HEADER LYASE 08-AUG-07 2V8I TITLE STRUCTURE OF A FAMILY 2 PECTATE LYASE IN A NATIVE FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PECTATE LYASE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.2.2.2; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA ENTEROCOLITICA; SOURCE 3 ORGANISM_TAXID: 630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LYASE, PERIPLASM, PECTATE LYASE, BETA-ELIMINATION, PECTIN DEGRADATION EXPDTA X-RAY DIFFRACTION AUTHOR D.W.ABBOTT,A.B.BORASTON REVDAT 4 08-MAY-24 2V8I 1 REMARK REVDAT 3 24-FEB-09 2V8I 1 VERSN REVDAT 2 04-DEC-07 2V8I 1 JRNL REMARK REVDAT 1 18-SEP-07 2V8I 0 JRNL AUTH D.W.ABBOTT,A.B.BORASTON JRNL TITL A FAMILY 2 PECTATE LYASE DISPLAYS A RARE FOLD AND TRANSITION JRNL TITL 2 METAL-ASSISTED -ELIMINATION. JRNL REF J.BIOL.CHEM. V. 282 35328 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17881361 JRNL DOI 10.1074/JBC.M705511200 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) : 19.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 105592 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5574 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) : 7173 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.4830 REMARK 3 BIN FREE R VALUE SET COUNT : 388 REMARK 3 BIN FREE R VALUE : 0.5330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4324 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 759 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.00000 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): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.627 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4473 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6064 ; 1.144 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 552 ; 4.925 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 232 ;35.637 ;24.138 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 742 ;12.453 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;16.087 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 625 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3526 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2350 ; 0.198 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3081 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 662 ; 0.139 ; 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): 35 ; 0.276 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 50 ; 0.149 ; 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): 2786 ; 0.690 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4342 ; 1.080 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1933 ; 1.706 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1719 ; 2.674 ; 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 2V8I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1290033433. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5148 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 105592 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 19.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 29.24300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.30400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.82100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.30400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.24300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.82100 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 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 NE2 GLN A 502 I IOD A 1588 1.99 REMARK 500 OD2 ASP A 221 I IOD A 1589 2.05 REMARK 500 ND2 ASN A 356 I IOD A 1587 2.06 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 18 -72.20 -79.42 REMARK 500 GLU A 126 58.80 -145.21 REMARK 500 LEU A 182 -124.12 46.08 REMARK 500 SER A 200 44.12 -79.06 REMARK 500 SER A 301 -73.69 -118.84 REMARK 500 ASP A 341 19.03 -141.