HEADER HYDROLASE 30-JUN-10 2XII TITLE CRYSTAL STRUCTURE OF AN ALPHA-L-FUCOSIDASE GH29 FROM BACTEROIDES TITLE 2 THETAIOTAOMICRON IN COMPLEX WITH AN EXTENDED 9-FLUORENONE IMINOSUGAR TITLE 3 INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-L-FUCOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, 32-484; COMPND 5 SYNONYM: FUCOSIDASE, GLYCOSIDE HYDROLASE, ALPHA-L-FUCOSIDE COMPND 6 FUCOHYDROLASE; COMPND 7 EC: 3.2.1.51; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON; SOURCE 3 ORGANISM_TAXID: 818; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS HYDROLASE, FUCOSE EXPDTA X-RAY DIFFRACTION AUTHOR A.LAMMERTS VAN BUEREN,S.D.POPAT,C.H.LIN,G.J.DAVIES REVDAT 3 20-DEC-23 2XII 1 REMARK REVDAT 2 25-APR-12 2XII 1 AUTHOR JRNL REMARK VERSN REVDAT 2 2 1 HETSYN REVDAT 1 21-JUL-10 2XII 0 JRNL AUTH A.LAMMERTS VAN BUEREN,S.D.POPAT,C.H.LIN,G.J.DAVIES JRNL TITL STRUCTURAL AND THERMODYNAMIC ANALYSES OF ALPHA-L-FUCOSIDASE JRNL TITL 2 INHIBITORS. JRNL REF CHEMBIOCHEM V. 11 1971 2010 JRNL REFN ISSN 1439-4227 JRNL PMID 20665773 JRNL DOI 10.1002/CBIC.201000339 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 87624 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4633 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6421 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 349 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7163 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 696 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.56000 REMARK 3 B22 (A**2) : 1.27000 REMARK 3 B33 (A**2) : -1.37000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.130 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.123 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.079 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 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): 7493 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5169 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10164 ; 1.363 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12471 ; 0.889 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 877 ; 5.934 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 360 ;31.950 ;23.944 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1258 ;14.562 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;17.953 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1020 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8278 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1586 ; 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): 4372 ; 0.773 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1781 ; 0.202 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7042 ; 1.381 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3121 ; 2.189 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3121 ; 3.479 ; 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. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 2XII COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1290044387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92257 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.67000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.700 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 2WVT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG-6000, 0.15M AMMONIUM SULFATE, REMARK 280 0.1M IMIDAZOLE PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 1 2 1 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+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 33.14151 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.54000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 56.99233 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 33.14151 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.54000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 56.99233 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 32 REMARK 465 LYS A 33 REMARK 465 LYS A 34 REMARK 465 LYS A 473 REMARK 465 GLY A 474 REMARK 465 THR A 475 REMARK 465 LYS A 476 REMARK 465 SER A 477 REMARK 465 ILE A 478 REMARK 465 TYR A 479 REMARK 465 ARG A 480 REMARK 465 ASP A 481 REMARK 465 ALA A 482 REMARK 465 LEU A 483 REMARK 465 THR A 484 REMARK 465 ALA B 32 REMARK 465 LYS B 33 REMARK 465 LYS B 34 REMARK 465 GLY B 474 REMARK 465 THR B 475 REMARK 465 LYS B 476 REMARK 465 SER B 477 REMARK 465 ILE B 478 REMARK 465 TYR B 479 REMARK 465 ARG B 480 REMARK 465 ASP B 481 REMARK 465 ALA B 482 REMARK 465 LEU B 483 REMARK 465 THR B 484 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 424 CG CD CE NZ REMARK 470 LYS B 424 CG CD CE NZ 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 2031 O HOH A 2089 2.17 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 ARG A 60 -50.34 56.45 REMARK 500 ASN A 108 72.55 -152.82 REMARK 500 ASN A 153 44.28 -103.73 REMARK 500 LYS A 157 -25.61 67.58 REMARK 500 HIS A 272 -60.41 74.31 REMARK 500 ASN A 314 76.89 -161.44 REMARK 500 VAL A 381 -62.12 -126.89 REMARK 500 ASN A 402 36.52 -98.13 REMARK 500 ARG B 60 -48.35 60.40 REMARK 500 ASN B 153 44.69 -101.28 REMARK 500 LYS B 157 -31.22 69.46 REMARK 500 ASN B 239 51.64 -109.47 REMARK 500 HIS B 272 -67.24 67.59 REMARK 500 ASN B 314 71.05 -163.18 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 LEU B 263 ARG B 264 -149.36 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 A2030 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A2113 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B2043 