HEADER HYDROLASE, TOXIN/PROTEIN TRANSPORT 11-DEC-08 3FIE TITLE CRYSTAL STRUCTURE OF CLOSTRIDIUM BOTULINUM NEUROTOXIN SEROTYPE F TITLE 2 CATALYTIC DOMAIN WITH AN INHIBITOR (INH1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BOTULINUM NEUROTOXIN TYPE F; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-419, CATALYTIC DOMAIN; COMPND 5 SYNONYM: BONT/F (NEUROTOXIN TYPE F); COMPND 6 EC: 3.4.24.69; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: FRAGMENT OF VESICLE-ASSOCIATED MEMBRANE PROTEIN 2; COMPND 10 CHAIN: C, D; COMPND 11 FRAGMENT: RESIDUES 22-58; COMPND 12 SYNONYM: VAMP-2, SYNAPTOBREVIN-2; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM BOTULINUM; SOURCE 3 ORGANISM_TAXID: 1491; SOURCE 4 GENE: BONT/F; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RIPL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: SEQUENCE OCCURS IN HOMO SAPIENS KEYWDS CLOSTRIDIUM BOTULINUM, BONT F, VAMP, INHIBITOR, COMPLEX STRUCTURE, KEYWDS 2 ACETYLATION, CELL JUNCTION, HYDROLASE, TOXIN-PROTEIN TRANSPORT KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.AGARWAL,S.SWAMINATHAN REVDAT 3 06-SEP-23 3FIE 1 REMARK SEQADV LINK REVDAT 2 28-JUL-09 3FIE 1 JRNL REVDAT 1 23-JUN-09 3FIE 0 JRNL AUTH R.AGARWAL,J.J.SCHMIDT,R.G.STAFFORD,S.SWAMINATHAN JRNL TITL MODE OF VAMP SUBSTRATE RECOGNITION AND INHIBITION OF JRNL TITL 2 CLOSTRIDIUM BOTULINUM NEUROTOXIN F. JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 789 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19543288 JRNL DOI 10.1038/NSMB.1626 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 123485.810 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.2 REMARK 3 NUMBER OF REFLECTIONS : 47160 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 SET) : 0.228 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1420 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7226 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 227 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.023 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 349 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.30000 REMARK 3 B22 (A**2) : 3.31000 REMARK 3 B33 (A**2) : -1.00000 REMARK 3 B12 (A**2) : 3.16000 REMARK 3 B13 (A**2) : -0.55000 REMARK 3 B23 (A**2) : 1.51000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.21 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.850 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 42.67 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : DCYS.PARAM-ORG REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DCYS.TOP-ORG REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3FIE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000050628. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : SI(III) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48376 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 40.