HEADER PEPTIDE BINDING PROTEIN 08-JUL-21 7RCZ TITLE CRYSTAL STRUCTURE OF C. DIFFICILE SPOVD IN COMPLEX WITH AMPICILLIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: STAGE V SPORULATION PROTEIN D (SPORULATION SPECIFIC COMPND 3 PENICILLIN-BINDING PROTEIN); COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIOIDES DIFFICILE (STRAIN R20291); SOURCE 3 ORGANISM_COMMON: PEPTOCLOSTRIDIUM DIFFICILE; SOURCE 4 ORGANISM_TAXID: 645463; SOURCE 5 STRAIN: R20291; SOURCE 6 GENE: SPOVD, CDR20291_2544; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS PEPTIDOGLYCAN, PBP, PBP2, CELL WALL, TRANSPEPTIDASE, B-LACTAM, GRAM- KEYWDS 2 POSITIVE, SPORE, SPORULATION, PEPTIDE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.SACCO,Y.CHEN REVDAT 3 18-OCT-23 7RCZ 1 REMARK REVDAT 2 10-AUG-22 7RCZ 1 JRNL REVDAT 1 23-MAR-22 7RCZ 0 JRNL AUTH M.D.SACCO,S.WANG,S.R.ADAPA,X.ZHANG,E.M.LEWANDOWSKI, JRNL AUTH 2 M.V.GONGORA,D.KERAMISANOU,Z.D.ATLAS,J.A.TOWNSEND, JRNL AUTH 3 J.R.GATDULA,R.T.MORGAN,L.R.HAMMOND,M.T.MARTY,J.WANG, JRNL AUTH 4 P.J.ESWARA,I.GELIS,R.H.Y.JIANG,X.SUN,Y.CHEN JRNL TITL A UNIQUE CLASS OF ZN 2+ -BINDING SERINE-BASED PBPS UNDERLIES JRNL TITL 2 CEPHALOSPORIN RESISTANCE AND SPOROGENESIS IN CLOSTRIDIOIDES JRNL TITL 3 DIFFICILE. JRNL REF NAT COMMUN V. 13 4370 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35902581 JRNL DOI 10.1038/S41467-022-32086-6 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 59183 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3192 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4421 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.22 REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE SET COUNT : 266 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7855 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 141 REMARK 3 SOLVENT ATOMS : 318 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.23000 REMARK 3 B22 (A**2) : 1.20000 REMARK 3 B33 (A**2) : 2.03000 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): 0.247 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.195 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.148 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.018 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8278 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 7783 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11201 ; 1.518 ; 1.662 REMARK 3 BOND ANGLES OTHERS (DEGREES): 18174 ; 1.216 ; 1.596 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1021 ; 7.123 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 358 ;32.918 ;23.883 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1470 ;16.096 