HEADER OXIDOREDUCTASE 20-NOV-06 2NYH TITLE CRYSTAL STRUCTURE OF PUTATIVE DIOXYGENASE (YP_555069.1) FROM TITLE 2 BURKHOLDERIA XENOVORANS LB400 AT 1.70 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE DIOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA XENOVORANS; SOURCE 3 ORGANISM_TAXID: 36873; SOURCE 4 GENE: YP_555069.1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS YP_555069.1, PUTATIVE DIOXYGENASE, STRUCTURAL GENOMICS, PSI-2, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, JOINT CENTER FOR STRUCTURAL GENOMICS, KEYWDS 3 JCSG, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 25-JAN-23 2NYH 1 REMARK SEQADV LINK REVDAT 4 18-OCT-17 2NYH 1 REMARK REVDAT 3 24-FEB-09 2NYH 1 VERSN REVDAT 2 24-APR-07 2NYH 1 KEYWDS HEADER TITLE REVDAT 1 12-DEC-06 2NYH 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE DIOXYGENASE (YP_555069.1) FROM JRNL TITL 2 BURKHOLDERIA XENOVORANS LB400 AT 1.70 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 30193 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1538 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2047 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.3600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1870 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 363 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.71000 REMARK 3 B22 (A**2) : 1.58000 REMARK 3 B33 (A**2) : -0.87000 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): 0.105 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.442 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1973 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1271 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2700 ; 1.466 ; 1.898 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3052 ; 0.967 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 235 ; 6.428 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 102 ;37.653 ;22.549 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 281 ;11.599 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;13.110 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 278 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2218 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 456 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 353 ; 0.194 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1349 ; 0.204 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 898 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 929 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 246 ; 0.157 ; 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): 9 ; 0.169 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 44 ; 0.281 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 26 ; 0.192 ; 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): 1392 ; 2.119 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 470 ; 0.562 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1842 ; 2.702 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 958 ; 4.395 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 855 ; 6.240 ;11.000 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 : NULL 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 2. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. REMARK 3 3. SULFATES MODELED BASED ON CRYSTALLIZATION CONDITIONS. REMARK 3 4. DIFFERENCE ELECTRON DENSITY COINCIDENT WITH AN ANOMALOUS REMARK 3 DIFFERENCE DENSITY PEAK IS LOCATED NEAR THE SIDE CHAIN OF REMARK 3 HIS A47. X-RAY FLOURESCENCE EXPERIMENTS WERE UNSUCCESSFUL IN REMARK 3 IDENTIFYING THE SCATTERING ELEMENT. THIS DENSITY WAS LEFT REMARK 3 UNMODELED. REMARK 4 REMARK 4 2NYH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040459. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000, 0.9795, 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30205 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 27.692 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : 0.12800 REMARK 200 FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.91600 REMARK 200 R SYM FOR SHELL (I) : 0.91600 REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LI2SO4, 20.0% PEG-3350, NO REMARK 280 BUFFER, PH 6.4, VAPOR DIFFUSION, SITTING DROP, NANODROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 44.28550 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 44.28550 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 35.48500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.15200 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.48500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.15200 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.28550 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.48500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 44.15200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 44.28550 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.48500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 44.15200 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 2 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 SIZE EXCLUSION CHROMATOGRAPHY WITH STATIC LIGHT SCATTERING REMARK 300 SUPPORTS THE ASSIGNMENT OF A DIMER AS A BIOLOGICALLY SIGNIFICANT REMARK 300 OLIGOMERIZATION STATE. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -155.0 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 44.28550 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 35.48500 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 44.15200 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 44.28550 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 -35.48500 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 44.15200 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -188.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 44.28550 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 163 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 243 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ASN A 116 REMARK 465 GLY B 0 REMARK 465 ASN B 116 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 GLU A 48 43.99 -99.96 REMARK 500 GLU B 48 45.18 -105.23 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 B 117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 117 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 118 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 118 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 119 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 367834 RELATED DB: TARGETDB DBREF 2NYH A 1 116 UNP Q13JM0 Q13JM0_BURXL 1 116 DBREF 2NYH B 1 116 UNP Q13JM0 Q13JM0_BURXL 1 116 SEQADV 2NYH GLY A 0 UNP Q13JM0 EXPRESSION TAG SEQADV 2NYH MSE A 1 UNP Q13JM0 MET 1 MODIFIED RESIDUE SEQADV 2NYH MSE A 56 UNP Q13JM0 MET 56 EXPRESSION TAG SEQADV 2NYH GLY B 0 UNP Q13JM0 EXPRESSION TAG SEQADV 2NYH MSE B 1 UNP Q13JM0 MET 1 MODIFIED RESIDUE SEQADV 2NYH MSE B 56 UNP Q13JM0 MET 56 MODIFIED RESIDUE SEQRES 1 A 117 GLY MSE THR PHE ARG ASP THR SER ALA ILE ALA SER TRP SEQRES 2 A 117 HIS ALA HIS VAL TYR PHE ASP ALA SER SER ARG ASP ALA SEQRES 3 A 117 ALA TRP THR LEU ARG GLU GLN ILE GLU ALA HIS TRP SER SEQRES 4 A 117 GLY LYS LEU GLN LEU GLY ARG PHE HIS GLU ARG PRO VAL SEQRES 5 A 117 GLY PRO HIS PRO MSE TRP SER TYR GLN LEU ALA PHE THR SEQRES 6 A 117 GLN GLU GLN PHE ALA ASP LEU VAL GLY TRP LEU THR LEU SEQRES 7 A 117 ASN HIS GLY ALA LEU ASP ILE PHE LEU HIS PRO ASN THR SEQRES 8 A 117 GLY ASP ALA LEU ARG ASP HIS ARG ASP ALA ALA VAL TRP SEQRES 9 A 117 ILE GLY HIS SER HIS GLU LEU VAL LEU SER ALA LEU ASN SEQRES 1 B 117 GLY MSE THR PHE ARG ASP THR SER ALA ILE ALA SER TRP SEQRES 2 B 117 HIS ALA HIS VAL TYR PHE ASP ALA SER SER ARG ASP ALA SEQRES 3 B 117 ALA TRP THR LEU ARG GLU GLN ILE GLU ALA HIS TRP SER SEQRES 4 B 117 GLY LYS LEU GLN LEU GLY ARG PHE HIS GLU ARG PRO VAL SEQRES 5 B 117 GLY PRO HIS PRO MSE TRP SER TYR GLN LEU ALA PHE THR SEQRES 6 B 117 GLN GLU GLN PHE ALA ASP LEU VAL GLY TRP LEU THR LEU SEQRES 7 B 117 ASN HIS GLY ALA LEU ASP ILE PHE LEU HIS PRO ASN THR SEQRES 8 B 117 GLY ASP ALA LEU ARG ASP HIS ARG ASP ALA ALA VAL TRP SEQRES 9 B 117 ILE GLY HIS SER HIS GLU LEU VAL LEU SER ALA LEU ASN MODRES 2NYH MSE A 1 MET SELENOMETHIONINE MODRES 2NYH MSE A 56 MET SELENOMETHIONINE MODRES 2NYH MSE B 1 MET SELENOMETHIONINE MODRES 2NYH MSE B 56 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 56 8 HET MSE B 1 8 HET MSE B 56 8 HET SO4 A 117 5 HET SO4 A 118 5 HET SO4 A 119 5 HET SO4 B 117 5 HET SO4 B 118 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 3 SO4 5(O4 S 2-) FORMUL 8 HOH *363(H2 O) HELIX 1 1 ASP A 5 ILE A 9 5 5 HELIX 2 2 ASP A 19 SER A 21 5 3 HELIX 3 3 SER A 22 TRP A 37 1 16 HELIX 4 4 THR A 64 GLU A 66 5 3 HELIX 5 5 GLN A 67 HIS A 79 1 13 HELIX 6 6 ASP A 92 ASP A 99 1 8 HELIX 7 7 VAL A 111 LEU A 115 5 5 HELIX 8 8 ASP B 5 ILE B 9 5 5 HELIX 9 9 ASP B 19 SER B 21 5 3 HELIX 10 10 SER B 22 TRP B 37 1 16 HELIX 11 11 THR B 64 GLU B 66 5 3 HELIX 12 12 GLN B 67 HIS B 79 1 13 HELIX 13 13 ASP B 92 ALA B 100 1 9 HELIX 14 14 VAL B 111 LEU B 115 5 5 SHEET 1 A10 GLN A 42 LEU A 43 0 SHEET 2 A10 TRP A 57 PHE A 63 -1 O ALA A 62 N GLN A 42 SHEET 3 A10 SER A 11 PHE A 18 -1 N TRP A 12 O PHE A 63 SHEET 4 A10 ILE A 84 ASN A 89 -1 O PHE A 85 N HIS A 15 SHEET 5 A10 VAL A 102 ILE A 104 -1 O VAL A 102 N LEU A 86 SHEET 6 A10 VAL B 102 ILE B 104 -1 O TRP B 103 N TRP A 103 SHEET 7 A10 ILE B 84 ASN B 89 -1 N LEU B 86 O VAL B 102 SHEET 8 A10 SER B 11 PHE B 18 -1 N SER B 11 O ASN B 89 SHEET 9 A10 TRP B 57 PHE B 63 -1 O PHE B 63 N TRP B 12 SHEET 10 A10 GLN B 42 LEU B 43 -1 N GLN B 42 O ALA B 62 LINK C GLY A 0 N MSE A 1 1555 1555 1.32 LINK C MSE A 1 N THR A 2 1555 1555 1.34 LINK C PRO A 55 N MSE A 56 1555 1555 1.34 LINK C MSE A 56 N TRP A 57 1555 1555 1.33 LINK C MSE B 1 N THR B 2 1555 1555 1.33 LINK C PRO B 55 N MSE B 56 1555 1555 1.34 LINK C MSE B 56 N TRP B 57 1555 1555 1.34 SITE 1 AC1 8 LYS A 40 HOH A 146 ARG B 45 HIS B 47 SITE 2 AC1 8 ARG B 49 HOH B 133 HOH B 192 HOH B 303 SITE 1 AC2 7 ARG A 45 VAL A 111 LEU A 112 SER A 113 SITE 2 AC2 7 HOH A 197 HOH A 260 HOH A 268 SITE 1 AC3 7 ARG A 45 HIS A 47 GLU A 48 ARG A 49 SITE 2 AC3 7 HOH A 140 HOH A 268 LYS B 40 SITE 1 AC4 8 GLY B 44 ARG B 45 HIS B 47 HOH B 120 SITE 2 AC4 8 HOH B 146 HOH B 206 HOH B 299 HOH B 307 SITE 1 AC5 7 GLY A 0 GLN A 32 HIS A 36 TRP A 74 SITE 2 AC5 7 HOH A 287 HOH B 164 HOH B 253 CRYST1 70.970 88.304 88.571 90.00 90.00 90.00 C 2 2 21 16 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 0.014090 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011320 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011290 0.00000