HEADER HYDROLASE 10-APR-12 4ELC TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF BOTULINUM NEUROTOXIN TITLE 2 BONT/A C134 MUTANT WITH MTSEA MODIFIED CYS-165 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BOTULINUM NEUROTOXIN A LIGHT CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-425; COMPND 5 SYNONYM: BONT/A, BONTOXILYSIN-A, BOTOX; COMPND 6 EC: 3.4.24.69; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM BOTULINUM; SOURCE 3 ORGANISM_TAXID: 1491; SOURCE 4 STRAIN: HALL ATCC 3502; SOURCE 5 GENE: ATX, BNA, BONT/A, BOTA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A+ KEYWDS METALLOPROTEASE, PEPTIDASE M27 SUPERFAMILY, CLOSTRIDIAL NEUROTOXIN KEYWDS 2 ZINC PROTEASE, HUMAN TARGET SNAP-25, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.A.STURA,L.VERA,D.PTCHELKINE,H.BAKIRCI,S.GARCIA,V.DIVE REVDAT 5 20-SEP-23 4ELC 1 REMARK REVDAT 4 21-DEC-22 4ELC 1 REMARK SEQADV LINK REVDAT 3 17-OCT-12 4ELC 1 JRNL REVDAT 2 29-AUG-12 4ELC 1 JRNL REVDAT 1 15-AUG-12 4ELC 0 JRNL AUTH E.A.STURA,L.LE ROUX,K.GUITOT,S.GARCIA,S.BREGANT,F.BEAU, JRNL AUTH 2 L.VERA,G.COLLET,D.PTCHELKINE,H.BAKIRCI,V.DIVE JRNL TITL STRUCTURAL FRAMEWORK FOR COVALENT INHIBITION OF CLOSTRIDIUM JRNL TITL 2 BOTULINUM NEUROTOXIN A BY TARGETING CYS165. JRNL REF J.BIOL.CHEM. V. 287 33607 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22869371 JRNL DOI 10.1074/JBC.M112.396697 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 39289 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2091 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2840 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.2290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3505 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 492 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.52 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.61000 REMARK 3 B22 (A**2) : -0.61000 REMARK 3 B33 (A**2) : 1.23000 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): 0.133 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.133 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.727 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3745 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5088 ; 2.007 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 462 ; 6.012 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 185 ;38.054 ;24.811 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 634 ;15.340 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;17.519 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 549 ; 0.151 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2885 ; 0.011 ; 0.021 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): 2219 ; 1.443 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3624 ; 2.413 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1526 ; 3.581 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1454 ; 5.442 ; 4.500 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 : 1.40 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 4ELC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-12. REMARK 100 THE DEPOSITION ID IS D_1000071762. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-09 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 : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93950 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41382 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 41.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.680 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 17.