HEADER PENICILLIN-BINDING PROTEIN/ANTIBIOTIC 29-JUL-15 5CXW TITLE STRUCTURE OF THE PONA1 PROTEIN FROM MYCOBACTERIUM TUBERCULOSIS IN TITLE 2 COMPLEX WITH PENICILLIN V COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENICILLIN-BINDING PROTEIN 1A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 391-820; COMPND 5 SYNONYM: PBP-1A,PENICILLIN-BINDING PROTEIN 1*; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: ATCC 25618 / H37RV; SOURCE 5 GENE: PONA1, RV0050, MTCY21D4.13; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG73 KEYWDS B-LACTAM, PBP, STRUCTURAL GENOMICS, PSI-BIOLOGY, MIDWEST CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, MCSG, STRUCTURES OF MTB PROTEINS CONFERRING KEYWDS 3 SUSCEPTIBILITY TO KNOWN MTB INHIBITORS, MTBI, PENICILLIN-BINDING KEYWDS 4 PROTEIN-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.V.FILIPPOVA,O.KIRYUKHINA,K.KIESER,M.ENDRES,E.RUBIN,J.SACCHETTINI, AUTHOR 2 A.JOACHIMIAK,W.F.ANDERSON,MIDWEST CENTER FOR STRUCTURAL GENOMICS AUTHOR 3 (MCSG),STRUCTURES OF MTB PROTEINS CONFERRING SUSCEPTIBILITY TO KNOWN AUTHOR 4 MTB INHIBITORS (MTBI) REVDAT 3 27-SEP-23 5CXW 1 REMARK REVDAT 2 06-JUL-16 5CXW 1 JRNL REVDAT 1 04-MAY-16 5CXW 0 JRNL AUTH E.V.FILIPPOVA,K.J.KIESER,C.H.LUAN,Z.WAWRZAK,O.KIRYUKHINA, JRNL AUTH 2 E.J.RUBIN,W.F.ANDERSON JRNL TITL CRYSTAL STRUCTURES OF THE TRANSPEPTIDASE DOMAIN OF THE JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS PENICILLIN-BINDING PROTEIN PONA1 JRNL TITL 3 REVEAL POTENTIAL MECHANISMS OF ANTIBIOTIC RESISTANCE. JRNL REF FEBS J. V. 283 2206 2016 JRNL REFN ISSN 1742-464X JRNL PMID 27101811 JRNL DOI 10.1111/FEBS.13738 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 37678 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1921 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2710 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.37 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 130 REMARK 3 BIN FREE R VALUE : 0.2100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2742 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 456 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.93000 REMARK 3 B22 (A**2) : -0.44000 REMARK 3 B33 (A**2) : -0.49000 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): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.064 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.774 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2945 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2729 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4024 ; 1.719 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6295 ; 0.990 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 396 ; 5.553 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 122 ;35.867 ;25.574 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 433 ;12.857 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;10.775 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 448 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3504 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 648 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1557 ; 0.896 ; 1.206 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1556 ; 0.895 ; 1.203 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1962 ; 1.526 ; 1.801 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1963 ; 1.526 ; 1.804 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1388 ; 1.291 ; 1.410 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1388 ; 1.288 ; 1.410 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2063 ; 2.087 ; 2.050 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3789 ; 5.922 ;11.997 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3789 ; 5.922 ;11.995 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 249 A 272 REMARK 3 ORIGIN FOR THE GROUP (A): -6.9752 -9.6698 35.8869 REMARK 3 T TENSOR REMARK 3 T11: 0.0644 T22: 0.1400 REMARK 3 T33: 0.0552 T12: -0.0100 REMARK 3 T13: -0.0237 T23: 0.0426 REMARK 3 L TENSOR REMARK 3 L11: 2.8468 L22: 5.9187 REMARK 3 L33: 8.7033 L12: 0.6811 REMARK 3 L13: 0.1268 L23: 5.4876 REMARK 3 S TENSOR REMARK 3 S11: 0.1969 S12: -0.2400 S13: 0.0263 REMARK 3 S21: 0.2853 S22: -0.0292 S23: -0.2662 REMARK 3 S31: 0.3230 S32: 0.5922 S33: -0.1677 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 273 A 328 REMARK 3 ORIGIN FOR THE GROUP (A): -14.3910 -15.0808 25.2322 REMARK 3 T TENSOR REMARK 3 T11: 0.1209 T22: 0.0557 REMARK 3 T33: 0.1102 T12: 0.0249 REMARK 3 T13: -0.0012 T23: 0.0701 REMARK 3 L TENSOR REMARK 3 L11: 0.6465 L22: 0.1623 REMARK 3 L33: 2.2744 L12: 0.3064 REMARK 3 L13: -0.6263 L23: -0.1493 REMARK 3 S TENSOR REMARK 3 S11: -0.0065 S12: -0.1288 S13: -0.1623 REMARK 3 S21: 0.0343 S22: -0.0708 S23: -0.0966 REMARK 3 S31: 0.3317 S32: 0.1195 S33: 0.0773 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 329 A 477 REMARK 3 ORIGIN FOR THE GROUP (A): -12.3809 4.3736 9.2598 REMARK 3 T TENSOR REMARK 3 T11: 0.0121 T22: 0.0107 REMARK 3 T33: 0.0303 T12: -0.0077 REMARK 3 T13: -0.0073 T23: 0.0050 REMARK 3 L TENSOR REMARK 3 L11: 0.6888 L22: 0.6524 REMARK 3 L33: 1.0059 L12: -0.0918 REMARK 3 L13: -0.3759 L23: -0.1332 REMARK 3 S TENSOR REMARK 3 S11: -0.0015 S12: -0.0501 S13: -0.0038 REMARK 3 S21: -0.0110 S22: -0.0052 S23: -0.0524 REMARK 3 S31: -0.0160 S32: 0.0749 S33: 0.0067 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 478 A 497 REMARK 3 ORIGIN FOR THE GROUP (A): -18.2360 -6.6698 42.2995 REMARK 3 T TENSOR REMARK 3 T11: 0.0916 T22: 0.0350 REMARK 3 T33: 0.0585 T12: -0.0127 REMARK 3 T13: 0.0088 T23: 0.0110 REMARK 3 L TENSOR REMARK 3 L11: 0.1611 L22: 1.9545 REMARK 3 L33: 8.2007 L12: -0.2564 REMARK 3 L13: 0.2575 L23: -2.5466 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: 0.0156 S13: 0.0729 REMARK 3 S21: 0.2543 S22: -0.0377 S23: 0.0442 REMARK 3 S31: -0.4435 S32: 0.0326 S33: 0.0372 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 502 A 628 REMARK 3 ORIGIN FOR THE GROUP (A): -20.1883 -6.4813 9.9124 REMARK 3 T TENSOR REMARK 3 T11: 0.0252 T22: 0.0061 REMARK 3 T33: 0.0369 T12: -0.0056 REMARK 3 T13: 0.0034 T23: 0.0084 REMARK 3 L TENSOR REMARK 3 L11: 0.6465 L22: 0.9847 REMARK 3 L33: 0.8564 L12: -0.0927 REMARK 3 L13: -0.3631 L23: 0.1054 REMARK 3 S TENSOR REMARK 3 S11: -0.0489 S12: -0.0327 S13: -0.1284 REMARK 3 S21: -0.0421 S22: -0.0034 S23: 0.0451 REMARK 3 S31: 0.1078 S32: -0.0056 S33: 0.0522 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 5CXW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212336. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39656 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.63400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5CRF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 25% PEG3350, PH 7.