HEADER HYDROLASE 28-APR-20 7BZM TITLE CRYSTAL STRUCTURE OF RICE OS3BGLU7 WITH GLUCOIMIDAZOLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-GLUCOSIDASE 7; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: OS3BGLU7; COMPND 5 EC: 3.2.1.21; COMPND 6 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: BGLU7, BGLU1, OS03G0703000, LOC_OS03G49600, OSJNBA0004L11.16; 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+ KEYWDS GH1, RICE OS3BGLU7, BETA-GLUCOSIDASE, GLUCOIMIDAZOLE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.PENGTHAISONG,J.R.KETUDAT CAIRNS,A.TANKRATHOK REVDAT 2 29-NOV-23 7BZM 1 LINK REVDAT 1 08-JUL-20 7BZM 0 JRNL AUTH B.NUTHO,S.PENGTHAISONG,A.TANKRATHOK,V.S.LEE, JRNL AUTH 2 J.R.KETUDAT CAIRNS,T.RUNGROTMONGKOL,S.HANNONGBUA JRNL TITL STRUCTURAL BASIS OF SPECIFIC GLUCOIMIDAZOLE AND JRNL TITL 2 MANNOIMIDAZOLE BINDING BY OS3BGLU7. JRNL REF BIOMOLECULES V. 10 2020 JRNL REFN ESSN 2218-273X JRNL PMID 32549280 JRNL DOI 10.3390/BIOM10060907 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 44707 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2314 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3273 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 180 REMARK 3 BIN FREE R VALUE : 0.2220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7602 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.66000 REMARK 3 B22 (A**2) : 0.70000 REMARK 3 B33 (A**2) : -0.04000 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): 0.340 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.217 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.138 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.524 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7910 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 7193 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10751 ; 1.265 ; 1.930 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16467 ; 0.942 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 942 ; 6.194 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 401 ;34.294 ;23.616 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1207 ;12.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 45 ;20.632 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1093 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9135 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 2070 ; 0.001 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 6 A 476 1 REMARK 3 1 B 6 B 476 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 1 A (A**2): 7344 ; 0.930 ; 0.500 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 7BZM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-MAY-20. REMARK 100 THE DEPOSITION ID IS D_1300016616. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47470 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 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 : 6.600 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: 2RGL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG MME 5000, 0.17 M AMMONIUM REMARK 280 SULFATE, 0.1M MES, PH 6.7, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 40.20100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.72900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.77850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.72900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.20100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.77850 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 ALA A -4 REMARK 465 MET A -3 REMARK 465 ALA A -2 REMARK 465 ASP A -1 REMARK 465 VAL A 0 REMARK 465 VAL A 1 REMARK 465 PRO A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 ASN A 5 REMARK 465 ALA B -4 REMARK 465 MET B -3 REMARK 465 ALA B -2 REMARK 465 ASP B -1 REMARK 465 VAL B 0 REMARK 465 VAL B 1 REMARK 465 PRO B 2 REMARK 465 LYS B 3 REMARK 465 PRO B 4 REMARK 465 ASN B 5 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 63 -130.20 58.33 REMARK 500 TYR A 131 -2.30 68.03 REMARK 500 ASP A 132 55.73 -109.06 REMARK 500 GLU A 176 62.33 60.26 REMARK 500 ASP A 186 -63.43 -106.50 REMARK 500 ASN A 203 105.99 -163.72 REMARK 500 LYS A 289 -126.60 62.36 REMARK 500 ALA A 354 -164.52 -77.55 REMARK 500 GLU A 440 59.25 -96.93 REMARK 500 TRP A 441 -119.22 47.28 REMARK 500 ALA B 63 -129.13 57.31 REMARK 500 TYR B 131 -1.69 67.17 REMARK 500 ASP B 132 55.13 -109.29 REMARK 500 GLU B 176 61.93 60.09 REMARK 500 ASP B 186 -63.26 -105.68 REMARK 500 ASN B 203 106.01 -164.42 REMARK 500 LYS B 289 -125.08 63.10 REMARK 500 ALA B 354 -163.92 -77.83 REMARK 500 GLU B 440 59.21 -96.71 REMARK 500 TRP B 441 -118.78 48.07 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 ZN A 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD2 REMARK 620 2 HIS A 68 ND1 117.8 REMARK 620 3 ASP B 65 OD2 94.8 105.9 REMARK 620 4 HIS B 68 ND1 104.3 115.5 117.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GIM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GIM B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RGL RELATED DB: PDB REMARK 900 RICE BGLU1 BETA-GLUCOSIDASE DBREF 7BZM A 1 476 UNP Q75I93 BGL07_ORYSJ 29 504 DBREF 7BZM B 1 476 UNP Q75I93 BGL07_ORYSJ 29 504 SEQADV 7BZM ALA A -4 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM MET A -3 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM ALA A -2 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM ASP A -1 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM VAL A 0 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM VAL A 24 UNP Q75I93 ALA 52 CONFLICT