10 20 30 40 50 60 70 80 1OJM - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER LYASE 11-JUL-03 1OJM
TITLE SPECIFICITY AND MECHANISM OF STREPTOCOCCUS PNEUMONIAE TITLE 2 HYALURONATE LYASE: COMPLEX WITH UNSULPHATED CHONDROITIN TITLE 3 DISACCHARIDE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYALURONATE LYASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HYALURONATE LYASE, RESIDUES 287-1009; COMPND 5 SYNONYM: HYALURONIDASE, HYASE; COMPND 6 EC: 4.2.2.1; COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 1313; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21
KEYWDS LYASE, PROTEIN-CARBOHYDRATE COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR D.J.RIGDEN,M.J.JEDRZEJAS
REVDAT 4 23-JAN-13 1OJM 1 COMPND REMARK VERSN DBREF REVDAT 4 2 SEQADV HET HETNAM FORMUL REVDAT 4 3 LINK SITE SCALE1 SCALE2 REVDAT 4 4 SCALE3 TER HETATM CONECT REVDAT 3 24-FEB-09 1OJM 1 VERSN REVDAT 2 11-DEC-03 1OJM 1 JRNL REVDAT 1 30-OCT-03 1OJM 0
JRNL AUTH D.J.RIGDEN,M.J.JEDRZEJAS JRNL TITL STRUCTURES OF STREPTOCOCCUS PNEUMONIAE HYALURONATE JRNL TITL 2 LYASE IN COMPLEX WITH CHONDROITIN AND CHONDROITIN JRNL TITL 3 SULFATE DISACCHARIDES: INSIGHTS INTO SPECIFICITY JRNL TITL 4 AND MECHANISM OF ACTION JRNL REF J.BIOL.CHEM. V. 278 50596 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 14523022 JRNL DOI 10.1074/JBC.M307596200
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.LI,S.J.KELLY,E.LAMANI,M.FERRARONI,M.J.JEDRZEJAS REMARK 1 TITL STRUCTURAL BASIS OF HYALURONAN DEGRADATION BY REMARK 1 TITL 2 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE REMARK 1 REF EMBO J. V. 19 1228 2000 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 10716923 REMARK 1 DOI 10.1093/EMBOJ/19.6.1228
REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2193081 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 84.2 REMARK 3 NUMBER OF REFLECTIONS : 70193 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 SET) : 0.203 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 3565 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.5 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5964 REMARK 3 BIN R VALUE (WORKING SET) : 0.234 REMARK 3 BIN FREE R VALUE : 0.262 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.2 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 326 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5791 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 571 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.6 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.9 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.92 REMARK 3 B22 (A**2) : -1.27 REMARK 3 B33 (A**2) : 12.18 REMARK 3 B12 (A**2) : 0 REMARK 3 B13 (A**2) : 0 REMARK 3 B23 (A**2) : 0 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.15 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.3 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.5 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.79 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.87 ; 1.50 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.62 ; 2.00 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.61 ; 2.00 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.57 ; 2.50 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.413387 REMARK 3 BSOL : 58.1651 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : CS0_PAR.TXT REMARK 3 PARAMETER FILE 4 : SO4_XPLOR_PAR.TXT REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : SB74_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 4 : SO4_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 5 : XYL_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1OJM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-AUG-03. REMARK 100 THE PDBE ID CODE IS EBI-13052.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : OXFORD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70193 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 40.380 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.2 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.15400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: PDB ENTRY 1C82 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.6 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.5M AMMONIUM SULFATE, REMARK 280 200MM SODIUM CACODYLATE, PH 6.0
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 41.82800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.39300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.13300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.39300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.82800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.13300 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: PQS 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 GLN A 892 REMARK 465 HIS A 893 REMARK 465 HIS A 894 REMARK 465 HIS A 895 REMARK 465 HIS A 896 REMARK 465 HIS A 897 REMARK 465 HIS A 898
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 GLU A 891 CA C O CB CG CD OE1 OE2
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 SER A 218 N ALA A 220 1.99 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 203 CD A GLN A 203 NE2A 3.350 REMARK 500 GLN A 203 CG A GLN A 203 CD A 1.129 REMARK 500 ASP A 340 CG A ASP A 340 OD1A 2.517 REMARK 500 ASP A 340 CG A ASP A 340 OD2A 2.018 REMARK 500 LYS A 444 CD A LYS A 444 CE A 0.812 REMARK 500 TYR A 744 CZ A TYR A 744 OH A 1.344 REMARK 500 ARG A 862 CZ A ARG A 862 NH2A 0.701 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 203 CB - CG - CD ANGL. DEV. = -44.2 DEGREES REMARK 500 GLN A 203 CG - CD - NE2 ANGL. DEV. = -94.9 DEGREES REMARK 500 GLN A 203 CG - CD - OE1 ANGL. DEV. = -47.4 DEGREES REMARK 500 GLN A 203 OE1 - CD - NE2 ANGL. DEV. = -43.3 DEGREES REMARK 500 ASP A 340 CB - CG - OD1 ANGL. DEV. = -98.9 DEGREES REMARK 500 ASP A 340 CB - CG - OD2 ANGL. DEV. = -75.3 DEGREES REMARK 500 ASP A 340 OD1 - CG - OD2 ANGL. DEV. = -87.7 DEGREES REMARK 500 LYS A 444 CG - CD - CE ANGL. DEV. = -35.1 DEGREES REMARK 500 TYR A 744 CE1 - CZ - OH ANGL. DEV. = 41.1 DEGREES REMARK 500 TYR A 744 OH - CZ - CE2 ANGL. DEV. = -74.9 DEGREES REMARK 500 ARG A 862 NE - CZ - NH1 ANGL. DEV. = -30.8 DEGREES REMARK 500 ARG A 862 NE - CZ - NH2 ANGL. DEV. = 28.2 DEGREES REMARK 500 ARG A 862 NH1 - CZ - NH2 ANGL. DEV. = -37.7 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 ALA A 186 -51.59 -140.58 REMARK 500 GLN A 219 9.39 -15.65 REMARK 500 GLN A 261 25.81 48.68 REMARK 500 VAL A 280 -48.13 -136.10 REMARK 500 ILE A 296 -61.12 -125.73 REMARK 500 ASN A 341 62.91 -165.88 REMARK 500 THR A 400 -54.77 74.41 REMARK 500 ASN A 401 33.91 -153.08 REMARK 500 TYR A 404 23.31 -144.19 REMARK 500 ALA A 407 -63.96 -140.46 REMARK 500 THR A 589 0.02 -67.66 REMARK 500 ASN A 598 -153.24 -125.17 REMARK 500 SER A 605 -166.46 -118.22 REMARK 500 ALA A 666 140.70 -177.44 REMARK 500 LEU A 673 64.45 -119.15 REMARK 500 LYS A 674 -65.62 65.38 REMARK 500 ASN A 705 74.28 -118.49 REMARK 500 ASN A 820 71.23 -152.73 REMARK 500 SER A 880 -152.42 -100.08 REMARK 500 REMARK 500 REMARK: NULL
REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED.
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUES REMARK 800 GCD A 900 AND NGA A 901
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C82 RELATED DB: PDB REMARK 900 MECHANISM OF HYALURONAN BINDING AND REMARK 900 DEGRADATION: STRUCTURE OF STREPTOCOCCUS REMARK 900 PNEUMONIAE HYALURONATE LYASE IN COMPLEX WITH REMARK 900 HYALURONIC ACID DISACCHARIDE AT 1.7 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 1EGU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STREPTOCOCCUS PNEUMONIAE REMARK 900 HYALURONATE LYASE AT 1.56 A RESOLUTION REMARK 900 RELATED ID: 1F9G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STREPTOCOCCUS PNEUMONIAE REMARK 900 HYALURONATELYASE COCRYSTALLIZED WITH ASCORBIC REMARK 900 ACID REMARK 900 RELATED ID: 1LOH RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE IN REMARK 900 COMPLEX WITHHEXASACCHARIDE HYALURONAN SUBSTRATE REMARK 900 RELATED ID: 1LXK RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE IN REMARK 900 COMPLEX WITHTETRASACCHARIDE HYALURONAN SUBSTRATE REMARK 900 RELATED ID: 1N7N RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE W292A REMARK 900 MUTANT REMARK 900 RELATED ID: 1N7O RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE F343V REMARK 900 MUTANT REMARK 900 RELATED ID: 1N7P RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE W292A REMARK 900 /F343VDOUBLE MUTANT REMARK 900 RELATED ID: 1N7Q RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE W291A REMARK 900 /W292ADOUBLE MUTANT COMPLEX WITH HYALURONAN REMARK 900 HEXASACCHRIDE REMARK 900 RELATED ID: 1N7R RELATED DB: PDB REMARK 900 STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASEW291A/ REMARK 900 W292A/F343V MUTANT COMPLEX WITH REMARK 900 HEXASACCHARIDE HYALURONAN REMARK 900 RELATED ID: 1OJN RELATED DB: PDB REMARK 900 SPECIFICITY AND MECHANISM OF STREPTOCOCCUS PNEUMONIAE REMARK 900 HYALURONATE LYASE: COMPLEX OF THE TYR408PHE MUTANT WITH REMARK 900 6-SULPHATED CHONDROITIN DISACCHARIDE REMARK 900 RELATED ID: 1OJO RELATED DB: PDB REMARK 900 SPECIFICITY AND MECHANISM OF STREPTOCOCCUS PNEUMONIAE REMARK 900 HYALURONATE LYASE: COMPLEX OF THE TYR408PHE MUTANT WITH REMARK 900 4-SULPHATED CHONDROITIN DISACCHARIDE REMARK 900 RELATED ID: 1OJP RELATED DB: PDB REMARK 900 SPECIFICITY AND MECHANISM OF STREPTOCOCCUS PNEUMONIAE REMARK 900 HYALURONATE LYASE: COMPLEX WITH 6-SULPHATED CHONDROITIN REMARK 900 DISACCHARIDE
