HEADER LYASE 28-NOV-06 2O0V TITLE PECTATE LYASE BOUND TO HEXASACCHARIDE COMPOUND III COMPND MOL_ID: 1; COMPND 2 MOLECULE: PECTATE LYASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PL; COMPND 5 EC: 4.2.2.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: PEL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET3D KEYWDS MICHAELIS COMPLEX WITH COMPOUND III, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR R.W.PICKERSGILL,A.SEYEDARABI REVDAT 5 20-OCT-21 2O0V 1 SEQADV HETSYN REVDAT 4 29-JUL-20 2O0V 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 28-APR-10 2O0V 1 JRNL REVDAT 2 24-FEB-09 2O0V 1 VERSN REVDAT 1 20-NOV-07 2O0V 0 JRNL AUTH A.SEYEDARABI,T.T.TO,S.ALI,S.HUSSAIN,M.FRIES,R.MADSEN, JRNL AUTH 2 M.H.CLAUSEN,S.TEIXTEIRA,K.BROCKLEHURST,R.W.PICKERSGILL JRNL TITL STRUCTURAL INSIGHTS INTO SUBSTRATE SPECIFICITY AND THE ANTI JRNL TITL 2 BETA-ELIMINATION MECHANISM OF PECTATE LYASE. JRNL REF BIOCHEMISTRY V. 49 539 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 20000851 JRNL DOI 10.1021/BI901503G REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28180 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1485 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2073 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.1670 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3060 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 631 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.07000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.05000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.159 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.085 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.780 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3207 ; 0.013 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4341 ; 1.395 ; 1.944 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 398 ; 5.938 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;39.276 ;25.235 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 488 ;12.242 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;10.844 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 472 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2466 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1583 ; 0.190 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2165 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 544 ; 0.112 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.057 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 56 ; 0.210 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 59 ; 0.133 ; 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): 2031 ; 0.497 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3160 ; 0.832 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1362 ; 1.381 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1181 ; 1.979 ; 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 2O0V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1000040545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93100 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29685 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 46.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : 0.05100 REMARK 200 FOR THE DATA SET : 18.