SEQADV 7BZM ALA B -4 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM MET B -3 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM ALA B -2 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM ASP B -1 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM VAL B 0 UNP Q75I93 EXPRESSION TAG SEQADV 7BZM VAL B 24 UNP Q75I93 ALA 52 CONFLICT SEQRES 1 A 481 ALA MET ALA ASP VAL VAL PRO LYS PRO ASN TRP LEU GLY SEQRES 2 A 481 GLY LEU SER ARG ALA ALA PHE PRO LYS ARG PHE VAL PHE SEQRES 3 A 481 GLY THR VAL THR SER ALA TYR GLN VAL GLU GLY MET ALA SEQRES 4 A 481 ALA SER GLY GLY ARG GLY PRO SER ILE TRP ASP ALA PHE SEQRES 5 A 481 ALA HIS THR PRO GLY ASN VAL ALA GLY ASN GLN ASN GLY SEQRES 6 A 481 ASP VAL ALA THR ASP GLN TYR HIS ARG TYR LYS GLU ASP SEQRES 7 A 481 VAL ASN LEU MET LYS SER LEU ASN PHE ASP ALA TYR ARG SEQRES 8 A 481 PHE SER ILE SER TRP SER ARG ILE PHE PRO ASP GLY GLU SEQRES 9 A 481 GLY ARG VAL ASN GLN GLU GLY VAL ALA TYR TYR ASN ASN SEQRES 10 A 481 LEU ILE ASN TYR LEU LEU GLN LYS GLY ILE THR PRO TYR SEQRES 11 A 481 VAL ASN LEU TYR HIS TYR ASP LEU PRO LEU ALA LEU GLU SEQRES 12 A 481 LYS LYS TYR GLY GLY TRP LEU ASN ALA LYS MET ALA ASP SEQRES 13 A 481 LEU PHE THR GLU TYR ALA ASP PHE CYS PHE LYS THR PHE SEQRES 14 A 481 GLY ASN ARG VAL LYS HIS TRP PHE THR PHE ASN GLU PRO SEQRES 15 A 481 ARG ILE VAL ALA LEU LEU GLY TYR ASP GLN GLY THR ASN SEQRES 16 A 481 PRO PRO LYS ARG CYS THR LYS CYS ALA ALA GLY GLY ASN SEQRES 17 A 481 SER ALA THR GLU PRO TYR ILE VAL ALA HIS ASN PHE LEU SEQRES 18 A 481 LEU SER HIS ALA ALA ALA VAL ALA ARG TYR ARG THR LYS SEQRES 19 A 481 TYR GLN ALA ALA GLN GLN GLY LYS VAL GLY ILE VAL LEU SEQRES 20 A 481 ASP PHE ASN TRP TYR GLU ALA LEU SER ASN SER THR GLU SEQRES 21 A 481 ASP GLN ALA ALA ALA GLN ARG ALA ARG ASP PHE HIS ILE SEQRES 22 A 481 GLY TRP TYR LEU ASP PRO LEU ILE ASN GLY HIS TYR PRO SEQRES 23 A 481 GLN ILE MET GLN ASP LEU VAL LYS ASP ARG LEU PRO LYS SEQRES 24 A 481 PHE THR PRO GLU GLN ALA ARG LEU VAL LYS GLY SER ALA SEQRES 25 A 481 ASP TYR ILE GLY ILE ASN GLN TYR THR ALA SER TYR MET SEQRES 26 A 481 LYS GLY GLN GLN LEU MET GLN GLN THR PRO THR SER TYR SEQRES 27 A 481 SER ALA ASP TRP GLN VAL THR TYR VAL PHE ALA LYS ASN SEQRES 28 A 481 GLY LYS PRO ILE GLY PRO GLN ALA ASN SER ASN TRP LEU SEQRES 29 A 481 TYR ILE VAL PRO TRP GLY MET TYR GLY CYS VAL ASN TYR SEQRES 30 A 481 ILE LYS GLN LYS TYR GLY ASN PRO THR VAL VAL ILE THR SEQRES 31 A 481 GLU ASN GLY MET ASP GLN PRO ALA ASN LEU SER ARG ASP SEQRES 32 A 481 GLN TYR LEU ARG ASP THR THR ARG VAL HIS PHE TYR ARG SEQRES 33 A 481 SER TYR LEU THR GLN LEU LYS LYS ALA ILE ASP GLU GLY SEQRES 34 A 481 ALA ASN VAL ALA GLY TYR PHE ALA TRP SER LEU LEU ASP SEQRES 35 A 481 ASN PHE GLU TRP LEU SER GLY TYR THR SER LYS PHE GLY SEQRES 36 A 481 ILE