HEADER LYASE 18-JUN-10 3NJX TITLE RHAMNOGALACTURONAN LYASE FROM ASPERGILLUS ACULEATUS MUTANT H210A COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHAMNOGALACTURONASE B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RHAMNOGALACTURONASE B, RESIDUES 20-527; COMPND 5 SYNONYM: RHAMNOGALACTURONAN LYASE, RGASE B, RHG B; COMPND 6 EC: 4.2.2.10; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS ACULEATUS; SOURCE 3 ORGANISM_TAXID: 5053; SOURCE 4 GENE: RHGB; SOURCE 5 EXPRESSION_SYSTEM: ASPERGILLUS ORYZAE; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 5062 KEYWDS CARBOHYDRATE ACTIVE ENZYME, LYASE, PECTIN DEGRADATION, POLYSACCHARIDE KEYWDS 2 LYASE FAMILY 4 EXPDTA X-RAY DIFFRACTION AUTHOR M.H.JENSEN,H.OTTEN,U.CHRISTENSEN,T.V.BORCHERT,L.L.H.CHRISTENSEN, AUTHOR 2 S.LARSEN,L.LO LEGGIO REVDAT 2 17-NOV-10 3NJX 1 JRNL REVDAT 1 06-OCT-10 3NJX 0 JRNL AUTH M.H.JENSEN,H.OTTEN,U.CHRISTENSEN,T.V.BORCHERT, JRNL AUTH 2 L.L.CHRISTENSEN,S.LARSEN,L.L.LEGGIO JRNL TITL STRUCTURAL AND BIOCHEMICAL STUDIES ELUCIDATE THE MECHANISM JRNL TITL 2 OF RHAMNOGALACTURONAN LYASE FROM ASPERGILLUS ACULEATUS. JRNL REF J.MOL.BIOL. V. 404 100 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20851126 JRNL DOI 10.1016/J.JMB.2010.09.013 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 33629 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1766 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2305 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3810 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 725 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.18000 REMARK 3 B22 (A**2) : -0.18000 REMARK 3 B33 (A**2) : 0.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.887 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3926 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5354 ; 0.993 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 509 ; 6.514 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 160 ;32.159 ;23.625 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 576 ;10.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;20.059 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 599 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3006 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1775 ; 0.168 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2656 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 625 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.086 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 45 ; 0.146 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 54 ; 0.088 ; 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): 2586 ; 0.234 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4059 ; 0.417 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1560 ; 0.610 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1295 ; 0.873 ; 4.500 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 3NJX COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUN-10. REMARK 100 THE RCSB ID CODE IS RCSB059922. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-AUG-05 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35438 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 70.