DISTANCE = 5.87 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TA9 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TA9 B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYR A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYR B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1004 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WVT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ALPHA-L-FUCOSIDASE GH29 FROM BACTEROIDES REMARK 900 THETAIOTAOMICRON IN COMPLEX WITH A NOVEL IMINOSUGAR FUCOSIDASE REMARK 900 INHIBITOR REMARK 900 RELATED ID: 2WVS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ALPHA-L-FUCOSIDASE GH29 TRAPPED COVALENT REMARK 900 INTERMEDIATE FROM BACTEROIDES THETAIOTAOMICRON IN COMPLEX WITH 2 - REMARK 900 FLUORO-FUCOSYL FLUORIDE USING AN E288Q MUTANT REMARK 900 RELATED ID: 2WVU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A MICHAELIS COMPLEX OF ALPHA-L-FUCOSIDASE GH29 REMARK 900 FROM BACTEROIDES THETAIOTAOMICRON WITH THE SYNTHETIC SUBSTRATE 4- REMARK 900 NITROPHENYL-ALPHA-L-FUCOSE REMARK 900 RELATED ID: 2WVV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ALPHA-L-FUCOSIDASE GH29 FROM BACTEROIDES REMARK 900 THETAIOTAOMICRON REMARK 900 RELATED ID: 2XIB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ALPHA-L-FUCOSIDASE GH29 FROM BACTEROIDES REMARK 900 THETAIOTAOMICRON IN COMPLEX WITH DEOXYFUCONOJIRIMYCIN DBREF 2XII A 32 484 UNP Q8A3I4 Q8A3I4_BACTN 32 484 DBREF 2XII B 32 484 UNP Q8A3I4 Q8A3I4_BACTN 32 484 SEQRES 1 A 453 ALA LYS LYS GLU ILE PRO LEU LYS TYR GLY ALA THR ASN SEQRES 2 A 453 GLU GLY LYS ARG GLN ASP PRO ALA MET GLN LYS PHE ARG SEQRES 3 A 453 ASP ASN ARG LEU GLY ALA PHE ILE HIS TRP GLY LEU TYR SEQRES 4 A 453 ALA ILE PRO GLY GLY GLU TRP ASN GLY LYS VAL TYR GLY SEQRES 5 A 453 GLY ALA ALA GLU TRP LEU LYS SER TRP ALA LYS VAL PRO SEQRES 6 A 453 ALA ASP GLU TRP LEU LYS LEU MET ASP GLN TRP ASN PRO SEQRES 7 A 453 THR LYS PHE ASP ALA LYS LYS TRP ALA LYS MET ALA LYS SEQRES 8 A 453 GLU MET GLY THR LYS TYR VAL LYS ILE THR THR LYS HIS SEQRES 9 A 453 HIS GLU GLY PHE CYS LEU TRP PRO SER LYS TYR THR LYS SEQRES 10 A 453 TYR THR VAL ALA ASN THR PRO TYR LYS ARG ASP ILE LEU SEQRES 11 A 453 GLY GLU LEU VAL LYS ALA TYR ASN ASP GLU GLY ILE ASP SEQRES 12 A 453 VAL HIS PHE TYR PHE SER VAL MET ASP TRP SER ASN PRO SEQRES 13 A 453 ASP TYR ARG TYR ASP ILE LYS SER LYS GLU ASP SER ILE SEQRES 14 A 453 ALA PHE SER ARG PHE LEU GLU PHE THR ASP ASN GLN LEU SEQRES 15 A 453 LYS GLU LEU ALA THR ARG TYR PRO THR VAL LYS ASP PHE SEQRES 16 A 453 TRP PHE ASP GLY THR TRP ASP ALA SER VAL LYS LYS ASN SEQRES 17 A 453 GLY TRP TRP THR ALA HIS ALA GLU GLN MET LEU LYS GLU SEQRES 18 A 453 LEU VAL PRO GLY VAL ALA ILE ASN SER ARG LEU ARG ALA