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K 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 23.67050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.95200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.29000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.95200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.67050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.29000 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 ALA A 498 REMARK 465 ASP A 499 REMARK 465 ASN A 500 REMARK 465 THR A 501 REMARK 465 PRO A 629 REMARK 465 PRO A 630 REMARK 465 PRO A 631 REMARK 465 GLU A 632 REMARK 465 VAL A 633 REMARK 465 PRO A 634 REMARK 465 PRO A 635 REMARK 465 SER A 636 REMARK 465 GLU A 637 REMARK 465 THR A 638 REMARK 465 VAL A 639 REMARK 465 ILE A 640 REMARK 465 GLN A 641 REMARK 465 PRO A 642 REMARK 465 THR A 643 REMARK 465 VAL A 644 REMARK 465 GLU A 645 REMARK 465 ILE A 646 REMARK 465 ALA A 647 REMARK 465 PRO A 648 REMARK 465 GLY A 649 REMARK 465 ILE A 650 REMARK 465 THR A 651 REMARK 465 ILE A 652 REMARK 465 PRO A 653 REMARK 465 ILE A 654 REMARK 465 GLY A 655 REMARK 465 PRO A 656 REMARK 465 PRO A 657 REMARK 465 THR A 658 REMARK 465 THR A 659 REMARK 465 ILE A 660 REMARK 465 THR A 661 REMARK 465 LEU A 662 REMARK 465 ALA A 663 REMARK 465 PRO A 664 REMARK 465 PRO A 665 REMARK 465 PRO A 666 REMARK 465 PRO A 667 REMARK 465 ALA A 668 REMARK 465 PRO A 669 REMARK 465 PRO A 670 REMARK 465 ALA A 671 REMARK 465 ALA A 672 REMARK 465 THR A 673 REMARK 465 PRO A 674 REMARK 465 THR A 675 REMARK 465 PRO A 676 REMARK 465 PRO A 677 REMARK 465 PRO A 678 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 261 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 261 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 291 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP A 374 CB - CG - OD1 ANGL. DEV. = 5.8 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 ASN A 319 -0.36 -151.57 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 EPE A 701 REMARK 610 PEG A 703 REMARK 610 PEG A 704 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 35P A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 704 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CRF RELATED DB: PDB REMARK 900 RELATED ID: MCSG-APC105958 RELATED DB: TARGETTRACK DBREF 5CXW A 249 678 UNP P71707 PBP1A_MYCTU 391 820 SEQRES 1 A 430 LYS GLY PRO ASN GLY LEU ILE GLU ARG GLN VAL THR ARG SEQRES 2 A 430 GLU LEU LEU GLU LEU PHE ASN ILE ASP GLU GLN THR LEU SEQRES 3 A 430 ASN THR GLN GLY LEU VAL VAL THR THR THR ILE ASP PRO SEQRES 4 A 430 GLN ALA GLN ARG ALA ALA GLU LYS ALA VAL ALA LYS TYR SEQRES 5 A 430 LEU ASP GLY GLN ASP PRO ASP MET ARG ALA ALA VAL VAL SEQRES 6 A 430 SER ILE ASP PRO HIS ASN GLY ALA VAL ARG ALA TYR TYR SEQRES 7 A 430 GLY GLY ASP ASN ALA ASN GLY PHE ASP PHE ALA GLN ALA SEQRES 8 A 430 GLY LEU GLN THR GLY SER SER PHE LYS VAL PHE ALA LEU SEQRES 9 A 430 VAL ALA ALA LEU GLU GLN GLY ILE GLY LEU GLY TYR GLN SEQRES 10 A 430 VAL ASP SER SER PRO LEU THR VAL ASP GLY ILE LYS ILE SEQRES 11 A 430 THR ASN VAL GLU GLY GLU GLY CYS GLY THR CYS ASN ILE SEQRES 12 A 430 ALA GLU ALA LEU LYS MET SER LEU ASN THR SER TYR TYR SEQRES 13 A 430 ARG LEU MET LEU LYS LEU ASN GLY GLY PRO GLN ALA VAL SEQRES 14 A 430 ALA ASP ALA ALA HIS GLN ALA GLY ILE ALA SER SER PHE SEQRES 15 A 430 PRO GLY VAL ALA HIS THR LEU SER GLU ASP GLY LYS GLY SEQRES 16 A 430 GLY PRO PRO ASN ASN GLY ILE VAL LEU GLY GLN TYR GLN SEQRES 17 A 430 THR ARG VAL ILE ASP MET ALA SER ALA TYR ALA THR LEU SEQRES 18 A 430 ALA ALA SER GLY ILE TYR HIS PRO PRO HIS PHE VAL GLN SEQRES 19 A 430 LYS VAL VAL SER ALA ASN GLY GLN VAL LEU PHE ASP ALA SEQRES 20 A 430 SER THR ALA ASP ASN THR GLY ASP GLN ARG ILE PRO LYS SEQRES 21 A 430 ALA