HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 17-JUL-07 2QMW TITLE THE CRYSTAL STRUCTURE OF THE PREPHENATE DEHYDRATASE (PDT) FROM TITLE 2 STAPHYLOCOCCUS AUREUS SUBSP. AUREUS MU50 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREPHENATE DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PDT; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS; SOURCE 3 ORGANISM_TAXID: 158878; SOURCE 4 STRAIN: MU50; SOURCE 5 ATCC: 700699; SOURCE 6 GENE: SAV1915; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PMCSG19 KEYWDS APC85812, PREPHENATE DEHYDRATASE (PDT), STAPHYLOCOCCUS AUREUS SUBSP. KEYWDS 2 AUREUS MU50, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, UNKNOWN KEYWDS 4 FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR K.TAN,R.ZHANG,H.LI,M.GU,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 5 16-OCT-24 2QMW 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2QMW 1 VERSN REVDAT 3 24-FEB-09 2QMW 1 VERSN REVDAT 2 22-APR-08 2QMW 1 JRNL REVDAT 1 07-AUG-07 2QMW 0 SPRSDE 07-AUG-07 2QMW 2IQ8 JRNL AUTH K.TAN,H.LI,R.ZHANG,M.GU,S.T.CLANCY,A.JOACHIMIAK JRNL TITL STRUCTURES OF OPEN (R) AND CLOSE (T) STATES OF PREPHENATE JRNL TITL 2 DEHYDRATASE (PDT) - IMPLICATION OF ALLOSTERIC REGULATION BY JRNL TITL 3 L-PHENYLALANINE. JRNL REF J.STRUCT.BIOL. V. 162 94 2008 JRNL REFN ISSN 1047-8477 JRNL PMID 18171624 JRNL DOI 10.1016/J.JSB.2007.11.009 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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) : 45.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 24569 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1320 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) : 1728 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4042 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 97 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.06000 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): 0.383 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.267 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.169 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.418 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4144 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5621 ; 2.114 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 506 ; 8.402 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 193 ;40.020 ;25.233 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 674 ;22.463 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;20.809 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 646 ; 0.175 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3124 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1961 ; 0.244 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2805 ; 0.321 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 160 ; 0.204 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.150 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 46 ; 0.219 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.276 ; 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): 2554 ; 1.124 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4140 ; 1.995 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1622 ; 3.063 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1481 ; 4.474 ; 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 : 2 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 264 REMARK 3 ORIGIN FOR THE GROUP (A): 22.3953 