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SIX RESIDUE HIS TAG (RESIDUES A893-A898) WAS NOT REMARK 999 SEEN IN THE DENSITY. THE SWISSPROT ENTRY INCLUDES REMARK 999 REFERENCES DETAILING SEVERAL SEQUENCE CONFLICTS
DBREF 1OJM A 174 892 UNP Q54873 HYSA_STRPN 291 1009
SEQADV 1OJM VAL A 170 UNP Q54873 EXPRESSION TAG SEQADV 1OJM LYS A 171 UNP Q54873 EXPRESSION TAG SEQADV 1OJM ASP A 172 UNP Q54873 EXPRESSION TAG SEQADV 1OJM THR A 173 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 893 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 894 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 895 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 896 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 897 UNP Q54873 EXPRESSION TAG SEQADV 1OJM HIS A 898 UNP Q54873 EXPRESSION TAG SEQADV 1OJM ASP A 196 UNP Q54873 GLU 313 CONFLICT SEQADV 1OJM ILE A 223 UNP Q54873 THR 340 CONFLICT SEQADV 1OJM ARG A 496 UNP Q54873 CYS 613 CONFLICT SEQADV 1OJM THR A 541 UNP Q54873 PRO 658 CONFLICT SEQADV 1OJM SER A 704 UNP Q54873 GLY 821 CONFLICT SEQADV 1OJM SER A 736 UNP Q54873 PHE 853 CONFLICT SEQADV 1OJM GLY A 790 UNP Q54873 ARG 907 CONFLICT
SEQRES 1 A 729 VAL LYS ASP THR TYR THR ASP ARG LEU ASP ASP TRP ASN SEQRES 2 A 729 GLY ILE ILE ALA GLY ASN GLN TYR TYR ASP SER LYS ASN SEQRES 3 A 729 ASP GLN MET ALA LYS LEU ASN GLN GLU LEU GLU GLY LYS SEQRES 4 A 729 VAL ALA ASP SER LEU SER SER ILE SER SER GLN ALA ASP SEQRES 5 A 729 ARG ILE TYR LEU TRP GLU LYS PHE SER ASN TYR LYS THR SEQRES 6 A 729 SER ALA ASN LEU THR ALA THR TYR ARG LYS LEU GLU GLU SEQRES 7 A 729 MET ALA LYS GLN VAL THR ASN PRO SER SER ARG TYR TYR SEQRES 8 A 729 GLN ASP GLU THR VAL VAL ARG THR VAL ARG ASP SER MET SEQRES 9 A 729 GLU TRP MET HIS LYS HIS VAL TYR ASN SER GLU LYS SER SEQRES 10 A 729 ILE VAL GLY ASN TRP TRP ASP TYR GLU ILE GLY THR PRO SEQRES 11 A 729 ARG ALA ILE ASN ASN THR LEU SER LEU MET LYS GLU TYR SEQRES 12 A 729 PHE SER ASP GLU GLU ILE LYS LYS TYR THR ASP VAL ILE SEQRES 13 A 729 GLU LYS PHE VAL PRO ASP PRO GLU HIS PHE ARG LYS THR SEQRES 14 A 729 THR ASP ASN PRO PHE LYS ALA LEU GLY GLY ASN LEU VAL SEQRES 15 A 729 ASP MET GLY ARG VAL LYS VAL ILE ALA GLY LEU LEU ARG SEQRES 16 A 729 LYS ASP ASP GLN GLU ILE SER SER THR ILE ARG SER ILE SEQRES 17 A 729 GLU GLN VAL PHE LYS LEU VAL ASP GLN GLY GLU GLY PHE SEQRES 18 A 729 TYR GLN ASP GLY SER TYR ILE ASP HIS THR ASN VAL ALA SEQRES 19 A 729 TYR THR GLY ALA TYR GLY ASN VAL LEU ILE ASP GLY LEU SEQRES 20 A 729 SER GLN LEU LEU PRO VAL ILE GLN LYS THR LYS ASN PRO SEQRES 21 A 729 ILE ASP LYS ASP LYS MET GLN THR MET TYR HIS TRP ILE SEQRES 22 A 729 ASP LYS SER PHE ALA PRO LEU LEU VAL ASN GLY GLU LEU SEQRES 23 A 729 MET ASP MET SER ARG GLY ARG SER ILE SER ARG ALA ASN SEQRES 24 A 729 SER GLU GLY HIS VAL ALA ALA VAL GLU VAL LEU ARG GLY