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : 0.11300 REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.6 REMARK 200 DATA REDUNDANCY IN SHELL : 9.10 REMARK 200 R MERGE FOR SHELL (I) : 0.30500 REMARK 200 R SYM FOR SHELL (I) : 0.30500 REMARK 200 FOR SHELL : 6.800 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: PDB ENTRY 1NKG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG4000, 0.1 M AMMONIUM SULPHATE REMARK 280 WITH 9% PEG400 AS CRYO PROTECTANT, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 85.54950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.53550 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.53550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 128.32425 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.53550 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.53550 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 42.77475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.53550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.53550 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 128.32425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.53550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.53550 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 42.77475 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 85.54950 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 300 REMARK: MONOMER 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 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 639 O HOH A 777 2.10 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 GLN A 20 121.01 66.01 REMARK 500 ASP A 160 64.98 -113.34 REMARK 500 ASN A 194 106.15 -166.08 REMARK 500 ARG A 230 -79.52 -76.08 REMARK 500 THR A 338 -92.79 -127.55 REMARK 500 VAL A 397 -61.05 -120.65 REMARK 500 ASN A 435 -114.39 52.95 REMARK 500 TYR A 458 -14.95 -153.52 REMARK 500 SER A 487 149.59 177.86 REMARK 500 THR A 493 -111.62 36.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TYR A 203 TRP A 204 146.55 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 800 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 349 OD1 REMARK 620 2 GLN A 351 O 84.3 REMARK 620 3 HOH A 848 O 91.8 102.6 REMARK 620 4 ASP A 502 O 164.6 95.7 103.1 REMARK 620 5 GLU A 347 O 86.9 163.7 91.5 89.1 REMARK 620 6 ASP A 502 OD2 88.1 85.1 172.3 76.6 80.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 904 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NKG RELATED DB: PDB REMARK 900 NATIVE RHAMNOGALACTURONAN LYASE REMARK 900 RELATED ID: 3NJV RELATED DB: PDB REMARK 900 RHAMNOGALACTURONAN LYASE MUTANT K150A SUBSTRATE COMPLEX DBREF 3NJX A 1 508 UNP Q00019 RHGB_ASPAC 20 527 SEQADV 3NJX ALA A 210 UNP Q00019 HIS 229 ENGINEERED MUTATION SEQRES 1 A 508 ALA PHE GLY ILE THR THR SER SER SER ALA TYR VAL ILE SEQRES 2 A 508 ASP THR ASN ALA PRO ASN GLN LEU LYS PHE THR VAL SER SEQRES 3 A 508 ARG SER SER CYS ASP ILE THR SER ILE ILE HIS TYR GLY SEQRES 4 A 508 THR GLU LEU GLN TYR SER SER GLN GLY SER HIS ILE GLY SEQRES 5 A 508 SER GLY LEU GLY