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.19000 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: MOLREP REMARK 200 STARTING MODEL: 2A8A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS, 25% PEG 3350, PH 5.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K 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, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 REMARK 350 BIOMOLECULE: 2 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: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 1 REMARK 465 ILE A 206 REMARK 465 SER A 207 REMARK 465 GLY A 208 REMARK 465 GLY A 209 REMARK 465 TYR A 210 REMARK 465 ASN A 211 REMARK 465 SER A 212 REMARK 465 SER A 213 REMARK 465 PRO A 417 REMARK 465 ASP A 418 REMARK 465 LYS A 419 REMARK 465 LEU A 420 REMARK 465 GLU A 421 REMARK 465 HIS A 422 REMARK 465 HIS A 423 REMARK 465 HIS A 424 REMARK 465 HIS A 425 REMARK 465 HIS A 426 REMARK 465 HIS A 427 REMARK 465 MET B 1 REMARK 465 ILE B 206 REMARK 465 SER B 207 REMARK 465 GLY B 208 REMARK 465 GLY B 209 REMARK 465 TYR B 210 REMARK 465 ASN B 211 REMARK 465 SER B 212 REMARK 465 SER B 213 REMARK 465 THR B 214 REMARK 465 ILE B 413 REMARK 465 ASP B 414 REMARK 465 SER B 415 REMARK 465 ILE B 416 REMARK 465 PRO B 417 REMARK 465 ASP B 418 REMARK 465 LYS B 419 REMARK 465 LEU B 420 REMARK 465 GLU B 421 REMARK 465 HIS B 422 REMARK 465 HIS B 423 REMARK 465 HIS B 424 REMARK 465 HIS B 425 REMARK 465 HIS B 426 REMARK 465 HIS B 427 REMARK 465 PRO C 22 REMARK 465 PRO C 23 REMARK 465 PRO C 24 REMARK 465 PRO D 22 REMARK 465 PRO D 23 REMARK 465 PRO D 24 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 SER A 64 OG REMARK 470 LEU A 65 CG CD1 CD2 REMARK 470 SER B 64 OG REMARK 470 LEU B 65 CG CD1 CD2 REMARK 470 ARG C 30 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 30 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 47 CG CD NE CZ NH1 NH2 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 ASN B 9 N - CA - C ANGL. DEV. = -17.3 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 ASP A 16 -3.75 62.07 REMARK 500 TYR A 26 -6.25 84.52 REMARK 500 ALA A 63 27.11 -73.54 REMARK 500 SER A 69 -78.03 -84.29 REMARK 500 HIS A 129 76.88 -113.39 REMARK 500 THR A 143 38.13 -95.86 REMARK 500 ASN A 144 40.25 36.80 REMARK 500 ASP A 175 -75.37 -29.03 REMARK 500 SER A 176 57.53 -99.62 REMARK 500 LEU A 255 -36.84 112.33 REMARK 500 LYS A 260 127.46 -175.12 REMARK 500 ASN A 305 17.65 -153.92 REMARK 500 ASN A 379 97.89 -48.42 REMARK 500 LEU A 397 -7.00 -57.39 REMARK 500 ASP B 16 11.35 59.27 REMARK 500 ASP B 17 -55.28 -121.29 REMARK 500 TYR B 26 -6.78 84.25 REMARK 500 SER B 64 20.29 -169.69 REMARK 500 LEU B 65 130.27 178.10 REMARK 500 SER B 69 -94.02 -57.33 REMARK 500 ASP B 74 92.00 -165.38 REMARK 500 HIS B 129 74.88 -116.74 REMARK 500 ALA B 253 -61.20 -21.37 REMARK 500 PRO B 254 -85.12 -63.55 REMARK 500 ASN B 305 13.58 -145.79 REMARK 500 ASN B 379 97.85 -64.95 REMARK 500 LEU B 397 2.59 -67.91 REMARK 500 ASN B 400 18.00 59.68 REMARK 500 ASN C 29 -157.31 -129.46 REMARK 500 ARG C 31 -163.01 39.56 REMARK 500 LEU C 32 94.27 -41.73 REMARK 500 LEU D 26 122.36 172.63 REMARK 500 ASN D 29 -162.95 -129.24 REMARK 500 LEU D 32 103.97 55.15 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 428 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 227 NE2 REMARK 620 2 HIS A 231 NE2 99.0 REMARK 620 3 GLU A 266 OE1 126.2 117.9 REMARK 620 4 DCY C 58 SG 92.6 117.2 102.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 822 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 227 NE2 REMARK 620 2 HIS B 231 NE2 98.7 REMARK 620 3 GLU B 266 OE1 115.5 107.6 REMARK 620 4 DCY D 58 SG 91.7 138.7 103.5 REMARK 620 N 1 2 3 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 428 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 822 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A8A RELATED DB: PDB REMARK 900 FULL LENGTH BONT F CATALYTIC DOMAIN REMARK 900 RELATED ID: 2A97 RELATED DB: PDB REMARK 900 FULL LENGTH BONT F CATALYTIC DOMAIN REMARK 900 RELATED ID: 3FII RELATED DB: PDB REMARK 900 CO-CRYSTAL STRUCTURE WITH INH2 DBREF 3FIE A 1 419 UNP Q57236 Q57236_CLOBO 1 419 DBREF 3FIE B 1 419 UNP Q57236 Q57236_CLOBO 1 419 DBREF 3FIE C 22 58 UNP P63027 VAMP2_HUMAN 22 58 DBREF 3FIE D 22 58 UNP P63027 VAMP2_HUMAN 22 58 SEQADV 3FIE LEU A 420 UNP Q57236 EXPRESSION TAG SEQADV 3FIE GLU A 421 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 422 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 423 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 424 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 425 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 426 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS A 427 UNP Q57236 EXPRESSION TAG SEQADV 3FIE LEU B 420 UNP Q57236 EXPRESSION TAG SEQADV 3FIE GLU B 421 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 422 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 423 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 424 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 425 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 426 UNP Q57236 EXPRESSION TAG SEQADV 3FIE HIS B 427 UNP Q57236 EXPRESSION TAG SEQRES 1 A 427 MET PRO VAL VAL ILE ASN SER PHE ASN TYR ASN ASP PRO SEQRES 2 A 427 VAL ASN ASP ASP THR ILE LEU TYR MET GLN ILE PRO TYR SEQRES 3 A 427 GLU GLU LYS SER LYS LYS TYR TYR LYS ALA PHE GLU ILE SEQRES 4 A 427 MET ARG ASN VAL TRP ILE ILE PRO GLU ARG ASN THR ILE SEQRES 5 A 427 GLY THR ASP PRO SER ASP PHE ASP PRO PRO ALA SER LEU SEQRES 6 A 427 GLU ASN GLY SER SER ALA TYR TYR ASP PRO ASN TYR LEU SEQRES 7 A 427 