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;15.130 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1086 ; 0.067 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8992 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1546 ; 0.001 ; 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): 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 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7RCZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUL-21. REMARK 100 THE DEPOSITION ID IS D_1000258061. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97911 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62415 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 49.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.50000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA REMARK 200 STARTING MODEL: 6UN1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15 % PEG 3350, 0.2 M AMSO4, 10 % REMARK 280 PROPOH, 0.1 M NA CITRATE PH 5.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K 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 38.32000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.38500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.81000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 88.38500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.32000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.81000 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: 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 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 38 REMARK 465 ASN A 39 REMARK 465 TRP A 40 REMARK 465 LEU A 41 REMARK 465 SER A 42 REMARK 465 THR A 43 REMARK 465 LYS A 44 REMARK 465 ALA A 45 REMARK 465 LEU A 46 REMARK 465 GLU A 47 REMARK 465 GLN A 48 REMARK 465 GLN A 49 REMARK 465 THR A 50 REMARK 465 ARG A 51 REMARK 465 ASP A 52 REMARK 465 ILE A 53 REMARK 465 PRO A 54 REMARK 465 ILE A 55 REMARK 465 ILE A 190 REMARK 465 VAL A 191 REMARK 465 SER A 192 REMARK 465 THR A 193 REMARK 465 ASP A 194 REMARK 465 ALA A 195 REMARK 465 SER A 196 REMARK 465 GLY A 197 REMARK 465 ARG A 198 REMARK 465 GLU A 199 REMARK 465 ILE A 200 REMARK 465 PRO A 201 REMARK 465 GLN A 202 REMARK 465 GLY A 203 REMARK 465 MET A 204 REMARK 465 GLU A 205 REMARK 465 LYS A 206 REMARK 465 TYR A 207 REMARK 465 TYR A 208 REMARK 465 GLY B 38 REMARK 465 ASN B 39 REMARK 465 TRP B 40 REMARK 465 LEU B 41 REMARK 465 SER B 42 REMARK 465 THR B 43 REMARK 465 LYS B 44 REMARK 465 ALA B 45 REMARK 465 LEU B 46 REMARK 465 GLU B 47 REMARK 465 GLN B 48 REMARK 465 GLN B 49 REMARK 465 THR B 50 REMARK 465 ARG B 51 REMARK 465 ASP B 52 REMARK 465 ILE B 53 REMARK 465 PRO B 54 REMARK 465 GLY B 187 REMARK 465 LYS B 188 REMARK 