HEADER LYASE 01-DEC-04 1Y4I TITLE CRYSTAL STRUCTURE OF CITROBACTER FREUNDII L-METHIONINE-LYASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHIONINE GAMMA-LYASE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.4.1.11; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CITROBACTER FREUNDII; SOURCE 3 ORGANISM_TAXID: 546; SOURCE 4 GENE: MEGL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); 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: PET-MGL KEYWDS PYRIDOXAL-5'-PHOSPHATE, PLP-DEPENDENT ENZYME, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.V.REVTOVICH,D.V.MAMAEVA,E.A.MOROZOVA,A.D.NIKULIN,S.V.NIKONOV, AUTHOR 2 M.B.GARBER,T.V.DEMIDKINA REVDAT 6 15-NOV-23 1Y4I 1 REMARK REVDAT 5 23-AUG-23 1Y4I 1 REMARK SEQADV LINK REVDAT 4 11-OCT-17 1Y4I 1 REMARK REVDAT 3 13-JUL-11 1Y4I 1 VERSN REVDAT 2 24-FEB-09 1Y4I 1 VERSN REVDAT 1 14-JUN-05 1Y4I 0 JRNL AUTH D.V.MAMAEVA,E.A.MOROZOVA,A.D.NIKULIN,S.V.REVTOVICH, JRNL AUTH 2 S.V.NIKONOV,M.B.GARBER,T.V.DEMIDKINA JRNL TITL STRUCTURE OF CITROBACTER FREUNDII L-METHIONINE GAMMA-LYASE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 61 546 2005 JRNL REFN ESSN 1744-3091 JRNL PMID 16511092 JRNL DOI 10.1107/S1744309105015447 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 3765743.920 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 33874 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 SET) : 0.206 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1700 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.02 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5167 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 274 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3024 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 12.10000 REMARK 3 B22 (A**2) : -6.10000 REMARK 3 B33 (A**2) : -6.00000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.26 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.26 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.022 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.080 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.480 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.370 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.070 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.980 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.44 REMARK 3 BSOL : 56.89 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1Y4I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000031105. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34696 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.890 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 200 DATA REDUNDANCY : 3.960 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.38200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.100 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 1GC0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% MMEPEG 2000, 200MM AMMONIUM REMARK 280 SULPHATE, 50MM TRISHCL, 0.2MM PLP, 0.25% DTT, PH 8.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 303K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 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 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 28.17500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 60.91500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 63.58000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 28.17500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 60.91500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 63.58000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 28.17500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 60.91500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 63.58000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 28.17500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 60.91500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 63.58000 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -X,-Y,Z; X,-Y,-Z; REMARK 300 -X,Y,-Z 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 20820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -158.0 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 MET A 1 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 266 C ARG A 267 N 0.196 REMARK 500 ARG A 267 C HIS A 268 N -0.143 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 104 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 217 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 PRO A 357 C - N - CD ANGL. DEV. = -15.5 DEGREES REMARK 500 PRO A 357 CA - N - CD ANGL. DEV. = -10.