HEADER HYDROLASE 20-OCT-08 2W1S TITLE UNIQUE LIGAND BINDING SPECIFICITY OF A FAMILY 32 CARBOHYDRATE-BINDING TITLE 2 MODULE FROM THE MU TOXIN PRODUCED BY CLOSTRIDIUM PERFRINGENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYALURONOGLUCOSAMINIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: FAMILY 32 CBM, RESIDUES 807-975; COMPND 5 SYNONYM: FAMILY 84 GLYCOSIDE HYDROLASE, MU TOXIN; COMPND 6 EC: 3.2.1.35; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM PERFRINGENS; SOURCE 3 ORGANISM_TAXID: 1502; SOURCE 4 ATCC: 13124; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)STAR; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS HEXOSAMINIDASE, CLOSTRIDIUM PERFRINGENS, FAMILY 32 CARBOHYDRATE KEYWDS 2 BINDING MODULE, TOXIN, SECRETED, VIRULENCE, HYDROLASE, GLYCOSIDASE, KEYWDS 3 FAMILY 84 GLYCOSIDE HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.FICKO-BLEAN,A.B.BORASTON REVDAT 5 20-NOV-24 2W1S 1 REMARK LINK REVDAT 4 23-OCT-19 2W1S 1 REMARK SEQADV LINK REVDAT 3 23-JUN-09 2W1S 1 JRNL REVDAT 2 19-MAY-09 2W1S 1 JRNL REVDAT 1 05-MAY-09 2W1S 0 JRNL AUTH E.FICKO-BLEAN,A.B.BORASTON JRNL TITL N-ACETYLGLUCOSAMINE RECOGNITION BY A FAMILY 32 JRNL TITL 2 CARBOHYDRATE-BINDING MODULE FROM CLOSTRIDIUM PERFRINGENS JRNL TITL 3 NAGH. JRNL REF J.MOL.BIOL. V. 390 208 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19422833 JRNL DOI 10.1016/J.JMB.2009.04.066 REMARK 2 REMARK 2 RESOLUTION. 1.45 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 49260 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2651 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3565 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.3580 REMARK 3 BIN FREE R VALUE SET COUNT : 207 REMARK 3 BIN FREE R VALUE : 0.4600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2192 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 498 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04000 REMARK 3 B22 (A**2) : 0.48000 REMARK 3 B33 (A**2) : -0.44000 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): 0.085 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.079 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.335 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2277 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1553 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3083 ; 1.460 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3801 ; 0.820 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 287 ; 6.289 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;37.884 ;25.728 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 401 ;11.007 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ; 6.448 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 332 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2540 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 452 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 462 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1677 ; 0.201 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1102 