SER ALA THR VAL THR ALA THR GLN SER SEQRES 6 A 508 GLY ASP TYR ILE LYS VAL THR CYS VAL THR ASP THR LEU SEQRES 7 A 508 THR GLN TYR MET VAL VAL HIS ASN GLY ASP PRO ILE ILE SEQRES 8 A 508 HIS MET ALA THR TYR ILE THR ALA GLU PRO SER ILE GLY SEQRES 9 A 508 GLU LEU ARG PHE ILE ALA ARG LEU ASN SER ASP LEU LEU SEQRES 10 A 508 PRO ASN GLU GLU PRO PHE GLY ASP VAL SER THR THR ALA SEQRES 11 A 508 ASP GLY THR ALA ILE GLU GLY SER ASP VAL PHE LEU VAL SEQRES 12 A 508 GLY SER GLU THR ARG SER LYS PHE TYR SER SER GLU ARG SEQRES 13 A 508 PHE ILE ASP ASP GLN ARG HIS CYS ILE ALA GLY ASP ALA SEQRES 14 A 508 HIS ARG VAL CYS MET ILE LEU ASN GLN TYR GLU SER SER SEQRES 15 A 508 SER GLY GLY PRO PHE HIS ARG ASP ILE ASN SER ASN ASN SEQRES 16 A 508 GLY GLY SER TYR ASN ALA LEU TYR TRP TYR MET ASN SER SEQRES 17 A 508 GLY ALA VAL GLN THR GLU SER TYR ARG MET GLY LEU HIS SEQRES 18 A 508 GLY PRO TYR SER MET TYR PHE SER ARG SER GLY THR PRO SEQRES 19 A 508 SER THR SER ILE ASP THR SER PHE PHE ALA ASP LEU ASP SEQRES 20 A 508 ILE LYS GLY TYR VAL ALA ALA SER GLY ARG GLY LYS VAL SEQRES 21 A 508 ALA GLY THR ALA SER GLY ALA ASP SER SER MET ASP TRP SEQRES 22 A 508 VAL VAL HIS TRP TYR ASN ASP ALA ALA GLN TYR TRP THR SEQRES 23 A 508 TYR THR SER SER SER GLY SER PHE THR SER PRO ALA MET SEQRES 24 A 508 LYS PRO GLY THR TYR THR MET VAL TYR TYR GLN GLY GLU SEQRES 25 A 508 TYR ALA VAL ALA THR SER SER VAL THR VAL SER ALA GLY SEQRES 26 A 508 SER THR THR THR LYS ASN ILE SER GLY SER VAL LYS THR SEQRES 27 A 508 GLY THR THR ILE PHE LYS ILE GLY GLU TRP ASP GLY GLN SEQRES 28 A 508 PRO THR GLY PHE ARG ASN ALA ALA ASN GLN LEU ARG MET SEQRES 29 A 508 HIS PRO SER ASP SER ARG MET SER SER TRP GLY PRO LEU SEQRES 30 A 508 THR TYR THR VAL GLY SER SER ALA LEU THR ASP PHE PRO SEQRES 31 A 508 MET ALA VAL PHE LYS SER VAL ASN ASN PRO VAL THR ILE SEQRES 32 A 508 LYS PHE THR ALA THR SER ALA GLN THR GLY ALA ALA THR SEQRES 33 A 508 LEU ARG ILE GLY THR THR LEU SER PHE ALA GLY GLY ARG SEQRES 34 A 508 PRO GLN ALA THR ILE ASN SER TYR THR GLY SER ALA PRO SEQRES 35 A 508 ALA ALA PRO THR ASN LEU ASP SER ARG GLY VAL THR ARG SEQRES 36 A 508 GLY ALA TYR ARG GLY LEU GLY GLU VAL TYR ASP VAL SER SEQRES 37 A 508 ILE PRO SER GLY THR ILE VAL ALA GLY THR ASN THR ILE SEQRES 38 A 508 THR ILE ASN VAL ILE SER GLY SER SER GLY ASP THR TYR SEQRES 39 A 508 LEU SER PRO ASN PHE ILE PHE ASP CYS VAL GLU LEU PHE SEQRES 40 A 508 GLN HET CA A 800 1 HET SO4 A 901 5 HET SO4 A 902 5 HET SO4 A 903 5 HET SO4 A 904 5 HETNAM CA CALCIUM ION HETNAM SO4 SULFATE ION FORMUL 2 CA CA 2+ FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *725(H2 O) HELIX 1 1 GLY A 124 THR A 128 5 5 HELIX 2 2 PHE A 151 SER A 154 5 4 HELIX 3 3 ARG A 156 ASP A 160 5 5 HELIX 4 4 THR A 240 LEU A 246 5 7 HELIX 5 5 ALA A 253 ARG A 257 5 5 HELIX 6 6 ASN A 357 LEU A 362 1 6 HELIX 7 7 ALA A 385 PHE A 389 5 5 HELIX 8 8 THR A 408 THR A 412 5 5 HELIX 9 9 ASP A 492 SER A 496 5 5 SHEET 1 A 5 GLY A 3 THR A 6 0 SHEET 2 A 5 ALA A 10 ASP A 14 -1 O VAL A 12 N THR A 5 SHEET 3 A 5 LEU A 21 SER A 26 -1 O PHE A 23 N ILE A 13 SHEET 4 A 5 ILE A 32 HIS A 37 -1 O ILE A 36 N LYS A 22 SHEET 5 A 5 THR A 40 GLU A 41 -1 O