HEADER HYDROLASE 22-JUN-12 4AZ5 TITLE DIFFERENTIAL INHIBITION OF THE TANDEM GH20 CATALYTIC MODULES IN THE TITLE 2 PNEUMOCOCCAL EXO-BETA-D-N-ACETYLGLUCOSAMINIDASE, STRH COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-N-ACETYLHEXOSAMINIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC MODULE, RESIDUES 181-614; COMPND 5 SYNONYM: GLYCOSIDE HYDROLASE 20; COMPND 6 EC: 3.2.1.52; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 170187; SOURCE 4 STRAIN: TIGR4; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR B.PLUVINAGE,K.A.STUBBS,D.J.VOCADLO,A.B.BORASTON REVDAT 5 20-DEC-23 4AZ5 1 REMARK SHEET LINK REVDAT 4 03-DEC-14 4AZ5 1 REMARK REVDAT 3 13-NOV-13 4AZ5 1 JRNL REVDAT 2 30-OCT-13 4AZ5 1 JRNL REVDAT 1 10-JUL-13 4AZ5 0 JRNL AUTH B.PLUVINAGE,K.A.STUBBS,D.J.VOCADLO,A.B.BORASTON JRNL TITL INHIBITION OF THE FAMILY 20 GLYCOSIDE HYDROLASE CATALYTIC JRNL TITL 2 MODULES IN THE STREPTOCOCCUS PNEUMONIAE JRNL TITL 3 EXO-BETA-D-N-ACETYLGLUCOSAMINIDASE, STRH. JRNL REF ORG.BIOMOL.CHEM. V. 11 7907 2013 JRNL REFN ISSN 1477-0520 JRNL PMID 24132305 JRNL DOI 10.1039/C3OB41579A REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 46973 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) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2513 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) : 1.73 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3339 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.45 REMARK 3 BIN R VALUE (WORKING SET) : 0.3670 REMARK 3 BIN FREE R VALUE SET COUNT : 170 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3398 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 672 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.45000 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): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.101 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.059 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.814 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3771 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5135 ; 1.351 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 489 ; 5.779 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 182 ;35.661 ;25.549 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 637 ;12.159 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;14.758 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 541 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2958 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2320 ; 0.695 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3752 ; 1.230 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1451 ; 2.157 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1383 ; 3.540 ; 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 4AZ5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1290053028. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49487 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 21.990 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2YL6 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 39.27000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.02500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.10000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.27000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.02500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.10000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.27000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.02500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.10000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.27000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.02500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 