HEADER HYDROLASE 17-MAR-09 3GNO TITLE CRYSTAL STRUCTURE OF A RICE OS3BGLU6 BETA-GLUCOSIDASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: OS03G0212800 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 38-521; COMPND 5 SYNONYM: BETA-GLUCOSIDASE, GLYCOSYL HYDROLASE FAMILY 1 PROTEIN, COMPND 6 EXPRESSED; COMPND 7 EC: 3.2.1.21; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA SUBSP. JAPONICA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 39947; SOURCE 5 GENE: LOC_OS03G11420, OS03G0212800, OS3BGLU6 LOCUS ID: OS03G0212800; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ORIGAMI(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A+/DEST KEYWDS BETA-ALPHA BARREL, GLYCOSIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.SESHADRI,T.AKIYAMA,R.OPASSIRI,B.KUAPRASERT,J.R.K.CAIRNS REVDAT 4 06-NOV-24 3GNO 1 REMARK REVDAT 3 01-NOV-23 3GNO 1 REMARK SEQADV REVDAT 2 13-JUL-11 3GNO 1 VERSN REVDAT 1 21-JUL-09 3GNO 0 JRNL AUTH S.SESHADRI,T.AKIYAMA,R.OPASSIRI,B.KUAPRASERT,J.R.K.CAIRNS JRNL TITL STRUCTURAL AND ENZYMATIC CHARACTERIZATION OF OS3BGLU6, A JRNL TITL 2 RICE {BETA}-GLUCOSIDASE HYDROLYZING HYDROPHOBIC GLYCOSIDES JRNL TITL 3 AND (1->3)- AND (1->2)-LINKED DISACCHARIDES. JRNL REF PLANT PHYSIOL. 2009 JRNL REFN ESSN 1532-2548 JRNL PMID 19587102 JRNL DOI 10.1104/PP.109.139436 REMARK 2 REMARK 2 RESOLUTION. 1.83 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 44199 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) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2347 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) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3216 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 156 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3836 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 466 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 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): 0.124 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.399 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4019 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5455 ; 1.321 ; 1.932 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ;12.806 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 203 ;33.867 ;23.498 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 617 ;12.858 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;19.420 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 560 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3132 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2001 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2741 ; 0.314 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 428 ; 0.135 ; 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): 37 ; 0.228 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.172 ; 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): 2390 ; 0.702 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3833 ; 1.254 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1629 ; 2.070 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1618 ; 3.134 ; 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 3GNO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052087. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45193 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.9900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.36600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 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 1CBG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 21% PEG 5000 MME, 0.1M BIS-TRIS, PH REMARK 280 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 288K 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 28.40450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.85500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.24450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.85500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.40450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.24450 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 1 REMARK 465 PHE A 2 REMARK 465 THR A 3 REMARK 465 MET A 4 REMARK 465 ALA A 5 REMARK 465 GLN A 6 REMARK 465 GLN A 7 REMARK 465 SER A 8 REMARK 465 GLY A 9 REMARK 465 GLY A 10 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 114 NZ REMARK 470 GLU A 296 OE1 OE2 REMARK 470 GLU A 383 OE1 OE2 REMARK 470 LYS A 432 NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 73 CD GLU A 73 OE2 0.082 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 ALA A 65 -124.52 50.66 REMARK 500 TRP A 133 -5.11 89.29 REMARK 500 TYR A 143 22.25 -150.56 REMARK 500 ASN A 209 105.54 -160.02 REMARK 500 GLN A 273 -61.84 -99.19 REMARK 500 ASP A 413 53.50 -93.39 REMARK 500 TRP A 452 -130.33 52.49 REMARK 500 ASP A 469 58.47 -142.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1007 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GNP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A RICE OS3BGLU6 BETA-GLUCOSIDASE WITH OCTYL- REMARK 900 BETA-D-THIO-GLUCOSIDE REMARK 900 RELATED ID: 3GNR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A RICE OS3BGLU6 BETA-GLUCOSIDASE WITH REMARK 900 COVALENTLY BOUND 2-DEOXY-2-FLUOROGLUCOSIDE TO THE CATALYTIC REMARK 900 NUCLEOPHILE E396 DBREF 3GNO A 5 488 UNP Q8L7J2 Q8L7J2_ORYSJ 38 521 SEQADV 3GNO SER A 1 UNP Q8L7J2 EXPRESSION TAG SEQADV 3GNO PHE A 2 UNP Q8L7J2 EXPRESSION TAG SEQADV 3GNO THR A 3 UNP Q8L7J2 EXPRESSION TAG SEQADV 3GNO MET A 4 UNP Q8L7J2 EXPRESSION TAG SEQRES 1 A 488 SER PHE THR MET ALA GLN GLN SER GLY GLY GLY LEU THR SEQRES 2 A 488 ARG GLY SER PHE PRO GLU GLY PHE VAL PHE GLY THR ALA SEQRES 3 A 488 SER ALA ALA TYR GLN TYR GLU GLY ALA VAL LYS GLU ASP SEQRES 4 A 488 GLY ARG GLY GLN THR ILE TRP ASP THR PHE ALA HIS THR SEQRES 5 A 488 PHE GLY LYS ILE THR ASP PHE SER ASN ALA ASP VAL ALA SEQRES 6 A 488 VAL ASP GLN TYR HIS ARG PHE GLU GLU ASP ILE GLN LEU SEQRES 7 A 488 MET ALA ASP MET GLY MET ASP ALA TYR ARG PHE SER ILE SEQRES 8 A 488 ALA TRP SER ARG ILE TYR PRO ASN GLY VAL GLY GLN VAL SEQRES 9 A 488 ASN GLN ALA GLY ILE ASP HIS TYR ASN LYS LEU ILE ASP SEQRES 10 A 488 ALA LEU LEU ALA LYS GLY ILE GLN PRO TYR VAL THR LEU SEQRES 11 A 488 TYR HIS TRP ASP LEU PRO GLN ALA LEU GLU ASP LYS TYR SEQRES 12 A 488 LYS GLY TRP LEU ASP ARG GLN ILE VAL ASP ASP PHE ALA SEQRES 13 A 488 ALA TYR ALA GLU THR CYS PHE ARG GLU PHE GLY ASP ARG SEQRES 14 A 488 VAL LYS HIS TRP ILE THR LEU ASN GLU PRO HIS THR VAL SEQRES 15 A 488 ALA ILE GLN GLY TYR ASP ALA GLY LEU GLN ALA PRO GLY SEQRES 16 A 488 ARG CYS SER VAL LEU LEU HIS LEU TYR CYS LYS ALA GLY SEQRES 17 A 488 ASN SER GLY THR GLU PRO TYR VAL VAL ALA HIS HIS PHE SEQRES 18 A 488 ILE LEU ALA HIS ALA ALA ALA ALA SER ILE TYR ARG THR SEQRES 19 A 488 LYS TYR LYS ALA THR GLN ASN GLY GLN LEU GLY ILE ALA SEQRES 20 A 488 PHE ASP VAL MET TRP PHE GLU PRO MET SER ASN THR THR SEQRES 21 A 488 ILE ASP ILE GLU ALA ALA LYS ARG ALA GLN GLU PHE GLN SEQRES 22 A 488 LEU GLY TRP PHE ALA ASP PRO PHE PHE PHE GLY ASP TYR SEQRES 23 A 488 PRO ALA THR MET ARG ALA ARG VAL GLY GLU ARG LEU PRO SEQRES 24 A 488 ARG PHE THR ALA ASP GLU ALA ALA VAL VAL LYS GLY ALA SEQRES 25 A 488 LEU ASP PHE VAL GLY ILE ASN HIS TYR THR THR TYR TYR SEQRES 26 A 488 THR ARG HIS ASN ASN THR ASN ILE ILE GLY THR LEU LEU SEQRES 27 A 488 ASN ASN THR LEU ALA ASP THR GLY THR VAL SER LEU PRO SEQRES 28 A 488 PHE LYS ASN GLY LYS PRO