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 47 -73.77 -47.05 REMARK 500 GLU A 52 55.09 72.17 REMARK 500 TYR A 113 127.93 -38.67 REMARK 500 SER A 190 170.51 75.01 REMARK 500 LLP A 210 -123.35 -88.00 REMARK 500 ASP A 217 12.54 -142.64 REMARK 500 ILE A 241 -65.35 -102.94 REMARK 500 MET A 353 -84.05 -122.87 REMARK 500 THR A 354 10.71 -67.60 REMARK 500 HIS A 355 33.06 -148.32 REMARK 500 VAL A 358 89.19 -55.54 REMARK 500 ALA A 359 161.00 -38.04 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 ALA A 159 ASN A 160 -148.37 REMARK 500 HIS A 206 SER A 207 146.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 267 -10.46 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 SO4 A 399 REMARK 999 REMARK 999 SEQUENCE REMARK 999 ACCORDING TO THE AUTHORS THERE IS AN ERROR IN THE REMARK 999 DATABASE SEQUENCE. DBREF 1Y4I A 1 398 UNP Q84AR1 Q84AR1_CITFR 1 398 SEQADV 1Y4I PHE A 133 UNP Q84AR1 LEU 133 SEE REMARK 999 SEQADV 1Y4I LLP A 210 UNP Q84AR1 LYS 210 MODIFIED RESIDUE SEQRES 1 A 398 MET SER ASP CYS ARG THR TYR GLY PHE ASN THR GLN ILE SEQRES 2 A 398 VAL HIS ALA GLY GLN GLN PRO ASP PRO SER THR GLY ALA SEQRES 3 A 398 LEU SER THR PRO ILE PHE GLN THR SER THR PHE VAL PHE SEQRES 4 A 398 ASP SER ALA GLU GLN GLY ALA ALA ARG PHE ALA LEU GLU SEQRES 5 A 398 GLU SER GLY TYR ILE TYR THR ARG LEU GLY ASN PRO THR SEQRES 6 A 398 THR ASP ALA LEU GLU LYS LYS LEU ALA VAL LEU GLU ARG SEQRES 7 A 398 GLY GLU ALA GLY LEU ALA THR ALA SER GLY ILE SER ALA SEQRES 8 A 398 ILE THR THR THR LEU LEU THR LEU CYS GLN GLN GLY ASP SEQRES 9 A 398 HIS ILE VAL SER ALA SER ALA ILE TYR GLY CYS THR HIS SEQRES 10 A 398 ALA PHE LEU SER HIS SER MET PRO LYS PHE GLY ILE ASN SEQRES 11 A 398 VAL ARG PHE VAL ASP ALA GLY LYS PRO GLU GLU ILE ARG SEQRES 12 A 398 ALA ALA MET ARG PRO GLU THR LYS VAL VAL TYR ILE GLU SEQRES 13 A 398 THR PRO ALA ASN PRO THR LEU SER LEU VAL ASP ILE GLU SEQRES 14 A 398 THR VAL ALA GLY ILE ALA HIS GLN GLN GLY ALA LEU LEU SEQRES 15 A 398 VAL VAL ASP ASN THR PHE MET SER PRO TYR CYS GLN GLN SEQRES 16 A 398 PRO LEU GLN LEU GLY ALA ASP ILE VAL VAL HIS SER VAL SEQRES 17 A 398 THR LLP TYR ILE ASN GLY HIS GLY ASP VAL ILE GLY GLY SEQRES 18 A 398 ILE ILE VAL GLY LYS GLN GLU PHE ILE ASP GLN ALA ARG SEQRES 19 A 398 PHE VAL GLY LEU LYS ASP ILE THR GLY GLY CYS MET SER SEQRES 20 A 398 PRO PHE ASN ALA TRP LEU THR LEU ARG GLY VAL LYS THR SEQRES 21 A 398 LEU GLY ILE ARG MET GLU ARG HIS CYS GLU ASN ALA LEU SEQRES 22 A 398 LYS ILE ALA ARG PHE LEU GLU GLY HIS PRO SER ILE THR SEQRES 23 A 398 ARG VAL TYR TYR PRO GLY LEU SER SER HIS PRO GLN TYR SEQRES 24 A 398 GLU LEU GLY GLN ARG GLN MET SER LEU PRO GLY GLY ILE SEQRES 25 A 398 ILE SER PHE GLU ILE ALA GLY GLY LEU GLU ALA GLY ARG SEQRES 26 A 398 ARG MET ILE ASN SER VAL GLU LEU CYS LEU LEU ALA VAL SEQRES 27 A 398 SER LEU GLY ASP THR GLU THR LEU ILE GLN HIS PRO ALA SEQRES 28 A 398 SER MET THR HIS SER PRO VAL ALA PRO GLU GLU ARG LEU SEQRES 29 A 398 LYS ALA GLY ILE THR ASP GLY LEU ILE ARG LEU SER VAL SEQRES 30 A 398 GLY LEU GLU ASP PRO GLU ASP ILE ILE ASN ASP LEU GLU SEQRES 31 A 398 HIS ALA ILE ARG LYS ALA THR PHE MODRES 1Y4I LLP A 210 LYS HET LLP A 210 24 HET SO4 A 399 5 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 SO4 SULFATE ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE FORMUL 1 LLP C14 H22 N3 O7 P FORMUL 2 SO4 O4 S 2- FORMUL 3 HOH *104(H2 O) HELIX 1 1 ASP A 3 TYR A 7 5 5 HELIX 2 2 GLY A 8 ALA A 16 1 9 HELIX 3 3 SER A 41 LEU A 51 1 11 HELIX 4 4 ASN A 63 ARG A 78 1 16 HELIX 5 5 SER A 87 CYS A 100 1 14 HELIX 6 6 TYR A 113 HIS A 122 1 10 HELIX 7 7 HIS A 122 PHE A 127 1 6 HELIX 8 8 LYS A 138 MET A 146 1 9 HELIX 9 9 ASP A 167 GLN A 178 1 12 HELIX 10 10 GLN A 195 GLY A 200 5 6 HELIX 11 11 LYS A 226 VAL A 236 1 11 HELIX 12 12 VAL A 236 ILE A 241 1 6 HELIX 13 13 SER A 247 LYS A 259 1 13 HELIX 14 14 THR A 260 GLY A 281 1 22 HELIX 15 15 GLN A 298 MET A 306 1 9 HELIX 16 16 GLY A 319 SER A 330 1 12 HELIX 17 17 ALA A 359 ALA A 366 1 8 HELIX 18 18 ASP A 381 PHE A 398 1 18 SHEET 1 A 7 ALA A 81 THR A 85 0 SHEET 2 A 7 GLY A 221 GLY A 225 -1 O GLY A 221 N THR A 85 SHEET 3 A 7 ILE A 203 SER A 207 -1 N VAL A 204 O VAL A 224 SHEET 4 A 7 LEU A 181 ASP A 185 1 N VAL A 184 O ILE A 203 SHEET 5 A 7 THR A 150 GLU A 156 1 N VAL A 153 O VAL A 183 SHEET 6 A 7 HIS A 105 ALA A 109 1 N ALA A 109 O TYR A 154 SHEET 7 A 7 ASN A 130 VAL A 134 1 O ARG A 132 N ILE A 106 SHEET 1 B 5 ILE A 285 TYR A 289 0 SHEET 2 B 5 ILE A 312 ILE A 317 -1 O SER A 314 N TYR A 289 SHEET 3 B 5 LEU A 372 SER A 376 -1 O LEU A 375 N ILE A 313 SHEET 4 B 5 LEU A 346 GLN A 348 -1 N LEU A 346 O SER A 376 SHEET 5 B 5 LEU A 335 LEU A 336 1 N LEU A 335 O ILE A 347 LINK C THR A 209 N LLP A 210 1555 1555 1.33 LINK C LLP A 210 N TYR A 211 1555 1555 1.36 CISPEP 1 THR A 157 PRO A 158 0 -5.69 SITE 1 AC1 4 ARG A 78 GLN A 198 ARG A 326 HOH A 436 CRYST1 56.350 121.830 127.160 90.00 90.00 90.00 I 2 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 0.017747 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008208 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007864 0.00000