HEADER LYASE 09-SEP-10 3ANU TITLE CRYSTAL STRUCTURE OF D-SERINE DEHYDRATASE FROM CHICKEN KIDNEY COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-SERINE DEHYDRATASE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.3.1.18 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031 KEYWDS PLP-DEPENDENT FOLD-TYPE III ENZYME, D-SERINE DEHYDRATASE, PLP KEYWDS 2 BINDING, ZINC BINDING, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR H.TANAKA,M.SENDA,N.VENUGOPALAN,A.YAMAMOTO,T.SENDA,T.ISHIDA,K.HORIIKE REVDAT 2 07-AUG-13 3ANU 1 JRNL VERSN REVDAT 1 15-JUN-11 3ANU 0 JRNL AUTH H.TANAKA,M.SENDA,N.VENUGOPALAN,A.YAMAMOTO,T.SENDA,T.ISHIDA, JRNL AUTH 2 K.HORIIKE JRNL TITL CRYSTAL STRUCTURE OF A ZINC-DEPENDENT D-SERINE DEHYDRATASE JRNL TITL 2 FROM CHICKEN KIDNEY JRNL REF J.BIOL.CHEM. V. 286 27548 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21676877 JRNL DOI 10.1074/JBC.M110.201160 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0078 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 34123 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1796 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2449 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.3470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2778 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 143 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.40000 REMARK 3 B22 (A**2) : -1.40000 REMARK 3 B33 (A**2) : 2.80000 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): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.761 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2873 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3916 ; 1.309 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 365 ; 5.873 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;31.414 ;22.101 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 433 ;14.882 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.255 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 442 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2199 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1830 ; 0.647 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2919 ; 1.176 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1043 ; 1.894 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 997 ; 3.108 ; 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 : 1 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 1 A 376 REMARK 3 ORIGIN FOR THE GROUP (A): 0.5370 67.6020 20.6080 REMARK 3 T TENSOR REMARK 3 T11: 0.0588 T22: 0.0452 REMARK 3 T33: 0.0584 T12: -0.0163 REMARK 3 T13: -0.0200 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 1.3269 L22: 2.7554 REMARK 3 L33: 0.5709 L12: -1.1619 REMARK 3 L13: -0.0746 L23: -0.2730 REMARK 3 S TENSOR REMARK 3 S11: 0.0256 S12: 0.0586 S13: -0.0387 REMARK 3 S21: -0.1854 S22: -0.0248 S23: 0.0326 REMARK 3 S31: -0.0342 S32: 0.0107 S33: -0.0007 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3ANU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-SEP-10. REMARK 100 THE RCSB ID CODE IS RCSB029478. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 95.0 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000, 1.28179, 1.28284, REMARK 200 1.25510, 1.30300 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35919 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 17.