VAL TYR VAL ASP PHE ASN THR LEU GLU ARG HIS PRO SEQRES 37 A 481 LYS ALA SER ALA TYR TRP PHE ARG ASP MET LEU LYS HIS SEQRES 1 B 481 ALA MET ALA ASP VAL VAL PRO LYS PRO ASN TRP LEU GLY SEQRES 2 B 481 GLY LEU SER ARG ALA ALA PHE PRO LYS ARG PHE VAL PHE SEQRES 3 B 481 GLY THR VAL THR SER ALA TYR GLN VAL GLU GLY MET ALA SEQRES 4 B 481 ALA SER GLY GLY ARG GLY PRO SER ILE TRP ASP ALA PHE SEQRES 5 B 481 ALA HIS THR PRO GLY ASN VAL ALA GLY ASN GLN ASN GLY SEQRES 6 B 481 ASP VAL ALA THR ASP GLN TYR HIS ARG TYR LYS GLU ASP SEQRES 7 B 481 VAL ASN LEU MET LYS SER LEU ASN PHE ASP ALA TYR ARG SEQRES 8 B 481 PHE SER ILE SER TRP SER ARG ILE PHE PRO ASP GLY GLU SEQRES 9 B 481 GLY ARG VAL ASN GLN GLU GLY VAL ALA TYR TYR ASN ASN SEQRES 10 B 481 LEU ILE ASN TYR LEU LEU GLN LYS GLY ILE THR PRO TYR SEQRES 11 B 481 VAL ASN LEU TYR HIS TYR ASP LEU PRO LEU ALA LEU GLU SEQRES 12 B 481 LYS LYS TYR GLY GLY TRP LEU ASN ALA LYS MET ALA ASP SEQRES 13 B 481 LEU PHE THR GLU TYR ALA ASP PHE CYS PHE LYS THR PHE SEQRES 14 B 481 GLY ASN ARG VAL LYS HIS TRP PHE THR PHE ASN GLU PRO SEQRES 15 B 481 ARG ILE VAL ALA LEU LEU GLY TYR ASP GLN GLY THR ASN SEQRES 16 B 481 PRO PRO LYS ARG CYS THR LYS CYS ALA ALA GLY GLY ASN SEQRES 17 B 481 SER ALA THR GLU PRO TYR ILE VAL ALA HIS ASN PHE LEU SEQRES 18 B 481 LEU SER HIS ALA ALA ALA VAL ALA ARG TYR ARG THR LYS SEQRES 19 B 481 TYR GLN ALA ALA GLN GLN GLY LYS VAL GLY ILE VAL LEU SEQRES 20 B 481 ASP PHE ASN TRP TYR GLU ALA LEU SER ASN SER THR GLU SEQRES 21 B 481 ASP GLN ALA ALA ALA GLN ARG ALA ARG ASP PHE HIS ILE SEQRES 22 B 481 GLY TRP TYR LEU ASP PRO LEU ILE ASN GLY HIS TYR PRO SEQRES 23 B 481 GLN ILE MET GLN ASP LEU VAL LYS ASP ARG LEU PRO LYS SEQRES 24 B 481 PHE THR PRO GLU GLN ALA ARG LEU VAL LYS GLY SER ALA SEQRES 25 B 481 ASP TYR ILE GLY ILE ASN GLN TYR THR ALA SER TYR MET SEQRES 26 B 481 LYS GLY GLN GLN LEU MET GLN GLN THR PRO THR SER TYR SEQRES 27 B 481 SER ALA ASP TRP GLN VAL THR TYR VAL PHE ALA LYS ASN SEQRES 28 B 481 GLY LYS PRO ILE GLY PRO GLN ALA ASN SER ASN TRP LEU SEQRES 29 B 481 TYR ILE VAL PRO TRP GLY MET TYR GLY CYS VAL ASN TYR SEQRES 30 B 481 ILE LYS GLN LYS TYR GLY ASN PRO THR VAL VAL ILE THR SEQRES 31 B 481 GLU ASN GLY MET ASP GLN PRO ALA ASN LEU SER ARG ASP SEQRES 32 B 481 GLN TYR LEU ARG ASP THR THR ARG VAL HIS PHE TYR ARG SEQRES 33 B 481 SER TYR LEU THR GLN LEU LYS LYS ALA ILE ASP GLU GLY SEQRES 34 B 481 ALA ASN VAL ALA GLY TYR PHE ALA TRP SER LEU LEU ASP SEQRES 35 B 481 ASN PHE GLU TRP LEU SER GLY TYR THR SER LYS PHE GLY SEQRES 36 B 481 ILE VAL TYR VAL ASP PHE ASN THR LEU GLU ARG HIS PRO SEQRES 37 B 481 LYS ALA SER ALA TYR TRP PHE ARG ASP MET LEU LYS HIS HET GIM A 501 14 HET MES A 502 12 HET ZN A 503 1 HET SO4 A 504 5 HET GIM B 501 14 HET MES B 502 12 HET SO4 B 503 5 HETNAM