HEADER HYDROLASE 19-OCT-15 5FKR TITLE UNRAVELING THE FIRST STEP OF XYLOGLUCAN DEGRADATION BY THE SOIL TITLE 2 SAPROPHYTE CELLVIBRIO JAPONICUS THROUGH THE FUNCTIONAL AND STRUCTURAL TITLE 3 CHARACTERIZATION OF A POTENT GH74 ENDO-XYLOGLUCANASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-GLUCANASE/XYLOGLUCANASE, PUTATIVE, GLY74A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, RESIDUES 35-765; COMPND 5 SYNONYM: GH74 ENDO-XYLOGLUCANASE; COMPND 6 EC: 3.2.1.-, 3.2.1.151; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CELLVIBRIO JAPONICUS; SOURCE 3 ORGANISM_TAXID: 498211; SOURCE 4 STRAIN: UEDA107; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS HYDROLASE, CELLVIBRIO JAPONICUS, XYLOGLUCAN SACCHARIFICATION, KEYWDS 2 GLYCOSIDE HYDROLASE, CARBOHYDRATE BINDING MODULE, GREEN FLUORESCENT KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.ATTIA,J.STEPPER,G.J.DAVIES,H.BRUMER REVDAT 5 10-JAN-24 5FKR 1 REMARK LINK REVDAT 4 13-SEP-17 5FKR 1 REMARK REVDAT 3 18-MAY-16 5FKR 1 JRNL REVDAT 2 16-MAR-16 5FKR 1 JRNL REVDAT 1 25-NOV-15 5FKR 0 JRNL AUTH M.ATTIA,J.STEPPER,G.J.DAVIES,H.BRUMER JRNL TITL FUNCTIONAL AND STRUCTURAL CHARACTERIZATION OF A POTENT GH74 JRNL TITL 2 ENDO-XYLOGLUCANASE FROM THE SOIL SAPROPHYTE CELLVIBRIO JRNL TITL 3 JAPONICUS UNRAVELS THE FIRST STEP OF XYLOGLUCAN DEGRADATION. JRNL REF FEBS J. V. 283 1701 2016 JRNL REFN ISSN 1742-464X JRNL PMID 26929175 JRNL DOI 10.1111/FEBS.13696 REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 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) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 37512 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1948 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) : 2.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2718 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5538 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.89000 REMARK 3 B22 (A**2) : 6.14000 REMARK 3 B33 (A**2) : -4.25000 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): 0.303 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.243 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.219 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.602 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.900 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5702 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 5086 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7795 ; 1.658 ; 1.916 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11665 ; 1.023 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 730 ; 7.594 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 249 ;34.785 ;23.815 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 781 ;13.813 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;16.650 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 826 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6682 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1399 