HEADER LYASE 19-APR-07 2PLK TITLE CRYSTAL STRUCTURE OF LYSINE/ORNITHINE DECARBOXYLASE COMPLEXED WITH TITLE 2 CADAVERINE FROM VIBRIO VULNIFICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSINE/ORNITHINE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.18, 4.1.1.17; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 216895; SOURCE 4 STRAIN: CMCP6; SOURCE 5 GENE: LYSA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS TYPE IV DECARBOXYLASE, BETA/ALPHA BARREL, BETA BARREL, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR J.LEE,E.J.GOLDSMITH,M.A.PHILLIPS REVDAT 6 30-AUG-23 2PLK 1 REMARK SEQADV REVDAT 5 13-JUL-11 2PLK 1 VERSN REVDAT 4 24-FEB-09 2PLK 1 VERSN REVDAT 3 30-OCT-07 2PLK 1 JRNL REVDAT 2 17-JUL-07 2PLK 1 COMPND REVDAT 1 10-JUL-07 2PLK 0 JRNL AUTH J.LEE,A.J.MICHAEL,D.MARTYNOWSKI,E.J.GOLDSMITH,M.A.PHILLIPS JRNL TITL PHYLOGENETIC DIVERSITY AND THE STRUCTURAL BASIS OF SUBSTRATE JRNL TITL 2 SPECIFICITY IN THE BETA/ALPHA-BARREL FOLD BASIC AMINO ACID JRNL TITL 3 DECARBOXYLASES. JRNL REF J.BIOL.CHEM. V. 282 27115 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17626020 JRNL DOI 10.1074/JBC.M704066200 REMARK 2 REMARK 2 RESOLUTION. 2.14 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) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.9 REMARK 3 NUMBER OF REFLECTIONS : 35254 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1882 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) : 2.14 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.20 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2176 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 77.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5666 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 350 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.51000 REMARK 3 B22 (A**2) : 0.08000 REMARK 3 B33 (A**2) : -2.59000 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): 0.292 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.225 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.157 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.744 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5829 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7935 ; 1.517 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 729 ; 6.451 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 255 ;34.089 ;24.667 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 947 ;16.005 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;17.600 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 925 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4398 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2780 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3947 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 377 ; 0.167 ; 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): 50 ; 0.186 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.285 ; 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): 3758 ; 0.699 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5923 ; 1.171 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2317 ; 1.886 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2012 ; 2.990 ; 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 : 1.20 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 2PLK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042509. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 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) : 0.979269 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL MONOCHROMATOR SI REMARK 200 -111, SI-220 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37184 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.140 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 (%) : 90.6 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : 0.10700 REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.14 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.42900 REMARK 200 R SYM FOR SHELL (I) : 0.42900 REMARK 200 FOR SHELL : 2.000 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 1F3T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG-4000, 0.1M TRIS HCL PH8.4, REMARK 280 0.2M MAGNESIUM CHLORIDE, 0.5% W/V N-OCTYL-B-D-GLUCOSIDE , VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 42.12250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.63600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.01350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.63600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.12250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.01350 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 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: 6730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 11 REMARK 465 SER A 12 REMARK 465 LEU A 13 REMARK 465 THR A 14 REMARK 465 SER A 15 REMARK 465 PRO A 16 REMARK 465 VAL A 17 REMARK 465 ARG A 155 REMARK 465 ASN A 156 REMARK 465 SER A 157 REMARK 465 GLU A 158 REMARK 465 ALA A 159 REMARK 465 PHE A 160 REMARK 465 ALA A 161 REMARK 465 ASP A 162 REMARK 465 LEU A 163 REMARK 465 SER A 164 REMARK 465 VAL A 391 REMARK 465 ALA A 392 REMARK 465 SER A 393 REMARK 465 SER A 394 REMARK 465 GLU A 395 REMARK 465 ARG A 396 REMARK 465 MET A 397 REMARK 465 ILE A 398 REMARK 465 GLY A 399 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 SER B 4 REMARK 465 GLN B 5 REMARK 465 SER B 6 REMARK 465 ILE B 7 REMARK 465 PHE B 8 REMARK 465 ASP B 9 REMARK 465 ILE B 10 REMARK 465 HIS B 11 REMARK 465 SER B 12 REMARK 465 LEU B 13 REMARK 465 THR B 14 REMARK 465 SER B 15 REMARK 465 PRO B 16 REMARK 465 ARG B 155 REMARK 465 ASN B 156 REMARK 465 SER B 157 REMARK 465 GLU B 158 REMARK 465 ALA B 159 REMARK 465 PHE B 160 REMARK 465 ALA B 161 REMARK 465 ASP B 162 REMARK 465 LEU B 163 REMARK 465 PHE B 390 REMARK 465 VAL B 391 REMARK 465 ALA B 392 REMARK 465 SER B 393 REMARK 465 SER B 394 REMARK 465 GLU B 395 REMARK 465 ARG B 396 REMARK 465 MET B 397 REMARK 465 ILE B 398 REMARK 465 GLY B 399 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 NH2 ARG A 46 O GLU A 389 2.14 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 ARG A 46 NE - CZ - NH2 ANGL. DEV. = -3.4 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 PHE A 8 31.08 -97.80 REMARK 500 ASP A 9 -52.34 -152.98 REMARK 500 LEU A 68 88.31 -157.17 REMARK 500 ASP A 131 11.18 -143.44 REMARK 500 ASN A 185 39.08 70.09 REMARK 500 TYR A 240 -107.65 -105.57 REMARK 500 GLN A 325 80.22 30.29 REMARK 500 THR A 369 -92.89 -123.83 REMARK 500 ASN A 377 -1.64 65.47 REMARK 500 LEU B 56 78.16 -118.13 REMARK 500 LEU B 68 84.62 -163.36 REMARK 500 PRO B 69 49.50 -87.15 REMARK 500 TYR B 240 -116.42 -109.37 REMARK 500 GLU B 263 15.00 -68.22 REMARK 500 GLU B 293 54.54 32.67 REMARK 500 ASP B 315 51.25 30.91 REMARK 500 THR B 369 -86.12 -126.06 REMARK 500 ASN B 377 -1.43 69.72 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 P3D A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P3D B 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PLJ RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH PUTRESCINE DBREF 2PLK A 1 399 UNP Q8D594 Q8D594_VIBVU 1 399 DBREF 2PLK B 1 399 UNP Q8D594 Q8D594_VIBVU 1 399 SEQADV 2PLK MET A -19 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY A -18 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER A -17 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER A -16 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -15 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -14 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -13 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -12 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -11 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A -10 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER A -9 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER A -8 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY A -7 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK LEU A -6 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK VAL A -5 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK PRO A -4 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK ARG A -3 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY A -2 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER A -1 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS A 0 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK MET B -19 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY B -18 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER B -17 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER B -16 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -15 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -14 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -13 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -12 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -11 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B -10 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER B -9 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER B -8 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY B -7 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK LEU B -6 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK VAL B -5 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK PRO B -4 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK ARG B -3 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK GLY B -2 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK SER B -1 UNP Q8D594 EXPRESSION TAG SEQADV 2PLK HIS B 0 UNP Q8D594 EXPRESSION TAG SEQRES 1 A 419 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 419 LEU VAL PRO ARG GLY SER HIS MET ALA HIS SER GLN SER SEQRES 3 A 419 ILE PHE ASP ILE HIS SER LEU THR SER PRO VAL LEU SER SEQRES 4 A 419 ALA GLU GLU ILE HIS LEU ILE GLU ALA SER VAL GLU GLN SEQRES 5 A 419 PHE GLY ALA PRO LEU LEU LEU LEU ASP CYS ASP VAL ILE SEQRES 6 A 419 ARG GLN GLN TYR ARG ALA LEU LYS ASN ALA LEU PRO ASN SEQRES 7 A 419 VAL THR LEU HIS TYR ALA LEU LYS PRO LEU PRO HIS PRO SEQRES 8 A 419 VAL VAL VAL ARG THR LEU LEU ALA GLU GLY ALA SER PHE SEQRES 9 A 419 ASP LEU ALA THR THR GLY GLU VAL GLU LEU VAL ALA SER SEQRES 10 A 419 GLU GLY VAL PRO ALA ASP LEU THR ILE HIS THR HIS PRO SEQRES 11 A 419 ILE LYS ARG ASP ALA ASP ILE ARG ASP ALA LEU ALA TYR SEQRES 12 A 419 GLY CYS ASN VAL PHE VAL VAL ASP ASN LEU ASN GLU LEU SEQRES 13 A 419 GLU LYS PHE LYS ALA TYR ARG ASP ASP VAL GLU LEU LEU SEQRES 14 A 419 VAL ARG LEU SER PHE ARG ASN SER GLU ALA PHE ALA ASP SEQRES 15 A 419 LEU SER LYS LYS PHE GLY CYS SER PRO GLU GLN ALA LEU SEQRES 16 A 419 VAL ILE ILE GLU THR ALA LYS GLU TRP ASN ILE ARG ILE SEQRES 17 A 419 LYS GLY LEU SER PHE HIS VAL GLY SER GLN THR THR ASN SEQRES 18 A 419 PRO ASN LYS TYR VAL GLU ALA ILE HIS THR CYS ARG HIS SEQRES 19 A 419 VAL MET GLU GLN VAL VAL GLU ARG GLY LEU PRO ALA LEU SEQRES 20 A 419 SER THR LEU ASP ILE GLY GLY GLY PHE PRO VAL ASN TYR SEQRES 21 A 419 THR GLN GLN VAL MET PRO ILE ASP GLN PHE CYS ALA PRO SEQRES 22 A 419 ILE ASN GLU ALA LEU SER LEU