PDB Short entry for 2WMH HEADER HYDROLASE 30-JUN-09 2WMH TITLE CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE TITLE 2 HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE TIGR4 IN COMPLEX WITH THE H- TITLE 3 DISACCHARIDE BLOOD GROUP ANTIGEN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUCOLECTIN-RELATED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC MODULE, RESIDUES 31-589; COMPND 5 SYNONYM: GLYCOSIDE HYDROLASE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 170187; SOURCE 4 STRAIN: TIGR4; SOURCE 5 ATCC: BAA-334; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR (DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS HYDROLASE, GLYCOSIDE HYDROLASE, STREPTOCOCCUS PNEUMONIAE, BLOOD GROUP KEYWDS 2 ANTIGEN, FUCOSE UTILIZATION EXPDTA X-RAY DIFFRACTION AUTHOR M.A.HIGGINS,G.E.WHITWORTH,N.EL WARRY,M.RANDRIANTSOA,E.SAMAIN, AUTHOR 2 R.D.BURKE,D.J.VOCADLO,A.B.BORASTON REVDAT 5 29-JUL-20 2WMH 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE ATOM REVDAT 4 16-MAY-18 2WMH 1 REMARK REVDAT 3 22-SEP-09 2WMH 1 JRNL REVDAT 2 28-JUL-09 2WMH 1 AUTHOR JRNL REVDAT 1 14-JUL-09 2WMH 0 JRNL AUTH M.A.HIGGINS,G.E.WHITWORTH,N.EL WARRY,M.RANDRIANTSOA, JRNL AUTH 2 E.SAMAIN,R.D.BURKE,D.J.VOCADLO,A.B.BORASTON JRNL TITL DIFFERENTIAL RECOGNITION AND HYDROLYSIS OF HOST JRNL TITL 2 CARBOHYDRATE-ANTIGENS BY STREPTOCOCCUS PNEUMONIAE FAMILY 98 JRNL TITL 3 GLYCOSIDE HYDROLASES. JRNL REF J.BIOL.CHEM. V. 284 26161 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19608744 JRNL DOI 10.1074/JBC.M109.024067 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.43 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 55648 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2961 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3907 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.1640 REMARK 3 BIN FREE R VALUE SET COUNT : 229 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4490 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 642 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.03000 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): 0.186 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.159 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4644 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3066 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6329 ; 1.524 ; 1.931 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7480 ; 0.974 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 551 ; 6.528 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 228 ;37.311 ;24.956 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 756 ;12.865 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;21.247 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 675 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5142 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 929 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 937 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3308 ; 0.201 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2233 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2217 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 449 ; 0.174 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 10 ; 0.150 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 43 ; 0.247 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 34 ; 0.255 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3566 ; 1.331 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1106 ; 0.441 