HEADER TRANSFERASE 20-FEB-25 9LYE TITLE CRYSTAL STRUCTURE OF 5'-DEOXY-5'-METHYLTHIOADENOSINE PHOSPHORYLASE TITLE 2 FROM AEROPYRUM PERNIX 100K COMPND MOL_ID: 1; COMPND 2 MOLECULE: S-METHYL-5'-THIOADENOSINE PHOSPHORYLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE FIRST M AND SECOND F ARE MISSING INTHE UPLOADED COMPND 6 STRUCTURE BECAUSE THE ELECTRON DENSITY COULD NOT BE OBSERVED. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEROPYRUM PERNIX K1; SOURCE 3 ORGANISM_TAXID: 272557; SOURCE 4 GENE: MTNP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MTAP, COMPLEX, PHOSPHORYLASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.IIZUKA,M.KIKUCHI,T.YAMAUCHI,M.TSUNODA REVDAT 1 04-MAR-26 9LYE 0 JRNL AUTH Y.IIZUKA,M.KIKUCHI,T.YAMAUCHI,M.TSUNODA JRNL TITL CRYSTAL STRUCTURE OF 5'-DEOXY-5'-METHYLTHIOADENOSINE JRNL TITL 2 PHOSPHORYLASE FROM AEROPYRUM PERNIX 100K JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 (REFMACAT 0.4.82) REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 57203 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.119 REMARK 3 FREE R VALUE : 0.146 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.872 REMARK 3 FREE R VALUE TEST SET COUNT : 2787 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) : 1.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3973 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 189 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2142 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 112 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04600 REMARK 3 B22 (A**2) : 0.04600 REMARK 3 B33 (A**2) : -0.15000 REMARK 3 B12 (A**2) : 0.02300 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.045 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.043 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.027 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.562 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2334 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2256 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3152 ; 1.846 ; 1.814 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5194 ; 0.644 ; 1.743 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 288 ; 6.778 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 26 ;12.853 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 362 ;11.469 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 344 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2730 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 539 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 406 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 132 ; 0.203 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1145 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 96 ; 0.111 ; 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): 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): 1107 ; 3.574 ; 1.141 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1107 ; 3.567 ; 1.140 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1386 ; 5.159 ; 2.058 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1387 ; 5.158 ; 2.059 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1227 ; 7.556 ; 1.610 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1228 ; 7.555 ; 1.612 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1758 ;10.112 ; 2.706 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1759 ;10.109 ; 2.708 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): 4590 ; 4.382 ; 3.000 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 : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9LYE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-FEB-25. REMARK 100 THE DEPOSITION ID IS D_1300056824. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 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-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57204 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 43.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 7.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 43.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : 0.06200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 31.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1WTA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15%(V/V)PEG#200, 0.1 M PHOSPHATE REMARK 280 CITRATE PH 5.