49.1899 45.4716 REMARK 3 T TENSOR REMARK 3 T11: -0.0592 T22: -0.0623 REMARK 3 T33: 0.0551 T12: -0.0007 REMARK 3 T13: -0.0120 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 0.2841 L22: 0.6166 REMARK 3 L33: 0.3706 L12: 0.2465 REMARK 3 L13: 0.0347 L23: 0.2008 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: -0.0096 S13: 0.0584 REMARK 3 S21: -0.0267 S22: -0.0256 S23: 0.0932 REMARK 3 S31: 0.0082 S32: -0.0129 S33: 0.0333 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 264 REMARK 3 ORIGIN FOR THE GROUP (A): 32.7639 33.8258 -15.5051 REMARK 3 T TENSOR REMARK 3 T11: 0.0725 T22: 0.0115 REMARK 3 T33: -0.1552 T12: -0.0292 REMARK 3 T13: -0.0111 T23: -0.0274 REMARK 3 L TENSOR REMARK 3 L11: 0.3956 L22: 0.1151 REMARK 3 L33: 2.0814 L12: -0.2055 REMARK 3 L13: -0.8027 L23: 0.3558 REMARK 3 S TENSOR REMARK 3 S11: -0.0460 S12: -0.0799 S13: 0.0130 REMARK 3 S21: 0.1193 S22: -0.0223 S23: -0.0565 REMARK 3 S31: 0.2033 S32: 0.0870 S33: 0.0683 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2QMW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043798. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97929, 0.97942 REMARK 200 MONOCHROMATOR : SI 111 CRYSTAL REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25930 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 45.880 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 56.5000 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) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 10.50 REMARK 200 R MERGE FOR SHELL (I) : 0.43900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE, HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE, 3M SODIUM REMARK 280 CHLORIDE, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 30.42950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.70300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.42950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.70300 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 300 REMARK: THE CHAIN A FORMS A DIMER WITH ITS SYMMETRY-RELATED REMARK 300 MOLECULE (1-X,1-Y,Z). SIMILARLY, THE CHAIN B FORMS A DIMER WITH ITS REMARK 300 SYMMETRY-RELATED MOLECULE (1-X,1-Y,Z). THE TWO DIMERS FORM A REMARK 300 TETRAMER. 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: 8960 ANGSTROM**2 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 60.85900 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 87.40600 REMARK 350 BIOMT3 2 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 GLU B 23 REMARK 465 ASN B 24 REMARK 465 GLU B 25 REMARK 465 ASP B 43 REMARK 465 ASP B 44 REMARK 465 GLU B 58 REMARK 465 GLY B 59 REMARK 465 THR B 60 REMARK 465 ASP B 180 REMARK 465 GLN B 181 REMARK 465 LEU B 222 REMARK 465 LYS B 223 REMARK 465 THR B 224 REMARK 465 GLN B 225 REMARK 465 LEU B 226 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 OE1 GLN B 2 NE2 GLN B 29 2.13 REMARK 500 O LEU A 222 O HOH A 398 2.15 REMARK 500 OH TYR B 88 OE2 GLU B 149 2.19 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 TYR A 14 CE2 TYR A 14 CD2 0.107 REMARK 500 TYR A 114 CG TYR A 114 CD1 0.108 REMARK 500 VAL A 172 CB VAL A 172 CG2 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 43 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 VAL A 51 CG1 - CB - CG2 ANGL. DEV. = 11.0 DEGREES REMARK 500 ASP A 157 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 157 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 169 