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2054 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A2096 DISTANCE = 6.39 ANGSTROMS REMARK 525 HOH A2108 DISTANCE = 6.94 ANGSTROMS REMARK 525 HOH A2109 DISTANCE = 6.33 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1547 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1548 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1549 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1550 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1551 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1552 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1553 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1554 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1555 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1556 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1557 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1558 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1559 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1560 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1561 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1562 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1563 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1564 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1565 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1566 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1567 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1568 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1569 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1570 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1571 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1572 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1573 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1574 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1575 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1576 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1578 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1580 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1581 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1582 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1584 REMARK 800 REMARK 800 SITE_IDENTIFIER: DC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1585 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1586 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1587 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1588 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1589 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1590 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1591 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1592 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1593 REMARK 800 REMARK 800 SITE_IDENTIFIER: EC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1596 REMARK 800 REMARK 800 SITE_IDENTIFIER: FC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A1597 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2V8J RELATED DB: PDB REMARK 900 STRUCTURE OF A FAMILY 2 PECTATE LYASE IN COMPLEX WITH A TRANSITION REMARK 900 METAL REMARK 900 RELATED ID: 2V8K RELATED DB: PDB REMARK 900 STRUCTURE OF A FAMILY 2 PECTATE LYASE IN COMPLEX WITH REMARK 900 TRIGALACTURONIC ACID REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE GENBANK ACCESSION IS CAL14085.1 DBREF 2V8I A 4 546 PDB 2V8I 2V8I 4 546 SEQRES 1 A 543 ASP ARG LEU THR VAL VAL LYS GLN TYR VAL ASP ASN VAL SEQRES 2 A 543 LEU ASN LYS ALA SER ASP THR TYR HIS GLY ASP LYS PRO SEQRES 3 A 543 SER PRO LEU LEU ALA ASP GLY VAL ASP PRO ARG THR GLY SEQRES 4 A 543 GLN