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1227 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 374 ; 0.187 ; 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 ; 0.205 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 41 ; 0.193 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 59 ; 0.162 ; 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): 1388 ; 1.233 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2233 ; 1.796 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 949 ; 2.685 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 846 ; 3.587 ; 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. REMARK 4 REMARK 4 2W1S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-OCT-08. REMARK 100 THE DEPOSITION ID IS D_1290037866. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 113.15 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 109314 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 19.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 7.080 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.16 REMARK 200 R MERGE FOR SHELL (I) : 0.38000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIR 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 (%): 34.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.88 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 28.16250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.49650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.92350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.49650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.16250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.92350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 MSE A 784 REMARK 465 GLY A 785 REMARK 465 SER A 786 REMARK 465 SER A 787 REMARK 465 HIS A 788 REMARK 465 HIS A 789 REMARK 465 HIS A 790 REMARK 465 HIS A 791 REMARK 465 HIS A 792 REMARK 465 HIS A 793 REMARK 465 SER A 794 REMARK 465 SER A 795 REMARK 465 GLY A 796 REMARK 465 LEU A 797 REMARK 465 VAL A 798 REMARK 465 PRO A 799 REMARK 465 ARG A 800 REMARK 465 GLY A 801 REMARK 465 SER A 802 REMARK 465 HIS A 803 REMARK 465 MSE A 804 REMARK 465 ALA A 805 REMARK 465 SER A 806 REMARK 465 ASP A 946 REMARK 465 GLU A 947 REMARK 465 LEU A 948 REMARK 465 GLU A 949 REMARK 465 ASN A 950 REMARK 465 ALA A 951 REMARK 465 GLY A 952 REMARK 465 ASN A 953 REMARK 465 LYS A 954 REMARK 465 GLU A 955 REMARK 465 ASN A 956 REMARK 465 VAL A 957 REMARK 465 TYR A 958 REMARK 465 THR A 959 REMARK 465 ASN A 960 REMARK 465 THR A 961 REMARK 465 GLU A 962 REMARK 465 LEU A 963 REMARK 465 ASP A 964 REMARK 465 LEU A 965 REMARK 465 LEU A 966 REMARK 465 SER A 967 REMARK 465 LEU A 968 REMARK 465 ALA A 969 REMARK 465 LYS A 970 REMARK 465 GLU A 971 REMARK 465 ASP A 972 REMARK 465 VAL A 973 REMARK 465 THR A 974 REMARK 465 LYS A 975 REMARK 465 MSE B 784 REMARK 465 GLY B 785 REMARK 465 SER B 786 REMARK 465 SER B 787 REMARK 465 HIS B 788 REMARK 465 HIS B 789 REMARK 465 HIS B 790 REMARK 465 HIS B 791 REMARK 465 HIS B 792 REMARK 465 HIS B 793 REMARK 465 SER B 794 REMARK 