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4482 ; 1.634 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2321 ; 2.662 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1847 ; 3.549 ; 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): 9959 ; 1.357 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 642 ; 6.483 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7578 ; 2.323 ; 3.000 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. REMARK 4 REMARK 4 2WMH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1290040243. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 292 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X8C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1000 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55648 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 25.39800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.27250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.40800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.27250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.39800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.40800 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, 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 MET A 9 REMARK 465 GLY A 10 REMARK 465 SER A 11 REMARK 465 SER A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 HIS A 18 REMARK 465 SER A 19 REMARK 465 SER A 20 REMARK 465 GLY A 21 REMARK 465 LEU A 22 REMARK 465 VAL A 23 REMARK 465 PRO A 24 REMARK 465 ARG A 25 REMARK 465 GLY A 26 REMARK 465 SER A 27 REMARK 465 HIS A 28 REMARK 465 MET A 29 REMARK 465 ALA A 30 REMARK 465 ALA A 31 REMARK 465 ASP A 32 REMARK 465 ASN A 33 REMARK 465 ARG A 34 REMARK 465 THR A 547 REMARK 465 GLY A 548 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 HIS A 549 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 550 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 C HIS A 546 O HOH A 2609 1.78 REMARK 500 O HOH A 2237 O HOH A 2501 1.85 REMARK 500 O HOH A 2538 O HOH A 2604 1.95 REMARK 500 O HOH A 2555 O HOH A 2556 1.97 REMARK 500 O HOH A 2236 O HOH A 2237 2.03 REMARK 500 O HOH A 2150 O HOH A 2297 2.08 REMARK 500 O HOH A 2289 O HOH A 2612 2.08 REMARK 500 O HOH A 2541 O HOH A 2549 2.10 REMARK 500 O HOH A 2513 O HOH A 2553 2.13 REMARK 500 O HOH A 2133 O HOH A 2259 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 2402 O HOH A 2577 3655 2.07 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 ARG A 225 NE - CZ - NH1 ANGL. DEV. = 3.4 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 ASP A 56 38.13 -92.03 REMARK 500 ASN A 57 -178.92 178.48 REMARK 500 ALA A 89 -115.65 52.62 REMARK 500 CYS A 97 -3.47 79.32 REMARK 500 ASN A 134 70.04 -105.61 REMARK 500 GLU A 158 104.20 75.46 REMARK 500 ASN A 159 -0.34 -145.25 REMARK 500 ILE A 162 42.65 -156.31 REMARK 500 GLU A 191 145.33 91.13 REMARK 500 LYS A 220 90.93 -160.43 REMARK 500 THR A 261 -125.40 -134.32 REMARK 500 PHE A 264 -3.08 69.05 REMARK 500 PHE A 307 -74.56 -128.32 REMARK 500 ASP A 311 16.33 59.95 REMARK 500 LEU A 357 74.76 -116.83 REMARK 500 LEU A 364 -72.43 -103.78 REMARK 500 TYR A 365 2.55 -150.11 REMARK 500 HIS A 380 -154.81 58.28 REMARK 500 ASN A 447 30.20 -148.01 REMARK 500 ASN A 526 -80.48 -125.20 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 A2042 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A2123 DISTANCE = 6.39 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J1U RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN REMARK 900 COMPLEX