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2923 ; 1.840 ; 2.853 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2922 ; 1.840 ; 2.852 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3652 ; 2.805 ; 4.271 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3653 ; 2.805 ; 4.272 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2779 ; 1.804 ; 2.947 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2779 ; 1.804 ; 2.947 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4144 ; 2.750 ; 4.376 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6425 ; 4.294 ;22.931 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6406 ; 4.265 ;22.943 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. U VALUES, REFINED INDIVIDUALLY REMARK 4 REMARK 4 5FKR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1290065304. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39506 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.280 REMARK 200 RESOLUTION RANGE LOW (A) : 73.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.62000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 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: 4LGN REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS (PH 7.8), 0.3 M POTASSIUM REMARK 280 BROMIDE, 8 % PGA-LM REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 43.94500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 65.95500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.94500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 65.95500 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: PISA 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: 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 45 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 749 NE - CZ - NH1 ANGL. DEV. = 3.0 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 36 111.47 -161.04 REMARK 500 ASP A 47 104.83 77.23 REMARK 500 ASP A 110 87.73 -165.77 REMARK 500 ASN A 364 44.15 -142.01 REMARK 500 THR A 376 -93.42 -107.48 REMARK 500 TRP A 394 -9.94 -54.49 REMARK 500 ASN A 424 105.54 -176.07 REMARK 500 ASP A 483 -33.38 62.54 REMARK 500 THR A 502 63.90 39.25 REMARK 500 SER A 529 24.83 -79.47 REMARK 500 ALA A 570 79.17 -105.77 REMARK 500 ALA A 592 -39.03 111.02 REMARK 500 ALA A 613 116.04 -161.48 REMARK 500 ARG A 640 27.23 -146.79 REMARK 500 THR A 661 -105.43 -137.21 REMARK 500 ASN A 718 45.67 -141.75 REMARK 500 ASN A 755 73.67 -117.44 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 K A1767 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 300 O REMARK 620 2 TYR A 329 O 85.5 REMARK 620 3 ILE A 351 O 76.5 84.