291 5 5 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 GLU A 423 1 18 HELIX 21 21 LEU B -2 ILE B 7 5 8 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 TYR B 233 LEU B 236 5 4 HELIX 34 34 THR B 245 ASP B 250 5 6 HELIX 35 35 LYS B 278 GLN B 289 1 12 HELIX 36 36 SER B 296 THR B 342 1 47 HELIX 37 37 VAL B 366 GLU B 372 1 7 HELIX 38 38 GLU B 372 MET B 377 1 6 HELIX 39 39 ASN B 385 TYR B 388 5 4 HELIX 40 40 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 5 MET A 109 THR A 114 0 SHEET 2 AC 5 GLY A 272 PRO A 277 -1 O GLY A 272 N THR A 114 SHEET 3 AC 5 VAL A 255 SER A 260 -1 O ARG A 257 N THR A 275 SHEET 4 AC 5 LEU A 226 ASP A 230 1 O ILE A 227 N ILE A 256 SHEET 5 AC 5 PHE A 193 THR A 196 1 O LEU A 194 N ILE A 228 SHEET 1 AD 2 ASN A 134 ASP A 138 0 SHEET 2 AD 2 ASN A 155 VAL A 159 1 O ASN A 155 N VAL A 135 SHEET 1 AE 2 SER A 161 ASP A 162 0 SHEET 2 AE 2 GLY A 165 ILE A 166 -1 O GLY A 165 N ASP A 162 SHEET 1 AF 4 ALA A 345 TRP A 347 0 SHEET 2 AF 4 PHE A 355 VAL A 360 -1 O LYS A 359 N GLU A 346 SHEET 3 AF 4 TYR A 397 SER A 401 -1 O LEU A 398 N ILE A 358 SHEET 4 AF 4 LEU A 382 PRO A 383 -1 O LEU A 382 N ARG A 399 SHEET 1 AG 2 VAL A 379 LEU A 380 0 SHEET 2 AG 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 GLU B 346 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 NZ LYS A 263 C4A PLP A1263 1555 1555 1.34 LINK NZ LYS B 263 C4A PLP B1263 1555 1555 1.32 CISPEP 1 GLU A 139 PRO A 140 0 -1.51 CISPEP 2 ASN A 202 PRO A 203 0 16.35 CISPEP 3 GLU B 139 PRO B 140 0 -3.43 CISPEP 4 ASN B 202 PRO B 203 0 10.87 SITE 1 AC1 12 GLY A 116 SER A 117 GLN A 118 TYR A 142 SITE 2 AC1 12 ASN A 202 TYR A 233 SER A 260 SER A 262 SITE 3 AC1 12 LYS A 263 ARG A 270 HOH A2154 TYR B 74 SITE 1 AC2 12 TYR A 74 GLY B 116 SER B 117 GLN B 118 SITE 2 AC2 12 TYR B 142 ASN B 202 PRO B 232 TYR B 233 SITE 3 AC2 12 SER B 260 SER B 262 LYS B 263 ARG B 270 SITE 1 AC3 4 GLN A 119 LYS A 123 GLN B 119 LYS B 123 CRYST1 99.631 154.956 61.201 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 0.010037 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006453 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016340 0.00000 MTRIX1 1 -0.999830 -0.008270 0.016510 63.88042 1 MTRIX2 1 -0.000980 -0.869090 -0.494660 87.19806 1 MTRIX3 1 0.018440 -0.494590 0.868930 22.46176 1