HEADER LYASE 25-JUL-00 1E5E TITLE METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS IN COMPLEX TITLE 2 WITH PROPARGYLGLYCINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHIONINE GAMMA-LYASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MGL; COMPND 5 EC: 4.4.1.11; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: COVALENT LINK BETWEEN PROPARGYLGLYCINE AND TYR 111 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRICHOMONAS VAGINALIS; SOURCE 3 ORGANISM_TAXID: 412133; SOURCE 4 STRAIN: G3; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: MGL1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI M15; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 1007065; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE60 KEYWDS METHIONINE BIOSYNTHESIS, PLP-DEPENDENT ENZYMES, C-S GAMMA LYASE, KEYWDS 2 LYASE EXPDTA X-RAY DIFFRACTION AUTHOR G.GOODALL,J.C.MOTTRAM,G.H.COOMBS,A.J.LAPTHORN REVDAT 5 13-DEC-23 1E5E 1 REMARK LINK REVDAT 4 05-FEB-14 1E5E 1 SOURCE REMARK REVDAT 3 09-NOV-11 1E5E 1 HEADER COMPND KEYWDS REMARK REVDAT 3 2 1 HETSYN FORMUL HETATM VERSN REVDAT 2 24-FEB-09 1E5E 1 VERSN REVDAT 1 19-JUL-01 1E5E 0 JRNL AUTH G.GOODALL,J.C.MOTTRAM,G.H.COOMBS,A.J.LAPTHORN JRNL TITL THE STRUCTURE AND PROPOSED CATALYTIC MECHANISM OF METHIONINE JRNL TITL 2 GAMMA-LYASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.E.MCKIE,T.EDLIND,J.WALKER,J.C.MOTTRAM,G.H.COOMBS REMARK 1 TITL THE PRIMITIVE PROTOZOON TRICHOMONAS VAGINALIS CONTAINS TWO REMARK 1 TITL 2 METHIONINE GAMMA-LYASE GENES THAT ENCODE MEMBERS OF THE REMARK 1 TITL 3 GAMMA FAMILY OF PYRIDOXAL 5'-PHOSPHATE ENZYMES REMARK 1 REF J.BIOL.CHEM. V. 273 5549 1998 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 9488680 REMARK 1 DOI 10.1074/JBC.273.10.5549 REMARK 2 REMARK 2 RESOLUTION. 2.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 48747 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.140 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2462 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5943 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 83 REMARK 3 SOLVENT ATOMS : 847 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.95 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): 0.194 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.012 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.032 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.035 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.021 ; 0.030 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.114 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.181 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.251 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.148 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : 15.000; NULL REMARK 3 PLANAR (DEGREES) : 4.100 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 15.000; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 29.100; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.310 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.822 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.780 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.557 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1E5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1290005187. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL CUT MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48724 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.180 REMARK 200 RESOLUTION RANGE LOW (A) : 28.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04500 REMARK 200 FOR THE DATA SET : 23.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.19600 REMARK 200 FOR SHELL : 6.050 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 1CL1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.2M AMMONIUM SULPHATE, 0.2M LISO4, REMARK 280 0.1M CITRATE PH5.6, PH 5.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -Y,-X,-Z+2/3 REMARK 290 5555 -X+Y,Y,-Z+1/3 REMARK 290 6555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.61633 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 145.23267 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 145.23267 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 72.61633 REMARK 290 SMTRY1 6 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 20370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -175.3 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 88.25800 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 72.61633 REMARK 400 REMARK 400 COMPOUND REMARK 400 CHAIN A,B: SOME CHANGES TO SEQUENCE INTRODUCED IN EXPRESSION REMARK 400 CONSTRUCT. RESIDUES 397 TO 404 ADDED AS HIS TAG. 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 465 ALA A 2 REMARK 465 HIS A 3 REMARK 465 SER A 398 REMARK 465 HIS A 399 REMARK 465 HIS A 400 REMARK 465 HIS A 401 REMARK 465 HIS A 402 REMARK 465 HIS A 403 REMARK 465 HIS A 404 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 ARG B 397 REMARK 465 SER B 398 REMARK 465 HIS B 399 REMARK 465 HIS B 400 REMARK 465 HIS B 401 REMARK 465 HIS B 402 REMARK 465 HIS B 403 REMARK 465 HIS B 404 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 LYS A 19 CG CD CE NZ REMARK 470 GLU A 293 CG CD OE1 OE2 REMARK 470 HIS A 295 CB CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 303 CD CE NZ REMARK 470 LYS A 325 CG CD CE NZ REMARK 470 GLU A 360 CG CD OE1 OE2 REMARK 470 GLU B 4 CG CD OE1 OE2 REMARK 470 LYS B 19 CG CD CE NZ REMARK 470 GLU B 293 CG CD OE1 OE2 REMARK 470 LYS B 325 CG CD CE NZ REMARK 470 GLU B 360 CG CD OE1 OE2 REMARK 470 LEU B 396 CG CD1 CD2 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 ARG A 5 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 LEU A 122 CA - CB - CG ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG A 168 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ASP A 172 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 