56.10000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.5 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A1617 LIES ON A SPECIAL POSITION. REMARK 375 MG MG A1622 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2178 LIES ON A SPECIAL POSITION. REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 311 OE1 NE2 REMARK 480 LYS A 389 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 2406 O HOH A 2407 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2102 O HOH A 2598 2565 2.17 REMARK 500 O HOH A 2246 O HOH A 2494 8455 2.17 REMARK 500 O HOH A 2119 O HOH A 2488 8455 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 GLN A 311 CD GLN A 311 NE2 -0.234 REMARK 500 REMARK 500 REMARK: NULL 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 GLN A 311 CG - CD - OE1 ANGL. DEV. = -16.8 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 ASN A 225 93.89 -166.28 REMARK 500 ASP A 226 -75.25 64.86 REMARK 500 LYS A 350 -22.23 73.51 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 A2358 DISTANCE = 6.03 ANGSTROMS REMARK 525 HOH A2671 DISTANCE = 6.43 ANGSTROMS REMARK 525 HOH A2672 DISTANCE = 7.63 ANGSTROMS REMARK 525 HOH A2673 DISTANCE = 8.23 ANGSTROMS REMARK 525 HOH A2674 DISTANCE = 6.43 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PE4 A 1618 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 MG A1616 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 259 OD2 REMARK 620 2 HOH A2141 O 83.3 REMARK 620 3 HOH A2145 O 81.6 90.4 REMARK 620 4 HOH A2146 O 85.2 168.4 86.6 REMARK 620 5 HOH A2147 O 88.1 88.1 169.6 92.8 REMARK 620 6 HOH A2669 O 174.7 95.1 93.4 96.2 96.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1617 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 408 ND1 REMARK 620 2 HIS A 408 ND1 94.7 REMARK 620 3 HOH A2418 O 119.8 106.1 REMARK 620 4 HOH A2418 O 106.1 119.8 110.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1622 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2312 O REMARK 620 2 HOH A2312 O 84.9 REMARK 620 3 HOH A2314 O 83.7 97.0 REMARK 620 4 HOH A2314 O 97.0 83.7 179.0 REMARK 620 5 HOH A2411 O 157.3 83.5 78.4 101.1 REMARK 620 6 HOH A2411 O 83.5 157.3 101.1 78.4 113.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1623 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2579 O REMARK 620 2 HOH A2671 O 86.9 REMARK 620 3 HOH A2672 O 99.8 173.1 REMARK 620 4 HOH A2673 O 85.8 99.0 79.8 REMARK 620 5 HOH A2674 O 89.9 87.1 94.7 172.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NGW A 1615 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1616 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1617 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PE4 A 1618 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1619 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1620 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1621 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1622 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1623 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YL5 RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 2YL6 RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 2YL8 RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 2YL9 RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 2YLA RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 2YLL RELATED DB: PDB REMARK 900 INHIBITION OF THE PNEUMOCOCCAL VIRULENCE FACTOR STRH AND MOLECULAR REMARK 900 INSIGHTS INTO N-GLYCAN RECOGNITION AND HYDROLYSIS REMARK 900 RELATED ID: 4AZ6 RELATED DB: PDB REMARK 900 DIFFERENTIAL INHIBITION OF THE TANDEM GH20 CATALYTIC MODULES IN THE REMARK 900 PNEUMOCOCCAL EXO-BETA-D-N- ACETYLGLUCOSAMINIDASE, STRH REMARK 900 RELATED ID: 4AZ7 RELATED DB: PDB REMARK 900 DIFFERENTIAL INHIBITION OF THE TANDEM GH20 CATALYTIC MODULES IN THE REMARK 900 PNEUMOCOCCAL EXO-BETA-D-N- ACETYLGLUCOSAMINIDASE, STRH DBREF 4AZ5 A 181 614 UNP P49610 STRH_STRPN 181 614 SEQRES 1 A 434 ASN GLU LYS LEU ALA LYS LYS LYS ILE VAL SER ILE ASP SEQRES 2 A 434 ALA GLY ARG LYS TYR PHE SER PRO GLU GLN LEU LYS GLU SEQRES 3 A 434 ILE ILE ASP LYS ALA LYS HIS TYR GLY TYR THR ASP LEU SEQRES 4 A 434 HIS LEU LEU VAL GLY ASN ASP GLY LEU ARG PHE MET LEU SEQRES 5 A 434 ASP ASP MET SER ILE THR ALA ASN GLY LYS THR TYR ALA SEQRES 6 A 434 SER ASP ASP VAL LYS ARG ALA ILE GLU LYS GLY THR ASN SEQRES 7 A 434 ASP TYR TYR ASN ASP PRO ASN GLY ASN HIS LEU THR GLU SEQRES 8 A 434 SER GLN MET THR ASP LEU ILE ASN TYR ALA LYS ASP LYS SEQRES 9 A 434 GLY ILE GLY LEU ILE PRO THR VAL ASN SER PRO GLY HIS SEQRES 10 A 434 MET ASP ALA ILE LEU ASN ALA MET LYS GLU LEU GLY ILE SEQRES 11 A 434 GLN ASN PRO ASN PHE SER TYR PHE GLY LYS LYS SER ALA SEQRES 12 A 434 ARG THR VAL ASP LEU ASP ASN GLU GLN ALA VAL ALA PHE SEQRES 13 A 434 THR LYS ALA LEU ILE ASP LYS TYR ALA ALA TYR PHE ALA SEQRES 14 A 434 LYS LYS THR GLU ILE PHE ASN ILE GLY LEU ASP GLU TYR SEQRES 15 A 434 ALA ASN ASP ALA THR ASP ALA LYS GLY TRP SER VAL LEU SEQRES 16 A 434 GLN ALA ASP LYS TYR TYR PRO ASN GLU GLY TYR PRO VAL SEQRES 17 A 434 LYS GLY TYR GLU LYS PHE ILE ALA TYR ALA ASN ASP LEU SEQRES 18 A 434 ALA ARG ILE VAL LYS SER HIS GLY LEU LYS PRO MET ALA SEQRES 19 A 434 PHE ASN ASP GLY ILE TYR TYR ASN SER ASP THR SER PHE SEQRES 20 A 434 GLY SER PHE ASP LYS ASP ILE ILE VAL SER MET TRP THR SEQRES 21 A 434 GLY GLY TRP GLY GLY TYR ASP VAL ALA SER SER LYS LEU SEQRES 22 A 434 LEU ALA GLU LYS GLY HIS GLN ILE LEU ASN THR ASN ASP SEQRES 23 A 434 ALA TRP TYR TYR VAL LEU GLY ARG ASN ALA ASP GLY GLN SEQRES 24 A 434 GLY TRP TYR ASN LEU ASP GLN GLY LEU ASN GLY ILE LYS SEQRES 25 A 434 ASN THR PRO ILE THR SER VAL PRO LYS THR GLU GLY ALA SEQRES 26 A 434 ASP ILE PRO ILE ILE GLY GLY MET VAL ALA ALA TRP ALA SEQRES 27 A 434 ASP THR PRO SER ALA ARG TYR SER PRO SER ARG LEU PHE SEQRES 28 A 434 LYS LEU MET ARG HIS PHE ALA ASN ALA ASN ALA GLU TYR SEQRES 29 A 434 PHE ALA ALA ASP TYR GLU SER ALA GLU GLN ALA LEU ASN SEQRES 30 A 434 GLU VAL PRO LYS ASP LEU ASN ARG TYR THR ALA GLU SER SEQRES 31 A 434 VAL THR ALA VAL LYS GLU ALA GLU LYS ALA ILE ARG SER SEQRES 32 A 434 LEU ASP SER ASN LEU SER ARG ALA GLN GLN ASP THR ILE SEQRES 33 A 434 ASP GLN ALA ILE ALA LYS LEU GLN GLU THR VAL ASN ASN SEQRES 34 A 434 LEU THR LEU THR PRO HET NGW A1615 14 HET MG A1616 1 HET MG A1617 1 HET PE4 A1618 23 HET EDO A1619 4 HET EDO A1620 4 HET EDO A1621 4 HET MG A1622 1 HET MG A1623 1 HETNAM NGW (2S,3AR,5R,6S,7R,7AR)-5-(HYDROXYMETHYL)-2-METHYL-2,3A, HETNAM 2 NGW 5,6,7,7A-HEXAHYDRO-1H-PYRANO[3,2-D][1,3]THIAZOLE-6,7- HETNAM 3 NGW DIOL HETNAM MG MAGNESIUM ION HETNAM PE4 