THR A 40 N HIS A 37 SHEET 1 B 4 HIS A 50 ILE A 51 0 SHEET 2 B 4 LEU A 106 LEU A 112 -1 O ILE A 109 N HIS A 50 SHEET 3 B 4 ASN A 200 ASN A 207 -1 O LEU A 202 N ALA A 110 SHEET 4 B 4 SER A 193 ASN A 195 -1 N ASN A 194 O ALA A 201 SHEET 1 C 8 THR A 59 SER A 65 0 SHEET 2 C 8 TYR A 68 VAL A 74 -1 O TYR A 68 N SER A 65 SHEET 3 C 8 LEU A 78 HIS A 85 -1 O MET A 82 N VAL A 71 SHEET 4 C 8 ILE A 90 ILE A 97 -1 O HIS A 92 N VAL A 83 SHEET 5 C 8 GLY A 219 SER A 229 -1 O TYR A 224 N MET A 93 SHEET 6 C 8 ARG A 171 ILE A 175 -1 N ARG A 171 O SER A 229 SHEET 7 C 8 ARG A 162 ALA A 166 -1 N HIS A 163 O MET A 174 SHEET 8 C 8 ASN A 119 GLU A 121 -1 N GLU A 121 O CYS A 164 SHEET 1 D 3 THR A 133 GLU A 136 0 SHEET 2 D 3 VAL A 140 VAL A 143 -1 O VAL A 140 N ILE A 135 SHEET 3 D 3 GLU A 146 SER A 149 -1 O ARG A 148 N PHE A 141 SHEET 1 E 3 SER A 293 THR A 295 0 SHEET 2 E 3 LYS A 259 SER A 265 -1 N GLY A 262 O PHE A 294 SHEET 3 E 3 THR A 327 THR A 329 1 O THR A 328 N LYS A 259 SHEET 1 F 3 SER A 293 THR A 295 0 SHEET 2 F 3 LYS A 259 SER A 265 -1 N GLY A 262 O PHE A 294 SHEET 3 F 3 ILE A 332 SER A 333 1 O ILE A 332 N THR A 263 SHEET 1 G 4 GLN A 283 TYR A 287 0 SHEET 2 G 4 TRP A 273 TYR A 278 -1 N TRP A 277 O TYR A 284 SHEET 3 G 4 GLY A 302 GLN A 310 -1 O TYR A 309 N VAL A 274 SHEET 4 G 4 TYR A 313 VAL A 322 -1 O VAL A 320 N TYR A 304 SHEET 1 H 3 THR A 341 GLY A 346 0 SHEET 2 H 3 ASN A 498 PHE A 507 -1 O VAL A 504 N ILE A 345 SHEET 3 H 3 ALA A 392 PHE A 394 -1 N VAL A 393 O PHE A 499 SHEET 1 I 4 THR A 341 GLY A 346 0 SHEET 2 I 4 ASN A 498 PHE A 507 -1 O VAL A 504 N ILE A 345 SHEET 3 I 4 ALA A 415 PHE A 425 -1 N ARG A 418 O GLU A 505 SHEET 4 I 4 VAL A 464 ILE A 469 -1 O ILE A 469 N ALA A 415 SHEET 1 J 5 THR A 378 THR A 380 0 SHEET 2 J 5 VAL A 401 ALA A 407 1 O THR A 402 N TYR A 379 SHEET 3 J 5 GLY A 477 ILE A 486 -1 O ILE A 481 N ILE A 403 SHEET 4 J 5 ARG A 429 ILE A 434 -1 N ARG A 429 O ILE A 486 SHEET 5 J 5 TYR A 437 THR A 438 -1 O TYR A 437 N ILE A 434 SSBOND 1 CYS A 30 CYS A 73 1555 1555 2.02 SSBOND 2 CYS A 164 CYS A 173 1555 1555 2.03 LINK OD1 ASP A 349 CA CA A 800 1555 1555 2.29 LINK O GLN A 351 CA CA A 800 1555 1555 2.32 LINK CA CA A 800 O HOH A 848 1555 1555 2.40 LINK O ASP A 502 CA CA A 800 1555 1555 2.40 LINK O GLU A 347 CA CA A 800 1555 1555 2.43 LINK OD2 ASP A 502 CA CA A 800 1555 1555 2.48 CISPEP 1 GLU A 121 PRO A 122 0 6.64 CISPEP 2 GLY A 222 PRO A 223 0 6.35 CISPEP 3 GLY A 375 PRO A 376 0 4.41 CISPEP 4 ASN A 399 PRO A 400 0 -3.43 SITE 1 AC1 5 GLU A 347 ASP A 349 GLN A 351 ASP A 502 SITE 2 AC1 5 HOH A 848 SITE 1 AC2 8 ASN A 19 ARG A 230 SER A 231 GLY A 232 SITE 2 AC2 8 HOH A 961 HOH A 962 HOH A 976 HOH A1056 SITE 1 AC3 4 LYS A 395 SER A 490 HOH A 778 HOH A 866 SITE 1 AC4 4 ARG A 429 SER A 487 GLY A 488 HOH A1022 SITE 1 AC5 5 GLN A 47 SER A 53 ARG A 107 ARG A 111 SITE 2 AC5 5 HOH A 637 CRYST1 77.071 77.071 171.099 90.00 90.00 90.00 P 43 21 2 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 0.012975 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012975 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005845 0.00000 MASTER 337 0 5 9 42 0 8 6 0 0 0 40 END