THR THR ASP ALA GLU LYS ASP ARG TYR LEU LYS THR THR SEQRES 8 A 427 ILE LYS LEU PHE LYS ARG ILE ASN SER ASN PRO ALA GLY SEQRES 9 A 427 GLU VAL LEU LEU GLN GLU ILE SER TYR ALA LYS PRO TYR SEQRES 10 A 427 LEU GLY ASN GLU HIS THR PRO ILE ASN GLU PHE HIS PRO SEQRES 11 A 427 VAL THR ARG THR THR SER VAL ASN ILE LYS SER SER THR SEQRES 12 A 427 ASN VAL LYS SER SER ILE ILE LEU ASN LEU LEU VAL LEU SEQRES 13 A 427 GLY ALA GLY PRO ASP ILE PHE GLU ASN SER SER TYR PRO SEQRES 14 A 427 VAL ARG LYS LEU MET ASP SER GLY GLY VAL TYR ASP PRO SEQRES 15 A 427 SER ASN ASP GLY PHE GLY SER ILE ASN ILE VAL THR PHE SEQRES 16 A 427 SER PRO GLU TYR GLU TYR THR PHE ASN ASP ILE SER GLY SEQRES 17 A 427 GLY TYR ASN SER SER THR GLU SER PHE ILE ALA ASP PRO SEQRES 18 A 427 ALA ILE SER LEU ALA HIS GLU LEU ILE HIS ALA LEU HIS SEQRES 19 A 427 GLY LEU TYR GLY ALA ARG GLY VAL THR TYR LYS GLU THR SEQRES 20 A 427 ILE LYS VAL LYS GLN ALA PRO LEU MET ILE ALA GLU LYS SEQRES 21 A 427 PRO ILE ARG LEU GLU GLU PHE LEU THR PHE GLY GLY GLN SEQRES 22 A 427 ASP LEU ASN ILE ILE THR SER ALA MET LYS GLU LYS ILE SEQRES 23 A 427 TYR ASN ASN LEU LEU ALA ASN TYR GLU LYS ILE ALA THR SEQRES 24 A 427 ARG LEU SER ARG VAL ASN SER ALA PRO PRO GLU TYR ASP SEQRES 25 A 427 ILE ASN GLU TYR LYS ASP TYR PHE GLN TRP LYS TYR GLY SEQRES 26 A 427 LEU ASP LYS ASN ALA ASP GLY SER TYR THR VAL ASN GLU SEQRES 27 A 427 ASN LYS PHE ASN GLU ILE TYR LYS LYS LEU TYR SER PHE SEQRES 28 A 427 THR GLU ILE ASP LEU ALA ASN LYS PHE LYS VAL LYS CYS SEQRES 29 A 427 ARG ASN THR TYR PHE ILE LYS TYR GLY PHE LEU LYS VAL SEQRES 30 A 427 PRO ASN LEU LEU ASP ASP ASP ILE TYR THR VAL SER GLU SEQRES 31 A 427 GLY PHE ASN ILE GLY ASN LEU ALA VAL ASN ASN ARG GLY SEQRES 32 A 427 GLN ASN ILE LYS LEU ASN PRO LYS ILE ILE ASP SER ILE SEQRES 33 A 427 PRO ASP LYS LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 427 MET PRO VAL VAL ILE ASN SER PHE ASN TYR ASN ASP PRO SEQRES 2 B 427 VAL ASN ASP ASP THR ILE LEU TYR MET GLN ILE PRO TYR SEQRES 3 B 427 GLU GLU LYS SER LYS LYS TYR TYR LYS ALA PHE GLU ILE SEQRES 4 B 427 MET ARG ASN VAL TRP ILE ILE PRO GLU ARG ASN THR ILE SEQRES 5 B 427 GLY THR ASP PRO SER ASP PHE ASP PRO PRO ALA SER LEU SEQRES 6 B 427 GLU ASN GLY SER SER ALA TYR TYR ASP PRO ASN TYR LEU SEQRES 7 B 427 THR THR ASP ALA GLU LYS ASP ARG TYR LEU LYS THR THR SEQRES 8 B 427 ILE LYS LEU PHE LYS ARG ILE ASN SER ASN PRO ALA GLY SEQRES 9 B 427 GLU VAL LEU LEU GLN GLU ILE SER TYR ALA LYS PRO TYR SEQRES 10 B 427 LEU GLY ASN GLU HIS THR PRO ILE ASN GLU PHE HIS PRO SEQRES 11 B 427 VAL THR ARG THR THR SER VAL ASN ILE LYS SER SER THR SEQRES 12 B 427 ASN VAL LYS SER SER ILE ILE LEU ASN LEU LEU VAL LEU SEQRES 13 B 427 GLY ALA GLY PRO ASP ILE PHE GLU ASN SER SER TYR PRO SEQRES 14 B 427 VAL ARG LYS LEU MET ASP SER GLY GLY VAL TYR ASP PRO SEQRES 15 B 427 SER ASN ASP GLY PHE GLY