HEADER OXIDOREDUCTASE 20-DEC-10 3Q2I TITLE CRYSTAL STRUCTURE OF THE WLBA DEHYDROGNASE FROM CHROMOBACTRIUM TITLE 2 VIOLACEUM IN COMPLEX WITH NADH AND UDP-GLCNACA AT 1.50 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: WLBA DEHYDROGENASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHROMOBACTERIUM VIOLACEUM; SOURCE 3 ORGANISM_TAXID: 536; SOURCE 4 GENE: CV_4127, WLBA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS ROSSMANN FOLD, DEHYDROGENASE, UDP-SUGAR BINDING, NAD BINDING, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR H.M.HOLDEN,J.B.THODEN REVDAT 5 21-FEB-24 3Q2I 1 REMARK SEQADV LINK REVDAT 4 06-NOV-13 3Q2I 1 FORMUL HET HETATM HETNAM REVDAT 4 2 1 HETSYN VERSN REVDAT 3 23-MAR-11 3Q2I 1 JRNL REVDAT 2 02-FEB-11 3Q2I 1 JRNL REVDAT 1 19-JAN-11 3Q2I 0 JRNL AUTH J.B.THODEN,H.M.HOLDEN JRNL TITL BIOCHEMICAL AND STRUCTURAL CHARACTERIZATION OF WLBA FROM JRNL TITL 2 BORDETELLA PERTUSSIS AND CHROMOBACTERIUM VIOLACEUM: ENZYMES JRNL TITL 3 REQUIRED FOR THE BIOSYNTHESIS OF JRNL TITL 4 2,3-DIACETAMIDO-2,3-DIDEOXY-D-MANNURONIC ACID. JRNL REF BIOCHEMISTRY V. 50 1483 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21241053 JRNL DOI 10.1021/BI101871F REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0066 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 63793 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3236 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3883 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.47 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 179 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2698 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 268 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.551 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2863 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3905 ; 2.273 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 349 ; 7.296 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;32.768 ;23.465 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 478 ;16.038 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;15.176 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 435 ; 0.165 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2143 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1718 ; 1.848 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2762 ; 2.662 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1072 ; 4.004 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1018 ; 5.966 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3Q2I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000063111. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97921 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63793 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : 0.05900 REMARK 200 FOR THE DATA SET : 47.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.28300 REMARK 200 R SYM FOR SHELL (I) : 0.28300 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15-19% PEG5000, 200 MM LICL, 100 MM REMARK 280 HEPPS, 10 MM UDP-GLCNACA, PH 8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 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 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 53.35550 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 71.67800 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 53.35550 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 71.67800 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 53.35550 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 71.67800 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 53.35550 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 71.67800 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 53.35550 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 71.67800 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 53.35550 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 71.67800 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 53.35550 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 71.67800 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 53.35550 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 53.35550 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 71.67800 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 39250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 94260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -346.