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.97 REMARK 200 R MERGE FOR SHELL (I) : 0.57500 REMARK 200 R SYM FOR SHELL (I) : 0.52500 REMARK 200 FOR SHELL : 5.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4EL4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 100.45500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 32.64500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 32.64500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 150.68250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 32.64500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 32.64500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 50.22750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 32.64500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 32.64500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 150.68250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 32.64500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 32.64500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 50.22750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 100.45500 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LEU A 108 CA CB CG CD1 CD2 REMARK 480 PRO A 206 N CA C O CB CG CD REMARK 480 SER A 276 OG 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 VAL A 17 -70.21 -118.95 REMARK 500 LYS A 41 -3.01 73.62 REMARK 500 SER A 157 -145.03 -87.58 REMARK 500 PHE A 163 66.90 -102.88 REMARK 500 ASN A 409 48.76 -101.82 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 223 NE2 REMARK 620 2 HIS A 227 NE2 96.5 REMARK 620 3 GLU A 262 OE1 103.2 96.1 REMARK 620 4 GLU A 262 OE2 157.6 84.0 54.7 REMARK 620 5 LMR A 504 O1A 99.6 97.5 151.9 102.5 REMARK 620 6 LMR A 504 O2 91.9 170.6 86.1 89.8 76.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 LI A 514 LI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 388 OD2 REMARK 620 2 HOH A 783 O 118.2 REMARK 620 3 HOH A 829 O 122.8 101.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 LI A 512 LI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 410 O REMARK 620 2 PHE A 413 O 77.3 REMARK 620 3 HOH A 805 O 69.6 71.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LMR A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LI A 514 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EL4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF BOTULINUM NEUROTOXIN REMARK 900 BONT/A C134S/C165S DOUBLE MUTANT REMARK 900 RELATED ID: 4EJ5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF BOTULINUM NEUROTOXIN REMARK 900 BONT/A WILD-TYPE REMARK 900 RELATED ID: 2ISE RELATED DB: PDB REMARK 900 BOTULINUM NEUROTOXIN A LIGHT CHAIN WT CRYSTAL FORM A REMARK 900 RELATED ID: 3BWI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF BOTULINUM NEUROTOXIN REMARK 900 SEROTYPE A WITH AN ACETATE ION BOUND AT THE ACTIVE SITE DBREF 4ELC A 1 425 UNP P10845 BXA1_CLOBO 1 425 SEQADV 4ELC MET A -19 UNP P10845 EXPRESSION TAG SEQADV 4ELC GLY A -18 UNP P10845 EXPRESSION TAG SEQADV 4ELC SER A -17 UNP P10845 EXPRESSION TAG SEQADV 4ELC SER A -16 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -15 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -14 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -13 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -12 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -11 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A -10 UNP P10845 EXPRESSION TAG SEQADV 4ELC SER A -9 UNP P10845 EXPRESSION TAG SEQADV 4ELC SER A -8 UNP P10845 EXPRESSION TAG SEQADV 4ELC GLY A -7 UNP P10845 EXPRESSION TAG SEQADV 4ELC LEU A -6 UNP P10845 