10 20 30 40 50 60 70 80 1K5S - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 12-OCT-01 1K5S
TITLE PENICILLIN ACYLASE, MUTANT COMPLEXED WITH PPA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENICILLIN G ACYLASE ALPHA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PENICILLIN G AMIDASE, PENICILLIN G AMIDOHYDROLASE; COMPND 5 EC: 3.5.1.11; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PENICILLIN G ACYLASE BETA SUBUNIT; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: PENICILLIN G AMIDASE, PENICILLIN G AMIDOHYDROLASE; COMPND 11 EC: 3.5.1.11; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PAC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HB101; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PEC; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 12 ORGANISM_TAXID: 562; SOURCE 13 GENE: PAC; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: HB101; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PEC
KEYWDS NTN-HYDROLASE FOLD, HELICES, BETA-STRANDS
EXPDTA X-RAY DIFFRACTION
AUTHOR C.M.H.HENSGENS,E.KEIZER,H.J.SNIJDER,B.W.DIJKSTRA
REVDAT 3 24-FEB-09 1K5S 1 VERSN REVDAT 2 01-MAR-05 1K5S 1 JRNL REVDAT 1 02-SEP-03 1K5S 0
JRNL AUTH W.B.L.ALKEMA,C.M.H.HENSGENS,H.J.SNIJDER,E.KEIZER, JRNL AUTH 2 B.W.DIJKSTRA,D.B.JANSSEN JRNL TITL STRUCTURAL AND KINETIC STUDIES ON LIGAND BINDING JRNL TITL 2 IN WILD-TYPE AND ACTIVE-SITE MUTANTS OF PENICILLIN JRNL TITL 3 ACYLASE. JRNL REF PROTEIN ENG.DES.SEL. V. 17 473 2004 JRNL REFN ISSN 1741-0126 JRNL PMID 15254299 JRNL DOI 10.1093/PROTEIN/GZH057
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.43 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 26632 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1375 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) : 2.43 REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1730 REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : 0.2690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6067 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.44000 REMARK 3 B22 (A**2) : 0.14000 REMARK 3 B33 (A**2) : 0.60000 REMARK 3 B12 (A**2) : 0.06000 REMARK 3 B13 (A**2) : -0.23000 REMARK 3 B23 (A**2) : -0.36000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1K5S COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-NOV-01. REMARK 100 THE RCSB ID CODE IS RCSB014595.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-00 REMARK 200 TEMPERATURE (KELVIN) : 120.0 REMARK 200 PH : 7.20 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAC SCIENCE DIP-2020 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26632 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.430 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 2.185 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1PNK REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MOPS BUFFER, PEG MME 2K, PPA, PH REMARK 280 7.20, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 300 REMARK: THE ALPHA AND BETA UNIT TOGETHER FORM THE BIOLOGICAL UNIT
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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -94.0 KCAL/MOL 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 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 0 REMARK 465 GLU A 1 REMARK 465 GLN A 2