465 LEU B 189 REMARK 465 ILE B 190 REMARK 465 VAL B 191 REMARK 465 SER B 192 REMARK 465 THR B 193 REMARK 465 ASP B 194 REMARK 465 ALA B 195 REMARK 465 SER B 196 REMARK 465 GLY B 197 REMARK 465 ARG B 198 REMARK 465 GLU B 199 REMARK 465 ILE B 200 REMARK 465 PRO B 201 REMARK 465 GLN B 202 REMARK 465 GLY B 203 REMARK 465 MET B 204 REMARK 465 GLU B 205 REMARK 465 LYS B 206 REMARK 465 TYR B 207 REMARK 465 TYR B 208 REMARK 465 GLU B 209 REMARK 465 LEU B 409 REMARK 465 TYR B 410 REMARK 465 ASN B 411 REMARK 465 GLU B 412 REMARK 465 LYS B 413 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 PRO B 210 CB CG CD 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 155 75.68 -68.85 REMARK 500 VAL A 160 -61.78 -94.75 REMARK 500 ASN A 240 55.17 39.98 REMARK 500 ASP A 264 -157.49 -134.87 REMARK 500 ASP A 460 -168.82 -73.38 REMARK 500 ASP A 541 77.65 -163.61 REMARK 500 LYS B 89 -70.06 -64.38 REMARK 500 ASP B 103 7.53 -66.12 REMARK 500 TYR B 104 -21.80 69.78 REMARK 500 SER B 112 31.14 -94.63 REMARK 500 ASP B 264 -158.49 -132.55 REMARK 500 VAL B 341 74.14 -104.17 REMARK 500 ASP B 521 19.62 59.70 REMARK 500 ASP B 541 79.07 -159.90 REMARK 500 GLU B 552 62.05 60.82 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 ZN A 808 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 335 SG REMARK 620 2 CYS A 348 SG 113.7 REMARK 620 3 HIS A 355 ND1 116.2 97.4 REMARK 620 4 CYS A 368 SG 101.4 118.1 110.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 608 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 335 SG REMARK 620 2 CYS B 348 SG 115.7 REMARK 620 3 HIS B 355 ND1 98.5 119.8 REMARK 620 4 CYS B 368 SG 97.9 120.3 100.4 REMARK 620 N 1 2 3 DBREF 7RCZ A 38 585 UNP C9YPN0 C9YPN0_CLODR 38 585 DBREF 7RCZ B 38 585 UNP C9YPN0 C9YPN0_CLODR 38 585 SEQRES 1 A 548 GLY ASN TRP LEU SER THR LYS ALA LEU GLU GLN GLN THR SEQRES 2 A 548 ARG ASP ILE PRO ILE GLU PRO LYS ARG GLY THR ILE TYR SEQRES 3 A 548 ASP ARG ASN MET LYS GLU LEU ALA VAL SER VAL THR LYS SEQRES 4 A 548 TYR THR VAL TRP CYS LYS PRO VAL GLU VAL GLU ASP LYS SEQRES 5 A 548 LYS GLU ALA ALA GLU LYS VAL ALA GLU ILE LEU ASP GLU SEQRES 6 A 548 ASP TYR LYS ASP ILE TYR ALA LEU ILE SER LYS LYS ASN SEQRES 7 A 548 MET ALA LEU VAL LYS VAL LYS ARG TRP ILE ASP ASP ASP SEQRES 8 A 548 LYS ALA SER GLN ILE ARG ASP ALA LYS LEU SER GLY ILE SEQRES 9 A 548 TRP VAL ALA GLU ASP ASN GLN ARG TYR TYR PRO TYR GLY SEQRES 10 A 548 ASN PHE ALA PRO TYR VAL LEU GLY HIS THR SER SER ASP SEQRES 11 A 548 ALA THR GLY ILE SER GLY VAL GLU MET GLN TYR ASP LYS SEQRES 12 A 548 LYS LEU LYS GLY LYS PRO GLY LYS LEU ILE VAL SER THR SEQRES 13 A 548 ASP ALA SER GLY ARG GLU ILE PRO GLN GLY MET GLU LYS SEQRES 14 A 548 TYR TYR GLU