465 SER B 795 REMARK 465 GLY B 796 REMARK 465 LEU B 797 REMARK 465 VAL B 798 REMARK 465 PRO B 799 REMARK 465 ARG B 800 REMARK 465 GLY B 801 REMARK 465 SER B 802 REMARK 465 HIS B 803 REMARK 465 MSE B 804 REMARK 465 ALA B 805 REMARK 465 SER B 806 REMARK 465 ASN B 807 REMARK 465 ASP B 946 REMARK 465 GLU B 947 REMARK 465 LEU B 948 REMARK 465 GLU B 949 REMARK 465 ASN B 950 REMARK 465 ALA B 951 REMARK 465 GLY B 952 REMARK 465 ASN B 953 REMARK 465 LYS B 954 REMARK 465 GLU B 955 REMARK 465 ASN B 956 REMARK 465 VAL B 957 REMARK 465 TYR B 958 REMARK 465 THR B 959 REMARK 465 ASN B 960 REMARK 465 THR B 961 REMARK 465 GLU B 962 REMARK 465 LEU B 963 REMARK 465 ASP B 964 REMARK 465 LEU B 965 REMARK 465 LEU B 966 REMARK 465 SER B 967 REMARK 465 LEU B 968 REMARK 465 ALA B 969 REMARK 465 LYS B 970 REMARK 465 GLU B 971 REMARK 465 ASP B 972 REMARK 465 VAL B 973 REMARK 465 THR B 974 REMARK 465 LYS B 975 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 GLU A 891 CD OE1 OE2 REMARK 480 GLU A 916 CD OE1 OE2 REMARK 480 ASN B 822 ND2 REMARK 480 GLU B 916 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 HOH A 2095 O HOH A 2097 2.13 REMARK 500 O HOH B 2094 O HOH B 2095 2.16 REMARK 500 N PRO B 808 O HOH B 2041 2.16 REMARK 500 NZ LYS B 838 O HOH B 2095 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 GLU A 891 CG GLU A 891 CD -0.326 REMARK 500 GLU B 916 CG GLU B 916 CD -0.179 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 LEU A 840 -154.64 -86.33 REMARK 500 GLU A 891 -50.46 -127.66 REMARK 500 LEU B 840 -156.39 -83.91 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 A2051 DISTANCE = 7.14 ANGSTROMS 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 CA A1946 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 825 O REMARK 620 2 ASP A 828 OD1 76.5 REMARK 620 3 ASP A 830 O 164.5 88.8 REMARK 620 4 THR A 833 OG1 89.1 70.8 81.2 REMARK 620 5 THR A 833 O 92.6 138.2 95.1 68.7 REMARK 620 6 SER A 939 O 85.2 144.7 110.1 139.6 71.7 REMARK 620 7 GLU A 940 OE1 98.2 75.4 82.7 142.6 146.5 77.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1946 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 825 O REMARK 620 2 ASP B 828 OD1 76.4 REMARK 620 3 ASP B 830 O 166.3 91.1 REMARK 620 4 THR B 833 OG1 87.1 70.8 83.5 REMARK 620 5 THR B 833 O 96.3 140.2 89.8 69.7 REMARK 620 6 SER B 939 O 85.9 143.2 107.7 140.9 73.0 REMARK 620 7 GLU B 940 OE1 98.9 75.2 82.9 143.0 144.3 76.1 REMARK 620 N 1 2 3 4 5 6 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 CA A 1946 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 1946 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1947 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1947 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB A 1948 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W1Q RELATED DB: PDB REMARK 900 UNIQUE LIGAND BINDING SPECIFICITY FOR A FAMILY 32 CARBOHYDRATE- REMARK 900 BINDING MODULE FROM THE MU TOXIN PRODUCED BY CLOSTRIDIUM PERFRINGENS REMARK 900 RELATED ID: 2W1U RELATED DB: PDB REMARK 900 A FAMILY 32 