EXPRESSION TAG SEQADV 4ELC VAL A -5 UNP P10845 EXPRESSION TAG SEQADV 4ELC PRO A -4 UNP P10845 EXPRESSION TAG SEQADV 4ELC ARG A -3 UNP P10845 EXPRESSION TAG SEQADV 4ELC GLY A -2 UNP P10845 EXPRESSION TAG SEQADV 4ELC SER A -1 UNP P10845 EXPRESSION TAG SEQADV 4ELC HIS A 0 UNP P10845 EXPRESSION TAG SEQADV 4ELC ALA A 27 UNP P10845 VAL 27 VARIANT SEQADV 4ELC SER A 134 UNP P10845 CYS 134 ENGINEERED MUTATION SEQRES 1 A 445 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 445 LEU VAL PRO ARG GLY SER HIS MET PRO PHE VAL ASN LYS SEQRES 3 A 445 GLN PHE ASN TYR LYS ASP PRO VAL ASN GLY VAL ASP ILE SEQRES 4 A 445 ALA TYR ILE LYS ILE PRO ASN ALA GLY GLN MET GLN PRO SEQRES 5 A 445 VAL LYS ALA PHE LYS ILE HIS ASN LYS ILE TRP VAL ILE SEQRES 6 A 445 PRO GLU ARG ASP THR PHE THR ASN PRO GLU GLU GLY ASP SEQRES 7 A 445 LEU ASN PRO PRO PRO GLU ALA LYS GLN VAL PRO VAL SER SEQRES 8 A 445 TYR TYR ASP SER THR TYR LEU SER THR ASP ASN GLU LYS SEQRES 9 A 445 ASP ASN TYR LEU LYS GLY VAL THR LYS LEU PHE GLU ARG SEQRES 10 A 445 ILE TYR SER THR ASP LEU GLY ARG MET LEU LEU THR SER SEQRES 11 A 445 ILE VAL ARG GLY ILE PRO PHE TRP GLY GLY SER THR ILE SEQRES 12 A 445 ASP THR GLU LEU LYS VAL ILE ASP THR ASN SER ILE ASN SEQRES 13 A 445 VAL ILE GLN PRO ASP GLY SER TYR ARG SER GLU GLU LEU SEQRES 14 A 445 ASN LEU VAL ILE ILE GLY PRO SER ALA ASP ILE ILE GLN SEQRES 15 A 445 PHE GLU 0QL LYS SER PHE GLY HIS GLU VAL LEU ASN LEU SEQRES 16 A 445 THR ARG ASN GLY TYR GLY SER THR GLN TYR ILE ARG PHE SEQRES 17 A 445 SER PRO ASP PHE THR PHE GLY PHE GLU GLU SER LEU GLU SEQRES 18 A 445 VAL ASP THR ASN PRO LEU LEU GLY ALA GLY LYS PHE ALA SEQRES 19 A 445 THR ASP PRO ALA VAL THR LEU ALA HIS GLU LEU ILE HIS SEQRES 20 A 445 ALA GLY HIS ARG LEU TYR GLY ILE ALA ILE ASN PRO ASN SEQRES 21 A 445 ARG VAL PHE LYS VAL ASN THR ASN ALA TYR TYR GLU MET SEQRES 22 A 445 SER GLY LEU GLU VAL SER PHE GLU GLU LEU ARG THR PHE SEQRES 23 A 445 GLY GLY HIS ASP ALA LYS PHE ILE ASP SER LEU GLN GLU SEQRES 24 A 445 ASN GLU PHE ARG LEU TYR TYR TYR ASN LYS PHE LYS ASP SEQRES 25 A 445 ILE ALA SER THR LEU ASN LYS ALA LYS SER ILE VAL GLY SEQRES 26 A 445 THR THR ALA SER LEU GLN TYR MET LYS ASN VAL PHE LYS SEQRES 27 A 445 GLU LYS TYR LEU LEU SER GLU ASP THR SER GLY LYS PHE SEQRES 28 A 445 SER VAL ASP LYS LEU LYS PHE ASP LYS LEU TYR LYS MET SEQRES 29 A 445 LEU THR GLU ILE TYR THR GLU ASP ASN PHE VAL LYS PHE SEQRES 30 A 445 PHE LYS VAL LEU ASN ARG LYS THR TYR LEU ASN PHE ASP SEQRES 31 A 445 LYS ALA VAL PHE LYS ILE ASN ILE VAL PRO LYS VAL ASN SEQRES 32 A 445 TYR THR ILE TYR ASP GLY PHE ASN LEU ARG ASN THR ASN SEQRES 33 A 445 LEU ALA ALA ASN PHE ASN GLY GLN ASN THR GLU ILE ASN SEQRES 34 A 445 ASN MET ASN PHE THR LYS LEU LYS ASN PHE THR GLY LEU SEQRES 35 A 445 PHE GLU PHE MODRES 4ELC 0QL A 165 CYS 3-[(2-AMINOETHYL)DISULFANYL]-L-ALANINE HET 0QL A 165 10 HET ZN A 501 1 HET IMD A 502 5 HET IMD A 503 5 HET LMR A 504 9 HET DMS A 505 4 HET SO4 A 506 5 HET SO4 A 507 5 HET MPD A 508 8 HET MPD A 509 8 HET DMS A 510 4 HET DMS A 511 4 HET LI A 512 1 HET LI A 513 1 HET LI A 514 1 HETNAM 0QL 3-[(2-AMINOETHYL)DISULFANYL]-L-ALANINE HETNAM ZN ZINC ION HETNAM IMD IMIDAZOLE HETNAM LMR (2S)-2-HYDROXYBUTANEDIOIC ACID HETNAM DMS DIMETHYL SULFOXIDE HETNAM SO4 SULFATE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM LI LITHIUM ION HETSYN 0QL CYS-MTSEA HETSYN LMR L-MALATE FORMUL 1 0QL C5 H12 N2 O2 S2 FORMUL 2 ZN ZN 2+ FORMUL 3 IMD 2(C3 H5 N2 1+) FORMUL 5 LMR C4 H6 O5 FORMUL 6 DMS 3(C2 H6 O S) FORMUL 7 SO4 2(O4 S 2-) FORMUL 9 MPD 2(C6 H14 O2) FORMUL 13 LI 3(LI 1+) FORMUL 16 HOH *492(H2 O) HELIX 