GLN LEU GLU TRP ILE PHE PRO ASP GLY ARG ARG ALA SEQRES 5 A 543 VAL LEU SER ASN PHE SER ALA GLN GLN ASN LEU MET ARG SEQRES 6 A 543 VAL MET SER GLY LEU SER GLN LEU SER GLY ASP PRO ARG SEQRES 7 A 543 TYR GLN LYS ARG ALA GLU ASP ILE VAL ARG TYR HIS PHE SEQRES 8 A 543 GLN ASN TYR GLN ASP PRO SER GLY LEU LEU TYR TRP GLY SEQRES 9 A 543 GLY HIS ARG PHE VAL ASP LEU LYS THR LEU GLN PRO GLU SEQRES 10 A 543 GLY PRO SER GLU LYS GLU MET VAL HIS GLU LEU LYS ASN SEQRES 11 A 543 ALA TYR PRO TYR TYR ASP LEU MET PHE SER VAL ASP SER SEQRES 12 A 543 ASP ALA THR ALA ARG PHE ILE ARG GLY PHE TRP ASN ALA SEQRES 13 A 543 HIS VAL TYR ASP TRP ARG ILE LEU GLU THR SER ARG HIS SEQRES 14 A 543 GLY GLU TYR GLY LYS PRO MET GLY ALA LEU TRP GLU SER SEQRES 15 A 543 LYS PHE GLU GLN GLN PRO PRO PHE PHE ALA THR LYS GLY SEQRES 16 A 543 LEU SER PHE LEU ASN ALA GLY ASN ASP LEU ILE TYR SER SEQRES 17 A 543 ALA SER LEU LEU TYR LYS HIS GLN GLN ASP GLN GLY ALA SEQRES 18 A 543 LEU THR TRP ALA LYS ARG LEU ALA ASP GLN TYR VAL LEU SEQRES 19 A 543 PRO ARG ASP ALA LYS THR GLY LEU GLY VAL TYR GLN PHE SEQRES 20 A 543 THR GLN ALA LEU LYS ARG GLU GLU PRO THR ASP ASP ALA SEQRES 21 A 543 ASP THR HIS SER LYS PHE GLY ASP ARG ALA GLN ARG GLN SEQRES 22 A 543 PHE GLY PRO GLU PHE GLY PRO THR ALA LEU GLU GLY ASN SEQRES 23 A 543 MET MET LEU LYS GLY ARG THR SER THR LEU TYR SER GLU SEQRES 24 A 543 ASN ALA LEU MET GLN LEU GLN LEU GLY LYS ASP LEU GLY SEQRES 25 A 543 PRO GLN GLY GLN ASP LEU LEU LYS TRP THR VAL ASP GLY SEQRES 26 A 543 LEU LYS ALA PHE ALA LYS TYR ALA TYR ASN ASP GLN ASP SEQRES 27 A 543 ASN THR PHE ARG PRO MET ILE ALA ASN GLY GLN ASP LEU SEQRES 28 A 543 SER ASN TYR THR LEU PRO ARG ASP GLY TYR TYR GLY LYS SEQRES 29 A 543 LYS GLY THR VAL LEU LYS PRO TYR LYS ALA GLY ASN GLU SEQRES 30 A 543 PHE LEU ILE SER TYR ALA ARG ALA TYR ALA ILE ASP ASN SEQRES 31 A 543 ASP PRO LEU LEU TRP LYS VAL ALA ARG GLY ILE ALA ASN SEQRES 32 A 543 ASP GLN GLY LEU GLY ASP ILE GLY THR ALA PRO GLY LYS SEQRES 33 A 543 GLU VAL LYS VAL ASN MET ASP THR THR ASN SER ASP PRO SEQRES 34 A 543 TYR ALA LEU PHE ALA LEU LEU ASP LEU TYR HIS ALA SER SEQRES 35 A 543 GLN VAL ALA ASP TYR ARG LYS LEU ALA GLU LYS ILE GLY SEQRES 36 A 543 ASP ASN ILE ILE LYS ILE ARG TYR ILE ASP GLY PHE PHE SEQRES 37 A 543 MET ALA SER SER ASP ARG GLN TYR ALA ASP VAL ASP ALA SEQRES 38 A 543 ILE GLU PRO TYR ALA LEU LEU ALA LEU GLU ALA SER LEU SEQRES 39 A 543 ARG ASN LYS PRO GLN ALA VAL ALA PRO PHE LEU ASN GLY SEQRES 40 A 543 ALA GLY PHE THR GLU GLY ALA TYR ARG MET ASP ASP GLY SEQRES 41 A 543 SER ALA ARG VAL SER THR ARG ASP ASN GLU LEU PHE LEU SEQRES 42 A 543 LEU ASN VAL GLY GLU LYS LEU GLN PRO ASN HET IOD A1547 1 HET IOD A1548 1 HET IOD A1549 1 HET IOD A1550 1 HET IOD A1551 1 HET IOD A1552 1 HET IOD A1553 1 HET IOD A1554 1 HET IOD A1555 1 HET IOD A1556 1 HET IOD A1557 1 HET IOD A1558 1 HET IOD A1559 1 HET IOD A1560 1 HET IOD A1561 1 HET IOD A1562 1 HET IOD A1563 1 HET IOD A1564 1 HET IOD A1565 1 HET IOD A1566 1 HET IOD A1567 1 HET IOD A1568 1 HET IOD A1569 1 HET IOD A1570 1 HET IOD A1571 1 HET IOD A1572 1 HET IOD A1573 1 HET IOD A1574 1 HET IOD A1575 1 HET IOD A1576 1 HET IOD A1577 1 HET IOD A1578 1 HET IOD A1579 1 HET IOD A1580 1 HET IOD A1581 1 HET IOD A1582 1 HET IOD A1583 1 HET IOD A1584 1 HET IOD A1585 1 HET IOD A1586 1 HET IOD A1587 1 HET IOD A1588 1 HET IOD A1589 1 HET IOD A1590 1 HET IOD A1591 1 HET IOD A1592 1 HET IOD A1593 1 HET IOD A1594 1 HET IOD A1595 1 HET IOD A1596 1 HET IOD A1597 1 HETNAM IOD IODIDE ION FORMUL 2 IOD 51(I 1-) FORMUL 53 HOH *759(H2 O) HELIX 1 1 ASP A 4 ALA A 20 1 17 HELIX 2 2 ASN A 59 ALA A 62 5 4 HELIX 3 3 GLN A 63 GLY A 78 1 16 HELIX 4 4 PRO A 80 TYR A 97 1 18 HELIX 5 5 TYR A 137 ASP A 145 1 9 HELIX 6 6 ASP A 145 HIS A 160 1 16 HELIX 7 7 ALA A 181 SER A 185 5 5 