SEQRES 25 A 729 ILE HIS ARG ILE ALA ASP MET SER GLU GLY GLU THR LYS SEQRES 26 A 729 GLN ARG LEU GLN SER LEU VAL LYS THR ILE VAL GLN SER SEQRES 27 A 729 ASP SER TYR TYR ASP VAL PHE LYS ASN LEU LYS THR TYR SEQRES 28 A 729 LYS ASP ILE SER LEU MET GLN SER LEU LEU SER ASP ALA SEQRES 29 A 729 GLY VAL ALA SER VAL PRO ARG THR SER TYR LEU SER ALA SEQRES 30 A 729 PHE ASN LYS MET ASP LYS THR ALA MET TYR ASN ALA GLU SEQRES 31 A 729 LYS GLY PHE GLY PHE GLY LEU SER LEU PHE SER SER ARG SEQRES 32 A 729 THR LEU ASN TYR GLU HIS MET ASN LYS GLU ASN LYS ARG SEQRES 33 A 729 GLY TRP TYR THR SER ASP GLY MET PHE TYR LEU TYR ASN SEQRES 34 A 729 GLY ASP LEU SER HIS TYR SER ASP GLY TYR TRP PRO THR SEQRES 35 A 729 VAL ASN PRO TYR LYS MET PRO GLY THR THR GLU THR ASP SEQRES 36 A 729 ALA LYS ARG ALA ASP SER ASP THR GLY LYS VAL LEU PRO SEQRES 37 A 729 SER ALA PHE VAL GLY THR SER LYS LEU ASP ASP ALA ASN SEQRES 38 A 729 ALA THR ALA THR MET ASP PHE THR ASN TRP ASN GLN THR SEQRES 39 A 729 LEU THR ALA HIS LYS SER TRP PHE MET LEU LYS ASP LYS SEQRES 40 A 729 ILE ALA PHE LEU GLY SER ASN ILE GLN ASN THR SER THR SEQRES 41 A 729 ASP THR ALA ALA THR THR ILE ASP GLN ARG LYS LEU GLU SEQRES 42 A 729 SER SER ASN PRO TYR LYS VAL TYR VAL ASN ASP LYS GLU SEQRES 43 A 729 ALA SER LEU THR GLU GLN GLU LYS ASP TYR PRO GLU THR SEQRES 44 A 729 GLN SER VAL PHE LEU GLU SER SER ASP SER LYS LYS ASN SEQRES 45 A 729 ILE GLY TYR PHE PHE PHE LYS LYS SER SER ILE SER MET SEQRES 46 A 729 SER LYS ALA LEU GLN LYS GLY ALA TRP LYS ASP ILE ASN SEQRES 47 A 729 GLU GLY GLN SER ASP LYS GLU VAL GLU ASN GLU PHE LEU SEQRES 48 A 729 THR ILE SER GLN ALA HIS LYS GLN ASN GLY ASP SER TYR SEQRES 49 A 729 GLY TYR MET LEU ILE PRO ASN VAL ASP ARG ALA THR PHE SEQRES 50 A 729 ASN GLN MET ILE LYS GLU LEU GLU SER SER LEU ILE GLU SEQRES 51 A 729 ASN ASN GLU THR LEU GLN SER VAL TYR ASP ALA LYS GLN SEQRES 52 A 729 GLY VAL TRP GLY ILE VAL LYS TYR ASP ASP SER VAL SER SEQRES 53 A 729 THR ILE SER ASN GLN PHE GLN VAL LEU LYS ARG GLY VAL SEQRES 54 A 729 TYR THR ILE ARG LYS GLU GLY ASP GLU TYR LYS ILE ALA SEQRES 55 A 729 TYR TYR ASN PRO GLU THR GLN GLU SER ALA PRO ASP GLN SEQRES 56 A 729 GLU VAL PHE LYS LYS LEU GLU GLN HIS HIS HIS HIS HIS SEQRES 57 A 729 HIS
HET NGA A 901 15 HET GCD A 900 11 HET SO4 A1200 5 HET SO4 A1201 5 HET SO4 A1202 5 HET SO4 A1203 5
HETNAM NGA N-ACETYL-D-GALACTOSAMINE HETNAM GCD 4,5-DEHYDRO-D-GLUCURONIC ACID HETNAM SO4 SULFATE ION
FORMUL 2 NGA C8 H15 N O6 FORMUL 2 GCD C6 H8 O6 FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *571(H2 O)
HELIX 1 1 ASP A 172 ALA A 186 1 15 HELIX 2 2 GLY A 187 TYR A 191 5 5 HELIX 3 3 ASN A 195 ILE A 216 1 22 HELIX 4 4 TRP A 226 SER A 230 5 5 HELIX 5 5 SER A 235 THR A 253 1 19 HELIX 6 6 ASP A 262 VAL A 280 1 19 HELIX 7 7 ASN A 290 ILE A 296 1 7 HELIX 8 8 ILE A 296 MET A 309 1 14 HELIX 9 9 LYS A 310 PHE A 313 5 4 HELIX 10 10 SER A 314 VAL A 329 1 16 HELIX 11 11 LEU A 346 ARG A 364 1 19 HELIX 12 12 ASP A 366 GLU A 378 1 13 HELIX 13 13 GLN A 379 LYS A 382 5 4 HELIX 14 14 ALA A 407 GLN A 424 1 18 HELIX 15 15 GLN A 436 SER A 445 1 10 HELIX 16 16 PHE A 446 PRO A 448 5 3 HELIX 17 17 ASP A 457 SER A 469 5 13 HELIX 18 18 GLU A 470 MET A 488 1 19 HELIX 19 19 GLU A 490 ASP A 508 1 19 HELIX 20 20 ASP A 512 LEU A 517 5 6 HELIX 21 21 THR A 519 ASP A 532 1 14 HELIX 22 22 ASN A 548 MET A 550 5 3 HELIX 23 23 GLY A 607 VAL A 612 1 6 HELIX 24 24 ASP A 737 LYS A 740 5 4 HELIX 25 25 TRP A 763 ASN A 767 1 5 HELIX 26 26 ASP A 802 LEU A 813 1 12 HELIX 27 27 PRO A 882 VAL A 886 1 5