227 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 MET A 234 CA - CB - CG ANGL. DEV. = 17.7 DEGREES REMARK 500 GLU A 276 OE1 - CD - OE2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ASP A 294 CB - CG - OD1 ANGL. DEV. = -8.6 DEGREES REMARK 500 ASP A 294 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 306 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 306 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 GLU A 343 OE1 - CD - OE2 ANGL. DEV. = 8.1 DEGREES REMARK 500 ARG A 397 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 5 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 CYS B 12 CA - CB - SG ANGL. DEV. = 10.6 DEGREES REMARK 500 LYS B 99 CD - CE - NZ ANGL. DEV. = 17.7 DEGREES REMARK 500 CYS B 113 CA - CB - SG ANGL. DEV. = 8.0 DEGREES REMARK 500 ASP B 130 CB - CG - OD2 ANGL. DEV. = 8.1 DEGREES REMARK 500 TYR B 152 CB - CG - CD2 ANGL. DEV. = -5.2 DEGREES REMARK 500 TYR B 152 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES REMARK 500 LYS B 209 CD - CE - NZ ANGL. DEV. = 17.6 DEGREES REMARK 500 ARG B 233 NE - CZ - NH2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG B 255 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 263 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 306 CD - NE - CZ ANGL. DEV. = 17.8 DEGREES REMARK 500 ARG B 306 NE - CZ - NH1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 306 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG B 362 NE - CZ - NH2 ANGL. DEV. = -3.5 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 ILE A 55 -54.84 -132.13 REMARK 500 SER A 189 164.07 81.81 REMARK 500 LYS A 209 -122.76 -93.98 REMARK 500 VAL A 235 -62.00 -109.01 REMARK 500 HIS A 295 148.68 -32.74 REMARK 500 SER A 338 -177.92 84.94 REMARK 500 MET A 352 -94.72 -123.88 REMARK 500 ILE B 55 -58.37 -127.59 REMARK 500 SER B 189 162.79 77.30 REMARK 500 LYS B 209 -121.63 -87.51 REMARK 500 VAL B 235 -63.60 -120.04 REMARK 500 SER B 338 -178.01 86.01 REMARK 500 MET B 352 -97.28 -126.30 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 THR A 241 12.87 REMARK 500 THR A 368 -12.30 REMARK 500 THR B 34 11.43 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2017 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH B2095 DISTANCE = 6.02 ANGSTROMS 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 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPJ A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPJ B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 412 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E5F RELATED DB: PDB REMARK 900 METHIONINE GAMMA-LYASE (MGL) FROM TRICHOMONAS VAGINALIS DBREF 1E5E A 1 396 UNP O15564 O15564 1 396 DBREF 1E5E A 397 404 PDB 1E5E 1E5E 397 404 DBREF 1E5E B 1 396 UNP O15564 O15564 1 396 DBREF 1E5E B 397 404 PDB 1E5E 1E5E 397 404 SEQADV 1E5E ALA A 2 UNP O15564 SER 2 CLONING ARTIFACT SEQADV 1E5E TYR A 308 UNP O15564 SER 308 CLONING ARTIFACT SEQADV 1E5E ALA B 2 UNP