GIM GLUCOIMIDAZOLE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETSYN GIM (5S,6S,7R,8R)-5-(HYDROXYMETHYL)-1,5,6,7,8,8A- HETSYN 2 GIM HEXAHYDROIMIDAZO[1,2-A]PYRIDINE-6,7,8-TRIOL FORMUL 3 GIM 2(C8 H13 N2 O4 1+) FORMUL 4 MES 2(C6 H13 N O4 S) FORMUL 5 ZN ZN 2+ FORMUL 6 SO4 2(O4 S 2-) FORMUL 10 HOH *480(H2 O) HELIX 1 AA1 SER A 11 PHE A 15 5 5 HELIX 2 AA2 SER A 26 GLU A 31 1 6 HELIX 3 AA3 SER A 42 HIS A 49 1 8 HELIX 4 AA4 VAL A 54 GLN A 58 5 5 HELIX 5 AA5 ASP A 65 LEU A 80 1 16 HELIX 6 AA6 SER A 90 PHE A 95 1 6 HELIX 7 AA7 ASN A 103 LYS A 120 1 18 HELIX 8 AA8 PRO A 134 GLY A 142 1 9 HELIX 9 AA9 GLY A 143 ALA A 147 5 5 HELIX 10 AB1 LYS A 148 GLY A 165 1 18 HELIX 11 AB2 GLU A 176 ASP A 186 1 11 HELIX 12 AB3 THR A 206 TYR A 230 1 25 HELIX 13 AB4 TYR A 230 GLN A 235 1 6 HELIX 14 AB5 SER A 253 ILE A 268 1 16 HELIX 15 AB6 ILE A 268 GLY A 278 1 11 HELIX 16 AB7 PRO A 281 LYS A 289 1 9 HELIX 17 AB8 ASP A 290 LEU A 292 5 3 HELIX 18 AB9 THR A 296 LYS A 304 1 9 HELIX 19 AC1 SER A 334 GLN A 338 5 5 HELIX 20 AC2 PRO A 363 TYR A 377 1 15 HELIX 21 AC3 SER A 396 ARG A 402 1 7 HELIX 22 AC4 ASP A 403 GLU A 423 1 21 HELIX 23 AC5 GLU A 440 GLY A 444 5 5 HELIX 24 AC6 LYS A 464 LYS A 475 1 12 HELIX 25 AC7 SER B 11 PHE B 15 5 5 HELIX 26 AC8 SER B 26 GLU B 31 1 6 HELIX 27 AC9 SER B 42 HIS B 49 1 8 HELIX 28 AD1 VAL B 54 GLN B 58 5 5 HELIX 29 AD2 ASP B 65 LEU B 80 1 16 HELIX 30 AD3 SER B 90 PHE B 95 1 6 HELIX 31 AD4 ASN B 103 LYS B 120 1 18 HELIX 32 AD5 PRO B 134 GLY B 142 1 9 HELIX 33 AD6 GLY B 143 ALA B 147 5 5 HELIX 34 AD7 LYS B 148 GLY B 165 1 18 HELIX 35 AD8 GLU B 176 ASP B 186 1 11 HELIX 36 AD9 THR B 206 TYR B 230 1 25 HELIX 37 AE1 TYR B 230 GLN B 235 1 6 HELIX 38 AE2 SER B 253 ILE B 268 1 16 HELIX 39 AE3 ILE B 268 GLY B 278 1 11 HELIX 40 AE4 PRO B 281 LYS B 289 1 9 HELIX 41 AE5 ASP B 290 LEU B 292 5 3 HELIX 42 AE6 THR B 296 LYS B 304 1 9 HELIX 43 AE7 SER B 334 GLN B 338 5 5 HELIX 44 AE8 PRO B 363 TYR B 377 1 15 HELIX 45 AE9 SER B 396 ARG B 402 1 7 HELIX 46 AF1 ASP B 403 GLU B 423 1 21 HELIX 47 AF2 GLU B 440 GLY B 444 5 5 HELIX 48 AF3 LYS B 464 LYS B 475 1 12 SHEET 1 AA1 9 VAL A 20 VAL A 24 0 SHEET 2 AA1 9 ALA A 84 SER A 88 1 O ARG A 86 N THR A 23 SHEET 3 AA1 9 THR A 123 TYR A 129 1 O ASN A 127 N PHE A 87 SHEET 4 AA1 9 HIS A 170 ASN A 175 1 O HIS A 170 N VAL A 126 SHEET 5 AA1 9 LYS A 237 ASP A 243 1 O LYS A 237 N TRP A 171 SHEET 6 AA1 9 ILE A 310 ASN A 313 1 O GLY A 311 N ILE A 240 SHEET 7 AA1 9 VAL A 382 GLU A 386 1 O VAL A 383 N ILE A 312 SHEET 8 AA1 9 VAL A 427 TRP A 433 1 O ALA A 428 N VAL A 382 SHEET 9 AA1 9 VAL A 20 VAL A 24 1 N VAL A 20 O TYR A 430 SHEET 1 AA2 3 TRP A 246 ALA A 249 0 SHEET 2 AA2 3 ALA A 317 LYS A 321 1 O MET A 320 N GLU A 248 SHEET 3 AA2 3 THR A 340 VAL A 342 -1 O THR A 340 N LYS A 321 SHEET 