HEADER HYDROLASE/HYDROLASE SUBSTRATE 13-MAY-08 3D3X TITLE CRYSTAL STRUCTURE OF BOTULINUM NEUROTOXIN SEROTYPE E CATALYTIC DOMAIN TITLE 2 IN COMPLEX WITH SNAP-25 SUBSTRATE PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE E BOTULINUM TOXIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SNAP-25 SUBSTRATE PEPTIDE; COMPND 8 CHAIN: C, D; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM BUTYRICUM; SOURCE 3 ORGANISM_TAXID: 1492; SOURCE 4 STRAIN: NCTC 11219; SOURCE 5 GENE: BONT/E; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET9C; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS BONT E, SNAP-25, ENZYME-SUBSTRATE COMPLEX, HYDROLASE, HYDROLASE- KEYWDS 2 HYDROLASE SUBSTRATE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.AGARWAL,S.SWAMINATHAN REVDAT 6 30-AUG-23 3D3X 1 REMARK SEQADV LINK REVDAT 5 02-MAY-12 3D3X 1 SOURCE COMPND REVDAT 4 13-JUL-11 3D3X 1 VERSN REVDAT 3 24-FEB-09 3D3X 1 VERSN REVDAT 2 21-OCT-08 3D3X 1 JRNL REVDAT 1 08-JUL-08 3D3X 0 JRNL AUTH R.AGARWAL,S.SWAMINATHAN JRNL TITL SNAP-25 SUBSTRATE PEPTIDE (RESIDUES 180-183) BINDS TO BUT JRNL TITL 2 BYPASSES CLEAVAGE BY CATALYTICALLY ACTIVE CLOSTRIDIUM JRNL TITL 3 BOTULINUM NEUROTOXIN E. JRNL REF J.BIOL.CHEM. V. 283 25944 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18658150 JRNL DOI 10.1074/JBC.M803756200 REMARK 2 REMARK 2 RESOLUTION. 2.25 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 90049.520 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.6 REMARK 3 NUMBER OF REFLECTIONS : 47715 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) : 0.235 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1426 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.39 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5388 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 177 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6586 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 251 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 14.79000 REMARK 3 B22 (A**2) : -14.24000 REMARK 3 B33 (A**2) : -0.55000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.33 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) : 0.42 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.34 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.950 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 : 0.33 REMARK 3 BSOL : 29.28 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 : CAPPING.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CAPPING.TOP 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 3D3X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000047560. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.008 REMARK 200 MONOCHROMATOR : SI-III REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49220 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.5 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.2 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1T3A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM SULFATE, AMMONIUM SULFATE, NA REMARK 280 -CITRATE, PH 5.