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 169 NE - CZ - NH2 ANGL. DEV. = -9.0 DEGREES REMARK 500 ARG A 220 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 220 NE - CZ - NH2 ANGL. DEV. = -5.7 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 PRO A 8 -168.57 -74.40 REMARK 500 THR A 46 79.85 -110.00 REMARK 500 ASN A 55 40.09 70.97 REMARK 500 LEU A 209 -35.52 -37.66 REMARK 500 LYS A 223 -27.72 90.07 REMARK 500 ALA A 262 128.35 -170.10 REMARK 500 PHE A 263 -145.94 -171.58 REMARK 500 TYR B 20 -75.81 -86.70 REMARK 500 THR B 46 73.25 -65.86 REMARK 500 ASN B 55 69.56 62.76 REMARK 500 ILE B 63 -45.70 -27.74 REMARK 500 ASP B 82 99.14 -69.89 REMARK 500 ASN B 84 129.36 -177.45 REMARK 500 ASN B 175 52.91 -91.07 REMARK 500 ASP B 254 12.47 93.55 REMARK 500 PHE B 263 -168.38 -161.57 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 GLN A 181 ASN A 182 148.18 REMARK 500 THR B 92 ASP B 93 135.51 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 NA A 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 84 OD1 REMARK 620 2 PRO A 164 O 157.6 REMARK 620 3 HOH A 363 O 87.0 102.7 REMARK 620 4 HOH A 383 O 89.1 83.5 171.8 REMARK 620 5 HOH A 389 O 115.8 84.7 90.2 85.0 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 NA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 321 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 322 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 331 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC85812 RELATED DB: TARGETDB DBREF 2QMW A 1 264 UNP Q99SX2 Q99SX2_STAAM 1 264 DBREF 2QMW B 1 264 UNP Q99SX2 Q99SX2_STAAM 1 264 SEQADV 2QMW SER A -2 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW ASN A -1 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW ALA A 0 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW MSE A 1 UNP Q99SX2 MET 1 MODIFIED RESIDUE SEQADV 2QMW MSE A 187 UNP Q99SX2 MET 187 MODIFIED RESIDUE SEQADV 2QMW MSE A 193 UNP Q99SX2 MET 193 MODIFIED RESIDUE SEQADV 2QMW MSE A 228 UNP Q99SX2 MET 228 MODIFIED RESIDUE SEQADV 2QMW MSE A 259 UNP Q99SX2 MET 259 MODIFIED RESIDUE SEQADV 2QMW SER B -2 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW ASN B -1 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW ALA B 0 UNP Q99SX2 CLONING ARTIFACT SEQADV 2QMW MSE B 1 UNP Q99SX2 MET 1 MODIFIED RESIDUE SEQADV 2QMW MSE B 187 UNP Q99SX2 MET 187 MODIFIED RESIDUE SEQADV 2QMW MSE B 193 UNP Q99SX2 MET 193 MODIFIED RESIDUE SEQADV 2QMW MSE B 228 UNP Q99SX2 MET 228 MODIFIED RESIDUE SEQADV 2QMW MSE B 259 UNP Q99SX2 MET 259 MODIFIED RESIDUE SEQRES 1 A 267 SER ASN ALA MSE GLN LEU TYR TYR LEU GLY PRO LYS GLY SEQRES 2 A 267 THR PHE SER TYR LEU ALA CYS ARG GLN TYR PHE SER GLU SEQRES 3 A 267 ASN GLU ALA THR PHE GLN PRO LYS SER ASN LEU PHE GLU SEQRES 4 A 267 VAL ILE LYS ALA VAL ALA ASP ASP ASP THR SER ILE GLY SEQRES 5 A 267 VAL VAL PRO ILE GLU ASN SER ILE GLU GLY THR ILE ASN SEQRES 6 A 267 ILE VAL ALA ASP ALA LEU ALA GLN GLN ASP VAL PHE ALA SEQRES 7 A 267 HIS GLY GLU ILE ARG LEU ASP ILE ASN PHE ALA LEU TYR SEQRES 8 A 267 GLY ASN GLY THR ASP SER ILE SER ASP ILE LYS LYS VAL SEQRES 9 A 267 TYR SER ILE ALA PRO ALA ILE SER GLN THR THR ASN TYR SEQRES 10 A 267 ILE HIS GLN HIS GLN PHE ASP TYR ASP TYR VAL ASP SER SEQRES 11 A 267 THR ILE GLN SER LEU THR LYS ILE GLU ASN GLY VAL ALA SEQRES 12 A 267 ALA ILE ALA PRO LEU GLY SER GLY GLU ALA TYR GLY PHE SEQRES 13 A 267 THR PRO ILE ASP THR HIS ILE GLU ASP TYR PRO HIS