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12-15% PEG 4000, 50MM MES-NAOH, 10% 2- REMARK 280 PROPANOL, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 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: 4410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 104.57800 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CL CL A 450 LIES ON A SPECIAL POSITION. 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 140 REMARK 465 ASN A 141 REMARK 465 GLY A 182 REMARK 465 ALA A 295 REMARK 465 GLY A 296 REMARK 465 GLN A 297 REMARK 465 ALA A 326 REMARK 465 GLY A 327 REMARK 465 GLY A 328 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 ARG A 23 CZ NH1 NH2 REMARK 470 ARG A 123 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 300 CG CD OE1 NE2 REMARK 470 GLN A 329 CG CD OE1 NE2 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 ASP A 112 11.98 -147.18 REMARK 500 ARG A 143 -67.64 -128.83 REMARK 500 TYR A 246 -174.09 50.43 REMARK 500 ASP A 247 -173.65 -175.25 REMARK 500 SER A 289 167.07 73.04 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 ZN A 451 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 347 NE2 REMARK 620 2 HOH A 634 O 86.9 REMARK 620 3 HOH A 617 O 141.4 80.6 REMARK 620 4 CYS A 349 SG 104.0 101.7 114.3 REMARK 620 5 HOH A 616 O 90.8 151.8 83.7 106.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 451 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ANV RELATED DB: PDB DBREF 3ANU A 1 376 UNP A9CP13 A9CP13_CHICK 1 376 SEQRES 1 A 376 MET TRP LEU GLY ALA LEU LEU ASP THR LEU PRO THR PRO SEQRES 2 A 376 ALA LEU THR ILE ASP ARG THR THR ALA ARG ARG ASN ALA SEQRES 3 A 376 GLU ARG MET ARG GLU ARG CYS ARG ALA LEU GLY VAL ARG SEQRES 4 A 376 LEU ARG PRO HIS VAL LYS THR HIS LYS THR LEU GLU GLY SEQRES 5 A 376 GLY LEU LEU ALA THR GLY GLY THR ARG ARG GLY ILE ALA SEQRES 6 A 376 VAL SER THR LEU ALA GLU ALA ARG PHE PHE ALA ASP GLY SEQRES 7 A 376 GLY PHE ASP ASP ILE LEU LEU ALA TYR PRO VAL PRO THR SEQRES 8 A 376 ALA ARG LEU GLU GLU CYS ALA GLY LEU ALA ARG ARG LEU SEQRES 9 A 376 ASP ALA PHE HIS VAL LEU LEU ASP ARG PRO GLU ALA LEU SEQRES 10 A 376 ALA SER LEU ARG GLN ARG PRO LEU GLY HIS GLY LYS ARG SEQRES 11 A 376 TRP LEU VAL TRP LEU LYS LEU ASP CYS GLY ASN GLY ARG SEQRES 12 A 376 ALA GLY VAL ARG PRO THR ASP PRO ALA ALA LEU GLU LEU SEQRES 13 A 376 ALA GLN ALA ILE ALA ASN ASP ALA PRO GLU GLU VAL THR SEQRES 14 A 376 LEU VAL GLY VAL TYR ALA HIS CYS GLY ASN THR TYR GLY SEQRES 15 A 376 CYS SER GLY ALA ASP THR ILE GLN ALA ILE ALA ARG THR SEQRES 16 A 376 THR THR ASN ALA VAL LEU SER PHE VAL ALA ALA LEU ARG SEQRES 17 A 376 GLN ALA GLY VAL PRO CYS PRO GLN ALA SER ILE GLY SER SEQRES 18 A 376 THR PRO SER CYS SER HIS PRO ILE PRO GLU MET SER GLN SEQRES 19 A 376 LEU THR GLU LEU HIS PRO GLY ASN TYR ILE PHE TYR ASP SEQRES 20 A 376 LEU GLN GLN THR GLN LEU GLY SER CYS GLN PRO GLN ASP SEQRES 21 A 376 VAL ALA ILE ARG VAL LEU THR ARG VAL ILE GLY HIS TYR SEQRES 22 A 376 ALA HIS ARG GLY GLN LEU LEU VAL ASP CYS GLY TRP ALA SEQRES 23 A 376 ALA LEU SER LEU HIS GLY ALA GLY ALA GLY GLN GLY PRO SEQRES 24 A 376 GLN GLY CYS ALA ALA ILE