LEU PRO GLU THR VAL HIS SEQRES 23 A 419 VAL LEU ALA GLU PRO GLY ARG PHE ILE CYS ALA PRO ALA SEQRES 24 A 419 VAL THR SER VAL ALA SER VAL MET GLY GLN ALA GLU ARG SEQRES 25 A 419 GLU GLY GLN ILE TRP TYR TYR LEU ASP ASP GLY ILE TYR SEQRES 26 A 419 GLY SER PHE SER GLY LEU MET PHE ASP ASP ALA ARG TYR SEQRES 27 A 419 PRO LEU THR THR ILE LYS GLN GLY GLY GLU LEU ILE PRO SEQRES 28 A 419 SER VAL LEU SER GLY PRO THR CYS ASP SER VAL ASP VAL SEQRES 29 A 419 ILE ALA GLU ASN ILE LEU LEU PRO LYS LEU ASN ASN GLY SEQRES 30 A 419 ASP LEU VAL ILE GLY ARG THR MET GLY ALA TYR THR SER SEQRES 31 A 419 ALA THR ALA THR ASP PHE ASN PHE PHE LYS ARG ALA GLN SEQRES 32 A 419 THR ILE ALA LEU ASN GLU PHE VAL ALA SER SER GLU ARG SEQRES 33 A 419 MET ILE GLY SEQRES 1 B 419 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 419 LEU VAL PRO ARG GLY SER HIS MET ALA HIS SER GLN SER SEQRES 3 B 419 ILE PHE ASP ILE HIS SER LEU THR SER PRO VAL LEU SER SEQRES 4 B 419 ALA GLU GLU ILE HIS LEU ILE GLU ALA SER VAL GLU GLN SEQRES 5 B 419 PHE GLY ALA PRO LEU LEU LEU LEU ASP CYS ASP VAL ILE SEQRES 6 B 419 ARG GLN GLN TYR ARG ALA LEU LYS ASN ALA LEU PRO ASN SEQRES 7 B 419 VAL THR LEU HIS TYR ALA LEU LYS PRO LEU PRO HIS PRO SEQRES 8 B 419 VAL VAL VAL ARG THR LEU LEU ALA GLU GLY ALA SER PHE SEQRES 9 B 419 ASP LEU ALA THR THR GLY GLU VAL GLU LEU VAL ALA SER SEQRES 10 B 419 GLU GLY VAL PRO ALA ASP LEU THR ILE HIS THR HIS PRO SEQRES 11 B 419 ILE LYS ARG ASP ALA ASP ILE ARG ASP ALA LEU ALA TYR SEQRES 12 B 419 GLY CYS ASN VAL PHE VAL VAL ASP ASN LEU ASN GLU LEU SEQRES 13 B 419 GLU LYS PHE LYS ALA TYR ARG ASP ASP VAL GLU LEU LEU SEQRES 14 B 419 VAL ARG LEU SER PHE ARG ASN SER GLU ALA PHE ALA ASP SEQRES 15 B 419 LEU SER LYS LYS PHE GLY CYS SER PRO GLU GLN ALA LEU SEQRES 16 B 419 VAL ILE ILE GLU THR ALA LYS GLU TRP ASN ILE ARG ILE SEQRES 17 B 419 LYS GLY LEU SER PHE HIS VAL GLY SER GLN THR THR ASN SEQRES 18 B 419 PRO ASN LYS TYR VAL GLU ALA ILE HIS THR CYS ARG HIS SEQRES 19 B 419 VAL MET GLU GLN VAL VAL GLU ARG GLY LEU PRO ALA LEU SEQRES 20 B 419 SER THR LEU ASP ILE GLY GLY GLY PHE PRO VAL ASN TYR SEQRES 21 B 419 THR GLN GLN VAL MET PRO ILE ASP GLN PHE CYS ALA PRO SEQRES 22 B 419 ILE ASN GLU ALA LEU SER LEU LEU PRO GLU THR VAL HIS SEQRES 23 B 419 VAL LEU ALA GLU PRO GLY ARG PHE ILE CYS ALA PRO ALA SEQRES 24 B 419 VAL THR SER VAL ALA SER VAL MET GLY GLN ALA GLU ARG SEQRES 25 B 419 GLU GLY GLN ILE TRP TYR TYR LEU ASP ASP GLY ILE TYR SEQRES 26 B 419 GLY SER PHE SER GLY LEU MET PHE ASP ASP ALA ARG TYR SEQRES 27 B 419 PRO LEU THR THR ILE LYS GLN GLY GLY GLU LEU ILE PRO SEQRES 28 B 419 SER VAL LEU SER GLY PRO THR CYS ASP SER VAL ASP VAL SEQRES 29 B 419 ILE ALA GLU ASN ILE LEU LEU PRO LYS LEU ASN ASN GLY SEQRES 30 B 419 ASP LEU VAL ILE GLY ARG THR MET GLY ALA TYR THR SER SEQRES 31 B 419 ALA THR ALA THR ASP PHE ASN PHE PHE LYS ARG ALA GLN SEQRES 32 B 419 THR ILE ALA LEU ASN GLU PHE VAL ALA SER SER GLU ARG SEQRES 33 B 419 MET ILE GLY HET P3D A 501 22 HET P3D B 501 22 HETNAM P3D (4-{(E)-[(5-AMINOPENTYL)IMINO]METHYL}-5-HYDROXY-6- HETNAM 2 P3D METHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE HETSYN P3D PHOSPHORIC ACID MONO-{4-[(5-AMINO-PENTYLIMINO)-METHYL]- HETSYN 2 P3D 5-HYDROXY-6-METHYL-PYRIDIN-3-YLMETHYL} ESTER FORMUL 3 P3D 2(C13 H22 N3 O5 P) FORMUL 5 HOH *350(H2 O) HELIX 1 1 SER A 19 GLY A 34 1 16 HELIX 2 2 CYS A 42 LEU A 56 1 15 HELIX 3 3 HIS A 70 GLY A 81 1 12 HELIX 4 4 THR A 88 GLU A 98 1 11 HELIX 5 5 PRO A 101 ASP A 103 5 3 HELIX 6 6 ARG A 113 GLY A 124 1 12 HELIX 7 7 ASN A 132 LYS A 138 1 7 HELIX 8 8 PHE A 139 ARG A 143 5 5 HELIX 9 9 SER A 170 TRP A 184 1 15 HELIX 10 10 PRO A 202 ARG A 222 1 21 HELIX 11 11 PRO A 246 SER A 259 1 14 HELIX 12 12 GLY A 