SER ILE ASN ILE VAL THR PHE SEQRES 16 B 427 SER PRO GLU TYR GLU TYR THR PHE ASN ASP ILE SER GLY SEQRES 17 B 427 GLY TYR ASN SER SER THR GLU SER PHE ILE ALA ASP PRO SEQRES 18 B 427 ALA ILE SER LEU ALA HIS GLU LEU ILE HIS ALA LEU HIS SEQRES 19 B 427 GLY LEU TYR GLY ALA ARG GLY VAL THR TYR LYS GLU THR SEQRES 20 B 427 ILE LYS VAL LYS GLN ALA PRO LEU MET ILE ALA GLU LYS SEQRES 21 B 427 PRO ILE ARG LEU GLU GLU PHE LEU THR PHE GLY GLY GLN SEQRES 22 B 427 ASP LEU ASN ILE ILE THR SER ALA MET LYS GLU LYS ILE SEQRES 23 B 427 TYR ASN ASN LEU LEU ALA ASN TYR GLU LYS ILE ALA THR SEQRES 24 B 427 ARG LEU SER ARG VAL ASN SER ALA PRO PRO GLU TYR ASP SEQRES 25 B 427 ILE ASN GLU TYR LYS ASP TYR PHE GLN TRP LYS TYR GLY SEQRES 26 B 427 LEU ASP LYS ASN ALA ASP GLY SER TYR THR VAL ASN GLU SEQRES 27 B 427 ASN LYS PHE ASN GLU ILE TYR LYS LYS LEU TYR SER PHE SEQRES 28 B 427 THR GLU ILE ASP LEU ALA ASN LYS PHE LYS VAL LYS CYS SEQRES 29 B 427 ARG ASN THR TYR PHE ILE LYS TYR GLY PHE LEU LYS VAL SEQRES 30 B 427 PRO ASN LEU LEU ASP ASP ASP ILE TYR THR VAL SER GLU SEQRES 31 B 427 GLY PHE ASN ILE GLY ASN LEU ALA VAL ASN ASN ARG GLY SEQRES 32 B 427 GLN ASN ILE LYS LEU ASN PRO LYS ILE ILE ASP SER ILE SEQRES 33 B 427 PRO ASP LYS LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 38 PRO PRO PRO ASN LEU THR SER ASN ARG ARG LEU GLN GLN SEQRES 2 C 38 THR GLN ALA GLN VAL ASP GLU VAL VAL ASP ILE MET ARG SEQRES 3 C 38 VAL ASN VAL ASP LYS VAL LEU GLU ARG ASP DCY NH2 SEQRES 1 D 38 PRO PRO PRO ASN LEU THR SER ASN ARG ARG LEU GLN GLN SEQRES 2 D 38 THR GLN ALA GLN VAL ASP GLU VAL VAL ASP ILE MET ARG SEQRES 3 D 38 VAL ASN VAL ASP LYS VAL LEU GLU ARG ASP DCY NH2 HET DCY C 58 6 HET NH2 C 59 1 HET DCY D 58 6 HET NH2 D 59 1 HET ZN A 428 1 HET ZN B 822 1 HETNAM DCY D-CYSTEINE HETNAM NH2 AMINO GROUP HETNAM ZN ZINC ION FORMUL 3 DCY 2(C3 H7 N O2 S) FORMUL 3 NH2 2(H2 N) FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *349(H2 O) HELIX 1 1 ASP A 55 ASP A 60 5 6 HELIX 2 2 THR A 80 SER A 100 1 21 HELIX 3 3 ASN A 101 ALA A 114 1 14 HELIX 4 4 ASP A 181 ASP A 185 5 5 HELIX 5 5 ASP A 220 TYR A 237 1 18 HELIX 6 6 ARG A 240 GLU A 246 1 7 HELIX 7 7 LEU A 264 GLY A 271 1 8 HELIX 8 8 GLY A 272 ILE A 278 5 7 HELIX 9 9 THR A 279 ARG A 303 1 25 HELIX 10 10 ASP A 312 TYR A 324 1 13 HELIX 11 11 ASN A 337 SER A 350 1 14 HELIX 12 12 THR A 352 PHE A 360 1 9 HELIX 13 13 ILE A 394 ASN A 405 5 12 HELIX 14 14 ASN A 409 ILE A 416 1 8 HELIX 15 15 ASP B 55 ASP B 60 5 6 HELIX 16 16 THR B 80 SER B 100 1 21 HELIX 17 17 ASN B 101 ALA B 114 1 14 HELIX 18 18 ASP B 181 ASP B 185 5 5 HELIX 19 19 ASP B 220 TYR B 237 1 18 HELIX 20 20 LEU B 264 GLY B 271 1 8 HELIX 21 21 GLY B 272 ILE B 278 5 7 HELIX 22 22 THR B 279 VAL B 304 1 26 HELIX 23 23 ASP B 312 TYR B 324 1 13 HELIX 24 24 ASN B 337 SER B 350 1 14 HELIX 25 25 THR B 352 PHE B 360 1 9 