ASP GLY HIS PRO GLU LEU ARG SEQRES 25 A 376 LEU VAL GLY LEU THR GLN GLU HIS GLY LEU LEU GLU HIS SEQRES 26 A 376 ALA GLY GLY GLN MET ASP PHE GLY ARG PHE PRO VAL GLY SEQRES 27 A 376 SER VAL LEU ALA LEU ILE PRO TYR HIS ALA CYS ALA THR SEQRES 28 A 376 ALA ALA MET HIS PRO VAL TYR TYR VAL HIS GLU GLU GLY SEQRES 29 A 376 LYS VAL VAL ALA LEU TRP HIS PRO VAL ARG GLY TRP HET PLP A 401 15 HET CL A 450 1 HET ZN A 451 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM CL CHLORIDE ION HETNAM ZN ZINC ION HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 CL CL 1- FORMUL 4 ZN ZN 2+ FORMUL 5 HOH *143(H2 O) HELIX 1 1 LEU A 6 LEU A 10 5 5 HELIX 2 2 ARG A 19 GLY A 37 1 19 HELIX 3 3 THR A 49 THR A 57 1 9 HELIX 4 4 THR A 68 GLY A 78 1 11 HELIX 5 5 PRO A 90 ALA A 92 5 3 HELIX 6 6 ARG A 93 LEU A 104 1 12 HELIX 7 7 ARG A 113 GLN A 122 1 10 HELIX 8 8 ASP A 150 ASP A 163 1 14 HELIX 9 9 CYS A 177 TYR A 181 5 5 HELIX 10 10 GLY A 185 ALA A 210 1 26 HELIX 11 11 SER A 221 HIS A 227 1 7 HELIX 12 12 ILE A 229 LEU A 235 5 7 HELIX 13 13 GLY A 241 PHE A 245 5 5 HELIX 14 14 ASP A 247 LEU A 253 1 7 HELIX 15 15 GLN A 257 VAL A 261 5 5 HELIX 16 16 GLY A 284 SER A 289 1 6 HELIX 17 17 GLY A 298 GLY A 301 5 4 HELIX 18 18 HIS A 347 ALA A 353 1 7 SHEET 1 A 6 ALA A 303 ILE A 305 0 SHEET 2 A 6 VAL A 340 PRO A 345 -1 O ILE A 344 N ALA A 304 SHEET 3 A 6 ILE A 263 TYR A 273 -1 N THR A 267 O LEU A 341 SHEET 4 A 6 GLN A 278 VAL A 281 -1 O LEU A 280 N ILE A 270 SHEET 5 A 6 GLY A 321 GLU A 324 -1 O LEU A 323 N LEU A 279 SHEET 6 A 6 ARG A 312 LEU A 316 -1 N VAL A 314 O LEU A 322 SHEET 1 B 6 ALA A 303 ILE A 305 0 SHEET 2 B 6 VAL A 340 PRO A 345 -1 O ILE A 344 N ALA A 304 SHEET 3 B 6 ILE A 263 TYR A 273 -1 N THR A 267 O LEU A 341 SHEET 4 B 6 ALA A 14 ASP A 18 -1 N ALA A 14 O LEU A 266 SHEET 5 B 6 TYR A 358 GLU A 362 1 O TYR A 359 N LEU A 15 SHEET 6 B 6 LYS A 365 TRP A 370 -1 O VAL A 367 N VAL A 360 SHEET 1 C 8 ARG A 39 LEU A 40 0 SHEET 2 C 8 GLU A 237 LEU A 238 1 O LEU A 238 N ARG A 39 SHEET 3 C 8 GLN A 216 ILE A 219 1 O ALA A 217 N GLU A 237 SHEET 4 C 8 VAL A 168 ALA A 175 1 N ALA A 175 O SER A 218 SHEET 5 C 8 TRP A 131 LEU A 137 1 N LEU A 137 O TYR A 174 SHEET 6 C 8 PHE A 107 LEU A 111 1 N VAL A 109 O LEU A 132 SHEET 7 C 8 ASP A 81 PRO A 88 1 N LEU A 85 O HIS A 108 SHEET 8 C 8 ARG A 62 VAL A 66 1 N ILE A 64 O LEU A 84 SSBOND 1 CYS A 183 CYS A 183 1555 5555 2.39 LINK NZ LYS A 45 C4A PLP A 401 1555 1555 1.81 LINK NE2 HIS A 347 ZN ZN A 451 1555 1555 2.17 LINK ZN ZN A 451 O HOH A 634 1555 1555 2.21 LINK ZN ZN A 451 O HOH A 617 1555 1555 2.28 LINK SG CYS A 349 ZN ZN A 451 1555 1555 2.39 LINK ZN ZN A 451 O HOH A 616 1555 1555 2.43 CISPEP 1 THR A 12 PRO A 13 0 -2.91 SITE 1 AC1 14 HIS A 43 LYS A 45 ALA A 86 TYR A 174 SITE 2 AC1 14 HIS A 176 TYR A 181 SER A 221 THR A 222 SITE 3 AC1 14 HIS A 239 PRO A 240 GLY A 241 ASN A 242 SITE 4 AC1 14 HOH A 594 HOH A 617 SITE 1 AC2 2 LEU A 290 HOH A 502 SITE 1 AC3 5 HIS A 347 CYS A 349 HOH A 616 HOH A 617 SITE 2 AC3 5 HOH A 634 CRYST1 104.578 104.578 81.449 90.00 90.00 90.00 P 4 2 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 0.009562 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009562 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012278 0.00000