HEADER HYDROLASE 29-MAY-09 3HMC TITLE ENDOLYSIN FROM BACILLUS ANTHRACIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE PROPHAGE LAMBDABA04, GLYCOSYL HYDROLASE, FAMILY COMPND 3 25; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: PROPHAGE LAMBDABA04, GLYCOSYL HYDROLASE, FAMILY 25, COMPND 6 PUTATIVE; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS ANTHRACIS; SOURCE 3 ORGANISM_COMMON: ANTHRAX,ANTHRAX BACTERIUM; SOURCE 4 ORGANISM_TAXID: 1392; SOURCE 5 GENE: BAS0460, BA_0485, GBAA0485, GBAA_0485; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENDOLYSIN, GLYCOSYL HYDROLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.Y.LOW,R.LIDDINGTON REVDAT 6 21-FEB-24 3HMC 1 REMARK SEQADV REVDAT 5 21-DEC-11 3HMC 1 JRNL REVDAT 4 17-AUG-11 3HMC 1 JRNL REVDAT 3 10-AUG-11 3HMC 1 JRNL VERSN REVDAT 2 06-APR-11 3HMC 1 AUTHOR REVDAT 1 09-JUN-10 3HMC 0 JRNL AUTH L.Y.LOW,C.YANG,M.PEREGO,A.OSTERMAN,R.LIDDINGTON JRNL TITL ROLE OF NET CHARGE ON CATALYTIC DOMAIN AND INFLUENCE OF CELL JRNL TITL 2 WALL BINDING DOMAIN ON BACTERICIDAL ACTIVITY, SPECIFICITY, JRNL TITL 3 AND HOST RANGE OF PHAGE LYSINS. JRNL REF J.BIOL.CHEM. V. 286 34391 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21816821 JRNL DOI 10.1074/JBC.M111.244160 REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 32736 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1732 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1510 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 231 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3HMC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000053310. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-05 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 : RIGAKU FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35073 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.440 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 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 24.34100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.68050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.22700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.68050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.34100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.22700 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: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLY A 1 REMARK 465 SER A 191 REMARK 465 ALA A 192 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 65 25.98 -140.20 REMARK 500 ASP A 101 79.22 -102.75 REMARK 500 ARG A 147 110.89 -174.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HMA RELATED DB: PDB REMARK 900 RELATED ID: 3HMB RELATED DB: PDB DBREF 3HMC A 4 192 UNP Q81YZ2 Q81YZ2_BACAN 1 189 SEQADV 3HMC GLY A 1 UNP Q81YZ2 EXPRESSION TAG SEQADV 3HMC SER A 2 UNP Q81YZ2 EXPRESSION TAG SEQADV 3HMC HIS A 3 UNP Q81YZ2 EXPRESSION TAG SEQRES 1 A 192 GLY SER HIS MET GLY HIS ILE ILE ASP ILE SER LYS TRP SEQRES 2 A 192 ASN GLY ASP ILE ASN TRP SER ILE ALA LYS GLN HIS ILE SEQRES 3 A 192 ASP PHE ILE ILE ALA ARG VAL GLN ASP GLY SER ASN TYR SEQRES 4 A 192 VAL ASP PRO LEU TYR LYS GLY TYR VAL GLN ALA MET LYS SEQRES 5 A 192 GLN HIS GLY ILE PRO PHE GLY ASN TYR ALA PHE CYS ARG SEQRES 6 A 192 PHE VAL SER ILE ALA ASP ALA LYS LYS GLU ALA GLN ASP SEQRES 7 A 192 PHE TRP ASN ARG GLY ASP LYS SER ALA THR VAL TRP VAL SEQRES 8 A 192 ALA ASP VAL GLU VAL LYS THR MET ASN ASP MET ARG ALA SEQRES 9 A 192 GLY THR GLN ALA PHE ILE ASP GLU LEU TYR ARG LEU GLY SEQRES 10 A 192 ALA LYS LYS VAL GLY LEU TYR VAL GLY HIS HIS MET TYR SEQRES 11 A 192 THR PRO PHE GLY MET ALA ASN VAL LYS SER ASP PHE VAL SEQRES 12 A 192 TRP ILE PRO ARG TYR GLY GLY ASN LYS PRO ALA TYR PRO SEQRES 13 A 192 CYS ASP ILE TRP GLN TYR THR GLU THR GLY ASN VAL PRO SEQRES 14 A 192 GLY ILE GLY LYS CYS ASP LEU ASN SER LEU ILE GLY ASN SEQRES 15 A 192 LYS SER LEU SER TRP PHE THR GLU SER ALA HET MES A 400 12 HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID FORMUL 2 MES C6 H13 N O4 S FORMUL 3 HOH *231(H2 O) HELIX 1 1 SER A 11 GLY A 15 5 5 HELIX 2 2 ASN A 18 LYS A 23 1 6 HELIX 3 3 LEU A 43 HIS A 54 1 12 HELIX 4 4 SER A 68 GLY A 83 1 16 HELIX 5 5 ASP A 101 GLY A 117 1 17 HELIX 6 6 MET A 129 GLY A 134 1 6 HELIX 7 7 MET A 135 VAL A 138 5 4 HELIX 8 8 SER A 184 GLU A 190 1 7 SHEET 1 A 9 HIS A 6 ILE A 10 0 SHEET 2 A 9 ILE A 26 ASP A 35 1 O ASP A 27 N HIS A 6 SHEET 3 A 9 PHE A 58 PHE A 63 1 O TYR A 61 N VAL A 33 SHEET 4 A 9 TRP A 90 VAL A 94 1 O ASP A 93 N ALA A 62 SHEET 5 A 9 VAL A 121 VAL A 125 1 O TYR A 124 N ALA A 92 SHEET 6 A 9 PHE A 142 PRO A 146 1 O TRP A 144 N LEU A 123 SHEET 7 A 9 ILE A 159 VAL A 168 1 O ILE A 159 N ILE A 145 SHEET 8 A 9 GLY A 172 LEU A 179 -1 O SER A 178 N TRP A 160 SHEET 9 A 9 HIS A 6 ILE A 10 -1 N ILE A 7 O ASN A 177 SITE 1 AC1 11 ARG A 32 TYR A 61 PHE A 63 ASP A 93 SITE 2 AC1 11 GLU A 95 TYR A 124 GLN A 161 ASP A 175 SITE 3 AC1 11 HOH A 245 HOH A 319 HOH A 337 CRYST1 48.682 56.454 67.361 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 0.020541 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017714 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014845 0.00000