PDB Short entry for 1X60 HEADER HYDROLASE 17-MAY-05 1X60 TITLE SOLUTION STRUCTURE OF THE PEPTIDOGLYCAN BINDING DOMAIN OF B. SUBTILIS TITLE 2 CELL WALL LYTIC ENZYME CWLC COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPORULATION-SPECIFIC N-ACETYLMURAMOYL-L-ALANINE AMIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-79; COMPND 5 SYNONYM: CELL WALL HYDROLASE, AUTOLYSIN; COMPND 6 EC: 3.5.1.28; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS CWLC, CWLCR, PEPTIDOGLYCAN, CELL WALL LYTIC AMIDASE, TANDEM REPEATS, KEYWDS 2 HYDROLASE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR M.MISHIMA,T.SHIDA,K.YABUKI,K.KATO,J.SEKIGUCHI,C.KOJIMA REVDAT 3 02-MAR-22 1X60 1 REMARK REVDAT 2 24-FEB-09 1X60 1 VERSN REVDAT 1 09-AUG-05 1X60 0 JRNL AUTH M.MISHIMA,T.SHIDA,K.YABUKI,K.KATO,J.SEKIGUCHI,C.KOJIMA JRNL TITL SOLUTION STRUCTURE OF THE PEPTIDOGLYCAN BINDING DOMAIN OF JRNL TITL 2 BACILLUS SUBTILIS CELL WALL LYTIC ENZYME CWLC: JRNL TITL 3 CHARACTERIZATION OF THE SPORULATION-RELATED REPEATS BY JRNL TITL 4 NMR(,) JRNL REF BIOCHEMISTRY V. 44 10153 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16042392 JRNL DOI 10.1021/BI050624N REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, CNS 1.1 REMARK 3 AUTHORS : DELAGLIO, F. (NMRPIPE), REMARK 3 BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE,JIANG,KUSZEWSKI, REMARK 3 NILGES, PANNU,READ,RICE,SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X60 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000024422. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : 70MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.7MM CWLCR U-15N,13C 50MM REMARK 210 PHOSPHATE BUFFER K; 100% D2O; REMARK 210 1.7MM CWLCR U-15N 50MM PHOSPHATE REMARK 210 BUFFER K; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.110, CYANA 1.05 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 LYS A 2 104.07 59.84 REMARK 500 1 THR A 4 119.14 62.73 REMARK 500 1 SER A 7 91.62 -166.14 REMARK 500 1 ASP A 43 66.94 -55.18 REMARK 500 2 LYS A 2 170.69 58.79 REMARK 500 2 ASP A 43 65.16 -54.93 REMARK 500 3 LYS A 2 175.56 60.55 REMARK 500 3 THR A 4 31.49 -144.25 REMARK 500 3 SER A 6 122.16 -171.58 REMARK 500 3 ASP A 43 65.40 -54.80 REMARK 500 4 LYS A 3 -48.79 -133.46 REMARK 500 4 SER A 7 88.35 -154.95 REMARK 500 4 ASP A 43 65.96 -55.35 REMARK 500 5 LYS A 3 37.92 -165.70 REMARK 500 5 SER A 7 149.83 62.53 REMARK 500 5 ASP A 43 65.87 -55.08 REMARK 500 6 ASP A 43 68.55 -57.43 REMARK 500 7 SER A 5 76.36 -163.61 REMARK 500 7 ASP A 43 65.30 -53.72 REMARK 500 8 THR A 4 174.50 60.05 REMARK 500 8 SER A 6 99.06 61.29 REMARK 500 8 ASP A 43 66.67 -55.71 REMARK 500 9 LYS A 2 -52.67 -172.90 REMARK 500 9 SER A 5 -49.18 -141.14 REMARK 500 9 ASP A 43 66.08 -57.24 REMARK 500 10 THR A 4 163.83 64.96 REMARK 500 10 SER A 7 -167.51 -75.57 REMARK 500 10 ASP A 43 64.00 -56.02 REMARK 500 11 THR A 4 -177.92 50.52 REMARK 500 11 SER A 5 -75.12 -102.83 REMARK 500 11 ASP A 43 63.80 -56.18 REMARK 500 12 SER A 6 126.61 63.85 REMARK 500 12 SER A 7 -41.40 -174.77 REMARK 500 12 ASP A 43 65.68 -55.26 REMARK 500 13 LYS A 2 31.43 -144.51 REMARK 500 13 LYS A 3 -47.20 -138.64 REMARK 500 13 THR A 4 44.49 -94.60 REMARK 500 13 ASP A 43 64.91 -53.97 REMARK 500 14 LYS A 3 -77.11 65.89 REMARK 500 14 SER A 6 141.94 63.38 REMARK 500 14 SER A 7 41.52 -102.02 REMARK 500 14 ASP A 43 67.15 -55.92 REMARK 500 15 SER A 5 -42.74 -176.51 REMARK 500 15 SER A 6 83.20 59.62 REMARK 500 15 ASP A 43 64.62 -55.91 REMARK 500 16 SER A 7 126.72 63.64 REMARK 500 16 ASP A 43 64.06 -57.24 REMARK 500 17 SER A 5 79.11 -69.70 REMARK 500 17 ASP A 43 -85.39 38.73 REMARK 500 18 SER A 5 121.35 62.87 REMARK 500 REMARK 500 THIS ENTRY HAS 84 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1X60 A 1 79 UNP Q06320 CWLC_BACSU 177 255 SEQRES 1 A 79 LEU LYS LYS THR SER SER SER GLY LEU TYR LYS VAL GLN SEQRES 2 A 79 ILE GLY ALA PHE LYS VAL LYS ALA ASN ALA ASP SER LEU SEQRES 3 A 79 ALA SER ASN ALA GLU ALA LYS GLY PHE ASP SER ILE VAL SEQRES 4 A 79 LEU LEU LYS ASP GLY LEU TYR LYS VAL GLN ILE GLY ALA SEQRES 5 A 79 PHE SER SER LYS ASP ASN ALA ASP THR LEU ALA ALA ARG SEQRES 6 A 79 ALA LYS ASN ALA GLY PHE ASP ALA ILE VAL ILE LEU GLU SEQRES 7 A 79 SER HELIX 1 1 VAL A 19 GLY A 34 1 16 HELIX 2 2 SER A 55 GLY A 70 1 16 SHEET 1 A 4 SER A 37 LYS A 42 0 SHEET 2 A 4 LEU A 45 PHE A 53 -1 O LEU A 45 N LYS A 42 SHEET 3 A 4 LEU A 9 PHE A 17 -1 N GLY A 15 O VAL A 48 SHEET 4 A 4 ILE A 74 GLU A 78 -1 O ILE A 74 N GLN A 13 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000