HELIX 8 8 PHE A 201 GLN A 220 1 20 HELIX 9 9 ASP A 221 TYR A 235 1 15 HELIX 10 10 HIS A 266 GLY A 270 5 5 HELIX 11 11 ASP A 271 GLY A 282 1 12 HELIX 12 12 LEU A 286 GLY A 288 5 3 HELIX 13 13 GLY A 294 SER A 301 1 8 HELIX 14 14 SER A 301 GLY A 315 1 15 HELIX 15 15 GLY A 318 ALA A 336 1 19 HELIX 16 16 GLY A 378 ASP A 392 1 15 HELIX 17 17 ASP A 394 GLN A 408 1 15 HELIX 18 18 ASP A 431 GLN A 446 1 16 HELIX 19 19 VAL A 447 ARG A 465 1 19 HELIX 20 20 ILE A 485 ARG A 498 1 14 HELIX 21 21 LYS A 500 VAL A 504 5 5 HELIX 22 22 ASP A 531 PHE A 535 1 5 SHEET 1 AA 2 GLY A 36 VAL A 37 0 SHEET 2 AA 2 ALA A 480 ASP A 481 -1 O ALA A 480 N VAL A 37 SHEET 1 AB 4 GLU A 46 ILE A 48 0 SHEET 2 AB 4 ARG A 54 SER A 58 -1 O ALA A 55 N TRP A 47 SHEET 3 AB 4 PHE A 111 ASP A 113 -1 O VAL A 112 N SER A 58 SHEET 4 AB 4 PRO A 119 GLU A 120 -1 O GLU A 120 N PHE A 111 SHEET 1 AC 2 VAL A 161 ASP A 163 0 SHEET 2 AC 2 GLU A 168 THR A 169 -1 O GLU A 168 N TYR A 162 SHEET 1 AD 2 PHE A 194 THR A 196 0 SHEET 2 AD 2 THR A 251 ALA A 253 1 O GLN A 252 N THR A 196 SHEET 1 AE 2 MET A 290 MET A 291 0 SHEET 2 AE 2 MET A 347 ILE A 348 -1 O MET A 347 N MET A 291 SHEET 1 AF 3 TYR A 337 ASN A 338 0 SHEET 2 AF 3 THR A 343 PHE A 344 -1 O THR A 343 N ASN A 338 SHEET 3 AF 3 TYR A 375 LYS A 376 -1 O TYR A 375 N PHE A 344 SHEET 1 AG 2 TYR A 357 THR A 358 0 SHEET 2 AG 2 VAL A 371 LEU A 372 -1 N LEU A 372 O TYR A 357 SHEET 1 AH 2 GLY A 411 ASP A 412 0 SHEET 2 AH 2 LYS A 422 VAL A 423 -1 O LYS A 422 N ASP A 412 SHEET 1 AI 2 TYR A 466 ILE A 467 0 SHEET 2 AI 2 PHE A 470 PHE A 471 -1 O PHE A 470 N ILE A 467 SHEET 1 AJ 2 GLU A 515 ARG A 519 0 SHEET 2 AJ 2 ALA A 525 ARG A 530 -1 O ARG A 526 N TYR A 518 CISPEP 1 GLY A 246 VAL A 247 0 -6.57 SITE 1 AC1 2 HIS A 443 SER A 496 SITE 1 AC2 2 PRO A 545 IOD A1597 SITE 1 AC3 2 SER A 123 IOD A1552 SITE 1 AC4 1 GLN A 544 SITE 1 AC5 2 SER A 430 HOH A2599 SITE 1 AC6 6 GLY A 516 ALA A 517 SER A 528 IOD A1549 SITE 2 AC6 6 IOD A1576 HOH A2726 SITE 1 AC7 2 LYS A 368 ALA A 448 SITE 1 AC8 3 LEU A 543 HOH A2290 HOH A2315 SITE 1 AC9 2 LEU A 199 HOH A2357 SITE 1 BC1 2 ARG A 451 HOH A2652 SITE 1 BC2 2 ARG A 402 HOH A2519 SITE 1 BC3 3 THR A 428 HOH A2601 HOH A2627 SITE 1 BC4 1 LYS A 255 SITE 1 BC5 4 TRP A 183 HOH A2041 HOH A2133 HOH A2333 SITE 1 BC6 2 ASP A 4 HOH A2657 SITE 1 BC7 2 GLU A 184 HOH A2131 SITE 1 BC8 2 LYS A 312 HOH A2486 SITE 1 BC9 6 ASP A 145 SER A 146 ASP A 147 GLU A 174 SITE 2 BC9 6 HOH A2221 HOH A2249 SITE 1 CC1 4 ASP A 88 ARG A 91 IOD A1573 IOD A1591 SITE 1 CC2 1 GLN A 544 SITE 1 CC3 4 ARG A 530 ASN A 532 IOD A1572 HOH A2742 SITE 1 CC4 5 PRO A 316 GLN A 317 GLY A 318 GLN A 319 SITE 2 CC4 5 ASP A 320 SITE 1 CC5 3 ARG A 81 ARG A 85 HOH A2136 SITE 1 CC6 3 ARG A 91 VAL A 144 HOH A2247 SITE 1 CC7 3 LYS A 293 IOD A1593 HOH A2568 SITE 1 CC8 4 ARG A 530 IOD A1567 HOH A2107 HOH A2323 SITE 1 CC9 3 PRO A 31 IOD A1565 HOH A2018 SITE 1 DC1 1 HOH A2640 SITE 1 DC2 1 IOD A1578 SITE 1 DC3 4 GLU A 124 IOD A1552 HOH A2212 HOH A2726 SITE 1 DC4 2 IOD A1575 HOH A2085 SITE 1 DC5 1 LYS A 268 SITE 1 DC6 1 ARG A 54 SITE 1 DC7 2 HOH A2053 HOH A2111 SITE 1 DC8 2 GLY A 176 LYS A 177 SITE 1 DC9 1 ARG A 256 SITE 1 EC1 3 GLY A 315 PRO A 316 GLN A 319 SITE 1 EC2 2 ASN A 356 HOH A2537 SITE 1 EC3 3 LYS A 500 GLN A 502 HOH A2713 SITE 1 EC4 5 ARG A 154 LEU A 215 ASP A 221 HOH A2092 SITE 2 EC4 5 HOH A2215 SITE 1 EC5 1 PHE A 187 SITE 1 EC6 1 IOD A1565 SITE 1 EC7 3 TYR A 210 HOH A2242 HOH A2494 SITE 1 EC8 3 IOD A1571 HOH A2472 HOH A2556 SITE 1 EC9 1 ILE A 391 SITE 1 FC1 1 IOD A1548 CRYST1 58.486 95.642 126.608 90.00 90.00 90.00 P 21 21 21 4 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 0.017098 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010456 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007898 0.00000