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1766 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1767 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1768 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FKQ RELATED DB: PDB REMARK 900 UNRAVELING THE FIRST STEP OF XYLOGLUCAN DEGRADATION BY THE SOIL REMARK 900 SAPROPHYTE CELLVIBRIO JAPONICUS THROUGH THE FUNCTIONAL AND REMARK 900 STRUCTURAL CHARACTERIZATION OF A POTENT GH74 ENDO-XYLOGLUCANASE REMARK 900 RELATED ID: 5FKS RELATED DB: PDB REMARK 900 UNRAVELING THE FIRST STEP OF XYLOGLUCAN DEGRADATION BY THE SOIL REMARK 900 SAPROPHYTE CELLVIBRIO JAPONICUS THROUGH THE FUNCTIONAL AND REMARK 900 STRUCTURAL CHARACTERIZATION OF A POTENT GH74 ENDO-XYLOGLUCANASE REMARK 900 RELATED ID: 5FKT RELATED DB: PDB REMARK 900 UNRAVELING THE FIRST STEP OF XYLOGLUCAN DEGRADATION BY THE SOIL REMARK 900 SAPROPHYTE CELLVIBRIO JAPONICUS THROUGH THE FUNCTIONAL AND REMARK 900 STRUCTURAL CHARACTERIZATION OF A POTENT GH74 ENDO-XYLOGLUCANASE DBREF 5FKR A 35 765 UNP B3PKK9 B3PKK9_CELJU 35 765 SEQRES 1 A 731 PRO SER GLU ASN TYR THR TRP LYS ASN VAL ARG ILE ASP SEQRES 2 A 731 GLY GLY GLY PHE VAL PRO GLY ILE ILE PHE ASN GLN LYS SEQRES 3 A 731 GLU ALA ASP LEU ILE TYR ALA ARG THR ASP ILE GLY GLY SEQRES 4 A 731 ALA TYR ARG TRP ASN SER ALA THR SER SER TRP ILE PRO SEQRES 5 A 731 LEU LEU ASP TRP VAL GLY TRP ASP ASN TRP GLY TRP ASN SEQRES 6 A 731 GLY VAL MET SER LEU ALA THR ASP ALA ALA ASP PRO ASN SEQRES 7 A 731 ARG VAL TYR ALA ALA VAL GLY MET TYR THR ASN THR TRP SEQRES 8 A 731 ASP PRO ASN ASN GLY ALA ILE LEU ARG SER THR ASP ARG SEQRES 9 A 731 GLY ASN THR TRP GLN ALA THR PRO LEU PRO PHE LYS VAL SEQRES 10 A 731 GLY GLY ASN MET PRO GLY ARG GLY MET GLY GLU ARG LEU SEQRES 11 A 731 ALA ILE ASP PRO ASN ARG ASN SER ILE ILE TYR TYR GLY SEQRES 12 A 731 ALA GLU GLY GLY ASN GLY LEU TRP ARG SER THR ASP TYR SEQRES 13 A 731 GLY ALA THR TRP ALA LYS VAL SER SER PHE THR ASN GLY SEQRES 14 A 731 GLY ASN TYR ALA GLN ASP PRO ASN ASP PRO ASN ASP TYR SEQRES 15 A 731 LEU ASN LYS ILE GLN GLY VAL VAL TRP VAL THR PHE ASP SEQRES 16 A 731 PRO ALA SER GLY SER ALA GLY ASN THR SER GLN VAL ILE SEQRES 17 A 731 TYR VAL GLY VAL ALA ASP THR GLN ASN ALA ILE TYR ARG SEQRES 18 A 731 SER THR ASP GLY GLY THR THR TRP SER ARG LEU ALA GLY SEQRES 19 A 731 GLN PRO THR GLY PHE LEU PRO HIS LYS GLY VAL TYR ASP SEQRES 20 A 731 ALA VAL ASN GLY VAL LEU TYR ILE ALA TYR SER ASP THR SEQRES 21 A 731 GLY GLY PRO TYR ASP GLY ALA LYS GLY ASP VAL TRP LYS SEQRES 22 A 731 PHE THR ALA SER SER GLY THR TRP THR ASN ILE SER PRO SEQRES 23 A 731 ILE PRO SER SER SER SER ASP LEU TYR PHE GLY TYR SER SEQRES 24 A 731 GLY LEU THR ILE ASP ARG LYS ASN PRO ASN THR LEU MET SEQRES 25 A 731 VAL ALA SER GLN ILE ALA TRP TRP PRO ASP ALA VAL PHE SEQRES 26 A 731 PHE ARG SER THR ASN GLY GLY ALA SER TRP THR ARG ILE SEQRES 27 A 731 TRP ASP TRP THR SER TYR PRO SER ARG SER PHE ARG TYR SEQRES 28 A 731 THR MET ASP ILE THR GLU VAL PRO TRP LEU ASN PHE GLY SEQRES 29 A 731 ASN SER ASN PRO VAL ALA PRO GLU VAL SER PRO LYS LEU SEQRES 30 A 731 GLY TRP MET ASN GLU SER VAL GLU ILE ASP PRO HIS ASN SEQRES 31 A 731 SER ASN ARG LEU MET TYR GLY THR GLY ALA THR ILE TYR SEQRES 32 A 731 ALA THR GLU ASN LEU THR SER TRP ASP SER GLY GLY GLN SEQRES 33 A 731 ILE LEU LEU LYS PRO MET VAL