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 -1.000000 0.00000 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 498 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 GLY A -1 REMARK 465 HIS A 0 REMARK 465 TYR A 291A REMARK 465 ALA A 291B REMARK 465 THR A 291C REMARK 465 THR A 291D REMARK 465 SER A 291E REMARK 465 VAL A 291F REMARK 465 TYR A 291G 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 O HOH A 477 O HOH A 560 1.84 REMARK 500 O HOH A 595 O HOH A 613 1.88 REMARK 500 O HOH A 403 O HOH A 516 2.09 REMARK 500 OG SER A 328 O HOH A 511 2.10 REMARK 500 OE2 GLU A 111 O HOH A 585 2.14 REMARK 500 OE1 GLU A 55 O HOH A 579 2.18 REMARK 500 OE2 GLU A 111 O HOH A 516 2.19 REMARK 500 NH1 ARG A 343 O HOH A 513 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG SER A 237 O HOH A 591 5555 1.85 REMARK 500 OG SER A 227 OG SER A 227 5555 1.87 REMARK 500 O HOH A 515 O HOH A 515 5555 2.10 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 ILE A 22 CG1 - CB - CG2 ANGL. DEV. = 14.7 DEGREES REMARK 500 ARG A 323 CG - CD - NE ANGL. DEV. = -13.2 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 ASP A 182 -57.42 -126.85 REMARK 500 ASN A 188 -78.35 -95.26 REMARK 500 ALA A 215 -36.91 -148.79 REMARK 500 ALA A 268 53.35 -154.55 REMARK 500 VAL A 269 47.91 38.86 REMARK 500 TRP A 275 81.15 -152.24 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 353 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 211 O REMARK 620 2 THR A 211 OG1 79.7 REMARK 620 3 HOH A 362 O 76.8 99.8 REMARK 620 4 HOH A 400 O 165.1 87.0 112.3 REMARK 620 5 HOH A 432 O 93.8 74.6 169.9 76.2 REMARK 620 6 HOH A 512 O 97.2 175.3 76.0 96.5 109.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAI A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HP7 A 550 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 352 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 353 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3Q2K RELATED DB: PDB REMARK 900 SIMILAR PROTEIN FROM BORDETELLA PERTUSSIS DBREF 3Q2I A 1 351 UNP Q7NQL0 Q7NQL0_CHRVO 1 352 SEQADV 3Q2I GLY A -1 UNP Q7NQL0 EXPRESSION TAG SEQADV 3Q2I HIS A 0 UNP Q7NQL0 EXPRESSION TAG SEQRES 1 A 354 GLY HIS MET ILE VAL ILE PRO PRO ILE THR ASP ARG LYS SEQRES 2 A 354 ILE ARG PHE ALA LEU VAL GLY CYS GLY ARG ILE ALA ASN SEQRES 3 A 354 ASN HIS PHE GLY ALA LEU GLU LYS HIS ALA ASP ARG ALA SEQRES 4 A 354 GLU LEU ILE ASP VAL CYS ASP ILE ASP PRO ALA ALA LEU SEQRES 5 A 354 LYS ALA ALA VAL GLU ARG THR GLY ALA ARG GLY HIS ALA SEQRES 6 A 354 SER LEU THR ASP MET LEU ALA GLN THR ASP ALA ASP ILE SEQRES 7 A 354 VAL ILE LEU THR THR PRO SER GLY LEU HIS PRO THR GLN SEQRES 8 A 354 SER ILE GLU CYS SER GLU ALA GLY PHE HIS VAL MET THR SEQRES 9 A 354 GLU LYS PRO MET ALA THR ARG TRP GLU ASP GLY LEU GLU SEQRES 10 A 354 MET VAL LYS ALA ALA ASP LYS ALA LYS LYS HIS LEU PHE SEQRES 11 A 354 VAL VAL LYS GLN ASN ARG ARG ASN ALA THR LEU GLN LEU SEQRES 12 A 354 LEU LYS ARG ALA MET GLN GLU LYS ARG PHE GLY ARG ILE SEQRES 13 A 354 TYR MET VAL ASN VAL ASN VAL PHE TRP THR ARG PRO GLN SEQRES 14 A 354 GLU TYR TYR ASP ALA ALA GLY TRP ARG GLY THR TRP GLU SEQRES 15 A 354 PHE ASP GLY GLY ALA PHE MET ASN GLN ALA SER HIS TYR SEQRES 16 A 354 VAL ASP LEU LEU ASP TRP LEU ILE GLY PRO VAL GLU SER SEQRES 17 A 354 VAL GLN ALA TYR THR ALA THR LEU ALA ARG ASN ILE GLU SEQRES 18 A 354 VAL GLU ASP THR GLY THR VAL SER VAL LYS TRP ARG SER SEQRES 