1 AA3 2 ALA A 344 LYS A 345 0 SHEET 2 AA3 2 LYS A 348 PRO A 349 -1 O LYS A 348 N LYS A 345 SHEET 1 AA4 2 GLN A 391 PRO A 392 0 SHEET 2 AA4 2 SER A 447 LYS A 448 -1 O LYS A 448 N GLN A 391 SHEET 1 AA5 2 VAL A 452 VAL A 454 0 SHEET 2 AA5 2 ARG A 461 PRO A 463 -1 O HIS A 462 N TYR A 453 SHEET 1 AA6 9 VAL B 20 VAL B 24 0 SHEET 2 AA6 9 ALA B 84 SER B 88 1 O ARG B 86 N THR B 23 SHEET 3 AA6 9 THR B 123 TYR B 129 1 O ASN B 127 N PHE B 87 SHEET 4 AA6 9 HIS B 170 ASN B 175 1 O HIS B 170 N VAL B 126 SHEET 5 AA6 9 LYS B 237 ASP B 243 1 O VAL B 241 N PHE B 174 SHEET 6 AA6 9 ILE B 310 ASN B 313 1 O GLY B 311 N ILE B 240 SHEET 7 AA6 9 VAL B 382 GLU B 386 1 O VAL B 383 N ILE B 312 SHEET 8 AA6 9 VAL B 427 TRP B 433 1 O ALA B 428 N VAL B 382 SHEET 9 AA6 9 VAL B 20 VAL B 24 1 N VAL B 20 O TYR B 430 SHEET 1 AA7 3 TRP B 246 ALA B 249 0 SHEET 2 AA7 3 ALA B 317 LYS B 321 1 O SER B 318 N GLU B 248 SHEET 3 AA7 3 THR B 340 VAL B 342 -1 O THR B 340 N LYS B 321 SHEET 1 AA8 2 ALA B 344 LYS B 345 0 SHEET 2 AA8 2 LYS B 348 PRO B 349 -1 O LYS B 348 N LYS B 345 SHEET 1 AA9 2 GLN B 391 PRO B 392 0 SHEET 2 AA9 2 SER B 447 LYS B 448 -1 O LYS B 448 N GLN B 391 SHEET 1 AB1 2 VAL B 452 VAL B 454 0 SHEET 2 AB1 2 ARG B 461 PRO B 463 -1 O HIS B 462 N TYR B 453 SSBOND 1 CYS A 195 CYS A 198 1555 1555 2.04 SSBOND 2 CYS B 195 CYS B 198 1555 1555 2.03 LINK OD2 ASP A 65 ZN ZN A 503 1555 1555 2.01 LINK ND1 HIS A 68 ZN ZN A 503 1555 1555 2.21 LINK ZN ZN A 503 OD2 ASP B 65 1555 1555 2.05 LINK ZN ZN A 503 ND1 HIS B 68 1555 1555 2.19 CISPEP 1 PRO A 191 PRO A 192 0 9.11 CISPEP 2 TRP A 433 SER A 434 0 3.96 CISPEP 3 PRO B 191 PRO B 192 0 6.94 CISPEP 4 TRP B 433 SER B 434 0 3.80 SITE 1 AC1 11 GLN A 29 HIS A 130 ASN A 175 GLU A 176 SITE 2 AC1 11 TYR A 315 TRP A 358 GLU A 386 TRP A 433 SITE 3 AC1 11 GLU A 440 TRP A 441 PHE A 449 SITE 1 AC2 7 GLY A 278 HIS A 279 TYR A 280 GLN A 285 SITE 2 AC2 7 LYS A 294 PHE A 295 HOH A 669 SITE 1 AC3 4 ASP A 65 HIS A 68 ASP B 65 HIS B 68 SITE 1 AC4 4 THR A 163 ASN A 166 ARG A 167 HOH A 689 SITE 1 AC5 11 GLN B 29 HIS B 130 ASN B 175 GLU B 176 SITE 2 AC5 11 TYR B 315 TRP B 358 GLU B 386 TRP B 433 SITE 3 AC5 11 GLU B 440 TRP B 441 PHE B 449 SITE 1 AC6 8 LEU A 395 GLY B 278 HIS B 279 TYR B 280 SITE 2 AC6 8 GLN B 285 LYS B 294 PHE B 295 HOH B 608 SITE 1 AC7 4 THR B 163 ASN B 166 ARG B 167 HOH B 683 CRYST1 80.402 101.557 127.458 90.00 90.00 90.00 P 21 21 21 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 0.012438 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009847 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007846 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 -0.999993 -0.003027 0.002101 0.06917 1 MTRIX2 2 -0.003028 0.999995 -0.000275 0.05070 1 MTRIX3 2 -0.002100 -0.000281 -0.999998 25.06759 1