WITH THE BLOOD GROUP A-TETRASACCHARIDE REMARK 900 RELATED ID: 2J22 RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE, SPX-3 REMARK 900 RELATED ID: 2J1V RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN REMARK 900 COMPLEX WITH THE BLOOD GROUP H-TRISACCHARIDE REMARK 900 RELATED ID: 2J1S RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN REMARK 900 COMPLEX WITH FUCOSE REMARK 900 RELATED ID: 2J1T RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE IN REMARK 900 COMPLEX WITH THE LEWIS Y ANTIGEN REMARK 900 RELATED ID: 2J1R RELATED DB: PDB REMARK 900 STRUCTURE OF A STREPTOCOCCUS PNEUMONIAE FUCOSE BINDING MODULE REMARK 900 RELATED ID: 2WMG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE REMARK 900 HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE TIGR4 (SP4GH98) IN COMPLEX REMARK 900 WITH THE LEWISY PENTASACCHARIDE BLOOD GROUP ANTIGEN. REMARK 900 RELATED ID: 2WMF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC MODULE OF A FAMILY 98 GLYCOSIDE REMARK 900 HYDROLASE FROM STREPTOCOCCUS PNEUMONIAE TIGR4 (SP4GH98) IN ITS REMARK 900 NATIVE FORM. DBREF 2WMH A 9 30 PDB 2WMH 2WMH 9 30 DBREF 2WMH A 31 589 UNP Q97N96 Q97N96_STRPN 31 589 SEQRES 1 A 581 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 581 LEU VAL PRO ARG GLY SER HIS MET ALA ALA ASP ASN ARG SEQRES 3 A 581 VAL GLN MET ARG THR THR ILE ASN ASN GLU SER PRO LEU SEQRES 4 A 581 LEU LEU SER PRO LEU TYR GLY ASN ASP ASN GLY ASN GLY SEQRES 5 A 581 LEU TRP TRP GLY ASN THR LEU LYS GLY ALA TRP GLU ALA SEQRES 6 A 581 ILE PRO GLU ASP VAL LYS PRO TYR ALA ALA ILE GLU LEU SEQRES 7 A 581 HIS PRO ALA LYS VAL CYS LYS PRO THR SER CYS ILE PRO SEQRES 8 A 581 ARG ASP THR LYS GLU LEU ARG GLU TRP TYR VAL LYS MET SEQRES 9 A 581 LEU GLU GLU ALA GLN SER LEU ASN ILE PRO VAL PHE LEU SEQRES 10 A 581 VAL ILE MET SER ALA GLY GLU ARG ASN THR VAL PRO PRO SEQRES 11 A 581 GLU TRP LEU ASP GLU GLN PHE GLN LYS TYR SER VAL LEU SEQRES 12 A 581 LYS GLY VAL LEU ASN ILE GLU ASN TYR TRP ILE TYR ASN SEQRES 13 A 581 ASN GLN LEU ALA PRO HIS SER ALA LYS TYR LEU GLU VAL SEQRES 14 A 581 CYS ALA LYS TYR GLY ALA HIS PHE ILE TRP HIS ASP HIS SEQRES 15 A 581 GLU LYS TRP PHE TRP GLU THR ILE MET ASN ASP PRO THR SEQRES 16 A 581 PHE PHE GLU ALA SER GLN LYS TYR HIS LYS ASN LEU VAL SEQRES 17 A 581 LEU ALA THR LYS ASN THR PRO ILE ARG ASP ASP ALA GLY SEQRES 18 A 581 THR ASP SER ILE VAL SER GLY PHE TRP LEU SER GLY LEU SEQRES 19 A 581 CYS ASP ASN TRP GLY SER SER THR ASP THR TRP LYS TRP SEQRES 20 A 581 TRP GLU LYS HIS TYR THR ASN THR PHE GLU THR GLY ARG SEQRES 21 A 581 ALA ARG ASP MET ARG SER TYR ALA SER GLU PRO GLU SER SEQRES 22 A 581 MET ILE ALA MET GLU MET MET ASN VAL TYR THR GLY GLY SEQRES 23 A 581 GLY THR VAL TYR ASN PHE GLU CYS ALA ALA TYR THR PHE SEQRES 24 A 581 MET THR ASN ASP VAL PRO THR PRO ALA PHE THR LYS GLY SEQRES 25 A 581 ILE ILE PRO PHE PHE ARG HIS ALA ILE GLN ASN PRO ALA SEQRES 26 A 581 PRO SER LYS GLU GLU VAL VAL ASN ARG THR LYS ALA VAL SEQRES 27 A 581 PHE TRP ASN GLY GLU GLY ARG ILE SER SER LEU ASN GLY SEQRES 28 A 581 PHE TYR GLN GLY LEU TYR SER ASN ASP GLU THR MET PRO SEQRES 29 A 581 LEU TYR ASN ASN GLY ARG TYR HIS ILE LEU PRO VAL ILE SEQRES 30 A 581 HIS GLU LYS ILE ASP LYS GLU LYS ILE SER SER ILE PHE SEQRES 31 A 581 PRO ASN ALA LYS ILE LEU THR LYS ASN SER GLU GLU LEU SEQRES 32 A 581 SER SER LYS VAL ASN TYR LEU ASN SER LEU TYR PRO LYS SEQRES 33 A 581 LEU TYR GLU GLY ASP GLY TYR ALA GLN ARG VAL GLY ASN SEQRES 34 A 581 SER TRP TYR ILE TYR ASN SER ASN ALA ASN ILE ASN LYS SEQRES 35 A 581 ASN GLN GLN