LYS GLY LEU GLU GLU THR SEQRES 34 A 731 ALA VAL LEU ASP VAL VAL SER PRO PRO VAL GLY ALA PRO SEQRES 35 A 731 VAL TYR SER ALA LEU GLY ASP ILE GLY GLY PHE ARG HIS SEQRES 36 A 731 ASP ASP LEU THR LYS VAL PRO THR SER MET TYR THR THR SEQRES 37 A 731 PRO ASN PHE SER SER THR THR SER ILE ASP PHE ALA GLU SEQRES 38 A 731 LEU GLN PRO ALA THR MET VAL ARG VAL GLY ASN LEU ASP SEQRES 39 A 731 SER GLY GLY GLY ILE GLY VAL THR THR ASN ALA GLY GLY SEQRES 40 A 731 SER TRP TRP GLN GLY GLN ASN PRO PRO GLY VAL THR SER SEQRES 41 A 731 GLY GLY ASN VAL ALA LEU ALA ALA ASP GLY GLY ALA ILE SEQRES 42 A 731 VAL TRP ALA PRO GLY GLY SER THR ASN VAL TYR LEU SER SEQRES 43 A 731 THR THR PHE GLY SER THR TRP THR ALA ILE SER ALA LEU SEQRES 44 A 731 PRO ALA GLY ALA VAL ILE GLU ALA ASP ARG VAL ASN PRO SEQRES 45 A 731 ASN LYS PHE TYR ALA LEU ALA ASN GLY THR PHE TYR VAL SEQRES 46 A 731 SER THR ASN LYS GLY ALA SER PHE SER ALA THR VAL THR SEQRES 47 A 731 ALA GLY ILE PRO ALA ALA ALA ARG LYS PHE LYS ALA VAL SEQRES 48 A 731 TYR GLY ARG GLU GLY ASP ILE TRP LEU ALA GLY GLY SER SEQRES 49 A 731 SER THR THR THR TYR GLY LEU TRP ARG SER THR ASN SER SEQRES 50 A 731 GLY ALA SER PHE THR LYS LEU ALA SER VAL GLN GLU ALA SEQRES 51 A 731 ASP ASN VAL THR PHE GLY LYS ALA ALA THR GLY ALA THR SEQRES 52 A 731 TYR PRO ALA ILE TYR ILE ILE GLY LYS VAL ASP ASN VAL SEQRES 53 A 731 ARG GLY VAL PHE ARG SER THR ASN GLU GLY ALA SER TRP SEQRES 54 A 731 VAL ARG ILE ASN ASP ASP GLN ARG GLN TYR GLY ASN PHE SEQRES 55 A 731 GLY GLU ALA ILE SER GLY ASP PRO ARG ILE TYR GLY ARG SEQRES 56 A 731 LEU TYR LEU GLY THR ASN GLY ARG GLY LEU LEU TYR GLY SEQRES 57 A 731 ASP SER ALA HET BR A1766 1 HET K A1767 1 HET EDO A1768 4 HETNAM BR BROMIDE ION HETNAM K POTASSIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 BR BR 1- FORMUL 3 K K 1+ FORMUL 4 EDO C2 H6 O2 FORMUL 5 HOH *156(H2 O) HELIX 1 1 ASN A 95 ASN A 99 5 5 HELIX 2 2 PRO A 230 GLY A 233 5 4 HELIX 3 3 VAL A 392 PHE A 397 5 6 HELIX 4 4 ASN A 441 GLY A 448 5 8 SHEET 1 AA 4 TYR A 39 ASN A 43 0 SHEET 2 AA 4 LEU A 759 SER A 764 -1 O TYR A 761 N LYS A 42 SHEET 3 AA 4 LEU A 750 GLY A 753 -1 O LEU A 750 N GLY A 762 SHEET 4 AA 4 ILE A 740 GLY A 742 -1 O SER A 741 N TYR A 751 SHEET 1 AB 4 GLY A 54 PHE A 57 0 SHEET 2 AB 4 ILE A 65 ARG A 68 -1 O TYR A 66 N ILE A 56 SHEET 3 AB 4 ALA A 74 ASN A 78 -1 O TYR A 75 N ALA A 67 SHEET 4 AB 4 SER A 83 PRO A 86 -1 O SER A 83 N ASN A 78 SHEET 1 AC 4 VAL A 101 THR A 106 0 SHEET 2 AC 4 VAL A 114 VAL A 118 -1 O TYR A 115 N ALA A 105 SHEET 3 AC 4 ALA A 131 SER A 135 -1 O ALA A 131 N VAL A 118 SHEET 4 AC 4 GLN A 143 PRO A 146 -1 O GLN A 143 N ARG A 134 SHEET 1 AD 4 LEU A 164 ILE A 166 0 SHEET 2 AD 4 ILE A 174 GLY A 177 -1 O TYR A 175 N ALA A 165 SHEET 3 AD 4 LEU A 184 SER A 187 -1 O TRP A 185 N TYR A 176 SHEET 4 AD 4 ALA A 195 LYS A 196 -1 O ALA A 195 N ARG A 186 SHEET 1 AE 4 VAL A 223 PHE A 228 0 SHEET 2 AE 4 ILE A 242 VAL A 246 -1 O TYR A 243 N THR A 227 SHEET 3 AE 4 ILE A 253 SER A 256 -1 O