PRO VAL GLN GLY ASN GLY LEU VAL LEU SER SEQRES 15 A 548 ILE ASP GLU VAL ILE GLN HIS TYR THR GLU LYS ALA VAL SEQRES 16 A 548 GLN LYS ALA TYR GLU LEU ASN ASN ALA LYS LYS VAL THR SEQRES 17 A 548 ALA ILE ALA MET ASN PRO LYS THR GLY ASP ILE LEU ALA SEQRES 18 A 548 LEU ALA SER LYS PRO ASP TYR ASP PRO ASN ASP SER ARG SEQRES 19 A 548 THR PRO ILE TYR PRO TYR TYR GLN GLU GLU LEU GLU LYS SEQRES 20 A 548 TYR ASN ASP LYS ASP LYS ILE LYS GLY TYR TYR GLN MET SEQRES 21 A 548 TRP ARG ASN PRO ALA VAL SER ASP THR TYR GLU PRO GLY SEQRES 22 A 548 SER THR PHE LYS LEU ILE THR SER SER SER ALA LEU GLU SEQRES 23 A 548 GLU GLY VAL ILE LYS ASP GLY GLU LYS PHE THR CYS THR SEQRES 24 A 548 GLY SER VAL THR VAL GLY GLY ARG LYS ILE LYS CYS TRP SEQRES 25 A 548 ARG HIS TYR ARG PRO HIS GLY THR GLN GLU PHE LYS GLN SEQRES 26 A 548 ALA VAL GLN ASN SER CYS ASN PRO VAL PHE VAL GLU LEU SEQRES 27 A 548 GLY SER ARG LEU GLY VAL GLY LYS MET TYR ASP TYR ILE SEQRES 28 A 548 GLU SER PHE GLY LEU MET ASP LYS THR GLY ILE ASP LEU SEQRES 29 A 548 PRO GLY GLU ALA LYS GLY ILE LEU TYR ASN GLU LYS ASN SEQRES 30 A 548 VAL GLY PRO VAL GLU LEU ALA THR ILE SER PHE GLY GLN SEQRES 31 A 548 SER ILE SER VAL THR PRO ILE GLN LEU ILE THR ALA ILE SEQRES 32 A 548 SER SER ILE ALA ASN GLY GLY ASP LEU MET GLN PRO ARG SEQRES 33 A 548 VAL VAL LYS SER TYR THR ASP ASN LYS GLY ASN ILE THR SEQRES 34 A 548 GLU THR VAL LYS PRO LYS LYS VAL ARG SER VAL ILE SER SEQRES 35 A 548 LYS GLU THR SER LYS LYS MET LEU GLU ILE ALA GLU SER SEQRES 36 A 548 VAL VAL THR GLU GLY GLY GLY LYS ILE ALA TYR ILE PRO SEQRES 37 A 548 GLY TYR ARG LEU GLY GLY LYS THR GLY THR ALA GLN LYS SEQRES 38 A 548 VAL ILE ASP GLY LYS TYR ALA PRO GLY LYS TYR ILE CYS SEQRES 39 A 548 SER PHE VAL GLY ILE ALA PRO CYS ASP ASP PRO GLN ILE SEQRES 40 A 548 VAL VAL LEU ALA ILE VAL ASP GLU PRO THR GLY VAL SER SEQRES 41 A 548 ALA PHE GLY SER THR THR ALA GLY PRO ILE VAL LYS GLU SEQRES 42 A 548 ILE MET ASN ASP SER LEU LYS TYR LEU GLY VAL LYS PRO SEQRES 43 A 548 VAL TYR SEQRES 1 B 548 GLY ASN TRP LEU SER THR LYS ALA LEU GLU GLN GLN THR SEQRES 2 B 548 ARG ASP ILE PRO ILE GLU PRO LYS ARG GLY THR ILE TYR SEQRES 3 B 548 ASP ARG ASN MET LYS GLU LEU ALA VAL SER VAL THR LYS SEQRES 4 B 548 TYR THR VAL TRP CYS LYS PRO VAL GLU VAL GLU ASP LYS SEQRES 5 B 548 LYS GLU ALA ALA GLU LYS VAL ALA GLU ILE LEU ASP GLU SEQRES 6 B 548 ASP TYR LYS ASP ILE TYR ALA LEU ILE SER LYS LYS ASN SEQRES 7 B 548 MET ALA LEU VAL LYS VAL LYS ARG TRP ILE ASP ASP ASP SEQRES 8 B 548 LYS ALA SER GLN ILE ARG ASP ALA LYS LEU SER GLY ILE SEQRES 9 B 548 TRP VAL ALA GLU ASP ASN GLN ARG TYR TYR PRO TYR GLY SEQRES 10 B 548 ASN PHE ALA PRO TYR VAL LEU GLY HIS THR SER SER ASP SEQRES 11 B 548 ALA