SEQRES 19 A 453 ASP ASP LYS GLY LYS ARG HIS PHE ASP SER ASN GLY ARG SEQRES 20 A 453 LEU MET GLY ASP TYR GLU SER GLY TYR GLU ARG ARG LEU SEQRES 21 A 453 PRO ASP PRO VAL LYS ASP LEU LYS VAL THR GLN TRP ASP SEQRES 22 A 453 TRP GLU ALA CYS MET THR ILE PRO GLU ASN GLN TRP GLY SEQRES 23 A 453 TYR HIS LYS ASP TRP SER LEU SER TYR VAL LYS THR PRO SEQRES 24 A 453 ILE GLU VAL ILE ASP ARG ILE VAL HIS ALA VAL SER MET SEQRES 25 A 453 GLY GLY ASN MET VAL VAL ASN PHE GLY PRO GLN ALA ASP SEQRES 26 A 453 GLY ASP PHE ARG PRO GLU GLU LYS ALA MET ALA THR ALA SEQRES 27 A 453 ILE GLY LYS TRP MET ASN ARG TYR GLY LYS ALA VAL TYR SEQRES 28 A 453 ALA CYS ASP TYR ALA GLY PHE GLU LYS GLN ASP TRP GLY SEQRES 29 A 453 TYR TYR THR ARG GLY LYS ASN ASP GLU VAL TYR MET VAL SEQRES 30 A 453 VAL PHE ASN GLN PRO TYR SER GLU ARG LEU ILE VAL LYS SEQRES 31 A 453 THR PRO LYS GLY ILE THR VAL GLU LYS ALA THR LEU LEU SEQRES 32 A 453 THR THR GLY GLU ASP ILE THR VAL VAL GLU THR THR ARG SEQRES 33 A 453 ASN GLU TYR ASN VAL SER VAL PRO LYS LYS ASN PRO GLY SEQRES 34 A 453 GLU PRO TYR VAL ILE GLN LEU LYS VAL ARG ALA ALA LYS SEQRES 35 A 453 GLY THR LYS SER ILE TYR ARG ASP ALA LEU THR SEQRES 1 B 453 ALA LYS LYS GLU ILE PRO LEU LYS TYR GLY ALA THR ASN SEQRES 2 B 453 GLU GLY LYS ARG GLN ASP PRO ALA MET GLN LYS PHE ARG SEQRES 3 B 453 ASP ASN ARG LEU GLY ALA PHE ILE HIS TRP GLY LEU TYR SEQRES 4 B 453 ALA ILE PRO GLY GLY GLU TRP ASN GLY LYS VAL TYR GLY SEQRES 5 B 453 GLY ALA ALA GLU TRP LEU LYS SER TRP ALA LYS VAL PRO SEQRES 6 B 453 ALA ASP GLU TRP LEU LYS LEU MET ASP GLN TRP ASN PRO SEQRES 7 B 453 THR LYS PHE ASP ALA LYS LYS TRP ALA LYS MET ALA LYS SEQRES 8 B 453 GLU MET GLY THR LYS TYR VAL LYS ILE THR THR LYS HIS SEQRES 9 B 453 HIS GLU GLY PHE CYS LEU TRP PRO SER LYS TYR THR LYS SEQRES 10 B 453 TYR THR VAL ALA ASN THR PRO TYR LYS ARG ASP ILE LEU SEQRES 11 B 453 GLY GLU LEU VAL LYS ALA TYR ASN ASP GLU GLY ILE ASP SEQRES 12 B 453 VAL HIS PHE TYR PHE SER VAL MET ASP TRP SER ASN PRO SEQRES 13 B 453 ASP TYR ARG TYR ASP ILE LYS SER LYS GLU ASP SER ILE SEQRES 14 B 453 ALA PHE SER ARG PHE LEU GLU PHE THR ASP ASN GLN LEU SEQRES 15 B 453 LYS GLU LEU ALA THR ARG TYR PRO THR VAL LYS ASP PHE SEQRES 16 B 453 TRP PHE ASP GLY THR TRP ASP ALA SER VAL LYS LYS ASN SEQRES 17 B 453 GLY TRP TRP THR ALA HIS ALA GLU GLN MET LEU LYS GLU SEQRES 18 B 453 LEU VAL PRO GLY VAL ALA ILE ASN SER ARG LEU ARG ALA SEQRES 19 B 453 ASP ASP LYS GLY LYS ARG HIS PHE ASP SER ASN GLY ARG SEQRES 20 B 453 LEU MET GLY ASP TYR GLU SER GLY TYR GLU ARG ARG LEU SEQRES 21 B 453 PRO ASP PRO VAL LYS ASP LEU LYS VAL THR GLN TRP ASP SEQRES 22 B 453 TRP GLU ALA CYS MET THR ILE PRO GLU ASN GLN TRP GLY SEQRES 23 B 453 TYR HIS LYS ASP TRP SER LEU SER TYR VAL LYS THR