19 A 354 GLY ALA LEU GLY SER MET ASN VAL THR MET LEU THR TYR SEQRES 20 A 354 PRO LYS ASN LEU GLU GLY SER ILE THR ILE LEU GLY GLU SEQRES 21 A 354 LYS GLY SER VAL ARG VAL GLY GLY VAL ALA VAL ASN GLU SEQRES 22 A 354 ILE GLN HIS TRP GLU PHE SER GLU PRO HIS ALA MET ASP SEQRES 23 A 354 GLU GLU ILE LYS ASP ALA SER TYR ALA THR THR SER VAL SEQRES 24 A 354 TYR GLY PHE GLY HIS PRO LEU TYR TYR ASP ASN VAL ILE SEQRES 25 A 354 LYS THR MET ARG GLY GLU ALA THR PRO GLU THR ASP GLY SEQRES 26 A 354 ARG GLU GLY LEU LYS SER LEU GLU LEU LEU ILE ALA MET SEQRES 27 A 354 TYR LEU SER ALA ARG ASP GLY ARG ARG VAL SER LEU PRO SEQRES 28 A 354 LEU ASP TYR HET NAI A 500 44 HET HP7 A 550 40 HET CL A 352 1 HET NA A 353 1 HETNAM NAI 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE HETNAM HP7 (2S,3S,4R,5R,6R)-5-ACETAMIDO-6-[[[(2R,3S,4R,5R)-5-(2,4- HETNAM 2 HP7 DIOXOPYRIMIDIN-1-YL)-3,4-DIHYDROXY-OXOLAN-2- HETNAM 3 HP7 YL]METHOXY-HYDROXY-PHOSPHORYL]OXY-HYDROXY- HETNAM 4 HP7 PHOSPHORYL]OXY-3,4-DIHYDROXY-OXANE-2-CARBOXYLIC ACID HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN NAI NADH FORMUL 2 NAI C21 H29 N7 O14 P2 FORMUL 3 HP7 C17 H25 N3 O18 P2 FORMUL 4 CL CL 1- FORMUL 5 NA NA 1+ FORMUL 6 HOH *268(H2 O) HELIX 1 1 ILE A 22 HIS A 33 1 12 HELIX 2 2 ASP A 46 GLY A 58 1 13 HELIX 3 3 SER A 64 THR A 72 1 9 HELIX 4 4 PRO A 82 GLY A 84 5 3 HELIX 5 5 LEU A 85 ALA A 96 1 12 HELIX 6 6 ARG A 109 LYS A 124 1 16 HELIX 7 7 LYS A 131 ARG A 135 5 5 HELIX 8 8 ASN A 136 GLU A 148 1 13 HELIX 9 9 PRO A 166 ALA A 172 1 7 HELIX 10 10 ALA A 190 ASP A 195 1 6 HELIX 11 11 ASP A 195 GLY A 202 1 8 HELIX 12 12 HIS A 281 GLU A 285 5 5 HELIX 13 13 GLU A 286 SER A 291 1 6 HELIX 14 14 GLY A 300 ARG A 313 1 14 HELIX 15 15 ASP A 321 GLY A 342 1 22 SHEET 1 A 6 ARG A 60 HIS A 62 0 SHEET 2 A 6 ALA A 37 CYS A 43 1 N VAL A 42 O ARG A 60 SHEET 3 A 6 ILE A 12 VAL A 17 1 N PHE A 14 O GLU A 38 SHEET 4 A 6 ILE A 76 LEU A 79 1 O ILE A 78 N ALA A 15 SHEET 5 A 6 HIS A 99 THR A 102 1 O MET A 101 N LEU A 79 SHEET 6 A 6 LEU A 127 VAL A 129 1 O PHE A 128 N VAL A 100 SHEET 1 B 8 GLU A 271 PHE A 277 0 SHEET 2 B 8 GLY A 260 GLY A 265 -1 N GLY A 265 O GLU A 271 SHEET 3 B 8 GLU A 250 GLY A 257 -1 N GLY A 257 O GLY A 260 SHEET 4 B 8 ILE A 154 PHE A 162 -1 N TYR A 155 O LEU A 256 SHEET 5 B 8 LEU A 235 THR A 241 1 O ASN A 239 N VAL A 159 SHEET 6 B 8 THR A 223 TRP A 230 -1 N VAL A 228 O GLY A 236 SHEET 7 B 8 VAL A 204 ALA A 212 -1 N GLN A 208 O SER A 227 SHEET 8 B 8 VAL A 345 SER A 346 -1 O VAL A 345 N VAL A 207 LINK O THR A 211 NA NA A 353 1555 1555 2.43 LINK OG1 THR A 211 NA NA A 353 1555 1555 2.54 LINK NA NA A 353 O HOH A 362 1555 1555 2.88 LINK NA NA A 353 O HOH A 400 1555 1555 2.52 LINK NA NA A 353 O HOH A 432 1555 1555 2.35 LINK NA NA A 353 O HOH A 512 1555 1555 2.00 CISPEP 1 LYS A 104 PRO A 105 0 -18.77 CISPEP 2 TYR A 245 PRO A 246 0 -2.44 CISPEP 3 LEU A 347 PRO A 348 0 -4.73 SITE 1 AC1 30 VAL A 17 GLY A 18 CYS A 19 GLY A 20 SITE 2 AC1 30 ARG A 21 ILE A 22 ASP A 44 ILE A 45 SITE 3 AC1 30 LYS A 51 THR A 80 THR A 81 PRO A 82 SITE 4 AC1 30 SER A 83 LEU A 85 HIS A 86 GLN A 89 SITE 5 AC1 30 GLU A 103 LYS A 104 GLN A 132 TRP A 175 SITE 6 AC1 30 ARG A 176 HIS A 192 HOH A 360 HOH A 423 SITE 7 AC1 30 HOH A 490 HOH A 520 HOH A 527 HOH A 581 SITE 8 AC1 30 HOH A 582 HOH A 584 SITE 1 AC2 19 LYS A 104 ASN A 133 TRP A 163 THR A 164 SITE 2 AC2 19 ARG A 165 PRO A 166 TYR A 169 ASN A 188 SITE 3 AC2 19 GLN A 189 HIS A 192 LYS A 247 ASN A 248 SITE 4 AC2 19 HOH A 395 HOH A 424 HOH A 444 HOH A 446 SITE 5 AC2 19 HOH A 481 HOH A 521 HOH A 608 SITE 1 AC3 4 ARG A 263 GLY A 266 GLN A 273 HOH A 564 SITE 1 AC4 5 THR A 211 HOH A 362 HOH A 400 HOH A 432 SITE 2 AC4 5 HOH A 512 CRYST1 106.711 106.711 143.356 90.00 90.00 90.00 I 4 2 2 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 0.009371 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009371 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006976 0.00000