THR GLY ILE SER GLY VAL GLU MET GLN TYR ASP LYS SEQRES 12 B 548 LYS LEU LYS GLY LYS PRO GLY LYS LEU ILE VAL SER THR SEQRES 13 B 548 ASP ALA SER GLY ARG GLU ILE PRO GLN GLY MET GLU LYS SEQRES 14 B 548 TYR TYR GLU PRO VAL GLN GLY ASN GLY LEU VAL LEU SER SEQRES 15 B 548 ILE ASP GLU VAL ILE GLN HIS TYR THR GLU LYS ALA VAL SEQRES 16 B 548 GLN LYS ALA TYR GLU LEU ASN ASN ALA LYS LYS VAL THR SEQRES 17 B 548 ALA ILE ALA MET ASN PRO LYS THR GLY ASP ILE LEU ALA SEQRES 18 B 548 LEU ALA SER LYS PRO ASP TYR ASP PRO ASN ASP SER ARG SEQRES 19 B 548 THR PRO ILE TYR PRO TYR TYR GLN GLU GLU LEU GLU LYS SEQRES 20 B 548 TYR ASN ASP LYS ASP LYS ILE LYS GLY TYR TYR GLN MET SEQRES 21 B 548 TRP ARG ASN PRO ALA VAL SER ASP THR TYR GLU PRO GLY SEQRES 22 B 548 SER THR PHE LYS LEU ILE THR SER SER SER ALA LEU GLU SEQRES 23 B 548 GLU GLY VAL ILE LYS ASP GLY GLU LYS PHE THR CYS THR SEQRES 24 B 548 GLY SER VAL THR VAL GLY GLY ARG LYS ILE LYS CYS TRP SEQRES 25 B 548 ARG HIS TYR ARG PRO HIS GLY THR GLN GLU PHE LYS GLN SEQRES 26 B 548 ALA VAL GLN ASN SER CYS ASN PRO VAL PHE VAL GLU LEU SEQRES 27 B 548 GLY SER ARG LEU GLY VAL GLY LYS MET TYR ASP TYR ILE SEQRES 28 B 548 GLU SER PHE GLY LEU MET ASP LYS THR GLY ILE ASP LEU SEQRES 29 B 548 PRO GLY GLU ALA LYS GLY ILE LEU TYR ASN GLU LYS ASN SEQRES 30 B 548 VAL GLY PRO VAL GLU LEU ALA THR ILE SER PHE GLY GLN SEQRES 31 B 548 SER ILE SER VAL THR PRO ILE GLN LEU ILE THR ALA ILE SEQRES 32 B 548 SER SER ILE ALA ASN GLY GLY ASP LEU MET GLN PRO ARG SEQRES 33 B 548 VAL VAL LYS SER TYR THR ASP ASN LYS GLY ASN ILE THR SEQRES 34 B 548 GLU THR VAL LYS PRO LYS LYS VAL ARG SER VAL ILE SER SEQRES 35 B 548 LYS GLU THR SER LYS LYS MET LEU GLU ILE ALA GLU SER SEQRES 36 B 548 VAL VAL THR GLU GLY GLY GLY LYS ILE ALA TYR ILE PRO SEQRES 37 B 548 GLY TYR ARG LEU GLY GLY LYS THR GLY THR ALA GLN LYS SEQRES 38 B 548 VAL ILE ASP GLY LYS TYR ALA PRO GLY LYS TYR ILE CYS SEQRES 39 B 548 SER PHE VAL GLY ILE ALA PRO CYS ASP ASP PRO GLN ILE SEQRES 40 B 548 VAL VAL LEU ALA ILE VAL ASP GLU PRO THR GLY VAL SER SEQRES 41 B 548 ALA PHE GLY SER THR THR ALA GLY PRO ILE VAL LYS GLU SEQRES 42 B 548 ILE MET ASN ASP SER LEU LYS TYR LEU GLY VAL LYS PRO SEQRES 43 B 548 VAL TYR HET SO4 A 801 5 HET SO4 A 802 5 HET EPE A 803 15 HET POL A 804 4 HET PEG A 805 7 HET EPE A 806 15 HET SO4 A 807 5 HET ZN A 808 1 HET ZZ7 A 809 24 HET SO4 B 601 5 HET SO4 B 602 5 HET SO4 B 603 5 HET SO4 B 604 5 HET SO4 B 605 5 HET SO4 B 606 5 HET SO4 B 607 5 HET ZN B 608 1 HET ZZ7 B 609 24 HETNAM SO4 SULFATE ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM POL N-PROPANOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM ZN ZINC ION HETNAM ZZ7 (2R,4S)-2-[(R)-{[(2R)-2-AMINO-2- HETNAM 