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.14600 REMARK 200 R SYM FOR SHELL (I) : 0.14600 REMARK 200 FOR SHELL : 8.800 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE PH 4.6, 0.2M REMARK 280 AMMONIUM ACETATE, 30% PEG 4000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 34.34700 REMARK 290 SMTRY3 2 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: MONOMERIC 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 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 OD2 ASP A 184 OD2 ASP A 227 1.75 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 409 O HOH A 1005 1655 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 223 OD1 - CG - OD2 ANGL. DEV. = -14.7 DEGREES REMARK 500 ASP A 223 CB - CG - OD2 ANGL. DEV. = 17.5 DEGREES REMARK 500 ASP A 227 CB - CA - C ANGL. DEV. = -14.0 DEGREES REMARK 500 ASP A 227 OD1 - CG - OD2 ANGL. DEV. = -39.9 DEGREES REMARK 500 ASP A 227 CB - CG - OD1 ANGL. DEV. = 33.3 DEGREES REMARK 500 ASP A 227 CB - CG - OD2 ANGL. DEV. = 5.9 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 SER A 18 -111.99 49.13 REMARK 500 ASN A 151 71.47 77.68 REMARK 500 HIS A 193 76.89 50.96 REMARK 500 ASP A 223 -124.01 -110.87 REMARK 500 GLN A 225 -64.21 -105.22 REMARK 500 TYR A 234 72.28 65.63 REMARK 500 ASP A 246 -79.90 -81.82 REMARK 500 LYS A 263 -159.17 -118.46 REMARK 500 PHE A 285 -41.88 70.78 REMARK 500 SER A 303 -50.92 -121.34 REMARK 500 ALA A 309 -66.54 -94.04 REMARK 500 LEU A 398 -95.98 -113.25 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 CA A 406 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 173 OD2 REMARK 620 2 ASN A 180 OD1 87.7 REMARK 620 3 HOH A 564 O 84.0 80.0 REMARK 620 4 HOH A 565 O 77.8 91.1 160.1 REMARK 620 5 ADA B 1 O3 78.6 156.0 79.0 105.0 REMARK 620 6 ADA B 2 O5 132.0 131.3 123.8 75.2 71.1 REMARK 620 7 ADA B 2 O6A 163.2 76.4 87.9 107.4 114.3 64.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 184 OD1 REMARK 620 2 ASP A 184 OD2 55.3 REMARK 620 3 ASP A 223 OD1 81.9 137.2 REMARK 620 4 ASP A 223 OD2 95.8 129.7 49.0 REMARK 620 5 ASP A 227 OD1 87.3 80.8 96.4 144.0 REMARK 620 6 ASP A 227 OD2 74.6 45.3 126.6 170.3 36.5 REMARK 620 7 HOH A 457 O 124.4 69.1 153.7 120.1 85.9 67.8 REMARK 620 8 HOH A 501 O 107.6 140.1 45.6 83.8 61.3 97.8 116.7 REMARK 620 9 HOH A 858 O 97.8 79.6 111.7 63.3 151.8 118.4 68.3 140.3 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 407 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 223 OD1 REMARK 620 2 ASP A 223 OD2 53.8 REMARK 620 3 HOH A 501 O 56.6 95.6 REMARK 620 4 HOH A 524 O 101.8 54.4 149.2 REMARK 620 5 HOH A 666 O 112.0 105.2 141.4 63.5 REMARK 620 6 ADA B 2 O6B 94.8 146.5 71.2 137.1 73.6 REMARK 620 7 ADA B 3 O5 159.9 132.9 103.6 94.7 85.6 80.6 REMARK 620 8 ADA B 3 O6A 103.3 78.4 76.8 89.0 138.5 125.3 65.2 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BN8 RELATED DB: PDB REMARK 900 PECTATE LYASE WITH ONE CALCIUM REMARK 900 RELATED ID: 2NZM RELATED DB: PDB REMARK 900 PECTATE LYASE IN COMPLEX WITH HEXASACCHARIDE I (THREE CALCIUMS) REMARK 900 RELATED ID: 2O04 RELATED DB: PDB REMARK 900 PECTATE LYASE IN COMPLEX WITH HEXASACCHARIDE II (THREE CALCIUMS) REMARK 900 RELATED ID: 2O0W RELATED DB: PDB REMARK 900 PECTATE LYASE WITH ONE CALCIUM (NO COMPLEX FORMED WITH COMPOUND IV) REMARK 900 RELATED