O15564 SER 2 CLONING ARTIFACT SEQADV 1E5E TYR B 308 UNP O15564 SER 308 CLONING ARTIFACT SEQRES 1 A 404 MET ALA HIS GLU ARG MET THR PRO ALA THR ALA CYS ILE SEQRES 2 A 404 HIS ALA ASN PRO GLN LYS ASP GLN PHE GLY ALA ALA ILE SEQRES 3 A 404 PRO PRO ILE TYR GLN THR SER THR PHE VAL PHE ASP ASN SEQRES 4 A 404 CYS GLN GLN GLY GLY ASN ARG PHE ALA GLY GLN GLU SER SEQRES 5 A 404 GLY TYR ILE TYR THR ARG LEU GLY ASN PRO THR VAL SER SEQRES 6 A 404 ASN LEU GLU GLY LYS ILE ALA PHE LEU GLU LYS THR GLU SEQRES 7 A 404 ALA CYS VAL ALA THR SER SER GLY MET GLY ALA ILE ALA SEQRES 8 A 404 ALA THR VAL LEU THR ILE LEU LYS ALA GLY ASP HIS LEU SEQRES 9 A 404 ILE SER ASP GLU CYS LEU TYR GLY CYS THR HIS ALA LEU SEQRES 10 A 404 PHE GLU HIS ALA LEU THR LYS PHE GLY ILE GLN VAL ASP SEQRES 11 A 404 PHE ILE ASN THR ALA ILE PRO GLY GLU VAL LYS LYS HIS SEQRES 12 A 404 MET LYS PRO ASN THR LYS ILE VAL TYR PHE GLU THR PRO SEQRES 13 A 404 ALA ASN PRO THR LEU LYS ILE ILE ASP MET GLU ARG VAL SEQRES 14 A 404 CYS LYS ASP ALA HIS SER GLN GLU GLY VAL LEU VAL ILE SEQRES 15 A 404 ALA ASP ASN THR PHE CYS SER PRO MET ILE THR ASN PRO SEQRES 16 A 404 VAL ASP PHE GLY VAL ASP VAL VAL VAL HIS SER ALA THR SEQRES 17 A 404 LYS TYR ILE ASN GLY HIS THR ASP VAL VAL ALA GLY LEU SEQRES 18 A 404 ILE CYS GLY LYS ALA ASP LEU LEU GLN GLN ILE ARG MET SEQRES 19 A 404 VAL GLY ILE LYS ASP ILE THR GLY SER VAL ILE SER PRO SEQRES 20 A 404 HIS ASP ALA TRP LEU ILE THR ARG GLY LEU SER THR LEU SEQRES 21 A 404 ASN ILE ARG MET LYS ALA GLU SER GLU ASN ALA MET LYS SEQRES 22 A 404 VAL ALA GLU TYR LEU LYS SER HIS PRO ALA VAL GLU LYS SEQRES 23 A 404 VAL TYR TYR PRO GLY PHE GLU ASP HIS GLU GLY HIS ASP SEQRES 24 A 404 ILE ALA LYS LYS GLN MET ARG MET TYR GLY SER MET ILE SEQRES 25 A 404 THR PHE ILE LEU LYS SER GLY PHE GLU GLY ALA LYS LYS SEQRES 26 A 404 LEU LEU ASP ASN LEU LYS LEU ILE THR LEU ALA VAL SER SEQRES 27 A 404 LEU GLY GLY CYS GLU SER LEU ILE GLN HIS PRO ALA SER SEQRES 28 A 404 MET THR HIS ALA VAL VAL PRO LYS GLU GLU ARG GLU ALA SEQRES 29 A 404 ALA GLY ILE THR ASP GLY MET ILE ARG LEU SER VAL GLY SEQRES 30 A 404 ILE GLU ASP ALA ASP GLU LEU ILE ALA ASP PHE LYS GLN SEQRES 31 A 404 GLY LEU ASP ALA LEU LEU ARG SER HIS HIS HIS HIS HIS SEQRES 32 A 404 HIS SEQRES 1 B 404 MET ALA HIS GLU ARG MET THR PRO ALA THR ALA CYS ILE SEQRES 2 B 404 HIS ALA ASN PRO GLN LYS ASP GLN PHE GLY ALA ALA ILE SEQRES 3 B 404 PRO PRO ILE TYR GLN THR SER THR PHE VAL PHE ASP ASN SEQRES 4 B 404 CYS GLN GLN GLY GLY ASN ARG PHE ALA GLY GLN GLU SER SEQRES 5 B 404 GLY TYR ILE TYR THR ARG LEU GLY ASN PRO THR VAL SER SEQRES 6 B 404 ASN LEU GLU GLY LYS ILE ALA PHE LEU GLU LYS THR GLU SEQRES 7 B 404 ALA CYS VAL ALA THR SER SER GLY MET GLY ALA ILE ALA SEQRES 8 B 404 ALA THR VAL LEU THR ILE LEU LYS ALA GLY ASP HIS LEU SEQRES 9 B 404 ILE SER ASP GLU CYS LEU TYR GLY CYS THR HIS ALA LEU SEQRES 10 B 404 PHE GLU HIS ALA LEU THR LYS PHE GLY ILE GLN VAL ASP SEQRES 11 B 404 PHE ILE ASN THR ALA ILE PRO GLY GLU VAL