HEADER OXIDOREDUCTASE 09-NOV-07 3BB0 TITLE CRYSTAL STRUCTURE OF A TRAPPED PHOSPHATE-INTERMEDIATE IN VANADIUM TITLE 2 APOCHLOROPEROXIDASE CATALYZING A DEPHOSPHORYLATION REACTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: VANADIUM CHLOROPEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VCPO, VANADIUM CHLORIDE PEROXIDASE; COMPND 5 EC: 1.11.1.10; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CURVULARIA INAEQUALIS; SOURCE 3 ORGANISM_TAXID: 38902; SOURCE 4 GENE: CPO; SOURCE 5 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 6 EXPRESSION_SYSTEM_COMMON: BAKER'S YEAST; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4932; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BJ1991; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTNT14 KEYWDS PROTEIN PHOSPHATE-INTERMEDIATE COMPLEX, PHOSPATASE ACTIVITY, KEYWDS 2 CHLORIDE, METAL-BINDING, OXIDOREDUCTASE, PEROXIDASE, SECRETED, KEYWDS 3 VANADIUM EXPDTA X-RAY DIFFRACTION AUTHOR A.MESSERSCHMIDT,S.MACEDO-RIBEIRO REVDAT 5 15-NOV-23 3BB0 1 REMARK REVDAT 4 01-NOV-23 3BB0 1 REMARK LINK REVDAT 3 25-OCT-17 3BB0 1 REMARK REVDAT 2 24-FEB-09 3BB0 1 VERSN REVDAT 1 12-FEB-08 3BB0 0 JRNL AUTH S.MACEDO-RIBEIRO,R.RENIRIE,R.WEVER,A.MESSERSCHMIDT JRNL TITL CRYSTAL STRUCTURE OF A TRAPPED PHOSPHATE INTERMEDIATE IN JRNL TITL 2 VANADIUM APOCHLOROPEROXIDASE CATALYZING A DEPHOSPHORYLATION JRNL TITL 3 REACTION JRNL REF BIOCHEMISTRY V. 47 929 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18163651 JRNL DOI 10.1021/BI7018628 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.MESSERSCHMIDT,R.WEVER REMARK 1 TITL X-RAY STRUCTURE OF A VANADIUM-CONTAINING ENZYME: REMARK 1 TITL 2 CHLOROPEROXIDASE FROM THE FUNGUS CURVULARIA INAEQUALIS REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 93 392 1996 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 8552646 REMARK 1 DOI 10.1073/PNAS.93.1.392 REMARK 1 REFERENCE 2 REMARK 1 AUTH S.MACEDO-RIBEIRO,W.HEMRIKA,R.RENIRIE,R.WEVER,A.MESSERSCHMIDT REMARK 1 TITL X-RAY CRYSTAL STRUCTURES OF ACTIVE SITE MUTANTS OF THE REMARK 1 TITL 2 VANADIUM-CONTAINING CHLOROPEROXIDASE FROM THE FUNGUS REMARK 1 TITL 3 CURVULARIA INAEQUALIS REMARK 1 REF J.BIOL.INORG.CHEM. V. 4 209 1999 REMARK 1 REFN ISSN 0949-8257 REMARK 1 PMID 10499093 REMARK 1 DOI 10.1007/S007750050306 REMARK 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 95202 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5076 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) : 6883 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1970 REMARK 3 BIN FREE R VALUE SET COUNT : 363 REMARK 3 BIN FREE R VALUE : 0.2350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4498 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 795 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15000 REMARK 3 B22 (A**2) : -0.15000 REMARK 3 B33 (A**2) : 0.23000 REMARK 3 B12 (A**2) : -0.08000 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): 0.071 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.066 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4643 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6346 ; 1.229 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 577 ; 9.235 ; 5.035 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 227 ;33.558 ;23.656 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 669 ;11.810 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;14.128 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 671 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3712 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2244 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3221 