ID: 2O17 RELATED DB: PDB REMARK 900 PECTATE LYASE IN COMPLEX WITH HEXASACCHARIDE (THREE CALCIUMS) REMARK 900 RELATED ID: 2O1D RELATED DB: PDB REMARK 900 PECTATE LYASE IN COMPLEX WITH TRISACCHARIDE (THREE CALCIUMS) DBREF 2O0V A 1 399 UNP P39116 PEL_BACSU 22 420 SEQADV 2O0V ALA A 279 UNP P39116 ARG 300 ENGINEERED MUTATION SEQRES 1 A 399 ALA ASP LEU GLY HIS GLN THR LEU GLY SER ASN ASP GLY SEQRES 2 A 399 TRP GLY ALA TYR SER THR GLY THR THR GLY GLY SER LYS SEQRES 3 A 399 ALA SER SER SER ASN VAL TYR THR VAL SER ASN ARG ASN SEQRES 4 A 399 GLN LEU VAL SER ALA LEU GLY LYS GLU THR ASN THR THR SEQRES 5 A 399 PRO LYS ILE ILE TYR ILE LYS GLY THR ILE ASP MET ASN SEQRES 6 A 399 VAL ASP ASP ASN LEU LYS PRO LEU GLY LEU ASN ASP TYR SEQRES 7 A 399 LYS ASP PRO GLU TYR ASP LEU ASP LYS TYR LEU LYS ALA SEQRES 8 A 399 TYR ASP PRO SER THR TRP GLY LYS LYS GLU PRO SER GLY SEQRES 9 A 399 THR GLN GLU GLU ALA ARG ALA ARG SER GLN LYS ASN GLN SEQRES 10 A 399 LYS ALA ARG VAL MET VAL ASP ILE PRO ALA ASN THR THR SEQRES 11 A 399 ILE VAL GLY SER GLY THR ASN ALA LYS VAL VAL GLY GLY SEQRES 12 A 399 ASN PHE GLN ILE LYS SER ASP ASN VAL ILE ILE ARG ASN SEQRES 13 A 399 ILE GLU PHE GLN ASP ALA TYR ASP TYR PHE PRO GLN TRP SEQRES 14 A 399 ASP PRO THR ASP GLY SER SER GLY ASN TRP ASN SER GLN SEQRES 15 A 399 TYR ASP ASN ILE THR ILE ASN GLY GLY THR HIS ILE TRP SEQRES 16 A 399 ILE ASP HIS CYS THR PHE ASN ASP GLY SER ARG PRO ASP SEQRES 17 A 399 SER THR SER PRO LYS TYR TYR GLY ARG LYS TYR GLN HIS SEQRES 18 A 399 HIS ASP GLY GLN THR ASP ALA SER ASN GLY ALA ASN TYR SEQRES 19 A 399 ILE THR MET SER TYR ASN TYR TYR HIS ASP HIS ASP LYS SEQRES 20 A 399 SER SER ILE PHE GLY SER SER ASP SER LYS THR SER ASP SEQRES 21 A 399 ASP GLY LYS LEU LYS ILE THR LEU HIS HIS ASN ARG TYR SEQRES 22 A 399 LYS ASN ILE VAL GLN ALA ALA PRO ARG VAL ARG PHE GLY SEQRES 23 A 399 GLN VAL HIS VAL TYR ASN ASN TYR TYR GLU GLY SER THR SEQRES 24 A 399 SER SER SER SER TYR PRO PHE SER TYR ALA TRP GLY ILE SEQRES 25 A 399 GLY LYS SER SER LYS ILE TYR ALA GLN ASN ASN VAL ILE SEQRES 26 A 399 ASP VAL PRO GLY LEU SER ALA ALA LYS THR ILE SER VAL SEQRES 27 A 399 PHE SER GLY GLY THR ALA LEU TYR ASP SER GLY THR LEU SEQRES 28 A 399 LEU ASN GLY THR GLN ILE ASN ALA SER ALA ALA ASN GLY SEQRES 29 A 399 LEU SER SER SER VAL GLY TRP THR PRO SER LEU HIS GLY SEQRES 30 A 399 SER ILE ASP ALA SER ALA ASN VAL LYS SER ASN VAL ILE SEQRES 31 A 399 ASN GLN ALA GLY ALA GLY LYS LEU ASN HET ADA B 1 13 HET ADA B 2 12 HET ADA B 3 12 HET ADA B 4 12 HET ADA B 5 12 HET CA A 405 1 HET CA A 406 1 HET CA A 407 1 HETNAM ADA ALPHA-D-GALACTOPYRANURONIC ACID HETNAM CA CALCIUM ION HETSYN ADA ALPHA-D-GALACTURONIC ACID; D-GALACTURONIC ACID; HETSYN 2 ADA GALACTURONIC ACID; ALPHA D-GALACTURONIC ACID FORMUL 2 ADA 5(C6 H10 O7) FORMUL 3 CA 3(CA 2+) FORMUL 6 HOH *631(H2 O) HELIX 1 1 GLY A 13 TYR A 17 5 5 HELIX 2 2 SER A 28 SER A 30 5 3 HELIX 3 3 ASN A 37 GLY A 46 1 10 HELIX 4 4 GLY A 74 LYS A 79 1 6 HELIX 5 5 ASP A 84 ASP A 93 1 10 HELIX 6 6 ASP A 93 GLY A 98 1 6 HELIX 7 7 GLY A 104 VAL A 121 1 18 HELIX 8 8 PRO A 207 SER A 211 5 5 HELIX 9 9 LYS A 257 ASP A 261 5 5 HELIX 10 10 ALA A 332 LYS A 334 5 3 HELIX 11 11 ASN A 358 ASN A 363 1 6 HELIX 12 12 ALA A 381 ALA A 393 1 13 SHEET 1 A10 VAL A 32 VAL A 35 0 SHEET 2 A10 LYS A 54 ILE A 