LYS LYS HIS SEQRES 12 B 404 MET LYS PRO ASN THR LYS ILE VAL TYR PHE GLU THR PRO SEQRES 13 B 404 ALA ASN PRO THR LEU LYS ILE ILE ASP MET GLU ARG VAL SEQRES 14 B 404 CYS LYS ASP ALA HIS SER GLN GLU GLY VAL LEU VAL ILE SEQRES 15 B 404 ALA ASP ASN THR PHE CYS SER PRO MET ILE THR ASN PRO SEQRES 16 B 404 VAL ASP PHE GLY VAL ASP VAL VAL VAL HIS SER ALA THR SEQRES 17 B 404 LYS TYR ILE ASN GLY HIS THR ASP VAL VAL ALA GLY LEU SEQRES 18 B 404 ILE CYS GLY LYS ALA ASP LEU LEU GLN GLN ILE ARG MET SEQRES 19 B 404 VAL GLY ILE LYS ASP ILE THR GLY SER VAL ILE SER PRO SEQRES 20 B 404 HIS ASP ALA TRP LEU ILE THR ARG GLY LEU SER THR LEU SEQRES 21 B 404 ASN ILE ARG MET LYS ALA GLU SER GLU ASN ALA MET LYS SEQRES 22 B 404 VAL ALA GLU TYR LEU LYS SER HIS PRO ALA VAL GLU LYS SEQRES 23 B 404 VAL TYR TYR PRO GLY PHE GLU ASP HIS GLU GLY HIS ASP SEQRES 24 B 404 ILE ALA LYS LYS GLN MET ARG MET TYR GLY SER MET ILE SEQRES 25 B 404 THR PHE ILE LEU LYS SER GLY PHE GLU GLY ALA LYS LYS SEQRES 26 B 404 LEU LEU ASP ASN LEU LYS LEU ILE THR LEU ALA VAL SER SEQRES 27 B 404 LEU GLY GLY CYS GLU SER LEU ILE GLN HIS PRO ALA SER SEQRES 28 B 404 MET THR HIS ALA VAL VAL PRO LYS GLU GLU ARG GLU ALA SEQRES 29 B 404 ALA GLY ILE THR ASP GLY MET ILE ARG LEU SER VAL GLY SEQRES 30 B 404 ILE GLU ASP ALA ASP GLU LEU ILE ALA ASP PHE LYS GLN SEQRES 31 B 404 GLY LEU ASP ALA LEU LEU ARG SER HIS HIS HIS HIS HIS SEQRES 32 B 404 HIS HET PPJ A 405 23 HET SO4 A 408 5 HET SO4 A 409 5 HET GOL A 411 6 HET PPJ B 405 23 HET SO4 B 406 5 HET SO4 B 407 5 HET SO4 B 410 5 HET GOL B 412 6 HETNAM PPJ N-(HYDROXY{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY) HETNAM 2 PPJ METHYL]PYRIDIN-4-YL}METHYL)NORVALINE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PPJ 2(C13 H19 N2 O8 P) FORMUL 4 SO4 5(O4 S 2-) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 12 HOH *847(H2 O) HELIX 1 1 THR A 7 ALA A 15 1 9 HELIX 2 2 ASN A 39 ALA A 48 1 10 HELIX 3 3 ASN A 61 LYS A 76 1 16 HELIX 4 4 SER A 85 LEU A 98 1 14 HELIX 5 5 TYR A 111 HIS A 120 1 10 HELIX 6 6 HIS A 120 PHE A 125 1 6 HELIX 7 7 GLY A 138 MET A 144 1 7 HELIX 8 8 ASP A 165 SER A 175 1 11 HELIX 9 9 ASN A 194 GLY A 199 5 6 HELIX 10 10 LYS A 225 VAL A 235 1 11 HELIX 11 11 GLU A 4 GLY A 242 1 239 HELIX 12 12 SER A 246 SER A 258 1 13 HELIX 13 13 THR A 259 SER A 280 1 22 HELIX 14 14 GLY A 297 MET A 305 1 9 HELIX 15 15 SER A 318 ASN A 329 1 12 HELIX 16 16 HIS A 348 MET A 352 5 5 HELIX 17 17 PRO A 358 ALA A 365 1 8 HELIX 18 18 ASP A 380 ARG A 397 1 18 HELIX 19 19 THR B 7 ALA B 15 1 9 HELIX 20 20 ASN B 39 ALA B 48 1 10 HELIX 21 21 ASN B 61 LYS B 76 1 16 HELIX 22 22 SER B 85 LEU B 98 1 14 HELIX 23 23 TYR B 111 HIS B 120 1 10 HELIX 24 24 HIS B 120 PHE B 125 1 6 HELIX 25 25 GLY B 138 MET B 144 1 7 HELIX 26 26 ASP B 165 HIS B 174 1 10 HELIX 27 27 ASN B 194 GLY B 199 5 6 HELIX 28 28 LYS B 225 VAL B 235 1 11 HELIX 29 29 GLU A 4 GLY B 242 1 239 HELIX 30 30 SER B 246 SER B 258 1 13 HELIX 31 31 THR B 259 SER B 280 1 