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 NE2 GLN B 318 O HOH B 675 2.10 REMARK 500 OE1 GLU B 114 O HOH B 719 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 B 165 CD GLU B 165 OE2 0.078 REMARK 500 ARG B 557 C ARG B 557 OXT -0.154 REMARK 500 REMARK 500 REMARK: NULL 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 ASP B 130 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP B 381 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 403 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 518 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 523 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 542 CB - CG - OD2 ANGL. DEV. = 5.9 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 MET A 142 -64.06 -129.29 REMARK 500 ASP B 43 80.99 -150.57 REMARK 500 PHE B 50 21.45 49.96 REMARK 500 TRP B 240 46.68 -142.19 REMARK 500 SER B 251 152.38 -46.51 REMARK 500 THR B 358 -94.96 -108.08 REMARK 500 GLU B 522 20.40 -143.34 REMARK 500 LEU B 538 -54.74 -130.85 REMARK 500 REMARK 500 REMARK: NULL
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 B 558 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 73 OD1 REMARK 620 2 ASP B 73 OD2 48.7 REMARK 620 3 GLU A 152 OE2 165.7 145.1 REMARK 620 4 ASP B 76 OD1 95.1 108.9 83.2 REMARK 620 5 PRO B 205 O 108.6 60.1 85.6 103.3 REMARK 620 6 VAL B 75 O 74.2 122.7 91.6 76.1 177.2 REMARK 620 7 ASP B 252 OD2 90.0 94.9 85.2 152.3 100.8 79.2 REMARK 620 N 1 2 3 4 5 6
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 558 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GRO B 601
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JX9 RELATED DB: PDB REMARK 900 MUTANT PA WITHOUT ANYTHING IN THE SUBSTRATE BINDING POCKET REMARK 900 RELATED ID: 1FXV RELATED DB: PDB REMARK 900 WILD-TYPE PA WITH PENICILLIN G REMARK 900 RELATED ID: 1PNK RELATED DB: PDB REMARK 900 WILD-TYPE PA REMARK 900 RELATED ID: 1PNL RELATED DB: PDB REMARK 900 WILD-TYPE PA WITH PHENYL ACETIC ACID
DBREF 1K5S A 0 208 UNP P06875 PAC_ECOLI 26 234 DBREF 1K5S B 1 557 UNP P06875 PAC_ECOLI 290 846
SEQADV 1K5S ALA B 24 UNP P06875 PHE 313 ENGINEERED SEQADV 1K5S LEU B 148 UNP P06875 VAL 437 ENGINEERED
SEQRES 1 A 209 ALA GLU GLN SER SER SER GLU ILE LYS ILE VAL ARG ASP SEQRES 2 A 209 GLU TYR GLY MET PRO HIS ILE TYR ALA ASN ASP THR TRP SEQRES 3 A 209 HIS LEU PHE TYR GLY TYR GLY TYR VAL VAL ALA GLN ASP SEQRES 4 A 209 ARG LEU PHE GLN MET GLU MET ALA ARG ARG SER THR GLN SEQRES 5 A 209 GLY THR VAL ALA GLU VAL LEU GLY LYS ASP PHE VAL LYS SEQRES 6 A 209 PHE ASP LYS ASP ILE ARG ARG ASN TYR TRP PRO ASP ALA SEQRES 7 A 209 ILE ARG ALA GLN ILE ALA ALA LEU SER PRO GLU ASP MET SEQRES 8 A 209 SER ILE LEU GLN GLY TYR ALA ASP GLY MET ASN ALA TRP SEQRES 9 A 209 ILE ASP LYS VAL ASN THR ASN PRO GLU THR LEU LEU PRO SEQRES 10 A 209 LYS GLN PHE ASN THR PHE GLY PHE THR PRO LYS ARG TRP SEQRES 11 A 209 GLU PRO PHE ASP VAL ALA MET ILE PHE VAL GLY THR MET SEQRES 12 A 209 ALA ASN ARG PHE SER ASP SER THR SER GLU ILE ASP ASN SEQRES 13 A 209 LEU ALA LEU LEU THR ALA LEU LYS ASP LYS TYR GLY VAL SEQRES 14 A 209 SER GLN GLY MET ALA VAL PHE ASN GLN LEU LYS TRP LEU SEQRES 15 A 209 VAL ASN PRO SER ALA PRO THR