HEADER CARBOHYDRATE-BINDING PROTEIN 01-OCT-10 2L48 TITLE SOLUTION STRUCTURE OF THE PLYG CELL WALL BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-ACETYLMURAMOYL-L-ALANINE AMIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CELL WALL BINDING DOMAIN, RESIDUES 151-233; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS PHAGE GAMMA; SOURCE 3 ORGANISM_TAXID: 347962; SOURCE 4 GENE: GAMMALSU_0017, GAMMAUSAM_0017, PLYG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21[PREP4]; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS BACILLUS ANTHRACIS GAMMA- PHAGE ENDOLYSIN, PLYG, CELL WALL BINDING KEYWDS 2 DOMAIN, HOMODIMER, ACT-TYPE DOMAIN, CARBOHYDRATE-BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.F.VOLKMAN,J.S.DIAS,F.C.PETERSON REVDAT 1 12-OCT-11 2L48 0 JRNL AUTH J.S.DIAS,F.C.PETERSON,B.F.VOLKMAN JRNL TITL TBD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.9.3 REMARK 3 AUTHORS : SCHWIETERS,C.D.,KUSZEWSKI,J.J.,TJANDRA,N.,CLORE, REMARK 3 G.M. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HOMODIMER STRUCTURES ARE BASED ON A REMARK 3 TOTAL OF 3966 NOE CONSTRAINTS (704 INTRA, 726 SEQUENTIAL, 958 REMARK 3 MEDIUM AND 1442 INTRAMONOMER LONG RANGE AND 136 INTERMONOMER REMARK 3 CONSTRAINTS) AND 220 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. REMARK 3 CONSTRAINTS WERE ASSIGNED AND VALIDATED IN ONE MONOMER AND THEN REMARK 3 DUPLICATD TO GENERATE A SYMMETRY RELATED CONSTRAINT IN THE SECOND REMARK 3 MONOMER. CONSTRAINT TOTALS LISTED ABOVE INCLUDE CONTRAINTS FROM REMARK 3 BOTH MONOMERS, HOMODIMER STRUCTURES ARE BASED ON A TOTAL OF 3966 REMARK 3 NOE CONSTRAINTS (704 INTRA, 726 SEQUENTIAL, 958 MEDIUM AND 1422 REMARK 3 INTRAMONOMER LONG RANGE AND 136 INTERMONOMER CONSTRAINTS) AND 220 REMARK 3 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. CONSTRAINTS WERE ASSIGNED REMARK 3 AND VALIDATED IN ONE MONOMER AND THEN DUPLICATD TO GENERATE A REMARK 3 SYMMETRY RELATED CONSTRAINT IN THE SECOND MONOMER. CONSTRAINT REMARK 3 TOTALS LISTED ABOVE INCLUDE CONTRAINTS FROM BOTH MONOMERS REMARK 4 REMARK 4 2L48 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-10. REMARK 100 THE RCSB ID CODE IS RCSB101936. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 13 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.25 MM [U-100% 13C; U-100% 15N] REMARK 210 PLYG, 20 MM [U-99% 2H] BIS-TRIS, REMARK 210 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY (AROMATIC) REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, NMRPIPE 2007, XEASY REMARK 210 1.3, GARANT 2.1, CYANA 2.1 REMARK 210 METHOD USED : AUTOMATED METHODS WERE USED FOR REMARK 210 BACKBONE CHEMICAL SHIFT REMARK 210 ASSIGNMENT AND ITERATIVE NOE REMARK 210 REFINEMENT. FINAL STRUCTURES WERE REMARK 210 OBTAINED BY MOLECULAR DYNAMICS IN REMARK 210 EXPLICIT SOLVENT, AUTOMATED REMARK 210 METHODS WERE USED FOR BACKBONE REMARK 210 CHEMICAL SHIFT ASSIGNMENT AND REMARK 210 ITERATIVE NOE REFINEMENT. FINAL REMARK 210 STRUCTURES WERE OBTAINED BY REMARK 210 MOLECULAR DYNAMICS IN EXPLICIT REMARK 210 SOLVENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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: DIMERIC 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 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 OE2 GLU B 379 HZ1 LYS B 426 1.58 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 GLN A 152 -166.80 62.34 REMARK 500 1 LYS A 153 -64.25 75.05 REMARK 500 1 ALA A 160 -175.18 169.60 REMARK 500 1 THR A 165 103.17 56.08 REMARK 500 1 THR A 193 137.88 70.83 REMARK 500 1 GLN B 352 167.79 65.80 REMARK 500 1 ASN B 368 38.15 70.36 REMARK 500 1 THR B 393 139.17 69.19 REMARK 500 2 THR A 193 122.89 71.29 REMARK 500 2 ASN