272 ALA A 277 1 6 HELIX 13 13 GLY A 306 PHE A 308 5 3 HELIX 14 14 SER A 309 ASP A 314 1 6 HELIX 15 15 THR A 369 ALA A 373 5 5 HELIX 16 16 ASP A 375 PHE A 379 5 5 HELIX 17 17 SER B 19 GLY B 34 1 16 HELIX 18 18 CYS B 42 LEU B 56 1 15 HELIX 19 19 HIS B 70 GLU B 80 1 11 HELIX 20 20 THR B 88 GLU B 98 1 11 HELIX 21 21 PRO B 101 ASP B 103 5 3 HELIX 22 22 ARG B 113 GLY B 124 1 12 HELIX 23 23 ASN B 132 LYS B 138 1 7 HELIX 24 24 SER B 170 ASN B 185 1 16 HELIX 25 25 PRO B 202 GLU B 221 1 20 HELIX 26 26 PRO B 246 SER B 259 1 14 HELIX 27 27 GLY B 272 ALA B 277 1 6 HELIX 28 28 GLY B 306 PHE B 308 5 3 HELIX 29 29 SER B 309 ASP B 314 1 6 HELIX 30 30 THR B 369 ALA B 373 5 5 HELIX 31 31 ASP B 375 PHE B 379 5 5 SHEET 1 A 6 GLN A 5 ILE A 7 0 SHEET 2 A 6 GLN A 383 LEU A 387 1 O ALA A 386 N ILE A 7 SHEET 3 A 6 LEU A 37 ASP A 41 1 N LEU A 40 O LEU A 387 SHEET 4 A 6 VAL A 280 ARG A 292 -1 O THR A 281 N LEU A 39 SHEET 5 A 6 LEU A 359 GLY A 362 -1 O VAL A 360 N ALA A 284 SHEET 6 A 6 LEU A 320 THR A 322 -1 N THR A 321 O ILE A 361 SHEET 1 B 7 GLN A 5 ILE A 7 0 SHEET 2 B 7 GLN A 383 LEU A 387 1 O ALA A 386 N ILE A 7 SHEET 3 B 7 LEU A 37 ASP A 41 1 N LEU A 40 O LEU A 387 SHEET 4 B 7 VAL A 280 ARG A 292 -1 O THR A 281 N LEU A 39 SHEET 5 B 7 GLN A 295 LEU A 300 -1 O TRP A 297 N ALA A 290 SHEET 6 B 7 LEU A 329 SER A 335 1 O VAL A 333 N TYR A 298 SHEET 7 B 7 VAL A 344 PRO A 352 -1 O LEU A 351 N ILE A 330 SHEET 1 C 8 THR A 105 HIS A 107 0 SHEET 2 C 8 SER A 83 LEU A 86 1 N LEU A 86 O ILE A 106 SHEET 3 C 8 VAL A 59 ALA A 64 1 N TYR A 63 O ASP A 85 SHEET 4 C 8 HIS A 266 ALA A 269 1 O ALA A 269 N HIS A 62 SHEET 5 C 8 THR A 229 ASP A 231 1 N LEU A 230 O LEU A 268 SHEET 6 C 8 ARG A 187 SER A 192 1 N LEU A 191 O ASP A 231 SHEET 7 C 8 GLU A 147 ARG A 151 1 N VAL A 150 O SER A 192 SHEET 8 C 8 VAL A 127 VAL A 130 1 N PHE A 128 O LEU A 149 SHEET 1 D 6 LEU B 320 THR B 322 0 SHEET 2 D 6 LEU B 359 GLY B 362 -1 O ILE B 361 N THR B 321 SHEET 3 D 6 VAL B 280 ARG B 292 -1 N ALA B 284 O VAL B 360 SHEET 4 D 6 GLN B 295 LEU B 300 -1 O TRP B 297 N ALA B 290 SHEET 5 D 6 ILE B 330 SER B 335 1 O SER B 335 N TYR B 298 SHEET 6 D 6 VAL B 344 LEU B 351 -1 O ILE B 345 N LEU B 334 SHEET 1 E 5 LEU B 320 THR B 322 0 SHEET 2 E 5 LEU B 359 GLY B 362 -1 O ILE B 361 N THR B 321 SHEET 3 E 5 VAL B 280 ARG B 292 -1 N ALA B 284 O VAL B 360 SHEET 4 E 5 LEU B 37 ASP B 41 -1 N LEU B 39 O THR B 281 SHEET 5 E 5 GLN B 383 LEU B 387 1 O ILE B 385 N LEU B 38 SHEET 1 F 8 THR B 105 HIS B 107 0 SHEET 2 F 8 SER B 83 LEU B 86 1 N LEU B 86 O ILE B 106 SHEET 3 F 8 VAL B 59 ALA B 64 1 N TYR B 63 O ASP B 85 SHEET 4 F 8 HIS B 266 ALA B 269 1 O VAL B 267 N THR B 60 SHEET 5 F 8 THR B 229 ASP B 231 1 N LEU B 230 O HIS B 266 SHEET 6 F 8 ARG B 187 SER B 192 1 N LEU B 191 O ASP B 231 SHEET 7 F 8 GLU B 147 ARG B 151 1 N VAL B 150 O SER B 192 SHEET 8 F 8 VAL B 127 VAL B 130 1 N PHE B 128 O LEU B 149 CISPEP 1 ALA A 35 PRO A 36 0 -3.85 CISPEP 2 ALA B 35 PRO B 36 0 1.60 SITE 1 AC1 19 ASP A 85 ARG A 151 HIS A 194 SER A 197 SITE 2 AC1 19 GLY A 234 GLY A 235 GLU A 270 GLY A 272 SITE 3 AC1 19 ARG A 273 PHE A 313 ASP A 314 TYR A 368 SITE 4 AC1 19 HOH A 502 HOH A 507 HOH A 614 HOH A 627 SITE 5 AC1 19 CYS B 339 ASP B 340 HOH B 536 SITE 1 AC2 17 ASP A 340 HOH A 551 LYS B 66 ASP B 85 SITE 2 AC2 17 HIS B 194 SER B 197 GLY B 234 GLY B 235 SITE 3 AC2 17 GLU B 270 GLY B 272 ARG B 273 PHE B 313 SITE 4 AC2 17 ASP B 314 TYR B 368 HOH B 506 HOH B 520 SITE 5 AC2 17 HOH B 571 CRYST1 84.245 88.027 99.272 90.00 90.00 90.00 P 21 21 21 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 0.011870 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011360 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010073 0.00000