THR ILE ALA VAL GLN GLU SEQRES 16 A 209 SER ASN TYR PRO LEU LYS PHE ASN GLN GLN ASN SER GLN SEQRES 17 A 209 THR SEQRES 1 B 557 SER ASN MET TRP VAL ILE GLY LYS SER LYS ALA GLN ASP SEQRES 2 B 557 ALA LYS ALA ILE MET VAL ASN GLY PRO GLN ALA GLY TRP SEQRES 3 B 557 TYR ALA PRO ALA TYR THR TYR GLY ILE GLY LEU HIS GLY SEQRES 4 B 557 ALA GLY TYR ASP VAL THR GLY ASN THR PRO PHE ALA TYR SEQRES 5 B 557 PRO GLY LEU VAL PHE GLY HIS ASN GLY VAL ILE SER TRP SEQRES 6 B 557 GLY SER THR ALA GLY PHE GLY ASP ASP VAL ASP ILE PHE SEQRES 7 B 557 ALA GLU ARG LEU SER ALA GLU LYS PRO GLY TYR TYR LEU SEQRES 8 B 557 HIS ASN GLY LYS TRP VAL LYS MET LEU SER ARG GLU GLU SEQRES 9 B 557 THR ILE THR VAL LYS ASN GLY GLN ALA GLU THR PHE THR SEQRES 10 B 557 VAL TRP ARG THR VAL HIS GLY ASN ILE LEU GLN THR ASP SEQRES 11 B 557 GLN THR THR GLN THR ALA TYR ALA LYS SER ARG ALA TRP SEQRES 12 B 557 ASP GLY LYS GLU LEU ALA SER LEU LEU ALA TRP THR HIS SEQRES 13 B 557 GLN MET LYS ALA LYS ASN TRP GLN GLU TRP THR GLN GLN SEQRES 14 B 557 ALA ALA LYS GLN ALA LEU THR ILE ASN TRP TYR TYR ALA SEQRES 15 B 557 ASP VAL ASN GLY ASN ILE GLY TYR VAL HIS THR GLY ALA SEQRES 16 B 557 TYR PRO ASP ARG GLN SER GLY HIS ASP PRO ARG LEU PRO SEQRES 17 B 557 VAL PRO GLY THR GLY LYS TRP ASP TRP LYS GLY LEU LEU SEQRES 18 B 557 PRO PHE GLU MET ASN PRO LYS VAL TYR ASN PRO GLN SER SEQRES 19 B 557 GLY TYR ILE ALA ASN TRP ASN ASN SER PRO GLN LYS ASP SEQRES 20 B 557 TYR PRO ALA SER ASP LEU PHE ALA PHE LEU TRP GLY GLY SEQRES 21 B 557 ALA ASP ARG VAL THR GLU ILE ASP ARG LEU LEU GLU GLN SEQRES 22 B 557 LYS PRO ARG LEU THR ALA ASP GLN ALA TRP ASP VAL ILE SEQRES 23 B 557 ARG GLN THR SER ARG GLN ASP LEU ASN LEU ARG LEU PHE SEQRES 24 B 557 LEU PRO THR LEU GLN ALA ALA THR SER GLY LEU THR GLN SEQRES 25 B 557 SER ASP PRO ARG ARG GLN LEU VAL GLU THR LEU THR ARG SEQRES 26 B 557 TRP ASP GLY ILE ASN LEU LEU ASN ASP ASP GLY LYS THR SEQRES 27 B 557 TRP GLN GLN PRO GLY SER ALA ILE LEU ASN VAL TRP LEU SEQRES 28 B 557 THR SER MET LEU LYS ARG THR VAL VAL ALA ALA VAL PRO SEQRES 29 B 557 MET PRO PHE ASP LYS TRP TYR SER ALA SER GLY TYR GLU SEQRES 30 B 557 THR THR GLN ASP GLY PRO THR GLY SER LEU ASN ILE SER SEQRES 31 B 557 VAL GLY ALA LYS ILE LEU TYR GLU ALA VAL GLN GLY ASP SEQRES 32 B 557 LYS SER PRO ILE PRO GLN ALA VAL ASP LEU PHE ALA GLY SEQRES 33 B 557 LYS PRO GLN GLN GLU VAL VAL LEU ALA ALA LEU GLU ASP SEQRES 34 B 557 THR TRP GLU THR LEU SER LYS ARG TYR GLY ASN ASN VAL SEQRES 35 B 557 SER ASN TRP LYS THR PRO ALA MET ALA LEU THR PHE ARG SEQRES 36 B 557 ALA ASN ASN PHE PHE GLY VAL PRO GLN ALA ALA ALA GLU SEQRES 37 B 557 GLU THR ARG HIS GLN ALA GLU TYR GLN ASN ARG GLY THR SEQRES 38 B 557 GLU ASN ASP MET ILE VAL PHE SER PRO THR THR SER ASP SEQRES 39 B 557 ARG PRO VAL LEU ALA TRP ASP VAL VAL ALA PRO GLY GLN SEQRES 40 B 557 SER GLY PHE ILE ALA PRO ASP GLY THR VAL ASP LYS HIS SEQRES 41 B 557 TYR GLU ASP GLN LEU LYS MET TYR GLU ASN PHE GLY ARG SEQRES 42 B 557 LYS SER LEU TRP LEU THR LYS GLN ASP VAL GLU ALA HIS SEQRES 43 B 557 LYS GLU SER GLN GLU VAL LEU HIS VAL GLN ARG
HET CA B 558 1 HET GRO B 601 11
HETNAM CA CALCIUM ION HETNAM GRO R-2-PHENYL-PROPRIONIC ACID
FORMUL 3 CA CA 2+ FORMUL 4 GRO C9 H10 O2 FORMUL 5 HOH *360(H2 O)