VAL ALA ASP ASN VAL THR ALA ALA MET GLU PRO ILE SEQRES 22 A 430 ALA GLY TYR SER ARG GLY HIS ASN LEU ALA GLY GLY ARG SEQRES 23 A 430 ASP SER ALA ALA LYS THR GLY THR THR GLN PHE GLY ASP SEQRES 24 A 430 THR THR ALA ASN LYS ASP ALA TRP MET VAL GLY TYR THR SEQRES 25 A 430 PRO SER LEU SER THR ALA VAL TRP VAL GLY THR VAL LYS SEQRES 26 A 430 GLY ASP GLU PRO LEU VAL THR ALA SER GLY ALA ALA ILE SEQRES 27 A 430 TYR GLY SER GLY LEU PRO SER ASP ILE TRP LYS ALA THR SEQRES 28 A 430 MET ASP GLY ALA LEU LYS GLY THR SER ASN GLU THR PHE SEQRES 29 A 430 PRO LYS PRO THR GLU VAL GLY GLY TYR ALA GLY VAL PRO SEQRES 30 A 430 PRO PRO PRO PRO PRO PRO GLU VAL PRO PRO SER GLU THR SEQRES 31 A 430 VAL ILE GLN PRO THR VAL GLU ILE ALA PRO GLY ILE THR SEQRES 32 A 430 ILE PRO ILE GLY PRO PRO THR THR ILE THR LEU ALA PRO SEQRES 33 A 430 PRO PRO PRO ALA PRO PRO ALA ALA THR PRO THR PRO PRO SEQRES 34 A 430 PRO HET EPE A 701 13 HET 35P A 702 24 HET PEG A 703 4 HET PEG A 704 4 HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM 35P (2R,4S)-5,5-DIMETHYL-2-{(1R)-2-OXO-1-[(PHENOXYACETYL) HETNAM 2 35P AMINO]ETHYL}-1,3-THIAZOLIDINE-4-CARBOXYLIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EPE HEPES HETSYN 35P OPEN FORM - PENICILLIN V FORMUL 2 EPE C8 H18 N2 O4 S FORMUL 3 35P C16 H20 N2 O5 S FORMUL 4 PEG 2(C4 H10 O3) FORMUL 6 HOH *456(H2 O) HELIX 1 AA1 LYS A 249 ASN A 268 1 20 HELIX 2 AA2 ASP A 270 GLY A 278 1 9 HELIX 3 AA3 ASP A 286 ASP A 302 1 17 HELIX 4 AA4 GLY A 344 SER A 346 5 3 HELIX 5 AA5 PHE A 347 GLN A 358 1 12 HELIX 6 AA6 ASN A 380 GLU A 384 5 5 HELIX 7 AA7 ILE A 391 SER A 398 1 8 HELIX 8 AA8 LEU A 399 LEU A 410 1 12 HELIX 9 AA9 GLY A 412 GLY A 425 1 14 HELIX 10 AB1 ASN A 447 GLY A 453 5 7 HELIX 11 AB2 ARG A 458 ALA A 471 1 14 HELIX 12 AB3 PRO A 507 GLU A 519 1 13 HELIX 13 AB4 PRO A 520 SER A 525 1 6 HELIX 14 AB5 LEU A 530 ARG A 534 5 5 HELIX 15 AB6 GLY A 590 LYS A 605 1 16 SHEET 1 AA1 3 VAL A 280 THR A 283 0 SHEET 2 AA1 3 VAL A 481 VAL A 485 -1 O VAL A 485 N VAL A 280 SHEET 3 AA1 3 VAL A 491 ASP A 494 -1 O PHE A 493 N VAL A 484 SHEET 1 AA2 5 VAL A 322 TYR A 326 0 SHEET 2 AA2 5 MET A 308 ILE A 315 -1 N VAL A 312 O TYR A 326 SHEET 3 AA2 5 LEU A 563 THR A 571 -1 O GLY A 570 N ARG A 309 SHEET 4 AA2 5 ASN A 551 THR A 560 -1 N GLY A 558 O THR A 565 SHEET 5 AA2 5 ALA A 537 GLN A 544 -1 N GLY A 541 O TRP A 555 SHEET 1 AA3 2 LEU A 341 GLN A 342 0 SHEET 2 AA3 2 GLN A 456 THR A 457 -1 O THR A 457 N LEU A 341 SHEET 1 AA4 2 GLN A 365 ASP A 367 0 SHEET 2 AA4 2 THR A 388 ASN A 390 -1 O CYS A 389 N VAL A 366 SHEET 1 AA5 2 LEU A 371 VAL A 373 0 SHEET 2 AA5 2 ILE A 376 ILE A 378 -1 O ILE A 378 N LEU A 371 SHEET 1 AA6 2 ILE A 474 TYR A 475 0 SHEET 2 AA6 2 ASP A 503 GLN A 504 -1 O ASP A 503 N TYR A 475 SSBOND 1 CYS A 386 CYS A 389 1555 1555 2.15 LINK OG SER A 345 C6 35P A 702 1555 1555 1.32 SITE 1 AC1 7 TYR A 455 GLN A 456 PEG A 704 HOH A 803 SITE 2 AC1 7 HOH A 841 HOH A 886 HOH A1032 SITE 1 AC2 16 SER A 345 VAL A 381 SER A 398 ASN A 400 SITE 2 AC2 16 LYS A 539 THR A 540 GLY A 541 THR A 542 SITE 3 AC2 16 GLN A 544 THR A 548 THR A 549 ALA A 550 SITE 4 AC2 16 ASN A 551 TYR A 587 HOH A 888 HOH A 944 SITE 1 AC3 6 GLN A 342 GLN A 456 LYS A 552 HOH A 803 SITE 2 AC3 6 HOH A 824 HOH A 992 SITE 1 AC4 4 GLU A 439 ASN A 447 EPE A 701 HOH A 852 CRYST1 47.341 60.580 133.904 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 0.021123 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016507 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007468 0.00000