SHEET 1 AA 2 HIS A 334 PHE A 335 0 SHEET 2 AA 2 PHE A 343 LYS A 344 -1 O PHE A 343 N PHE A 335 SHEET 1 AB 3 GLY A 389 PHE A 390 0 SHEET 2 AB 3 TYR A 396 ASP A 398 -1 O ILE A 397 N GLY A 389 SHEET 3 AB 3 VAL A 402 ALA A 403 -1 O VAL A 402 N ASP A 398 SHEET 1 AC 2 LEU A 450 VAL A 451 0 SHEET 2 AC 2 GLU A 454 LEU A 455 -1 O GLU A 454 N VAL A 451 SHEET 1 AD 4 TYR A 543 PHE A 547 0 SHEET 2 AD 4 LYS A 552 ASN A 557 -1 O LYS A 552 N PHE A 547 SHEET 3 AD 4 PHE A 562 SER A 567 -1 O PHE A 562 N ASN A 557 SHEET 4 AD 4 MET A 593 TYR A 597 -1 O MET A 593 N SER A 567 SHEET 1 AE 7 THR A 621 THR A 623 0 SHEET 2 AE 7 ALA A 692 LYS A 700 -1 O ALA A 693 N GLU A 622 SHEET 3 AE 7 GLU A 774 HIS A 786 -1 O LEU A 780 N ARG A 699 SHEET 4 AE 7 ILE A 742 ALA A 762 -1 O SER A 753 N SER A 783 SHEET 5 AE 7 LYS A 723 GLU A 734 -1 O LYS A 723 N MET A 754 SHEET 6 AE 7 LYS A 708 VAL A 711 -1 O LYS A 708 N GLU A 734 SHEET 7 AE 7 LYS A 714 ALA A 716 -1 O LYS A 714 N VAL A 711 SHEET 1 AF 9 THR A 621 THR A 623 0 SHEET 2 AF 9 ALA A 692 LYS A 700 -1 O ALA A 693 N GLU A 622 SHEET 3 AF 9 GLU A 774 HIS A 786 -1 O LEU A 780 N ARG A 699 SHEET 4 AF 9 ILE A 742 ALA A 762 -1 O SER A 753 N SER A 783 SHEET 5 AF 9 ASP A 791 PRO A 799 -1 O GLY A 794 N PHE A 747 SHEET 6 AF 9 ILE A 677 ASN A 686 -1 O ILE A 677 N LEU A 797 SHEET 7 AF 9 LEU A 664 LEU A 673 -1 O THR A 665 N GLN A 685 SHEET 8 AF 9 ASN A 650 THR A 658 -1 O ALA A 651 N MET A 672 SHEET 9 AF 9 VAL A 641 LYS A 645 -1 O GLY A 642 N THR A 654 SHEET 1 AG 5 LEU A 817 ASN A 820 0 SHEET 2 AG 5 LEU A 824 ASP A 829 -1 O SER A 826 N ILE A 818 SHEET 3 AG 5 VAL A 834 LYS A 839 -1 O VAL A 834 N ASP A 829 SHEET 4 AG 5 GLY A 857 GLU A 864 -1 O GLY A 857 N LYS A 839 SHEET 5 AG 5 GLU A 867 TYR A 873 -1 O GLU A 867 N GLU A 864 SHEET 1 AH 3 SER A 845 ILE A 847 0 SHEET 2 AH 3 PHE A 851 VAL A 853 -1 O PHE A 851 N ILE A 847 SHEET 3 AH 3 PHE A 887 LYS A 889 -1 O LYS A 888 N GLN A 852
LINK O3 NGA A 901 C1 GCD A 900 1555 1555 1.41
SITE 1 AC1 6 HIS A 578 LYS A 581 LYS A 584 SER A 630 SITE 2 AC1 6 HOH A2352 HOH A2570 SITE 1 AC2 4 ALA A 628 ASP A 629 SER A 630 HOH A2571 SITE 1 AC3 2 LYS A 748 LYS A 749 SITE 1 AC4 3 HIS A 334 LYS A 344 LYS A 811 SITE 1 AC5 19 ARG A 243 TRP A 292 ARG A 300 ALA A 407 SITE 2 AC5 19 TYR A 408 ARG A 462 ARG A 466 GLU A 477 SITE 3 AC5 19 HOH A2109 HOH A2169 HOH A2251 HOH A2562 SITE 4 AC5 19 HOH A2563 HOH A2564 HOH A2565 HOH A2566 SITE 5 AC5 19 HOH A2567 HOH A2568 HOH A2569
CRYST1 83.656 104.266 98.786 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 0.011954 0.000000 0.000000 0.00000
SCALE2 0.000000 0.009591 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010123 0.00000