PRO SEQRES 24 B 453 ILE GLU VAL ILE ASP ARG ILE VAL HIS ALA VAL SER MET SEQRES 25 B 453 GLY GLY ASN MET VAL VAL ASN PHE GLY PRO GLN ALA ASP SEQRES 26 B 453 GLY ASP PHE ARG PRO GLU GLU LYS ALA MET ALA THR ALA SEQRES 27 B 453 ILE GLY LYS TRP MET ASN ARG TYR GLY LYS ALA VAL TYR SEQRES 28 B 453 ALA CYS ASP TYR ALA GLY PHE GLU LYS GLN ASP TRP GLY SEQRES 29 B 453 TYR TYR THR ARG GLY LYS ASN ASP GLU VAL TYR MET VAL SEQRES 30 B 453 VAL PHE ASN GLN PRO TYR SER GLU ARG LEU ILE VAL LYS SEQRES 31 B 453 THR PRO LYS GLY ILE THR VAL GLU LYS ALA THR LEU LEU SEQRES 32 B 453 THR THR GLY GLU ASP ILE THR VAL VAL GLU THR THR ARG SEQRES 33 B 453 ASN GLU TYR ASN VAL SER VAL PRO LYS LYS ASN PRO GLY SEQRES 34 B 453 GLU PRO TYR VAL ILE GLN LEU LYS VAL ARG ALA ALA LYS SEQRES 35 B 453 GLY THR LYS SER ILE TYR ARG ASP ALA LEU THR HET TYR A1001 13 HET TA9 A1002 28 HET SO4 A1003 5 HET SO4 A1004 5 HET SO4 A1005 5 HET TYR B1001 13 HET TA9 B1002 28 HET SO4 B1003 5 HET GOL B1004 6 HETNAM TYR TYROSINE HETNAM TA9 9-OXO-N-[[(2R,3R,4R,5R,6S)-3,4,5-TRIHYDROXY-6-METHYL- HETNAM 2 TA9 PIPERIDIN-2-YL]METHYL]FLUORENE-1-CARBOXAMIDE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 TYR 2(C9 H11 N O3) FORMUL 4 TA9 2(C21 H22 N2 O5) FORMUL 5 SO4 4(O4 S 2-) FORMUL 11 GOL C3 H8 O3 FORMUL 12 HOH *696(H2 O) HELIX 1 1 ASP A 50 ARG A 60 1 11 HELIX 2 2 GLY A 68 ILE A 72 5 5 HELIX 3 3 ALA A 85 GLU A 87 5 3 HELIX 4 4 TRP A 88 ALA A 93 1 6 HELIX 5 5 PRO A 96 LYS A 102 1 7 HELIX 6 6 LEU A 103 TRP A 107 5 5 HELIX 7 7 ASP A 113 GLY A 125 1 13 HELIX 8 8 THR A 150 THR A 154 5 5 HELIX 9 9 ASP A 159 GLU A 171 1 13 HELIX 10 10 SER A 195 TYR A 220 1 26 HELIX 11 11 ASP A 233 ASN A 239 1 7 HELIX 12 12 ASN A 239 VAL A 254 1 16 HELIX 13 13 SER A 261 ARG A 264 5 4 HELIX 14 14 ASP A 297 TRP A 303 5 7 HELIX 15 15 ASP A 321 SER A 325 5 5 HELIX 16 16 THR A 329 MET A 343 1 15 HELIX 17 17 ARG A 360 GLY A 378 1 19 HELIX 18 18 LYS A 379 VAL A 381 5 3 HELIX 19 19 ASP B 50 ARG B 60 1 11 HELIX 20 20 GLY B 68 ILE B 72 5 5 HELIX 21 21 ALA B 85 GLU B 87 5 3 HELIX 22 22 TRP B 88 ALA B 93 1 6 HELIX 23 23 PRO B 96 LYS B 102 1 7 HELIX 24 24 LEU B 103 TRP B 107 5 5 HELIX 25 25 ASP B 113 GLY B 125 1 13 HELIX 26 26 THR B 150 THR B 154 5 5 HELIX 27 27 ASP B 159 GLU B 171 1 13 HELIX 28 28 SER B 195 TYR B 220 1 26 HELIX 29 29 ASP B 233 LYS B 238 1 6 HELIX 30 30 ASN B 239 VAL B 254 1 16 HELIX 31 31 SER B 261 ARG B 264 5 4 HELIX 32 32 ASP B 297 TRP B 303 5 7 HELIX 33 33 ASP B 321 SER B 325 5 5 HELIX 34 34 THR B 329 MET B 343 1 15 HELIX 35 35 ARG B 360 GLY B 378 1 19 HELIX 36 36 LYS B 379 VAL B 381 5 3 SHEET 1 A 7 ALA A 258 ILE A 259 0 SHEET 2 A 7 ASP A 225 ASP A 229 1 N PHE A 226 O ALA A 258 SHEET 3 A 7 ASP A 174 SER A 180 1 N PHE A 177 O ASP A 225 