HELIX 26 26 ILE B 394 ARG B 402 5 9 HELIX 27 27 ASN C 49 LEU C 54 1 6 HELIX 28 28 ASN D 49 LEU D 54 1 6 SHEET 1 A 9 SER A 166 PRO A 169 0 SHEET 2 A 9 ASN A 191 THR A 194 -1 O ILE A 192 N TYR A 168 SHEET 3 A 9 LEU A 153 GLY A 157 1 N LEU A 156 O VAL A 193 SHEET 4 A 9 VAL A 43 ARG A 49 1 N TRP A 44 O LEU A 153 SHEET 5 A 9 TYR A 34 MET A 40 -1 N MET A 40 O VAL A 43 SHEET 6 A 9 ILE A 19 MET A 22 -1 N LEU A 20 O ALA A 36 SHEET 7 A 9 SER A 136 LYS A 140 -1 O LYS A 140 N TYR A 21 SHEET 8 A 9 LYS A 146 ILE A 150 -1 O SER A 147 N ILE A 139 SHEET 9 A 9 GLN C 34 THR C 35 -1 O THR C 35 N SER A 148 SHEET 1 B 2 LYS A 172 LEU A 173 0 SHEET 2 B 2 VAL A 179 TYR A 180 -1 O TYR A 180 N LYS A 172 SHEET 1 C 3 SER A 216 ILE A 218 0 SHEET 2 C 3 TYR A 199 ASN A 204 -1 N PHE A 203 O PHE A 217 SHEET 3 C 3 PHE A 374 LYS A 376 -1 O LEU A 375 N GLU A 200 SHEET 1 D 2 THR A 247 LYS A 251 0 SHEET 2 D 2 GLU A 259 ARG A 263 -1 O ILE A 262 N ILE A 248 SHEET 1 E 2 LEU A 326 LYS A 328 0 SHEET 2 E 2 TYR A 334 VAL A 336 -1 O THR A 335 N ASP A 327 SHEET 1 F 9 SER B 166 PRO B 169 0 SHEET 2 F 9 ASN B 191 THR B 194 -1 O ILE B 192 N TYR B 168 SHEET 3 F 9 LEU B 153 GLY B 157 1 N LEU B 156 O VAL B 193 SHEET 4 F 9 VAL B 43 ARG B 49 1 N ILE B 46 O VAL B 155 SHEET 5 F 9 TYR B 34 MET B 40 -1 N MET B 40 O VAL B 43 SHEET 6 F 9 ILE B 19 MET B 22 -1 N LEU B 20 O ALA B 36 SHEET 7 F 9 SER B 136 LYS B 140 -1 O LYS B 140 N TYR B 21 SHEET 8 F 9 LYS B 146 ILE B 150 -1 O SER B 147 N ILE B 139 SHEET 9 F 9 GLN D 34 THR D 35 -1 O THR D 35 N SER B 148 SHEET 1 G 2 LYS B 172 LEU B 173 0 SHEET 2 G 2 VAL B 179 TYR B 180 -1 O TYR B 180 N LYS B 172 SHEET 1 H 3 PHE B 217 ILE B 218 0 SHEET 2 H 3 TYR B 199 PHE B 203 -1 N PHE B 203 O PHE B 217 SHEET 3 H 3 GLY B 373 LYS B 376 -1 O GLY B 373 N THR B 202 SHEET 1 I 2 THR B 247 LYS B 251 0 SHEET 2 I 2 GLU B 259 ARG B 263 -1 O ILE B 262 N ILE B 248 SHEET 1 J 2 LEU B 326 LYS B 328 0 SHEET 2 J 2 TYR B 334 VAL B 336 -1 O THR B 335 N ASP B 327 LINK C ASP C 57 N DCY C 58 1555 1555 1.35 LINK C DCY C 58 N NH2 C 59 1555 1555 1.34 LINK C ASP D 57 N DCY D 58 1555 1555 1.35 LINK C DCY D 58 N NH2 D 59 1555 1555 1.34 LINK NE2 HIS A 227 ZN ZN A 428 1555 1555 2.21 LINK NE2 HIS A 231 ZN ZN A 428 1555 1555 2.07 LINK OE1 GLU A 266 ZN ZN A 428 1555 1555 2.09 LINK ZN ZN A 428 SG DCY C 58 1555 1555 2.52 LINK NE2 HIS B 227 ZN ZN B 822 1555 1555 2.18 LINK NE2 HIS B 231 ZN ZN B 822 1555 1555 2.07 LINK OE1 GLU B 266 ZN ZN B 822 1555 1555 2.06 LINK ZN ZN B 822 SG DCY D 58 1555 1555 2.49 SITE 1 AC1 4 HIS A 227 HIS A 231 GLU A 266 DCY C 58 SITE 1 AC2 4 HIS B 227 HIS B 231 GLU B 266 DCY D 58 CRYST1 55.637 61.389 70.027 94.24 89.92 113.27 P 1 2 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 0.017974 0.007730 0.000594 0.00000 SCALE2 0.000000 0.017732 0.001421 0.00000 SCALE3 0.000000 0.000000 0.014326 0.00000