TYR A 254 N VAL A 244 SHEET 4 AE 4 TRP A 263 ARG A 265 -1 O SER A 264 N ARG A 255 SHEET 1 AF 4 LEU A 274 ASP A 281 0 SHEET 2 AF 4 VAL A 286 SER A 292 -1 O VAL A 286 N ASP A 281 SHEET 3 AF 4 VAL A 305 THR A 309 -1 O TRP A 306 N ILE A 289 SHEET 4 AF 4 THR A 314 ASN A 317 -1 O THR A 314 N THR A 309 SHEET 1 AG 4 GLY A 331 ILE A 337 0 SHEET 2 AG 4 LEU A 345 GLN A 350 -1 O MET A 346 N THR A 336 SHEET 3 AG 4 PHE A 359 SER A 362 -1 O PHE A 360 N VAL A 347 SHEET 4 AG 4 THR A 370 ARG A 371 -1 O THR A 370 N ARG A 361 SHEET 1 AH 2 TRP A 373 TRP A 375 0 SHEET 2 AH 2 ARG A 381 PHE A 383 -1 O SER A 382 N ASP A 374 SHEET 1 AI 5 TYR A 385 MET A 387 0 SHEET 2 AI 5 ILE A 451 PRO A 455 1 O ILE A 451 N THR A 386 SHEET 3 AI 5 ILE A 436 THR A 439 -1 O ALA A 438 N LYS A 454 SHEET 4 AI 5 ASN A 424 GLY A 431 -1 O LEU A 428 N THR A 439 SHEET 5 AI 5 VAL A 418 ASP A 421 -1 O GLU A 419 N MET A 429 SHEET 1 AJ 3 VAL A 465 VAL A 469 0 SHEET 2 AJ 3 VAL A 477 LEU A 481 -1 O TYR A 478 N VAL A 469 SHEET 3 AJ 3 ARG A 488 HIS A 489 -1 O HIS A 489 N VAL A 477 SHEET 1 AK 4 THR A 508 PHE A 513 0 SHEET 2 AK 4 MET A 521 LEU A 527 -1 O VAL A 522 N ASP A 512 SHEET 3 AK 4 GLY A 530 THR A 536 -1 O GLY A 530 N LEU A 527 SHEET 4 AK 4 TRP A 544 GLN A 545 -1 O TRP A 544 N VAL A 535 SHEET 1 AL 4 ASN A 557 LEU A 560 0 SHEET 2 AL 4 ILE A 567 ALA A 570 -1 O VAL A 568 N ALA A 559 SHEET 3 AL 4 VAL A 577 SER A 580 -1 O TYR A 578 N TRP A 569 SHEET 4 AL 4 THR A 588 ILE A 590 -1 O THR A 588 N LEU A 579 SHEET 1 AM 4 VAL A 598 ALA A 601 0 SHEET 2 AM 4 PHE A 609 ALA A 613 -1 O TYR A 610 N GLU A 600 SHEET 3 AM 4 THR A 616 SER A 620 -1 O THR A 616 N ALA A 613 SHEET 4 AM 4 SER A 628 VAL A 631 -1 O SER A 628 N VAL A 619 SHEET 1 AN 4 LYS A 641 ALA A 644 0 SHEET 2 AN 4 ILE A 652 GLY A 657 -1 O TRP A 653 N LYS A 643 SHEET 3 AN 4 TYR A 663 SER A 668 -1 O GLY A 664 N GLY A 656 SHEET 4 AN 4 THR A 676 LYS A 677 -1 O THR A 676 N ARG A 667 SHEET 1 AO 4 GLU A 683 GLY A 690 0 SHEET 2 AO 4 ALA A 700 VAL A 707 -1 O ALA A 700 N GLY A 690 SHEET 3 AO 4 VAL A 710 SER A 716 -1 O VAL A 710 N VAL A 707 SHEET 4 AO 4 VAL A 724 ARG A 725 -1 O VAL A 724 N ARG A 715 LINK O GLY A 300 K K A1767 1555 1555 2.80 LINK O TYR A 329 K K A1767 1555 1555 2.77 LINK O ILE A 351 K K A1767 1555 1555 2.65 CISPEP 1 GLY A 161 GLU A 162 0 2.28 CISPEP 2 GLY A 296 PRO A 297 0 -8.67 CISPEP 3 GLN A 350 ILE A 351 0 -3.06 CISPEP 4 TRP A 354 PRO A 355 0 6.26 CISPEP 5 TYR A 378 PRO A 379 0 -0.47 CISPEP 6 ALA A 404 PRO A 405 0 10.51 CISPEP 7 SER A 408 PRO A 409 0 2.37 CISPEP 8 THR A 502 PRO A 503 0 7.83 SITE 1 AC1 2 TRP A 353 K A1767 SITE 1 AC2 4 GLY A 300 TYR A 329 ILE A 351 BR A1766 SITE 1 AC3 5 ASP A 47 PRO A 455 MET A 456 VAL A 457 SITE 2 AC3 5 LYS A 458 CRYST1 87.890 131.910 73.170 90.00 90.00 90.00 P 21 21 2 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 0.011378 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007581 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013667 0.00000