CARBOHYDRATE-BINDING MODULE, FROM THE MU TOXIN PRODUCED REMARK 900 BY CLOSTRIDIUM PERFRINGENS, IN COMPLEX WITH BETA-D-GLCNAC- BETA1- REMARK 900 3GALNAC REMARK 900 RELATED ID: 2WDB RELATED DB: PDB REMARK 900 A FAMILY 32 CARBOHYDRATE-BINDING MODULE, FROM THE MU TOXIN PRODUCED REMARK 900 BY CLOSTRIDIUM PERFRINGENS, IN COMPLEX WITH BETA-D-GLCNAC- BETA(1,2) REMARK 900 MANNOSE REMARK 999 REMARK 999 SEQUENCE REMARK 999 I944V IS A NATURAL VARIANT DBREF 2W1S A 784 806 PDB 2W1S 2W1S 784 806 DBREF 2W1S A 807 975 UNP P26831 NAGH_CLOPE 807 975 DBREF 2W1S B 784 806 PDB 2W1S 2W1S 784 806 DBREF 2W1S B 807 975 UNP P26831 NAGH_CLOPE 807 975 SEQADV 2W1S VAL A 944 UNP P26831 ILE 944 VARIANT SEQADV 2W1S VAL B 944 UNP P26831 ILE 944 VARIANT SEQRES 1 A 192 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 192 LEU VAL PRO ARG GLY SER HIS MSE ALA SER ASN PRO SER SEQRES 3 A 192 LEU ILE ARG SER GLU SER TRP GLN VAL TYR GLU GLY ASN SEQRES 4 A 192 GLU ALA ASN LEU LEU ASP GLY ASP ASP ASN THR GLY VAL SEQRES 5 A 192 TRP TYR LYS THR LEU ASN GLY ASP THR SER LEU ALA GLY SEQRES 6 A 192 GLU PHE ILE GLY LEU ASP LEU GLY LYS GLU ILE LYS LEU SEQRES 7 A 192 ASP GLY ILE ARG PHE VAL ILE GLY LYS ASN GLY GLY GLY SEQRES 8 A 192 SER SER ASP LYS TRP ASN LYS PHE LYS LEU GLU TYR SER SEQRES 9 A 192 LEU ASP ASN GLU SER TRP THR THR ILE LYS GLU TYR ASP SEQRES 10 A 192 LYS THR GLY ALA PRO ALA GLY LYS ASP VAL ILE GLU GLU SEQRES 11 A 192 SER PHE GLU THR PRO ILE SER ALA LYS TYR ILE ARG LEU SEQRES 12 A 192 THR ASN MSE GLU ASN ILE ASN LYS TRP LEU THR PHE SER SEQRES 13 A 192 GLU PHE ALA ILE VAL SER ASP GLU LEU GLU ASN ALA GLY SEQRES 14 A 192 ASN LYS GLU ASN VAL TYR THR ASN THR GLU LEU ASP LEU SEQRES 15 A 192 LEU SER LEU ALA LYS GLU ASP VAL THR LYS SEQRES 1 B 192 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 192 LEU VAL PRO ARG GLY SER HIS MSE ALA SER ASN PRO SER SEQRES 3 B 192 LEU ILE ARG SER GLU SER TRP GLN VAL TYR GLU GLY ASN SEQRES 4 B 192 GLU ALA ASN LEU LEU ASP GLY ASP ASP ASN THR GLY VAL SEQRES 5 B 192 TRP TYR LYS THR LEU ASN GLY ASP THR SER LEU ALA GLY SEQRES 6 B 192 GLU PHE ILE GLY LEU ASP LEU GLY LYS GLU ILE LYS LEU SEQRES 7 B 192 ASP GLY ILE ARG PHE VAL ILE GLY LYS ASN GLY GLY GLY SEQRES 8 B 192 SER SER ASP LYS TRP ASN LYS PHE LYS LEU GLU TYR SER SEQRES 9 B 192 LEU ASP ASN GLU SER TRP THR THR ILE LYS GLU TYR ASP SEQRES 10 B 192 LYS THR GLY ALA PRO ALA GLY LYS ASP VAL ILE GLU GLU SEQRES 11 B 192 SER PHE GLU THR PRO ILE SER ALA LYS TYR ILE ARG LEU SEQRES 12 B 192 THR ASN MSE GLU ASN ILE ASN LYS TRP LEU THR PHE SER SEQRES 13 B 192 GLU PHE ALA ILE VAL SER ASP GLU LEU GLU ASN ALA GLY SEQRES 14 B 192 ASN LYS GLU ASN VAL TYR THR ASN THR GLU LEU ASP LEU SEQRES 15 B 192 LEU SER LEU ALA LYS GLU ASP VAL THR LYS MODRES 2W1S MSE A 929 MET SELENOMETHIONINE MODRES 2W1S MSE B 929 MET SELENOMETHIONINE HET MSE A 929 16 HET MSE B 929 8 HET CA A1946 1 HET NA A1947 1 HET BTB A1948 14 HET CA B1946 1 HET NA B1947 1 HETNAM MSE SELENOMETHIONINE HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM BTB 