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 531 ; 0.105 ; 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): 55 ; 0.183 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 73 ; 0.212 ; 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): 2947 ; 0.715 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4662 ; 1.142 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1925 ; 1.643 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1684 ; 2.429 ; 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 : BABINET MODEL WITH 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 3BB0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045300. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-98 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 100278 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : 0.06200 REMARK 200 FOR THE DATA SET : 8.2000 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 (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.31700 REMARK 200 R SYM FOR SHELL (I) : 0.31700 REMARK 200 FOR SHELL : 3.500 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: PDB ENTRY 1VNS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 MICRO-L OF PROTEIN SOLUTION (5MG/ML REMARK 280 IN 5MM MOPS, PH 7.5), 3 MICRO-L PRECIPITATING BUFFER (1.7M REMARK 280 AMMONIUM SULFATE, 0.1M TRIS-HCL, PH 8.0, 0.3 MICRO-L 10MM REMARK 280 CYSTEINE-HCL) , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+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 1.000000 0.000000 0.000000 64.03000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.96774 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 34.43667 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 64.03000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 36.96774 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 34.43667 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 64.03000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 36.96774 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.43667 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 73.93548 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 68.87333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 73.93548 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 68.87333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 73.93548 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 68.87333 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: MONOMERIC 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 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 A1003 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1029 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1656 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 SER A 3 REMARK 465 GLN A 580 REMARK 465 GLU A 581 REMARK 465 THR A 582 REMARK 465 PRO A 583 REMARK 465 VAL A 584 REMARK 465 GLN A 585 REMARK 465 LYS A 586 REMARK 465 PRO A 587 REMARK 465 VAL A 588 REMARK 465 GLY A 589 REMARK 465 GLN A 590 REMARK 465 GLN A 591 REMARK 465 PRO A 592 REMARK 465 VAL A 593 REMARK 465 LYS A 594 REMARK 465 GLY A 595 REMARK 465 MET A 596 REMARK 465 TRP A 597 REMARK 465 GLU A 598 REMARK 465 GLU A 599 REMARK 465 GLU A 600 REMARK 465 GLN A 601 REMARK 465 ALA A 602 REMARK 465 PRO A 603 REMARK 465 VAL A 604 REMARK 465 VAL A 605 REMARK 465 LYS A 606 REMARK 465 GLU A 607 REMARK 465 ALA A 608 REMARK 465 PRO A 609 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 GLU A 119 CG CD OE1 OE2 REMARK 470 GLN A 120 CG CD OE1 NE2 REMARK 470 PRO A 121 CG CD REMARK 470 ASN A 122 CG OD1 ND2 REMARK 