ILE GLY ASP ARG ALA ASN SER SEQRES 29 A 488 ILE TRP LEU TYR ILE VAL PRO ARG GLY MET ARG SER LEU SEQRES 30 A 488 MET ASN TYR VAL LYS GLU ARG TYR ASN SER PRO PRO VAL SEQRES 31 A 488 TYR ILE THR GLU ASN GLY MET ASP ASP SER ASN ASN PRO SEQRES 32 A 488 PHE ILE SER ILE LYS ASP ALA LEU LYS ASP SER LYS ARG SEQRES 33 A 488 ILE LYS TYR HIS ASN ASP TYR LEU THR ASN LEU ALA ALA SEQRES 34 A 488 SER ILE LYS GLU ASP GLY CYS ASP VAL ARG GLY TYR PHE SEQRES 35 A 488 ALA TRP SER LEU LEU ASP ASN TRP GLU TRP ALA ALA GLY SEQRES 36 A 488 TYR SER SER ARG PHE GLY LEU TYR PHE VAL ASP TYR LYS SEQRES 37 A 488 ASP ASN LEU LYS ARG TYR PRO LYS ASN SER VAL GLN TRP SEQRES 38 A 488 PHE LYS ALA LEU LEU LYS THR HET TRS A1001 16 HET GOL A1002 6 HET GOL A1003 6 HET GOL A1004 6 HET GOL A1005 6 HET GOL A1006 6 HET GOL A1007 6 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM GOL GLYCEROL HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 TRS C4 H12 N O3 1+ FORMUL 3 GOL 6(C3 H8 O3) FORMUL 9 HOH *466(H2 O) HELIX 1 1 THR A 13 PHE A 17 5 5 HELIX 2 2 ALA A 28 GLU A 33 1 6 HELIX 3 3 THR A 44 HIS A 51 1 8 HELIX 4 4 ASP A 67 ASP A 81 1 15 HELIX 5 5 ALA A 92 TYR A 97 1 6 HELIX 6 6 ASN A 105 LYS A 122 1 18 HELIX 7 7 PRO A 136 LYS A 144 1 9 HELIX 8 8 GLY A 145 ASP A 148 5 4 HELIX 9 9 ARG A 149 GLY A 167 1 19 HELIX 10 10 GLU A 178 ASP A 188 1 11 HELIX 11 11 THR A 212 TYR A 236 1 25 HELIX 12 12 TYR A 236 ASN A 241 1 6 HELIX 13 13 THR A 259 LEU A 274 1 16 HELIX 14 14 LEU A 274 GLY A 284 1 11 HELIX 15 15 PRO A 287 GLY A 295 1 9 HELIX 16 16 GLU A 296 LEU A 298 5 3 HELIX 17 17 THR A 302 LYS A 310 1 9 HELIX 18 18 ASN A 340 THR A 345 1 6 HELIX 19 19 PRO A 371 ASN A 386 1 16 HELIX 20 20 SER A 406 LEU A 411 1 6 HELIX 21 21 ASP A 413 GLU A 433 1 21 HELIX 22 22 GLU A 451 TYR A 456 5 6 HELIX 23 23 LYS A 476 LYS A 487 1 12 SHEET 1 A 9 VAL A 22 ALA A 26 0 SHEET 2 A 9 ALA A 86 SER A 90 1 O ARG A 88 N THR A 25 SHEET 3 A 9 GLN A 125 TYR A 131 1 O THR A 129 N PHE A 89 SHEET 4 A 9 HIS A 172 ASN A 177 1 O ILE A 174 N VAL A 128 SHEET 5 A 9 GLN A 243 ASP A 249 1 O GLY A 245 N THR A 175 SHEET 6 A 9 PHE A 315 ASN A 319 1 O ASN A 319 N PHE A 248 SHEET 7 A 9 VAL A 390 ASN A 395 1 O TYR A 391 N ILE A 318 SHEET 8 A 9 VAL A 438 TRP A 444 1 O ARG A 439 N VAL A 390 SHEET 9 A 9 VAL A 22 ALA A 26 1 N ALA A 26 O ALA A 443 SHEET 1 B 3 TRP A 252 PRO A 255 0 SHEET 2 B 3 THR A 323 HIS A 328 1 O TYR A 324 N GLU A 254 SHEET 3 B 3 THR A 347 LEU A 350 -1 O LEU A 350 N TYR A 325 SHEET 1 C 2 PHE A 352 LYS A 353 0 SHEET 2 C 2 LYS A 356 PRO A 357 -1 O LYS A 356 N LYS A 353 SHEET 1 D 2 ASP A 399 SER A 400 0 SHEET 2 D 2 SER A 458 ARG A 459 -1 O ARG A 459 N ASP A 399 SHEET 1 E 2 TYR A 463 VAL A 465 0 SHEET 2 E 2 ARG A 473 PRO A 475 -1 O TYR A 474 N PHE A 464 SSBOND 1 CYS A 197 CYS A 205 1555 1555 2.02 CISPEP 1 ALA A 193 PRO A 194 0 2.99 CISPEP 2 TRP A 444 SER A 445 0 1.17 SITE 1 AC1 12 GLN A 31 HIS A 132 GLU A 178 TYR A 321 SITE 2 AC1 12 TRP A 366 GLU A 394 TRP A 444 GLU A 451 SITE 3 AC1 12 TRP A 452 HOH A 672 HOH A 738 HOH A 948 SITE 1 AC2 4 ASP A 58 TYR A 467 HOH A 602 HOH A 801 SITE 1 AC3 4 PRO A 351 ILE A 365 TYR A 368 HOH A 919 SITE 1 AC4 6 ALA A 80 GLY A 83 MET A 84 ASP A 85 SITE 2 AC4 6 LYS A 122 HOH A 930 SITE 1 AC5 3 LYS A 408 LEU A 411 TYR A 474 SITE 1 AC6 5 ASP A 168 LYS A 171 THR A 239 GLN A 240 SITE 2 AC6 5 HOH A 808 SITE 1 AC7 10 ASN A 401 ASN A 402 PRO A 403 ILE A 405 SITE 2 AC7 10 ARG A 459 PHE A 464 LYS A 468 HOH A 547 SITE 3 AC7 10 HOH A 797 HOH A 837 CRYST1 56.809 90.489 101.710 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 0.017603 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011051 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009832 0.00000