2 ZZ7 PHENYLACETYL]AMINO}(CARBOXY)METHYL]-5,5-DIMETHYL-1,3- HETNAM 3 ZZ7 THIAZOLIDINE-4-CARBOXYLIC ACID HETSYN EPE HEPES HETSYN POL 1-PROPONOL HETSYN ZZ7 AMPICILLIN (OPEN FORM) FORMUL 3 SO4 10(O4 S 2-) FORMUL 5 EPE 2(C8 H18 N2 O4 S) FORMUL 6 POL C3 H8 O FORMUL 7 PEG C4 H10 O3 FORMUL 10 ZN 2(ZN 2+) FORMUL 11 ZZ7 2(C16 H21 N3 O5 S) FORMUL 21 HOH *318(H2 O) HELIX 1 AA1 PRO A 83 VAL A 86 5 4 HELIX 2 AA2 ASP A 88 ASP A 101 1 14 HELIX 3 AA3 ASP A 103 SER A 112 1 10 HELIX 4 AA4 ASP A 126 ALA A 136 1 11 HELIX 5 AA5 ALA A 157 GLY A 162 1 6 HELIX 6 AA6 GLY A 173 TYR A 178 1 6 HELIX 7 AA7 TYR A 178 LYS A 183 1 6 HELIX 8 AA8 ASP A 221 ASN A 239 1 19 HELIX 9 AA9 ASP A 266 SER A 270 5 5 HELIX 10 AB1 TYR A 275 GLU A 283 1 9 HELIX 11 AB2 LYS A 284 TYR A 285 5 2 HELIX 12 AB3 ASN A 286 LYS A 288 5 3 HELIX 13 AB4 ASP A 289 ARG A 299 1 11 HELIX 14 AB5 ASN A 300 ASP A 305 1 6 HELIX 15 AB6 PRO A 309 THR A 312 5 4 HELIX 16 AB7 PHE A 313 GLY A 325 1 13 HELIX 17 AB8 GLU A 359 ASN A 366 1 8 HELIX 18 AB9 CYS A 368 PHE A 391 1 24 HELIX 19 AC1 ASN A 411 VAL A 415 5 5 HELIX 20 AC2 GLY A 416 SER A 424 1 9 HELIX 21 AC3 THR A 432 ALA A 444 1 13 HELIX 22 AC4 SER A 479 GLU A 496 1 18 HELIX 23 AC5 GLY A 499 TYR A 503 5 5 HELIX 24 AC6 PHE A 559 ALA A 564 1 6 HELIX 25 AC7 ALA A 564 LEU A 579 1 16 HELIX 26 AC8 PRO B 83 VAL B 86 5 4 HELIX 27 AC9 ASP B 88 LEU B 100 1 13 HELIX 28 AD1 LYS B 105 SER B 112 1 8 HELIX 29 AD2 ASP B 126 LYS B 137 1 12 HELIX 30 AD3 ALA B 157 GLY B 162 1 6 HELIX 31 AD4 GLY B 173 TYR B 178 1 6 HELIX 32 AD5 TYR B 178 LYS B 183 1 6 HELIX 33 AD6 ASP B 221 ASN B 239 1 19 HELIX 34 AD7 ASP B 266 SER B 270 5 5 HELIX 35 AD8 TYR B 275 GLU B 283 1 9 HELIX 36 AD9 ASN B 286 ASP B 289 5 4 HELIX 37 AE1 LYS B 290 TRP B 298 1 9 HELIX 38 AE2 ASN B 300 ASP B 305 1 6 HELIX 39 AE3 PRO B 309 THR B 312 5 4 HELIX 40 AE4 PHE B 313 GLY B 325 1 13 HELIX 41 AE5 GLU B 359 ASN B 366 1 8 HELIX 42 AE6 CYS B 368 PHE B 391 1 24 HELIX 43 AE7 VAL B 415 SER B 424 1 10 HELIX 44 AE8 THR B 432 ALA B 444 1 13 HELIX 45 AE9 SER B 479 GLY B 497 1 19 HELIX 46 AF1 GLY B 499 TYR B 503 5 5 HELIX 47 AF2 PHE B 559 ALA B 564 1 6 HELIX 48 AF3 ALA B 564 LEU B 579 1 16 SHEET 1 AA1 3 VAL A 119 ILE A 125 0 SHEET 2 AA1 3 GLU A 69 CYS A 81 -1 N TYR A 77 O ILE A 125 SHEET 3 AA1 3 ILE A 141 TYR A 150 -1 O TRP A 142 N TRP A 80 SHEET 1 AA2 6 VAL A 119 ILE A 125 0 SHEET 2 AA2 6 GLU A 69 CYS A 81 -1 N TYR A 77 O ILE A 125 SHEET 3 AA2 6 ILE A 62 TYR A 63 -1 N ILE A 62 O LEU A 70 SHEET 4 AA2 6 LEU A 216 LEU A 218 1 O LEU A 218 N TYR A 63 SHEET 5 AA2 6 VAL A 455 THR A 459 -1 O SER A 457 N VAL A 217 SHEET 6 AA2 6 ILE A 465 THR A 468 -1 O THR A 466 N TYR A 458 SHEET 1 AA3 2 HIS