470 PRO A 123 CG CD REMARK 470 ASN A 124 CG OD1 ND2 REMARK 470 PRO A 125 CG CD REMARK 470 ASP A 164 CG OD1 OD2 REMARK 470 PRO A 579 CG CD 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 1193 O HOH A 1719 1.84 REMARK 500 NE2 HIS A 496 P PO3 A 800 2.14 REMARK 500 OE1 GLU A 196 OG1 THR A 198 2.16 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 O HOH A 1071 O HOH A 1596 2665 1.82 REMARK 500 O HOH A 1193 O HOH A 1370 2665 2.18 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 PRO A 121 N - CA - CB ANGL. DEV. = 7.7 DEGREES REMARK 500 PRO A 125 N - CA - CB ANGL. DEV. = 7.2 DEGREES REMARK 500 PRO A 579 N - CA - CB ANGL. DEV. = 7.3 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 ASN A 96 14.96 -140.80 REMARK 500 GLU A 119 175.31 60.32 REMARK 500 GLN A 120 6.34 51.00 REMARK 500 PHE A 233 -61.37 -93.71 REMARK 500 ARG A 248 -122.35 57.63 REMARK 500 ALA A 290 -75.68 -64.99 REMARK 500 ASP A 292 50.11 -90.01 REMARK 500 HIS A 373 -43.87 -130.08 REMARK 500 VAL A 447 -57.00 -129.32 REMARK 500 LEU A 568 80.30 62.27 REMARK 500 MET A 578 -55.34 -127.25 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 PO3 A 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 901 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VNC RELATED DB: PDB REMARK 900 RELATED ID: 1VNS RELATED DB: PDB REMARK 900 RELATED ID: 1VNI RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONFLICT MAY BE A SEQUENCING ERROR REMARK 999 (THE CODON FOR ARG VARIES BY ONE NUCLEOTIDE CHANGE WITH REMARK 999 PRO ONLY) OR AN INCORRECT READING OF THE RNA-POLYMERASE. REMARK 999 IN PDB ENTRIES 1VNC AND 1VNS THE RESIDUE WAS DETERMINED REMARK 999 AS GLUTAMATE FROM THE X-RAY STRUCTURES BUT THE RESOLUTION REMARK 999 OF THIS STRUCTURE DETERMINATION IS BETTER AND IDENTIFIES REMARK 999 THE RESIDUE UNAMBIGUOUSLY AS ARGININE. DBREF 3BB0 A 1 609 UNP P49053 PRXC_CURIN 1 609 SEQADV 3BB0 ARG A 544 UNP P49053 PRO 544 SEE REMARK 999 SEQRES 1 A 609 MET GLY SER VAL THR PRO ILE PRO LEU PRO LYS ILE ASP SEQRES 2 A 609 GLU PRO GLU GLU TYR ASN THR ASN TYR ILE LEU PHE TRP SEQRES 3 A 609 ASN HIS VAL GLY LEU GLU LEU ASN ARG VAL THR HIS THR SEQRES 4 A 609 VAL GLY GLY PRO LEU THR GLY PRO PRO LEU SER ALA ARG SEQRES 5 A 609 ALA LEU GLY MET LEU HIS LEU ALA ILE HIS ASP ALA TYR SEQRES 6 A 609 PHE SER ILE CSO PRO PRO THR ASP PHE THR THR PHE LEU SEQRES 7 A 609 SER PRO ASP THR GLU ASN ALA ALA TYR ARG LEU PRO SER SEQRES 8 A 609 PRO ASN GLY ALA ASN ASP ALA ARG GLN ALA VAL ALA GLY SEQRES 9 A 609 ALA ALA LEU LYS MET LEU SER SER LEU TYR MET LYS PRO SEQRES 10 A 609 VAL GLU GLN PRO ASN PRO ASN PRO GLY ALA ASN ILE SER SEQRES 11 A 609 ASP ASN ALA TYR ALA GLN LEU GLY LEU VAL LEU ASP ARG SEQRES 12 A 609 SER VAL LEU GLU ALA PRO GLY GLY VAL ASP ARG GLU SER SEQRES 13 A 609 ALA SER PHE MET PHE GLY GLU ASP VAL ALA ASP VAL PHE SEQRES 14 A 609 PHE ALA LEU LEU ASN ASP PRO ARG GLY ALA SER GLN GLU SEQRES 15 A 609 GLY TYR HIS PRO THR PRO GLY ARG TYR LYS PHE ASP ASP SEQRES 16 A 609 GLU PRO THR HIS PRO VAL VAL LEU ILE PRO VAL ASP PRO SEQRES 17 A 609 ASN ASN PRO ASN GLY PRO LYS MET PRO PHE ARG GLN TYR SEQRES 18 A 609 HIS ALA PRO PHE TYR GLY LYS THR THR LYS ARG PHE ALA SEQRES 19 A 609 THR GLN SER GLU HIS PHE LEU ALA ASP PRO PRO GLY LEU SEQRES 20 A 609 ARG SER ASN ALA ASP GLU THR ALA GLU TYR ASP ASP ALA SEQRES 21 A 609 VAL ARG VAL ALA ILE ALA MET GLY GLY ALA GLN ALA LEU SEQRES 22 A 609 ASN SER THR LYS ARG SER PRO TRP GLN THR ALA GLN GLY SEQRES 23 A 609 LEU TYR TRP ALA TYR ASP GLY SER ASN LEU ILE GLY THR SEQRES 24 A 609 PRO PRO ARG PHE TYR ASN GLN ILE VAL ARG ARG ILE ALA SEQRES 25 A 609 VAL THR TYR LYS LYS GLU GLU ASP LEU ALA