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 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 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 -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 SMTRY1 7 1.000000 0.000000 0.000000 38.97650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 22.50309 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 77.01667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 38.97650 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 22.50309 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 77.01667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 38.97650 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 22.50309 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 77.01667 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 38.97650 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 22.50309 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 77.01667 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 38.97650 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 22.50309 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 77.01667 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 38.97650 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 22.50309 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 77.01667 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 45.00619 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 154.03333 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 45.00619 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 154.03333 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 45.00619 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 154.03333 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 45.00619 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 154.03333 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 45.00619 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 154.03333 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 45.00619 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 154.03333 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 44.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 465 PHE A 2 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 155 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 164 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 164 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 243 NE - CZ - NH2 ANGL. DEV. = -3.1 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 LYS A 120 -22.32 -148.70 REMARK 500 ARG A 123 -40.72 77.58 REMARK 500 ASP A 221 -119.44 56.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 68 0.09 SIDE CHAIN REMARK 500 ARG A 77 0.07 SIDE CHAIN REMARK 500 ARG A 155 0.08 SIDE CHAIN REMARK 500 ARG A 164 0.19 SIDE CHAIN REMARK 500 ARG A 243 0.11 SIDE CHAIN REMARK 500 ARG A 268 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9LYE A 1 275 UNP Q9YAQ8 MTAP_AERPE 1 275 SEQRES 1 A 275 MET PHE GLU ILE THR ARG PRO PRO GLY VAL ARG ALA HIS SEQRES 2 A 275 VAL GLY VAL ILE GLY GLY SER GLY LEU TYR ASP PRO GLY SEQRES 3 A 275 ILE VAL GLU ASN PRO VAL GLU VAL LYS VAL SER THR PRO SEQRES 4 A 275 TYR GLY ASN PRO SER ASP PHE ILE VAL VAL GLY ASP VAL SEQRES 5 A 275 ALA GLY VAL LYS VAL ALA PHE LEU PRO ARG HIS GLY ARG SEQRES 6 A 275 GLY HIS ARG ILE PRO PRO HIS ALA ILE ASN TYR ARG ALA SEQRES 7 A 275 ASN ILE TRP ALA LEU LYS ALA LEU GLY VAL LYS TRP VAL SEQRES 8 A 275 ILE SER VAL SER ALA VAL GLY SER LEU ARG GLU ASP TYR SEQRES 9 A 275 ARG PRO GLY ASP PHE VAL VAL PRO ASP GLN PHE ILE ASP SEQRES 10 A 275 MET THR LYS ASN ARG ARG HIS TYR THR PHE TYR ASP GLY SEQRES 11 A 275 PRO VAL THR VAL HIS VAL SER MET ALA ASP PRO PHE CYS SEQRES 12 A 275 GLU ASP LEU ARG GLN ARG LEU ILE ASP SER GLY ARG ARG SEQRES 13 A 275 LEU GLY TYR THR VAL HIS GLU ARG GLY THR TYR VAL CYS SEQRES 14 A 275 ILE GLU GLY PRO ARG PHE SER THR ARG ALA GLU SER ARG SEQRES 15 A 275 VAL TRP LYS ASP VAL PHE LYS ALA ASP ILE ILE GLY MET SEQRES 16 A 275 THR LEU VAL PRO GLU ILE ASN LEU ALA CYS GLU ALA GLN SEQRES 17 A 275 LEU CYS TYR ALA THR LEU ALA MET VAL THR ASP TYR ASP SEQRES 18 A 275 VAL TRP ALA ASP ARG PRO VAL THR ALA GLU GLU VAL GLU SEQRES 19 A 275 ARG VAL MET ILE SER ASN VAL GLU ARG ALA ARG ARG MET SEQRES 20 A 275 LEU TYR ASP VAL ILE PRO LYS LEU ALA GLY GLU PRO GLU SEQRES 21 A 275 LEU GLU ARG CYS SER CYS CYS ARG ALA LEU ASP THR ALA SEQRES 22 A 275 ALA ILE HET PO4 A 400 5 HET ADE A 401 10 HET PGE A 402 10 HET PEG A 403 7 HET PEG A 404 7 HET PGE A 405 10 HET PEG A 406 7 HET PEG A 407 7 HET PEG A 408 7 HET PGE A 409 10 HET PEG A 410 7 HET PEG A 411 7 HET PEG A 412 7 HET PEG A 413 