A 163 THR A 164 0 SHEET 2 AA3 2 GLY A 170 SER A 172 -1 O ILE A 171 N HIS A 163 SHEET 1 AA4 5 ILE A 256 LYS A 262 0 SHEET 2 AA4 5 LYS A 243 MET A 249 -1 N ALA A 248 O ALA A 258 SHEET 3 AA4 5 ILE A 544 ASP A 551 -1 O ILE A 549 N THR A 245 SHEET 4 AA4 5 LYS A 523 ALA A 537 -1 N CYS A 531 O VAL A 550 SHEET 5 AA4 5 GLY A 510 ILE A 520 -1 N GLY A 510 O ILE A 536 SHEET 1 AA5 2 PHE A 333 CYS A 335 0 SHEET 2 AA5 2 GLY A 356 GLN A 358 -1 O GLN A 358 N PHE A 333 SHEET 1 AA6 2 SER A 338 VAL A 341 0 SHEET 2 AA6 2 ARG A 344 LYS A 347 -1 O ILE A 346 N VAL A 339 SHEET 1 AA7 2 ILE A 408 LEU A 409 0 SHEET 2 AA7 2 ILE A 429 SER A 430 -1 O SER A 430 N ILE A 408 SHEET 1 AA8 2 ASP A 448 MET A 450 0 SHEET 2 AA8 2 LYS A 473 SER A 476 -1 O VAL A 474 N LEU A 449 SHEET 1 AA9 3 VAL B 119 ILE B 125 0 SHEET 2 AA9 3 GLU B 69 CYS B 81 -1 N TYR B 77 O ILE B 125 SHEET 3 AA9 3 ILE B 141 TYR B 150 -1 O GLN B 148 N VAL B 74 SHEET 1 AB1 6 VAL B 119 ILE B 125 0 SHEET 2 AB1 6 GLU B 69 CYS B 81 -1 N TYR B 77 O ILE B 125 SHEET 3 AB1 6 ILE B 62 TYR B 63 -1 N ILE B 62 O LEU B 70 SHEET 4 AB1 6 GLY B 215 LEU B 218 1 O LEU B 218 N TYR B 63 SHEET 5 AB1 6 VAL B 455 THR B 459 -1 O THR B 459 N GLY B 215 SHEET 6 AB1 6 ILE B 465 THR B 468 -1 O GLU B 467 N TYR B 458 SHEET 1 AB2 2 HIS B 163 THR B 164 0 SHEET 2 AB2 2 GLY B 170 SER B 172 -1 O ILE B 171 N HIS B 163 SHEET 1 AB3 5 ILE B 256 LYS B 262 0 SHEET 2 AB3 5 LYS B 243 MET B 249 -1 N VAL B 244 O LYS B 262 SHEET 3 AB3 5 ILE B 544 ASP B 551 -1 O VAL B 545 N MET B 249 SHEET 4 AB3 5 LYS B 523 ALA B 537 -1 N CYS B 531 O VAL B 550 SHEET 5 AB3 5 GLY B 510 ILE B 520 -1 N GLY B 510 O ILE B 536 SHEET 1 AB4 2 PHE B 333 CYS B 335 0 SHEET 2 AB4 2 GLY B 356 GLN B 358 -1 O GLY B 356 N CYS B 335 SHEET 1 AB5 2 ASP B 448 MET B 450 0 SHEET 2 AB5 2 LYS B 473 SER B 476 -1 O VAL B 474 N LEU B 449 LINK OG SER A 311 C15 ZZ7 A 809 1555 1555 1.30 LINK OG SER B 311 C15 ZZ7 B 609 1555 1555 1.33 LINK SG CYS A 335 ZN ZN A 808 1555 1555 2.36 LINK SG CYS A 348 ZN ZN A 808 1555 1555 2.15 LINK ND1 HIS A 355 ZN ZN A 808 1555 1555 2.09 LINK SG CYS A 368 ZN ZN A 808 1555 1555 2.32 LINK SG CYS B 335 ZN ZN B 608 1555 1555 2.43 LINK SG CYS B 348 ZN ZN B 608 1555 1555 2.48 LINK ND1 HIS B 355 ZN ZN B 608 1555 1555 1.86 LINK SG CYS B 368 ZN ZN B 608 1555 1555 2.32 CISPEP 1 LYS A 262 PRO A 263 0 0.08 CISPEP 2 ALA A 537 PRO A 538 0 -17.95 CISPEP 3 LYS B 262 PRO B 263 0 4.03 CISPEP 4 ALA B 537 PRO B 538 0 -21.68 CRYST1 76.640 95.620 176.770 90.00 90.00 90.00 P 21 21 21 8 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 0.013048 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010458 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005657 0.00000