ASN SER GLU SEQRES 26 A 609 VAL ASN ASN ALA ASP PHE ALA ARG LEU PHE ALA LEU VAL SEQRES 27 A 609 ASP VAL ALA CYS THR ASP ALA GLY ILE PHE SER TRP LYS SEQRES 28 A 609 GLU LYS TRP GLU PHE GLU PHE TRP ARG PRO LEU SER GLY SEQRES 29 A 609 VAL ARG ASP ASP GLY ARG PRO ASP HIS GLY ASP PRO PHE SEQRES 30 A 609 TRP LEU THR LEU GLY ALA PRO ALA THR ASN THR ASN ASP SEQRES 31 A 609 ILE PRO PHE LYS PRO PRO PHE PRO ALA TYR PRO SER GLY SEQRES 32 A 609 HIS ALA THR PHE GLY GLY ALA VAL PHE GLN MET VAL ARG SEQRES 33 A 609 ARG TYR TYR ASN GLY ARG VAL GLY THR TRP LYS ASP ASP SEQRES 34 A 609 GLU PRO ASP ASN ILE ALA ILE ASP MET MET ILE SER GLU SEQRES 35 A 609 GLU LEU ASN GLY VAL ASN ARG ASP LEU ARG GLN PRO TYR SEQRES 36 A 609 ASP PRO THR ALA PRO ILE GLU ASP GLN PRO GLY ILE VAL SEQRES 37 A 609 ARG THR ARG ILE VAL ARG HIS PHE ASP SER ALA TRP GLU SEQRES 38 A 609 LEU MET PHE GLU ASN ALA ILE SER ARG ILE PHE LEU GLY SEQRES 39 A 609 VAL HIS TRP ARG PHE ASP ALA ALA ALA ALA ARG ASP ILE SEQRES 40 A 609 LEU ILE PRO THR THR THR LYS ASP VAL TYR ALA VAL ASP SEQRES 41 A 609 ASN ASN GLY ALA THR VAL PHE GLN ASN VAL GLU ASP ILE SEQRES 42 A 609 ARG TYR THR THR ARG GLY THR ARG GLU ASP ARG GLU GLY SEQRES 43 A 609 LEU PHE PRO ILE GLY GLY VAL PRO LEU GLY ILE GLU ILE SEQRES 44 A 609 ALA ASP GLU ILE PHE ASN ASN GLY LEU LYS PRO THR PRO SEQRES 45 A 609 PRO GLU ILE GLN PRO MET PRO GLN GLU THR PRO VAL GLN SEQRES 46 A 609 LYS PRO VAL GLY GLN GLN PRO VAL LYS GLY MET TRP GLU SEQRES 47 A 609 GLU GLU GLN ALA PRO VAL VAL LYS GLU ALA PRO MODRES 3BB0 CSO A 69 CYS S-HYDROXYCYSTEINE HET CSO A 69 7 HET PO3 A 800 4 HET SO4 A 900 5 HET SO4 A 901 5 HETNAM CSO S-HYDROXYCYSTEINE HETNAM PO3 PHOSPHITE ION HETNAM SO4 SULFATE ION FORMUL 1 CSO C3 H7 N O3 S FORMUL 2 PO3 O3 P 3- FORMUL 3 SO4 2(O4 S 2-) FORMUL 5 HOH *795(H2 O) HELIX 1 1 PRO A 15 THR A 20 5 6 HELIX 2 2 ASN A 21 GLY A 41 1 21 HELIX 3 3 GLY A 46 CSO A 69 1 24 HELIX 4 4 ASN A 84 ARG A 88 5 5 HELIX 5 5 ASP A 97 MET A 115 1 19 HELIX 6 6 SER A 130 ALA A 148 1 19 HELIX 7 7 SER A 156 ASN A 174 1 19 HELIX 8 8 PHE A 225 THR A 230 1 6 HELIX 9 9 LEU A 247 ALA A 251 5 5 HELIX 10 10 GLU A 253 GLY A 269 1 17 HELIX 11 11 SER A 279 TRP A 289 1 11 HELIX 12 12 THR A 299 TYR A 315 1 17 HELIX 13 13 SER A 324 GLU A 357 1 34 HELIX 14 14 ARG A 360 ASP A 367 1 8 HELIX 15 15 SER A 402 ASN A 420 1 19 HELIX 16 16 PRO A 460 GLN A 464 5 5 HELIX 17 17 SER A 478 LEU A 493 1 16 HELIX 18 18 TRP A 497 ALA A 502 1 6 HELIX 19 19 ALA A 503 LEU A 508 1 6 HELIX 20 20 ASN A 529 ILE A 533 5 5 HELIX 21 21 GLY A 551 ASN A 566 1 16 HELIX 22 22 PRO A 572 GLN A 576 5 5 SHEET 1 A 2 VAL A 202 PRO A 205 0 SHEET 2 A 2 LYS A 215 PHE A 218 -1 O MET A 216 N ILE A 204 SHEET 1 B 2 ILE A 436 ILE A 440 0 SHEET 2 B 2 VAL A 473 PHE A 476 -1 O ARG A 474 N MET A 439 SHEET 1 C 2 ARG A 449 LEU A 451 0 SHEET 2 C 2 GLY A 466 VAL A 468 -1 O ILE A 467 N ASP A 450 SHEET 1 D 2 ARG A 538 GLY A 539 0 SHEET 2 D 2 PHE A 548 PRO A 549 -1 O PHE A 548 N GLY A 539 LINK C ILE A 68 N CSO A 69 1555 1555 1.33 LINK C CSO A 69 N PRO A 70 1555 1555 1.35 CISPEP 1 TYR A 400 PRO A 401 0 0.31 SITE 1 AC1 9 LYS A 353 ARG A 360 PHE A 397 SER A 402 SITE 2 AC1 9 GLY A 403 HIS A 404 ARG A 490 HIS A 496 SITE 3 AC1 9 HOH A 801 SITE 1 AC2 6 ASN A 96 ALA A 157 SER A 158 HOH A1475 SITE 2 AC2 6 HOH A1592 HOH A1747 SITE 1 AC3 7 GLU A 182 GLY A 183 HIS A 185 ARG A 538 SITE 2 AC3 7 HOH A1032 HOH A1696 HOH A1770 CRYST1 128.060 128.060 103.310 90.00 90.00 120.00 H 3 9 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 0.007809 0.004508 0.000000 0.00000 SCALE2 0.000000 0.009017 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009680 0.00000