22 HELIX 32 32 GLY B 297 MET B 305 1 9 HELIX 33 33 SER B 318 LEU B 330 1 13 HELIX 34 34 PRO B 358 ALA B 365 1 8 HELIX 35 35 ASP B 380 ALA B 394 1 15 SHEET 1 A 7 ALA A 79 THR A 83 0 SHEET 2 A 7 GLY A 220 GLY A 224 -1 N GLY A 224 O ALA A 79 SHEET 3 A 7 VAL A 202 SER A 206 -1 N HIS A 205 O LEU A 221 SHEET 4 A 7 LEU A 180 ASP A 184 1 N ALA A 183 O VAL A 202 SHEET 5 A 7 THR A 148 GLU A 154 1 N VAL A 151 O LEU A 180 SHEET 6 A 7 HIS A 103 ASP A 107 1 N HIS A 103 O LYS A 149 SHEET 7 A 7 GLN A 128 ILE A 132 1 N GLN A 128 O LEU A 104 SHEET 1 B 4 LEU A 345 GLN A 347 0 SHEET 2 B 4 MET A 371 SER A 375 -1 N SER A 375 O LEU A 345 SHEET 3 B 4 MET A 311 LEU A 316 -1 N PHE A 314 O ILE A 372 SHEET 4 B 4 VAL A 284 TYR A 288 -1 N TYR A 288 O THR A 313 SHEET 1 C 7 ALA B 79 THR B 83 0 SHEET 2 C 7 GLY B 220 GLY B 224 -1 N GLY B 224 O ALA B 79 SHEET 3 C 7 VAL B 202 SER B 206 -1 N HIS B 205 O LEU B 221 SHEET 4 C 7 LEU B 180 ASP B 184 1 N ALA B 183 O VAL B 202 SHEET 5 C 7 THR B 148 GLU B 154 1 N VAL B 151 O LEU B 180 SHEET 6 C 7 HIS B 103 ASP B 107 1 N HIS B 103 O LYS B 149 SHEET 7 C 7 GLN B 128 ILE B 132 1 N GLN B 128 O LEU B 104 SHEET 1 D 4 LEU B 345 GLN B 347 0 SHEET 2 D 4 MET B 371 SER B 375 -1 N SER B 375 O LEU B 345 SHEET 3 D 4 MET B 311 LEU B 316 -1 N PHE B 314 O ILE B 372 SHEET 4 D 4 VAL B 284 TYR B 288 -1 N TYR B 288 O THR B 313 LINK OH TYR A 111 CG PPJ A 405 1555 1555 1.44 LINK OH TYR B 111 CG PPJ B 405 1555 1555 1.44 LINK NZ LYS B 209 C4A PPJ B 405 1555 1555 1.40 CISPEP 1 THR A 155 PRO A 156 0 -3.62 CISPEP 2 ASN A 158 PRO A 159 0 6.99 CISPEP 3 THR B 155 PRO B 156 0 -6.42 CISPEP 4 ASN B 158 PRO B 159 0 8.28 SITE 1 AC1 3 HIS A 298 LYS A 302 TYR A 308 SITE 1 AC2 4 LYS A 286 ASP A 294 HOH A2426 HOH A2427 SITE 1 AC3 7 GLN A 128 LYS A 145 PRO B 358 LYS B 359 SITE 2 AC3 7 ARG B 362 HOH B2416 HOH B2417 SITE 1 AC4 5 GLU B 276 LYS B 279 PHE B 292 GLU B 293 SITE 2 AC4 5 ASP B 294 SITE 1 AC5 2 VAL B 284 LYS B 317 SITE 1 AC6 15 SER A 85 GLY A 86 MET A 87 TYR A 111 SITE 2 AC6 15 ASN A 158 ASP A 184 SER A 206 THR A 208 SITE 3 AC6 15 LYS A 209 ALA A 219 SER A 338 THR A 353 SITE 4 AC6 15 ARG A 373 TYR B 56 ARG B 58 SITE 1 AC7 14 TYR A 56 ARG A 58 SER B 85 GLY B 86 SITE 2 AC7 14 MET B 87 TYR B 111 ASN B 158 ASP B 184 SITE 3 AC7 14 SER B 206 THR B 208 LYS B 209 SER B 338 SITE 4 AC7 14 THR B 353 ARG B 373 SITE 1 AC8 10 THR A 57 ARG A 58 LEU A 59 ALA A 82 SITE 2 AC8 10 ARG A 233 SER A 243 VAL A 244 ILE A 245 SITE 3 AC8 10 HOH A2132 HOH A2428 SITE 1 AC9 7 GLY B 291 GLU B 293 HIS B 298 LYS B 302 SITE 2 AC9 7 TYR B 308 HOH B2418 HOH B2419 CRYST1 88.258 88.258 217.849 90.00 90.00 120.00 P 31 1 2 12 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 0.011330 0.006542 0.000000 0.00000 SCALE2 0.000000 0.013083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004590 0.00000 MTRIX1 1 -0.678720 -0.004270 -0.734390 100.86318 1 MTRIX2 1 0.004510 -0.999990 0.001640 89.42149 1 MTRIX3 1 -0.734380 -0.002200 0.678730 44.18963 1