HELIX 1 1 ASP A 23 GLY A 52 1 30 HELIX 2 2 VAL A 54 GLY A 59 1 6 HELIX 3 3 PHE A 62 ASN A 72 1 11 HELIX 4 4 TRP A 74 ALA A 84 1 11 HELIX 5 5 SER A 86 ASN A 110 1 25 HELIX 6 6 ASN A 110 LEU A 115 1 6 HELIX 7 7 PRO A 116 GLY A 123 1 8 HELIX 8 8 GLU A 130 MET A 142 1 13 HELIX 9 9 SER A 151 GLY A 167 1 17 HELIX 10 10 GLY A 167 LYS A 179 1 13 HELIX 11 11 LYS B 146 GLN B 157 1 12 HELIX 12 12 MET B 158 ALA B 160 5 3 HELIX 13 13 ASN B 162 ALA B 171 1 10 HELIX 14 14 PRO B 222 ASN B 226 5 5 HELIX 15 15 VAL B 264 LYS B 274 1 11 HELIX 16 16 THR B 278 GLN B 292 1 15 HELIX 17 17 ASN B 295 SER B 308 1 14 HELIX 18 18 ASP B 314 ARG B 325 1 12 HELIX 19 19 PRO B 342 THR B 358 1 17 HELIX 20 20 THR B 358 VAL B 363 1 6 HELIX 21 21 PRO B 366 SER B 372 5 7 HELIX 22 22 SER B 390 GLN B 401 1 12 HELIX 23 23 GLY B 402 SER B 405 5 4 HELIX 24 24 PRO B 418 GLY B 439 1 22 HELIX 25 25 ASN B 441 TRP B 445 5 5 HELIX 26 26 ALA B 466 THR B 470 5 5 HELIX 27 27 GLN B 524 ASN B 530 1 7 HELIX 28 28 THR B 539 HIS B 546 1 8
SHEET 1 A10 LYS B 228 TYR B 230 0 SHEET 2 A10 ILE B 188 HIS B 192 -1 N TYR B 190 O VAL B 229 SHEET 3 A10 ILE B 177 ASP B 183 -1 N TRP B 179 O VAL B 191 SHEET 4 A10 ILE B 63 ALA B 69 -1 N THR B 68 O ASN B 178 SHEET 5 A10 PHE B 57 HIS B 59 -1 N GLY B 58 O TRP B 65 SHEET 6 A10 TYR B 42 PRO B 49 -1 N ASN B 47 O PHE B 57 SHEET 7 A10 THR B 32 GLY B 39 -1 N LEU B 37 O VAL B 44 SHEET 8 A10 PRO A 17 TYR A 20 1 N ILE A 19 O GLY B 36 SHEET 9 A10 GLU A 6 ARG A 11 -1 N LYS A 8 O TYR A 20 SHEET 10 A10 SER B 549 HIS B 554 -1 O LEU B 553 N ILE A 7 SHEET 1 B 6 TYR B 236 ASN B 239 0 SHEET 2 B 6 ASN B 2 ILE B 6 -1 N VAL B 5 O ILE B 237 SHEET 3 B 6 ALA B 16 GLY B 21 -1 O GLY B 21 N ASN B 2 SHEET 4 B 6 ASN B 483 PHE B 488 -1 O PHE B 488 N ALA B 16 SHEET 5 B 6 VAL B 497 VAL B 502 -1 O LEU B 498 N VAL B 487 SHEET 6 B 6 LYS B 534 SER B 535 -1 O LYS B 534 N ASP B 501 SHEET 1 C 3 THR B 135 ARG B 141 0 SHEET 2 C 3 VAL B 75 ARG B 81 -1 N ASP B 76 O SER B 140 SHEET 3 C 3 VAL B 209 PRO B 210 1 O VAL B 209 N ALA B 79 SHEET 1 D 2 TYR B 89 HIS B 92 0 SHEET 2 D 2 LYS B 95 LYS B 98 -1 O VAL B 97 N TYR B 90 SHEET 1 E 2 LEU B 100 ILE B 106 0 SHEET 2 E 2 GLU B 114 ARG B 120 -1 O GLU B 114 N ILE B 106 SHEET 1 F 2 PRO B 197 ASP B 198 0 SHEET 2 F 2 GLY B 219 LEU B 220 -1 O GLY B 219 N ASP B 198 SHEET 1 G 2 LEU B 452 PHE B 454 0 SHEET 2 G 2 ARG B 471 GLN B 473 -1 O GLN B 473 N LEU B 452
LINK CA CA B 558 OD1 ASP B 73 1555 1555 2.57 LINK CA CA B 558 OD2 ASP B 73 1555 1555 2.67 LINK CA CA B 558 OE2 GLU A 152 1555 1555 2.17 LINK CA CA B 558 OD1 ASP B 76 1555 1555 2.38 LINK CA CA B 558 O PRO B 205 1555 1555 2.51 LINK CA CA B 558 O VAL B 75 1555 1555 2.47 LINK CA CA B 558 OD2 ASP B 252 1555 1555 2.64
CISPEP 1 ALA B 28 PRO B 29 0 -4.58 CISPEP 2 MET B 365 PRO B 366 0 0.70 CISPEP 3 ALA B 504 PRO B 505 0 -1.64
SITE 1 AC1 6 GLU A 152 ASP B 73 VAL B 75 ASP B 76 SITE 2 AC1 6 PRO B 205 ASP B 252 SITE 1 AC2 9 MET A 142 SER B 1 GLN B 23 SER B 67 SITE 2 AC2 9 THR B 68 ALA B 69 ASN B 241 HOH B 633 SITE 3 AC2 9 HOH B 744
CRYST1 50.820 64.360 64.750 72.89 74.01 73.55 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 0.019677 -0.005810 -0.004399 0.00000
SCALE2 0.000000 0.016201 -0.003908 0.00000
SCALE3 0.000000 0.000000 0.016526 0.00000