58 1 O ILE A 55 N TYR A 33 SHEET 3 A10 THR A 129 GLY A 133 1 O THR A 130 N ILE A 56 SHEET 4 A10 ASP A 150 ARG A 155 1 O ILE A 153 N ILE A 131 SHEET 5 A10 THR A 192 ASP A 197 1 O TRP A 195 N ILE A 154 SHEET 6 A10 ASN A 233 SER A 238 1 O THR A 236 N ILE A 194 SHEET 7 A10 ILE A 266 HIS A 269 1 O THR A 267 N MET A 237 SHEET 8 A10 VAL A 288 TYR A 291 1 O HIS A 289 N LEU A 268 SHEET 9 A10 TYR A 319 GLN A 321 1 O TYR A 319 N VAL A 288 SHEET 10 A10 TYR A 346 SER A 348 1 O TYR A 346 N ALA A 320 SHEET 1 B10 THR A 61 ASP A 63 0 SHEET 2 B10 LYS A 139 VAL A 141 1 O VAL A 141 N ILE A 62 SHEET 3 B10 GLU A 158 GLN A 160 1 O GLN A 160 N VAL A 140 SHEET 4 B10 THR A 200 ASN A 202 1 O THR A 200 N PHE A 159 SHEET 5 B10 TYR A 241 LYS A 247 1 O TYR A 241 N PHE A 201 SHEET 6 B10 ARG A 272 GLN A 278 1 O ARG A 272 N TYR A 242 SHEET 7 B10 TYR A 294 GLU A 296 1 O GLU A 296 N TYR A 273 SHEET 8 B10 VAL A 324 ASP A 326 1 O ASP A 326 N TYR A 295 SHEET 9 B10 LEU A 351 LEU A 352 1 O LEU A 351 N ILE A 325 SHEET 10 B10 THR A 355 GLN A 356 -1 O THR A 355 N LEU A 352 SHEET 1 C 4 MET A 122 ASP A 124 0 SHEET 2 C 4 ASN A 144 ILE A 147 1 O GLN A 146 N VAL A 123 SHEET 3 C 4 ILE A 186 ASN A 189 1 O THR A 187 N ILE A 147 SHEET 4 C 4 THR A 226 SER A 229 1 O SER A 229 N ILE A 188 SHEET 1 D 2 GLN A 168 ASP A 170 0 SHEET 2 D 2 ASN A 178 ASN A 180 -1 O ASN A 180 N GLN A 168 SHEET 1 E 2 LYS A 213 TYR A 214 0 SHEET 2 E 2 ARG A 217 LYS A 218 -1 O ARG A 217 N TYR A 214 SHEET 1 F 4 ILE A 250 PHE A 251 0 SHEET 2 F 4 ARG A 282 VAL A 283 1 O ARG A 282 N PHE A 251 SHEET 3 F 4 TRP A 310 ILE A 312 1 O GLY A 311 N VAL A 283 SHEET 4 F 4 ILE A 336 VAL A 338 1 O SER A 337 N ILE A 312 LINK O4 ADA B 1 C1 ADA B 2 1555 1555 1.44 LINK O4 ADA B 2 C1 ADA B 3 1555 1555 1.44 LINK O4 ADA B 3 C1 ADA B 4 1555 1555 1.44 LINK O4 ADA B 4 C1 ADA B 5 1555 1555 1.44 LINK OD2 ASP A 173 CA CA A 406 1555 1555 2.40 LINK OD1 ASN A 180 CA CA A 406 1555 1555 2.45 LINK OD1 ASP A 184 CA CA A 405 1555 1555 2.31 LINK OD2 ASP A 184 CA CA A 405 1555 1555 2.37 LINK OD1 ASP A 223 CA CA A 405 1555 1555 2.75 LINK OD2 ASP A 223 CA CA A 405 1555 1555 2.29 LINK OD1 ASP A 223 CA CA A 407 1555 1555 2.30 LINK OD2 ASP A 223 CA CA A 407 1555 1555 2.41 LINK OD1 ASP A 227 CA CA A 405 1555 1555 2.68 LINK OD2 ASP A 227 CA CA A 405 1555 1555 2.13 LINK CA CA A 405 O HOH A 457 1555 1555 3.11 LINK CA CA A 405 O HOH A 501 1555 1555 2.99 LINK CA CA A 405 O HOH A 858 1555 1555 2.95 LINK CA CA A 405 O6A ADA B 3 1555 1555 2.55 LINK CA CA A 406 O HOH A 564 1555 1555 2.37 LINK CA CA A 406 O HOH A 565 1555 1555 2.32 LINK CA CA A 406 O3 ADA B 1 1555 1555 2.50 LINK CA CA A 406 O5 ADA B 2 1555 1555 2.65 LINK CA CA A 406 O6A ADA B 2 1555 1555 2.32 LINK CA CA A 407 O HOH A 501 1555 1555 2.40 LINK CA CA A 407 O HOH A 524 1555 1555 2.47 LINK CA CA A 407 O HOH A 666 1555 1555 2.78 LINK CA CA A 407 O6B ADA B 2 1555 1555 2.77 LINK CA CA A 407 O5 ADA B 3 1555 1555 2.32 LINK CA CA A 407 O6A ADA B 3 1555 1555 2.32 CISPEP 1 ALA A 280 PRO A 281 0 0.01 CRYST1 50.712 68.694 59.444 90.00 113.02 90.00 P 1 21 1 2 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 0.019719 0.000000 0.008378 0.00000 SCALE2 0.000000 0.014557 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018278 0.00000 MASTER 366 0 8 12 32 0 0 6 0 0 0 31 END