B 368 40.55 76.83 REMARK 500 2 THR B 393 128.91 71.30 REMARK 500 2 PRO B 410 106.68 -59.49 REMARK 500 2 THR B 411 -164.06 -108.06 REMARK 500 3 GLN A 152 172.81 70.77 REMARK 500 3 ASN A 156 83.57 65.05 REMARK 500 3 THR A 193 128.34 70.28 REMARK 500 3 THR A 211 -159.94 -118.94 REMARK 500 3 GLN B 352 -165.01 60.89 REMARK 500 3 LYS B 353 109.64 69.88 REMARK 500 3 ASN B 356 93.22 68.63 REMARK 500 3 ASN B 368 36.14 72.43 REMARK 500 3 THR B 393 134.06 76.04 REMARK 500 4 GLN A 152 121.06 -175.18 REMARK 500 4 LYS A 155 105.76 59.76 REMARK 500 4 ALA A 160 -64.16 69.73 REMARK 500 4 THR A 165 160.46 70.65 REMARK 500 4 THR A 193 126.52 75.51 REMARK 500 4 THR A 211 -167.30 -116.08 REMARK 500 4 ILE B 351 -60.42 -98.22 REMARK 500 4 GLN B 352 104.98 -166.17 REMARK 500 4 LYS B 355 83.15 54.10 REMARK 500 4 ALA B 360 -164.78 64.12 REMARK 500 4 THR B 365 173.89 66.22 REMARK 500 4 THR B 393 131.14 73.95 REMARK 500 4 THR B 411 -163.67 -124.71 REMARK 500 5 ALA A 160 -166.94 -129.70 REMARK 500 5 PRO A 164 135.19 -36.76 REMARK 500 5 ASN A 168 35.47 73.10 REMARK 500 5 THR A 193 121.90 72.79 REMARK 500 5 THR A 211 -163.83 -112.16 REMARK 500 5 SER B 350 166.85 70.24 REMARK 500 5 LYS B 353 81.29 165.56 REMARK 500 5 THR B 365 105.81 -55.40 REMARK 500 5 ASN B 368 32.83 71.87 REMARK 500 5 THR B 393 121.35 74.08 REMARK 500 6 VAL A 159 97.27 78.31 REMARK 500 6 THR A 162 12.55 -143.09 REMARK 500 6 THR A 165 177.64 70.52 REMARK 500 6 THR A 193 130.26 73.75 REMARK 500 6 LYS B 355 -33.41 -174.72 REMARK 500 REMARK 500 THIS ENTRY HAS 174 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 5 LYS A 220 24.3 L L OUTSIDE RANGE REMARK 500 7 LYS A 220 24.8 L L OUTSIDE RANGE REMARK 500 7 LYS B 420 24.3 L L OUTSIDE RANGE REMARK 500 12 LYS B 420 22.0 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2L47 RELATED DB: PDB DBREF 2L48 A 151 233 UNP Q8LTE6 Q8LTE6_9CAUD 151 233 DBREF 2L48 B 351 433 UNP Q8LTE6 Q8LTE6_9CAUD 151 233 SEQADV 2L48 GLY A 149 UNP Q8LTE6 EXPRESSION TAG SEQADV 2L48 SER A 150 UNP Q8LTE6 EXPRESSION TAG SEQADV 2L48 GLY B 349 UNP Q8LTE6 EXPRESSION TAG SEQADV 2L48 SER B 350 UNP Q8LTE6 EXPRESSION TAG SEQRES 1 A 85 GLY SER ILE GLN LYS VAL LYS ASN GLY ASN VAL ALA THR SEQRES 2 A 85 THR SER PRO THR LYS GLN ASN ILE ILE GLN SER GLY ALA SEQRES 3 A 85 PHE SER PRO TYR GLU THR PRO ASP VAL MET GLY ALA LEU SEQRES 4 A 85 THR SER LEU LYS MET THR ALA ASP PHE ILE LEU GLN SER SEQRES 5 A 85 ASP GLY LEU THR TYR PHE ILE SER LYS PRO THR SER ASP SEQRES 6 A 85 ALA GLN LEU LYS ALA MET LYS GLU TYR LEU ASP ARG LYS SEQRES 7 A 85 GLY TRP TRP TYR GLU VAL LYS SEQRES 1 B 85 GLY SER ILE GLN LYS VAL LYS ASN GLY ASN VAL ALA THR SEQRES 2 B 85 THR SER PRO THR LYS GLN ASN ILE ILE GLN SER GLY ALA SEQRES 3 B 85 PHE SER PRO TYR GLU THR PRO ASP VAL MET GLY ALA LEU SEQRES 4 B 85 THR SER LEU LYS MET THR ALA ASP PHE ILE LEU GLN SER SEQRES 5 B 85 ASP GLY LEU THR TYR PHE ILE SER LYS PRO THR SER ASP SEQRES 6 B 85 ALA GLN LEU LYS ALA MET LYS GLU TYR LEU ASP ARG LYS SEQRES 7 B 85 GLY TRP TRP TYR GLU VAL LYS HELIX 1 1 GLU A 179 LEU A 190 1 12 HELIX 2 2 SER A 212 LYS A 226 1 15 HELIX 3 3 SER B 376 TYR B 378 5 3 HELIX 4 4 GLU B 379 LEU B 390 1 12 HELIX 5 5 SER B 412 LYS B 426 1 15 SHEET 1 A 6 TYR A 230 LYS A 233 0 SHEET 2 A 6 ILE A 169 SER A 172 -1 N ILE A 169 O LYS A 233 SHEET 3 A 6 THR A 204 SER A 208 -1 O SER A 208 N ILE A 170 SHEET 4 A 6 ALA A 194 LEU A 198 -1 N ILE A 197 O TYR A 205 SHEET 5 A 6 ALA B 394 LEU B 398 -1 O PHE B 396 N PHE A 196 SHEET 6 A 6 THR B 404 SER B 408 -1 O TYR B 405 N ILE B 397 SHEET 1 B 2 ILE B 370 SER B 372 0 SHEET 2 B 2 TYR B 430 VAL B 432 -1 O GLU B 431 N GLN B 371 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 196 0 0 5 8 0 0 6 0 0 0 14 END