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}- HETNAM 2 PE4 ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL HETNAM EDO 1,2-ETHANEDIOL HETSYN PE4 POLYETHYLENE GLYCOL PEG4000 HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NGW C8 H15 N O4 S FORMUL 3 MG 4(MG 2+) FORMUL 5 PE4 C16 H34 O8 FORMUL 6 EDO 3(C2 H6 O2) FORMUL 11 HOH *672(H2 O) HELIX 1 1 SER A 200 GLY A 215 1 16 HELIX 2 2 ALA A 245 TYR A 261 1 17 HELIX 3 3 GLU A 271 LYS A 284 1 14 HELIX 4 4 MET A 298 GLY A 309 1 12 HELIX 5 5 ASN A 330 ALA A 349 1 20 HELIX 6 6 LYS A 370 TYR A 381 1 12 HELIX 7 7 LYS A 389 HIS A 408 1 20 HELIX 8 8 TYR A 420 ASP A 424 5 5 HELIX 9 9 SER A 450 LYS A 457 1 8 HELIX 10 10 ASN A 465 TYR A 469 5 5 HELIX 11 11 ASN A 483 THR A 494 1 12 HELIX 12 12 SER A 526 ASN A 541 1 16 HELIX 13 13 TYR A 549 GLU A 558 1 10 HELIX 14 14 THR A 567 LEU A 584 1 18 HELIX 15 15 GLN A 592 ASN A 609 1 18 SHEET 1 AA10 LYS A 187 ASP A 193 0 SHEET 2 AA10 GLY A 511 TRP A 517 1 O GLY A 512 N ILE A 189 SHEET 3 AA10 TYR A 470 VAL A 471 1 O TYR A 470 N TRP A 517 SHEET 4 AA10 ASP A 218 GLY A 224 0 SHEET 5 AA10 GLY A 287 SER A 294 0 SHEET 6 AA10 ILE A 354 GLY A 358 0 SHEET 7 AA10 LYS A 411 PHE A 415 0 SHEET 8 AA10 ILE A 435 MET A 438 0 SHEET 9 AA10 ILE A 461 ASN A 463 0 SHEET 10 AA10 LYS A 187 ASP A 193 1 O LYS A 187 N GLY A 512 SHEET 1 AB 2 PHE A 230 MET A 231 0 SHEET 2 AB 2 LEU A 269 THR A 270 1 O LEU A 269 N MET A 231 SHEET 1 AC 2 ILE A 237 ALA A 239 0 SHEET 2 AC 2 LYS A 242 TYR A 244 -1 O LYS A 242 N ALA A 239 SHEET 1 AD 2 ASN A 314 TYR A 317 0 SHEET 2 AD 2 LYS A 320 VAL A 326 -1 O LYS A 320 N TYR A 317 LINK OD2BASP A 259 MG MG A1616 1555 1555 2.18 LINK ND1 HIS A 408 MG MG A1617 3555 1555 2.32 LINK ND1 HIS A 408 MG MG A1617 1555 1555 2.32 LINK MG MG A1616 O HOH A2141 1555 1555 2.23 LINK MG MG A1616 O HOH A2145 1555 1555 2.13 LINK MG MG A1616 O HOH A2146 1555 1555 2.16 LINK MG MG A1616 O HOH A2147 1555 1555 2.01 LINK MG MG A1616 O HOH A2669 1555 1555 2.16 LINK MG MG A1617 O HOH A2418 1555 3555 2.37 LINK MG MG A1617 O HOH A2418 1555 1555 2.37 LINK MG MG A1622 O HOH A2312 1555 1555 2.04 LINK MG MG A1622 O HOH A2312 1555 3555 2.04 LINK MG MG A1622 O HOH A2314 1555 1555 2.21 LINK MG MG A1622 O HOH A2314 1555 3555 2.21 LINK MG MG A1622 O HOH A2411 1555 3555 2.20 LINK MG MG A1622 O HOH A2411 1555 1555 2.20 LINK MG MG A1623 O HOH A2579 1555 4565 2.05 LINK MG MG A1623 O HOH A2671 1555 1555 2.05 LINK MG MG A1623 O HOH A2672 1555 1555 2.26 LINK MG MG A1623 O HOH A2673 1555 1555 2.04 LINK MG MG A1623 O HOH A2674 1555 1555 2.09 CISPEP 1 SER A 294 PRO A 295 0 -5.23 SITE 1 AC1 12 ARG A 196 HIS A 297 ASP A 360 GLU A 361 SITE 2 AC1 12 PHE A 415 TRP A 439 TYR A 469 TYR A 482 SITE 3 AC1 12 TRP A 517 ASP A 519 HOH A2062 HOH A2668 SITE 1 AC2 6 ASP A 259 HOH A2141 HOH A2145 HOH A2146 SITE 2 AC2 6 HOH A2147 HOH A2669 SITE 1 AC3 2 HIS A 408 HOH A2418 SITE 1 AC4 9 TYR A 317 PHE A 318 SER A 373 TYR A 381 SITE 2 AC4 9 TYR A 386 HOH A2264 HOH A2368 HOH A2387 SITE 3 AC4 9 HOH A2670 SITE 1 AC5 1 ASN A 422 SITE 1 AC6 2 LYS A 210 HIS A 213 SITE 1 AC7 3 ASP A 283 GLY A 285 HOH A2211 SITE 1 AC8 3 HOH A2312 HOH A2314 HOH A2411 SITE 1 AC9 5 HOH A2579 HOH A2671 HOH A2672 HOH A2673 SITE 2 AC9 5 HOH A2674 CRYST1 78.540 110.050 112.200 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.012732 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009087 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008913 0.00000