ASN SEQRES 14 A 267 VAL THR ARG PHE LEU VAL ILE LYS ASN GLN GLN GLN PHE SEQRES 15 A 267 ASP GLN ASN ALA THR SER LEU MSE PHE LEU ILE THR PRO SEQRES 16 A 267 MSE HIS ASP LYS PRO GLY LEU LEU ALA SER VAL LEU ASN SEQRES 17 A 267 THR PHE ALA LEU PHE ASN ILE ASN LEU SER TRP ILE GLU SEQRES 18 A 267 SER ARG PRO LEU LYS THR GLN LEU GLY MSE TYR ARG PHE SEQRES 19 A 267 PHE VAL GLN ALA ASP SER ALA ILE THR THR ASP ILE LYS SEQRES 20 A 267 LYS VAL ILE ALA ILE LEU GLU THR LEU ASP PHE LYS VAL SEQRES 21 A 267 GLU MSE ILE GLY ALA PHE ASN SEQRES 1 B 267 SER ASN ALA MSE GLN LEU TYR TYR LEU GLY PRO LYS GLY SEQRES 2 B 267 THR PHE SER TYR LEU ALA CYS ARG GLN TYR PHE SER GLU SEQRES 3 B 267 ASN GLU ALA THR PHE GLN PRO LYS SER ASN LEU PHE GLU SEQRES 4 B 267 VAL ILE LYS ALA VAL ALA ASP ASP ASP THR SER ILE GLY SEQRES 5 B 267 VAL VAL PRO ILE GLU ASN SER ILE GLU GLY THR ILE ASN SEQRES 6 B 267 ILE VAL ALA ASP ALA LEU ALA GLN GLN ASP VAL PHE ALA SEQRES 7 B 267 HIS GLY GLU ILE ARG LEU ASP ILE ASN PHE ALA LEU TYR SEQRES 8 B 267 GLY ASN GLY THR ASP SER ILE SER ASP ILE LYS LYS VAL SEQRES 9 B 267 TYR SER ILE ALA PRO ALA ILE SER GLN THR THR ASN TYR SEQRES 10 B 267 ILE HIS GLN HIS GLN PHE ASP TYR ASP TYR VAL ASP SER SEQRES 11 B 267 THR ILE GLN SER LEU THR LYS ILE GLU ASN GLY VAL ALA SEQRES 12 B 267 ALA ILE ALA PRO LEU GLY SER GLY GLU ALA TYR GLY PHE SEQRES 13 B 267 THR PRO ILE ASP THR HIS ILE GLU ASP TYR PRO HIS ASN SEQRES 14 B 267 VAL THR ARG PHE LEU VAL ILE LYS ASN GLN GLN GLN PHE SEQRES 15 B 267 ASP GLN ASN ALA THR SER LEU MSE PHE LEU ILE THR PRO SEQRES 16 B 267 MSE HIS ASP LYS PRO GLY LEU LEU ALA SER VAL LEU ASN SEQRES 17 B 267 THR PHE ALA LEU PHE ASN ILE ASN LEU SER TRP ILE GLU SEQRES 18 B 267 SER ARG PRO LEU LYS THR GLN LEU GLY MSE TYR ARG PHE SEQRES 19 B 267 PHE VAL GLN ALA ASP SER ALA ILE THR THR ASP ILE LYS SEQRES 20 B 267 LYS VAL ILE ALA ILE LEU GLU THR LEU ASP PHE LYS VAL SEQRES 21 B 267 GLU MSE ILE GLY ALA PHE ASN MODRES 2QMW MSE A 1 MET SELENOMETHIONINE MODRES 2QMW MSE A 187 MET SELENOMETHIONINE MODRES 2QMW MSE A 193 MET SELENOMETHIONINE MODRES 2QMW MSE A 228 MET SELENOMETHIONINE MODRES 2QMW MSE A 259 MET SELENOMETHIONINE MODRES 2QMW MSE B 1 MET SELENOMETHIONINE MODRES 2QMW MSE B 187 MET SELENOMETHIONINE MODRES 2QMW MSE B 193 MET SELENOMETHIONINE MODRES 2QMW MSE B 228 MET SELENOMETHIONINE MODRES 2QMW MSE B 259 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 187 8 HET MSE A 193 8 HET MSE A 228 8 HET MSE A 259 8 HET MSE B 1 8 HET MSE B 187 8 HET MSE B 193 8 HET MSE B 228 8 HET MSE B 259 8 HET NA A 301 1 HET ACT A 311 4 HET EDO A 321 4 HET PEG A 331 7 HET EDO B 322 4 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 3 NA NA 1+ FORMUL 4 ACT C2 H3 O2 1- FORMUL 5 EDO 2(C2 H6 O2) FORMUL 6 PEG C4 H10 O3 FORMUL 8 HOH *97(H2 O) HELIX 1 1 THR A 11 PHE A 21 1 11 HELIX 2 2 ASN A 33 ASP A 44 1 12 HELIX 3 3 ILE A 61 GLN A 70 1 10 HELIX 4 4 ILE A 104 THR A 111 1 8 HELIX 5 5 THR A 111 HIS A 118 1 8 HELIX 6 6 SER A 127 LYS A 134 1 8 HELIX 7 7 GLY A 148 GLY A 152 5 5 HELIX 8 8 GLY A 198 LEU A 209 1 12 HELIX 9 9 THR A 240 LEU A 253 1 14 HELIX 10 10 THR B 11 SER B 22 1 12 HELIX 11 11 ASN B 33 ALA B 42 1 10 HELIX 12 12 ILE B 61 GLN B 70 1 10 HELIX 13 13 SER B 94 ILE B 98 5 5 HELIX 14 14 ILE B 104 THR B 111 1 8 HELIX 15 15 THR B 111 HIS B 118 1 8 HELIX 16 16 SER B 127 ILE B 135 1 9 HELIX 17 17 GLY B 198 PHE B 210 1 13 HELIX 18 18 THR B 240 LEU B 253 1 14 SHEET 1 A 5 THR A 27 