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- HETNAM 2 BTB PROPANE-1,3-DIOL HETSYN BTB BIS-TRIS BUFFER FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 3 CA 2(CA 2+) FORMUL 4 NA 2(NA 1+) FORMUL 5 BTB C8 H19 N O5 FORMUL 8 HOH *498(H2 O) HELIX 1 1 GLU A 823 LEU A 827 5 5 HELIX 2 2 THR A 839 THR A 844 1 6 HELIX 3 3 GLU B 823 LEU B 827 5 5 HELIX 4 4 THR B 839 THR B 844 1 6 SHEET 1 AA 5 SER A 809 ARG A 812 0 SHEET 2 AA 5 PHE A 850 ILE A 868 -1 O GLY A 852 N ILE A 811 SHEET 3 AA 5 ASP A 909 ASN A 928 -1 O ASP A 909 N ILE A 868 SHEET 4 AA 5 LYS A 881 SER A 887 -1 O LYS A 883 N THR A 927 SHEET 5 AA 5 THR A 894 ASP A 900 -1 O THR A 894 N TYR A 886 SHEET 1 AB 5 SER A 809 ARG A 812 0 SHEET 2 AB 5 PHE A 850 ILE A 868 -1 O GLY A 852 N ILE A 811 SHEET 3 AB 5 LEU A 936 VAL A 944 -1 N SER A 939 O VAL A 867 SHEET 4 AB 5 VAL A 835 LYS A 838 -1 O VAL A 835 N PHE A 938 SHEET 5 AB 5 GLN A 817 GLY A 821 -1 O GLN A 817 N LYS A 838 SHEET 1 BA 5 SER B 809 ARG B 812 0 SHEET 2 BA 5 PHE B 850 ILE B 868 -1 O GLY B 852 N ILE B 811 SHEET 3 BA 5 ASP B 909 ASN B 928 -1 O ASP B 909 N ILE B 868 SHEET 4 BA 5 LYS B 881 SER B 887 -1 O LYS B 883 N THR B 927 SHEET 5 BA 5 THR B 894 ASP B 900 -1 O THR B 894 N TYR B 886 SHEET 1 BB 5 SER B 809 ARG B 812 0 SHEET 2 BB 5 PHE B 850 ILE B 868 -1 O GLY B 852 N ILE B 811 SHEET 3 BB 5 LEU B 936 VAL B 944 -1 N SER B 939 O VAL B 867 SHEET 4 BB 5 VAL B 835 LYS B 838 -1 O VAL B 835 N PHE B 938 SHEET 5 BB 5 GLN B 817 GLY B 821 -1 O GLN B 817 N LYS B 838 LINK C ASN A 928 N AMSE A 929 1555 1555 1.34 LINK C ASN A 928 N BMSE A 929 1555 1555 1.33 LINK C AMSE A 929 N GLU A 930 1555 1555 1.33 LINK C BMSE A 929 N GLU A 930 1555 1555 1.34 LINK C ASN B 928 N MSE B 929 1555 1555 1.35 LINK C MSE B 929 N GLU B 930 1555 1555 1.33 LINK O ASN A 825 CA CA A1946 1555 1555 2.27 LINK OD1 ASP A 828 CA CA A1946 1555 1555 2.50 LINK O ASP A 830 CA CA A1946 1555 1555 2.31 LINK OG1 THR A 833 CA CA A1946 1555 1555 2.46 LINK O THR A 833 CA CA A1946 1555 1555 2.41 LINK O SER A 939 CA CA A1946 1555 1555 2.46 LINK OE1 GLU A 940 CA CA A1946 1555 1555 2.32 LINK O ASN B 825 CA CA B1946 1555 1555 2.27 LINK OD1 ASP B 828 CA CA B1946 1555 1555 2.50 LINK O ASP B 830 CA CA B1946 1555 1555 2.36 LINK OG1 THR B 833 CA CA B1946 1555 1555 2.45 LINK O THR B 833 CA CA B1946 1555 1555 2.47 LINK O SER B 939 CA CA B1946 1555 1555 2.45 LINK OE1 GLU B 940 CA CA B1946 1555 1555 2.27 SITE 1 AC1 6 ASN A 825 ASP A 828 ASP A 830 THR A 833 SITE 2 AC1 6 SER A 939 GLU A 940 SITE 1 AC2 6 ASN B 825 ASP B 828 ASP B 830 THR B 833 SITE 2 AC2 6 SER B 939 GLU B 940 SITE 1 AC3 3 ASN A 871 LYS A 908 HOH A2041 SITE 1 AC4 4 TYR A 886 HOH A2182 GLU B 814 HOH B2053 SITE 1 AC5 13 TRP A 836 ASP A 877 TRP A 935 HOH A2121 SITE 2 AC5 13 HOH A2262 HOH A2263 HOH A2264 HOH A2265 SITE 3 AC5 13 TRP B 836 ASP B 877 ASN B 933 LYS B 934 SITE 4 AC5 13 TRP B 935 CRYST1 56.325 61.847 82.993 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017754 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016169 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012049 0.00000