1 1 PRO A 63 GLN A 67 5 5 HELIX 2 2 THR A 80 SER A 100 1 21 HELIX 3 3 THR A 101 GLY A 114 1 14 HELIX 4 4 ILE A 130 THR A 132 5 3 HELIX 5 5 SER A 199 THR A 204 1 6 HELIX 6 6 ASP A 216 TYR A 233 1 18 HELIX 7 7 ASN A 248 SER A 254 1 7 HELIX 8 8 PHE A 260 GLY A 267 1 8 HELIX 9 9 GLY A 268 ILE A 274 5 7 HELIX 10 10 ASP A 275 ALA A 300 1 26 HELIX 11 11 SER A 309 LEU A 322 1 14 HELIX 12 12 ASP A 334 GLU A 347 1 14 HELIX 13 13 THR A 350 LYS A 359 1 10 HELIX 14 14 PHE A 401 ASN A 405 5 5 HELIX 15 15 ASN A 409 PHE A 413 5 5 SHEET 1 A 8 TYR A 144 GLU A 148 0 SHEET 2 A 8 SER A 134 ILE A 138 -1 N ILE A 135 O GLU A 147 SHEET 3 A 8 ILE A 19 LYS A 23 -1 N TYR A 21 O ILE A 138 SHEET 4 A 8 VAL A 33 HIS A 39 -1 O ALA A 35 N ALA A 20 SHEET 5 A 8 ILE A 42 ARG A 48 -1 O VAL A 44 N PHE A 36 SHEET 6 A 8 LEU A 151 GLY A 155 1 O ILE A 153 N ILE A 45 SHEET 7 A 8 GLN A 184 ARG A 187 1 O ILE A 186 N VAL A 152 SHEET 8 A 8 0QL A 165 LYS A 166 -1 N LYS A 166 O TYR A 185 SHEET 1 B 2 GLU A 126 LEU A 127 0 SHEET 2 B 2 SER A 302 ILE A 303 1 O SER A 302 N LEU A 127 SHEET 1 C 4 PHE A 213 ALA A 214 0 SHEET 2 C 4 PHE A 192 PHE A 196 -1 N PHE A 196 O PHE A 213 SHEET 3 C 4 ALA A 372 LYS A 375 -1 O PHE A 374 N THR A 193 SHEET 4 C 4 THR A 414 ASN A 418 -1 O THR A 414 N LYS A 375 SHEET 1 D 2 VAL A 242 LYS A 244 0 SHEET 2 D 2 GLU A 257 SER A 259 -1 O VAL A 258 N PHE A 243 SHEET 1 E 2 SER A 324 GLU A 325 0 SHEET 2 E 2 PHE A 331 SER A 332 -1 O SER A 332 N SER A 324 LINK C GLU A 164 N 0QL A 165 1555 1555 1.33 LINK C 0QL A 165 N LYS A 166 1555 1555 1.34 LINK NE2 HIS A 223 ZN ZN A 501 1555 1555 2.10 LINK NE2 HIS A 227 ZN ZN A 501 1555 1555 2.12 LINK OE1 GLU A 262 ZN ZN A 501 1555 1555 1.96 LINK OE2 GLU A 262 ZN ZN A 501 1555 1555 2.61 LINK OD2 ASP A 388 LI LI A 514 1555 1555 2.45 LINK O ASN A 410 LI LI A 512 1555 1555 2.54 LINK O PHE A 413 LI LI A 512 1555 1555 2.29 LINK ZN ZN A 501 O1A LMR A 504 1555 1555 1.98 LINK ZN ZN A 501 O2 LMR A 504 1555 1555 2.17 LINK LI LI A 512 O HOH A 805 1555 1555 2.28 LINK LI LI A 513 O HOH A 924 1555 1555 2.20 LINK LI LI A 514 O HOH A 783 1555 1555 2.57 LINK LI LI A 514 O HOH A 829 1555 1555 2.48 SITE 1 AC1 4 HIS A 223 HIS A 227 GLU A 262 LMR A 504 SITE 1 AC2 5 PHE A 194 ARG A 363 ASP A 370 LMR A 504 SITE 2 AC2 5 HOH A 752 SITE 1 AC3 5 ARG A 363 TYR A 366 ASN A 368 ASP A 370 SITE 2 AC3 5 LMR A 504 SITE 1 AC4 12 PHE A 163 0QL A 165 HIS A 223 GLU A 224 SITE 2 AC4 12 HIS A 227 GLU A 262 ARG A 363 TYR A 366 SITE 3 AC4 12 ZN A 501 IMD A 502 IMD A 503 HOH A 709 SITE 1 AC5 6 SER A 167 HIS A 170 ASN A 174 LEU A 175 SITE 2 AC5 6 THR A 176 ARG A 177 SITE 1 AC6 6 GLU A 198 SER A 199 LEU A 200 LYS A 340 SITE 2 AC6 6 HOH A 736 HOH A1011 SITE 1 AC7 10 ASN A 40 LYS A 41 THR A 80 ASP A 81 SITE 2 AC7 10 ASN A 82 TYR A 312 HOH A 608 HOH A 648 SITE 3 AC7 10 HOH A 661 HOH A1054 SITE 1 AC8 4 LYS A 272 LYS A 415 ASN A 418 HOH A1084 SITE 1 AC9 6 ALA A 399 ASN A 400 PHE A 401 HOH A 690 SITE 2 AC9 6 HOH A 778 HOH A 827 SITE 1 BC1 5 LYS A 375 MET A 411 ASN A 412 PHE A 413 SITE 2 BC1 5 THR A 414 SITE 1 BC2 5 ASN A 238 PHE A 282 TYR A 285 TYR A 286 SITE 2 BC2 5 HOH A 859 SITE 1 BC3 5 ASN A 410 PHE A 413 HOH A 805 HOH A 872 SITE 2 BC3 5 HOH A 985 SITE 1 BC4 6 ASP A 74 THR A 76 GLU A 83 HOH A 921 SITE 2 BC4 6 HOH A 924 HOH A 940 SITE 1 BC5 4 THR A 385 ASP A 388 HOH A 783 HOH A 829 CRYST1 65.290 65.290 200.910 90.00 90.00 90.00 P 43 21 2 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 0.015316 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015316 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004977 0.00000