LYS A 31 0 SHEET 2 A 5 GLN A 2 LEU A 6 1 N LEU A 3 O GLN A 29 SHEET 3 A 5 SER A 47 GLU A 54 1 O ILE A 48 N TYR A 4 SHEET 4 A 5 VAL A 167 LYS A 174 -1 O ILE A 173 N GLY A 49 SHEET 5 A 5 PHE A 74 ASP A 82 -1 N GLY A 77 O VAL A 172 SHEET 1 B 5 ASP A 121 TYR A 124 0 SHEET 2 B 5 LYS A 100 SER A 103 1 N VAL A 101 O ASP A 121 SHEET 3 B 5 VAL A 139 PRO A 144 1 O ALA A 140 N LYS A 100 SHEET 4 B 5 PHE A 85 TYR A 88 -1 N TYR A 88 O ALA A 141 SHEET 5 B 5 PRO A 155 THR A 158 -1 O ILE A 156 N LEU A 87 SHEET 1 C 4 LEU A 214 PRO A 221 0 SHEET 2 C 4 TYR A 229 ALA A 235 -1 O PHE A 232 N GLU A 218 SHEET 3 C 4 SER A 185 PRO A 192 -1 N LEU A 186 O ALA A 235 SHEET 4 C 4 PHE A 255 PHE A 263 -1 O GLU A 258 N LEU A 189 SHEET 1 D 5 THR B 27 LYS B 31 0 SHEET 2 D 5 GLN B 2 LEU B 6 1 N LEU B 3 O GLN B 29 SHEET 3 D 5 ILE B 48 GLU B 54 1 O ILE B 48 N TYR B 4 SHEET 4 D 5 VAL B 167 LYS B 174 -1 O LEU B 171 N VAL B 51 SHEET 5 D 5 PHE B 74 ASP B 82 -1 N ILE B 79 O PHE B 170 SHEET 1 E 5 ASP B 121 TYR B 124 0 SHEET 2 E 5 LYS B 100 SER B 103 1 N VAL B 101 O ASP B 121 SHEET 3 E 5 VAL B 139 PRO B 144 1 O ALA B 140 N LYS B 100 SHEET 4 E 5 PHE B 85 TYR B 88 -1 N ALA B 86 O ALA B 143 SHEET 5 E 5 PRO B 155 THR B 158 -1 O ILE B 156 N LEU B 87 SHEET 1 F 4 LEU B 214 ARG B 220 0 SHEET 2 F 4 ARG B 230 ALA B 235 -1 O ARG B 230 N ARG B 220 SHEET 3 F 4 SER B 185 PRO B 192 -1 N ILE B 190 O PHE B 231 SHEET 4 F 4 PHE B 255 PHE B 263 -1 O GLU B 258 N LEU B 189 LINK C MSE A 1 N GLN A 2 1555 1555 1.32 LINK C LEU A 186 N MSE A 187 1555 1555 1.32 LINK C MSE A 187 N PHE A 188 1555 1555 1.34 LINK C PRO A 192 N MSE A 193 1555 1555 1.33 LINK C MSE A 193 N HIS A 194 1555 1555 1.32 LINK C GLY A 227 N MSE A 228 1555 1555 1.32 LINK C MSE A 228 N TYR A 229 1555 1555 1.33 LINK C GLU A 258 N MSE A 259 1555 1555 1.33 LINK C MSE A 259 N ILE A 260 1555 1555 1.34 LINK C MSE B 1 N GLN B 2 1555 1555 1.34 LINK C LEU B 186 N MSE B 187 1555 1555 1.33 LINK C MSE B 187 N PHE B 188 1555 1555 1.33 LINK C PRO B 192 N MSE B 193 1555 1555 1.33 LINK C MSE B 193 N HIS B 194 1555 1555 1.33 LINK C GLY B 227 N MSE B 228 1555 1555 1.34 LINK C MSE B 228 N TYR B 229 1555 1555 1.33 LINK C GLU B 258 N MSE B 259 1555 1555 1.33 LINK C MSE B 259 N ILE B 260 1555 1555 1.33 LINK OD1 ASN A 84 NA NA A 301 1555 1555 2.16 LINK O PRO A 164 NA NA A 301 1555 1555 2.60 LINK NA NA A 301 O HOH A 363 1555 1555 2.83 LINK NA NA A 301 O HOH A 383 1555 1555 2.38 LINK NA NA A 301 O HOH A 389 1555 1555 2.34 CISPEP 1 GLY A 7 PRO A 8 0 0.92 CISPEP 2 GLY B 7 PRO B 8 0 25.50 SITE 1 AC1 5 ASN A 84 PRO A 164 HOH A 363 HOH A 383 SITE 2 AC1 5 HOH A 389 SITE 1 AC2 2 TYR A 122 ASP A 123 SITE 1 AC3 4 SER A 56 ILE A 57 THR A 168 HOH A 337 SITE 1 AC4 4 THR A 206 LEU A 209 SER B 202 THR B 206 SITE 1 AC5 4 LEU A 6 SER A 32 ASN A 33 LEU A 34 CRYST1 60.859 87.406 107.744 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 0.016431 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011441 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009281 0.00000 HETATM 1 N MSE A 1 1.821 47.482 54.831 1.00 48.99 N HETATM 2 CA MSE A 1 2.689 46.790 53.851 1.00 50.19 C HETATM 3 C MSE A 1 4.181 46.859 54.289 1.00 48.88 C HETATM 4 O MSE A 1 4.638 47.866 54.753 1.00 48.15 O HETATM 5 CB MSE A 1 2.524 47.352 52.424 1.00 49.82 C HETATM 6 CG MSE A 1 3.826 47.195 51.574 1.00 54.69 C HETATM 7 SE MSE A 1 3.805 47.081 49.572 0.50 63.14 SE HETATM 8 CE MSE A 1 3.383 45.202 49.371 1.00 58.92 C