7 HETNAM PO4 PHOSPHATE ION HETNAM ADE ADENINE HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 2 PO4 O4 P 3- FORMUL 3 ADE C5 H5 N5 FORMUL 4 PGE 3(C6 H14 O4) FORMUL 5 PEG 9(C4 H10 O3) FORMUL 16 HOH *112(H2 O) HELIX 1 AA1 GLY A 19 TYR A 23 5 5 HELIX 2 AA2 PRO A 70 ILE A 74 5 5 HELIX 3 AA3 ASN A 75 GLY A 87 1 13 HELIX 4 AA4 CYS A 143 GLY A 158 1 16 HELIX 5 AA5 THR A 177 VAL A 187 1 11 HELIX 6 AA6 THR A 196 ALA A 207 1 12 HELIX 7 AA7 THR A 229 ILE A 252 1 24 HELIX 8 AA8 PRO A 253 ALA A 256 5 4 HELIX 9 AA9 GLU A 260 CYS A 264 5 5 HELIX 10 AB1 ALA A 269 ALA A 274 1 6 SHEET 1 AA1 9 THR A 5 ARG A 6 0 SHEET 2 AA1 9 GLU A 29 VAL A 36 -1 O LYS A 35 N ARG A 6 SHEET 3 AA1 9 ILE A 47 VAL A 52 -1 O ILE A 47 N VAL A 34 SHEET 4 AA1 9 VAL A 55 PRO A 61 -1 O VAL A 57 N GLY A 50 SHEET 5 AA1 9 VAL A 14 GLY A 18 1 N VAL A 16 O LEU A 60 SHEET 6 AA1 9 TRP A 90 SER A 99 1 O TRP A 90 N GLY A 15 SHEET 7 AA1 9 ILE A 192 GLY A 194 -1 O ILE A 193 N GLY A 98 SHEET 8 AA1 9 THR A 166 ILE A 170 1 N VAL A 168 O ILE A 192 SHEET 9 AA1 9 GLN A 114 MET A 118 1 N MET A 118 O CYS A 169 SHEET 1 AA2 9 THR A 5 ARG A 6 0 SHEET 2 AA2 9 GLU A 29 VAL A 36 -1 O LYS A 35 N ARG A 6 SHEET 3 AA2 9 ILE A 47 VAL A 52 -1 O ILE A 47 N VAL A 34 SHEET 4 AA2 9 VAL A 55 PRO A 61 -1 O VAL A 57 N GLY A 50 SHEET 5 AA2 9 VAL A 14 GLY A 18 1 N VAL A 16 O LEU A 60 SHEET 6 AA2 9 TRP A 90 SER A 99 1 O TRP A 90 N GLY A 15 SHEET 7 AA2 9 CYS A 210 ASP A 219 1 O LEU A 214 N SER A 93 SHEET 8 AA2 9 PHE A 109 VAL A 110 -1 N VAL A 110 O ALA A 215 SHEET 9 AA2 9 VAL A 161 HIS A 162 1 O HIS A 162 N PHE A 109 SSBOND 1 CYS A 143 CYS A 210 1555 1555 2.05 SSBOND 2 CYS A 205 CYS A 266 1555 1555 2.20 SSBOND 3 CYS A 264 CYS A 267 1555 1555 2.05 CISPEP 1 ARG A 6 PRO A 7 0 -2.94 CISPEP 2 GLY A 130 PRO A 131 0 11.02 CISPEP 3 GLY A 172 PRO A 173 0 -0.18 CISPEP 4 VAL A 198 PRO A 199 0 7.84 CRYST1 77.953 77.953 231.050 90.00 90.00 120.00 H 3 2 18 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 0.012828 0.007406 0.000000 0.00000 SCALE2 0.000000 0.014813 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004328 0.00000 CONECT 1119 1663 CONECT 1626 2112 CONECT 1663 1119 CONECT 2100 2118 CONECT 2112 1626 CONECT 2118 2100 CONECT 2178 2179 2180 2181 2182 CONECT 2179 2178 CONECT 2180 2178 CONECT 2181 2178 CONECT 2182 2178 CONECT 2183 2184 2192 CONECT 2184 2183 2185 CONECT 2185 2184 2186 CONECT 2186 2185 2187 2192 CONECT 2187 2186 2188 2189 CONECT 2188 2187 CONECT 2189 2187 2190 CONECT 2190 2189 2191 CONECT 2191 2190 2192 CONECT 2192 2183 2186 2191 CONECT 2193 2194 2195 CONECT 2194 2193 CONECT 2195 2193 2196 CONECT 2196 2195 2197 CONECT 2197 2196 2198 CONECT 2198 2197 2202 CONECT 2199 2200 CONECT 2200 2199 2201 CONECT 2201 2200 2202 CONECT 2202 2198 2201 CONECT 2203 2204 2205 CONECT 2204 2203 CONECT 2205 2203 2206 CONECT 2206 2205 2207 CONECT 2207 2206 2208 CONECT 2208 2207 2209 CONECT 2209 2208 CONECT 2210 2211 2212 CONECT 2211 2210 CONECT 2212 2210 2213 CONECT 2213 2212 2214 CONECT 2214 2213 2215 CONECT 2215 2214 2216 CONECT 2216 2215 CONECT 2217 2218 2219 CONECT 2218 2217 CONECT 2219 2217 2220 CONECT 2220 2219 2221 CONECT 2221 2220 2222 CONECT 2222 2221 2226 CONECT 2223 2224 CONECT 2224 2223 2225 CONECT 2225 2224 2226 CONECT 2226 2222 2225 CONECT 2227 2228 2229 CONECT 2228 2227 CONECT 2229 2227 2230 CONECT 2230 2229 2231 CONECT 2231 2230 2232 CONECT 2232 2231 2233 CONECT 2233 2232 CONECT 2234 2235 2236 CONECT 2235 2234 CONECT 2236 2234 2237 CONECT 2237 2236 2238 CONECT 2238 2237 2239 CONECT 2239 2238 2240 CONECT 2240 2239 CONECT 2241 2242 2243 CONECT 2242 2241 CONECT 2243 2241 2244 CONECT 2244 2243 2245 CONECT 2245 2244 2246 CONECT 2246 2245 2247 CONECT 2247 2246 CONECT 2248 2249 2250 CONECT 2249 2248 CONECT 2250 2248 2251 CONECT 2251 2250 2252 CONECT 2252 2251 2253 CONECT 2253 2252 2257 CONECT 2254 2255 CONECT 2255 2254 2256 CONECT 2256 2255 2257 CONECT 2257 2253 2256 CONECT 2258 2259 2260 CONECT 2259 2258 CONECT 2260 2258 2261 CONECT 2261 2260 2262 CONECT 2262 2261 2263 CONECT 2263 2262 2264 CONECT 2264 2263 CONECT 2265 2266 2267 CONECT 2266 2265 CONECT 2267 2265 2268 CONECT 2268 2267 2269 CONECT 2269 2268 2270 CONECT 2270 2269 2271 CONECT 2271 2270 CONECT 2272 2273 2274 CONECT 2273 2272 CONECT 2274 2272 2275 CONECT 2275 2274 2276 CONECT 2276 2275 2277 CONECT 2277 2276 2278 CONECT 2278 2277 CONECT 2279 2280 2281 CONECT 2280 2279 CONECT 2281 2279 2282 CONECT 2282 2281 2283 CONECT 2283 2282 2284 CONECT 2284 2283 2285 CONECT 2285 2284 MASTER 372 0 14 10 18 0 0 6 2362 1 114 22 END