VAL MET LEU PRO MET TYR THR ASN ASN THR SEQRES 36 A 581 LYS SER LEU SER LEU ASP LEU THR PRO HIS THR TYR ALA SEQRES 37 A 581 VAL VAL LYS GLU ASN PRO ASN ASN LEU HIS ILE LEU LEU SEQRES 38 A 581 ASN ASN TYR ARG THR ASP LYS THR ALA MET TRP ALA LEU SEQRES 39 A 581 SER GLY ASN PHE ASP ALA SER LYS SER TRP LYS LYS GLU SEQRES 40 A 581 GLU LEU GLU LEU ALA ASN TRP ILE SER LYS ASN TYR SER SEQRES 41 A 581 ILE ASN PRO VAL ASP ASN ASP PHE ARG THR THR THR LEU SEQRES 42 A 581 THR LEU LYS GLY HIS THR GLY HIS LYS PRO GLN ILE ASN SEQRES 43 A 581 ILE SER GLY ASP LYS ASN HIS TYR THR TYR THR GLU ASN SEQRES 44 A 581 TRP ASP GLU ASN THR HIS VAL TYR THR ILE THR VAL ASN SEQRES 45 A 581 HIS ASN GLY MET VAL GLU MET SER ILE HET GAL B 1 12 HET FUC B 2 10 HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE FORMUL 2 GAL C6 H12 O6 FORMUL 2 FUC C6 H12 O5 FORMUL 3 HOH *642(H2 O) HELIX 1 1 THR A 66 ALA A 73 1 8 HELIX 2 2 VAL A 78 PRO A 80 5 3 HELIX 3 3 PRO A 88 CYS A 92 5 5 HELIX 4 4 THR A 102 ASN A 120 1 19 HELIX 5 5 PRO A 137 TYR A 148 1 12 HELIX 6 6 GLN A 166 TYR A 181 1 16 HELIX 7 7 GLU A 191 ASP A 201 1 11 HELIX 8 8 ASP A 201 HIS A 212 1 12 HELIX 9 9 ASP A 226 SER A 240 1 15 HELIX 10 10 THR A 252 LYS A 258 1 7 HELIX 11 11 ASP A 271 SER A 277 5 7 HELIX 12 12 PRO A 279 THR A 292 1 14 HELIX 13 13 CYS A 302 PHE A 307 1 6 HELIX 14 14 THR A 314 GLY A 320 1 7 HELIX 15 15 GLY A 320 ASN A 331 1 12 HELIX 16 16 SER A 335 THR A 343 1 9 HELIX 17 17 GLY A 350 GLY A 352 5 3 HELIX 18 18 ARG A 353 LEU A 357 5 5 HELIX 19 19 ASP A 390 PHE A 398 1 9 HELIX 20 20 SER A 408 SER A 412 5 5 HELIX 21 21 SER A 413 TYR A 422 1 10 HELIX 22 22 LYS A 496 ALA A 501 1 6 HELIX 23 23 ASP A 507 SER A 511 5 5 HELIX 24 24 LYS A 513 ASN A 526 1 14 SHEET 1 AA10 LEU A 47 TYR A 53 0 SHEET 2 AA10 VAL A 297 GLU A 301 1 O TYR A 298 N LEU A 49 SHEET 3 AA10 ASN A 245 ASP A 251 1 O SER A 248 N ASN A 299 SHEET 4 AA10 LEU A 215 LYS A 220 1 O LEU A 215 N ASN A 245 SHEET 5 AA10 HIS A 184 HIS A 188 1 O PHE A 185 N VAL A 216 SHEET 6 AA10 LEU A 151 ILE A 157 1 O LYS A 152 N HIS A 184 SHEET 7 AA10 VAL A 123 SER A 129 1 O VAL A 123 N LYS A 152 SHEET 8 AA10 ALA A 82 HIS A 87 1 O ILE A 84 N PHE A 124 SHEET 9 AA10 LEU A 47 TYR A 53 1 O LEU A 48 N ALA A 83 SHEET 10 AA10 LEU A 47 TYR A 53 0 SHEET 1 AB 2 MET A 308 THR A 309 0 SHEET 2 AB 2 VAL A 312 PRO A 313 -1 O VAL A 312 N THR A 309 SHEET 1 AC 3 VAL A 384 ILE A 385 0 SHEET 2 AC 3 ALA A 345 TRP A 348 1 O PHE A 347 N ILE A 385 SHEET 3 AC 3 LYS A 402 LEU A 404 1 O LYS A 402 N VAL A 346 SHEET 1 AD 6 GLU A 427 GLY A 428 0 SHEET 2 AD 6 GLN A 452 PRO A 457 -1 O MET A 455 N GLU A 427 SHEET 3 AD 6 SER A 465 LEU A 470 -1 O LEU A 466 N LEU A 456 SHEET 4 AD 6 ARG A 537 LYS A 544 -1 O THR A 540 N ASP A 469 SHEET 5 AD 6 VAL A 574 HIS A 581 -1 O TYR A 575 N LEU A 543 SHEET 6 AD 6 TYR A 562 ASP A 569 -1 O THR A 563 N ASN A 580 SHEET 1 AE 6 TYR A 431 VAL A 435 0 SHEET 2 AE 6 SER A 438 TYR A 442 -1 O SER A 438 N VAL A 435 SHEET 3 AE 6 TYR A 475 GLU A 480 -1 O ALA A 476 N ILE A 441 SHEET 4 AE 6 LEU A 485 ASN A 490 -1 O HIS A 486 N LYS A 479 SHEET 5 AE 6 MET A 584 ILE A 589 -1 O VAL A 585 N LEU A 489 SHEET 6 AE 6 ASN A 554 GLY A 557 -1 O ASN A 554 N SER A 588 LINK O2 GAL B 1 C1 FUC B 2 1555 1555 1.45 CISPEP 1 LYS A 93 PRO A 94 0 5.62 CISPEP 2 GLU A 301 CYS A 302 0 -10.73 CRYST1 50.796 90.816 116.545 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 0.019687 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011011 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008580 0.00000