SHEET 4 A 7 TYR A 128 LYS A 134 1 N VAL A 129 O HIS A 176 SHEET 5 A 7 LEU A 61 ILE A 65 1 N ALA A 63 O LYS A 130 SHEET 6 A 7 GLY A 345 PHE A 351 1 O MET A 347 N GLY A 62 SHEET 7 A 7 TRP A 305 MET A 309 1 N ALA A 307 O ASN A 346 SHEET 1 B 2 GLU A 76 TRP A 77 0 SHEET 2 B 2 LYS A 80 VAL A 81 -1 O LYS A 80 N TRP A 77 SHEET 1 C 4 GLY A 395 ARG A 399 0 SHEET 2 C 4 VAL A 405 VAL A 409 -1 O TYR A 406 N THR A 398 SHEET 3 C 4 TYR A 463 ARG A 470 -1 O ILE A 465 N MET A 407 SHEET 4 C 4 THR A 427 LEU A 433 -1 N GLU A 429 O LYS A 468 SHEET 1 D 2 ASN A 411 PRO A 413 0 SHEET 2 D 2 ASN B 411 PRO B 413 -1 O GLN B 412 N GLN A 412 SHEET 1 E 3 ARG A 417 LYS A 421 0 SHEET 2 E 3 GLU A 449 SER A 453 -1 O TYR A 450 N VAL A 420 SHEET 3 E 3 VAL A 442 THR A 446 -1 N VAL A 443 O ASN A 451 SHEET 1 F 7 ALA B 258 ILE B 259 0 SHEET 2 F 7 ASP B 225 ASP B 229 1 N PHE B 226 O ALA B 258 SHEET 3 F 7 ASP B 174 SER B 180 1 N PHE B 177 O TRP B 227 SHEET 4 F 7 TYR B 128 LYS B 134 1 N VAL B 129 O HIS B 176 SHEET 5 F 7 LEU B 61 ILE B 65 1 N ALA B 63 O LYS B 130 SHEET 6 F 7 GLY B 345 PHE B 351 1 O PHE B 351 N PHE B 64 SHEET 7 F 7 TRP B 305 MET B 309 1 N ALA B 307 O ASN B 346 SHEET 1 G 2 GLU B 76 TRP B 77 0 SHEET 2 G 2 LYS B 80 VAL B 81 -1 O LYS B 80 N TRP B 77 SHEET 1 H 5 GLY B 395 ARG B 399 0 SHEET 2 H 5 VAL B 405 VAL B 409 -1 O VAL B 408 N TYR B 396 SHEET 3 H 5 TYR B 463 ALA B 471 -1 O LEU B 467 N VAL B 405 SHEET 4 H 5 ILE B 426 LEU B 433 -1 N THR B 432 O GLN B 466 SHEET 5 H 5 ASP B 439 ILE B 440 -1 O ILE B 440 N ALA B 431 SHEET 1 I 3 ARG B 417 LYS B 421 0 SHEET 2 I 3 GLU B 449 SER B 453 -1 O VAL B 452 N LEU B 418 SHEET 3 I 3 VAL B 442 THR B 446 -1 N VAL B 443 O ASN B 451 SITE 1 AC1 12 HIS A 66 GLU A 87 TRP A 88 HIS A 135 SITE 2 AC1 12 HIS A 136 TYR A 178 ASP A 229 TRP A 232 SITE 3 AC1 12 ARG A 262 HIS A 272 GLU A 288 TRP A 316 SITE 1 AC2 12 HIS B 66 GLU B 87 TRP B 88 HIS B 135 SITE 2 AC2 12 HIS B 136 TYR B 178 ASP B 229 TRP B 232 SITE 3 AC2 12 ARG B 262 HIS B 272 GLU B 288 TRP B 316 SITE 1 AC3 5 ALA A 387 ARG A 399 ASP A 403 VAL A 405 SITE 2 AC3 5 HOH A2339 SITE 1 AC4 5 ALA B 387 ARG B 399 ASP B 403 VAL B 405 SITE 2 AC4 5 ALA B 471 SITE 1 AC5 6 LYS A 237 ARG A 271 HOH A2340 HOH A2341 SITE 2 AC5 6 HOH A2342 LYS B 268 SITE 1 AC6 3 TYR A 82 GLY A 83 HOH A2343 SITE 1 AC7 5 LYS A 372 ARG A 376 LYS A 456 LYS A 457 SITE 2 AC7 5 ASN A 458 SITE 1 AC8 4 LYS A 268 LYS B 237 ARG B 271 HOH B2166 SITE 1 AC9 6 ALA B 85 GLU B 87 TRP B 88 ASN B 314 SITE 2 AC9 6 TRP B 316 HOH B2353 CRYST1 104.466 85.080 120.210 90.00 108.52 90.00 I 1 2 1 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 0.009572 0.000000 0.003207 0.00000 SCALE2 0.000000 0.011754 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008773 0.00000