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 44.70500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 72.36900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.70500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 72.36900 REMARK 290 SMTRY3 4 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 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 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 LYS A 235 REMARK 465 GLN A 236 REMARK 465 ASN A 237 REMARK 465 PRO A 238 REMARK 465 LYS A 412 REMARK 465 ASN A 413 REMARK 465 ILE A 414 REMARK 465 VAL A 415 REMARK 465 SER A 416 REMARK 465 VAL A 417 REMARK 465 LYS A 418 REMARK 465 GLY A 419 REMARK 465 ILE A 420 REMARK 465 ARG 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 SER B 59 REMARK 465 LEU B 60 REMARK 465 PHE B 410 REMARK 465 CYS B 411 REMARK 465 LYS B 412 REMARK 465 ASN B 413 REMARK 465 ILE B 414 REMARK 465 VAL B 415 REMARK 465 SER B 416 REMARK 465 VAL B 417 REMARK 465 LYS B 418 REMARK 465 GLY B 419 REMARK 465 ILE B 420 REMARK 465 ARG 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 GLU C 183 REMARK 465 NH2 C 184 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 ILE A 243 CG1 CG2 CD1 REMARK 470 ILE B 243 CG1 CG2 CD1 REMARK 470 ARG C 180 CG CD NE CZ NH1 NH2 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 ARG A 15 -68.99 -125.05 REMARK 500 LYS A 36 116.14 -38.85 REMARK 500 PRO A 42 62.29 -69.54 REMARK 500 THR A 58 -72.17 47.62 REMARK 500 ASP A 69 89.92 -172.49 REMARK 500 ALA A 109 45.82 -88.57 REMARK 500 ASP A 141 -162.64 -161.12 REMARK 500 ASP A 195 -167.27 -104.95 REMARK 500 ILE A 243 -156.41 73.03 REMARK 500 ARG A 244 -6.46 -28.79 REMARK 500 LEU A 294 2.34 -69.92 REMARK 500 ASN A 361 98.37 -10.07 REMARK 500 ASN A 375 49.79 -78.34 REMARK 500 ILE A 376 96.62 -53.91 REMARK 500 ASN A 377 111.49 -17.67 REMARK 500 ASN A 378 -61.60 141.21 REMARK 500 ARG A 409 87.92 69.61 REMARK 500 PHE A 410 -161.73 -163.30 REMARK 500 ARG B 15 -66.48 -134.58 REMARK 500 LYS B 36 114.00 -26.56 REMARK 500 ASN B 45 94.76 -69.08 REMARK 500 ASP B 64 -77.56 -95.14 REMARK 500 SER B 66 -164.48 -171.33 REMARK 500 TYR B 67 117.57 -171.52 REMARK 500 ASP B 69 88.03 -168.18 REMARK 500 ALA B 109 40.34 -88.77 REMARK 500 ASN B 121 4.06 -68.20 REMARK 500 ASP B 195 -89.73 -74.00 REMARK 500 ASN B 196 -3.38 -164.66 REMARK 500 LYS B 235 21.72 -66.21 REMARK 500 ASN B 237 -49.60 -159.71 REMARK 500 PRO B 238 -77.23 -43.16 REMARK 500 ARG B 244 15.91 84.82 REMARK 500 ASN B 361 99.65 -39.88 REMARK 500 ASN B 375 64.57 -68.85 REMARK 500 ASN B 377 -131.40 49.62 REMARK 500 ASN B 382 19.45 55.69 REMARK 500 ILE B 407 34.12 -75.94 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 211 NE2 REMARK 620 2 HIS A 215 NE2 87.5 REMARK 620 3 GLU A 250 OE2 106.2 93.0 REMARK 620 4 ARG C 180 O 100.2 166.2 95.8 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 211 NE2 REMARK 620 2 HIS B 215 NE2 99.8 REMARK 620 3 GLU B 250 OE1 100.3 98.8 REMARK 620 4 GLU B 250 OE2 156.9 90.1 57.3 REMARK 620 5 ARG D 180 O 90.1 158.8 97.7 87.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 D 184 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 428 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 891 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 892 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 893 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 894 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 896 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 897 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 822 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 890 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 895 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF SNAP-25 SUBSTRATE REMARK 800 PEPTIDE REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF SNAP-25 SUBSTRATE REMARK 800 PEPTIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T3A RELATED DB: PDB REMARK 900 WILD TYPE PROTEIN STRUCTURE REMARK 900 RELATED ID: 1T3C RELATED DB: PDB REMARK 900 E212Q MUTANT REMARK 900 RELATED ID: 1ZKW RELATED DB: PDB REMARK 900 R347A MUTANT REMARK 900 RELATED ID: 1ZKX RELATED DB: PDB REMARK 900 E158A/THR159A/N160A TRIPLE MUTANT REMARK 900 RELATED ID: 1ZL6 RELATED DB: PDB REMARK 900 Y350A DBREF 3D3X A 1 421 UNP Q9K395 Q9K395_CLOBU 2 422 DBREF 3D3X B 1 421 UNP Q9K395 Q9K395_CLOBU 2 422 DBREF 3D3X C 180 183 PDB 3D3X 3D3X 180 183 DBREF 3D3X D 180 183 PDB 3D3X 3D3X 180 183 SEQADV 3D3X HIS A 422 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS A 423 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS A 424 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS A 425 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS A 426 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS A 427 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 422 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 423 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 424 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 425 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 426 UNP Q9K395 EXPRESSION TAG SEQADV 3D3X HIS B 427 UNP Q9K395 EXPRESSION TAG SEQRES 1 A 427 PRO LYS ILE ASN SER PHE ASN TYR ASN ASP PRO VAL ASN SEQRES 2 A 427 ASP ARG THR ILE LEU TYR ILE LYS PRO GLY GLY CYS GLN SEQRES 3 A 427 GLU PHE TYR LYS SER PHE ASN ILE MET LYS ASN ILE TRP SEQRES 4 A 427 ILE ILE PRO GLU ARG ASN VAL ILE GLY THR THR PRO GLN SEQRES 5 A 427 ASP PHE HIS PRO PRO THR SER LEU LYS ASN GLY ASP SER SEQRES 6 A 427 SER TYR TYR ASP PRO ASN TYR LEU GLN SER ASP GLU GLU SEQRES 7 A 427 LYS ASP ARG PHE LEU LYS ILE VAL THR LYS ILE PHE ASN SEQRES 8 A 427 ARG ILE ASN ASN ASN LEU SER GLY GLY ILE LEU LEU GLU SEQRES 9 A 427 GLU LEU SER LYS ALA ASN PRO TYR LEU GLY ASN ASP ASN SEQRES 10 A 427 THR PRO ASP ASN GLN PHE HIS ILE GLY ASP ALA SER ALA SEQRES 11 A 427 VAL GLU ILE LYS PHE SER ASN GLY SER GLN ASP ILE LEU SEQRES 12 A 427 LEU PRO ASN VAL ILE ILE MET GLY ALA GLU PRO ASP LEU SEQRES 13 A 427 PHE GLU THR ASN SER SER ASN ILE SER LEU ARG ASN ASN SEQRES 14 A 427 TYR MET PRO SER ASN HIS GLY PHE GLY SER ILE ALA ILE SEQRES 15 A 427 VAL THR PHE SER PRO GLU TYR SER PHE ARG PHE ASN ASP SEQRES 16 A 427 ASN SER MET ASN GLU PHE ILE GLN ASP PRO ALA LEU THR SEQRES 17 A 427 LEU MET HIS GLU LEU ILE HIS SER LEU HIS GLY LEU TYR SEQRES 18 A 427 GLY ALA LYS GLY ILE THR THR LYS TYR THR ILE THR GLN SEQRES 19 A 427 LYS GLN ASN PRO LEU ILE THR ASN ILE ARG GLY THR ASN SEQRES 20 A 427 ILE GLU GLU PHE LEU THR PHE GLY GLY THR ASP LEU ASN SEQRES 21 A 427 ILE ILE THR SER ALA GLN SER ASN ASP ILE TYR THR ASN SEQRES 22 A 427 LEU LEU ALA ASP TYR LYS LYS ILE ALA SER LYS LEU SER SEQRES 23 A 427 LYS VAL GLN VAL SER ASN PRO LEU LEU ASN PRO TYR LYS SEQRES 24 A 427 ASP VAL PHE GLU ALA LYS TYR GLY LEU ASP LYS ASP ALA SEQRES 25 A 427 SER GLY ILE TYR SER VAL ASN ILE ASN LYS PHE ASN ASP SEQRES 26 A 427 ILE PHE LYS LYS LEU TYR SER PHE THR GLU PHE ASP LEU SEQRES 27 A 427 ALA THR LYS PHE GLN VAL LYS CYS ARG GLN THR TYR ILE SEQRES 28 A 427 GLY GLN TYR LYS TYR PHE LYS LEU SER ASN LEU LEU ASN SEQRES 29 A 427 ASP SER ILE TYR ASN ILE SER GLU GLY TYR ASN ILE ASN SEQRES 30 A 427 ASN LEU LYS VAL ASN PHE ARG GLY GLN ASN ALA ASN LEU SEQRES 31 A 427 ASN PRO ARG ILE ILE THR PRO ILE THR GLY ARG GLY LEU SEQRES 32 A 427 VAL LYS LYS ILE ILE ARG PHE CYS LYS ASN ILE VAL SER SEQRES 33 A 427 VAL LYS GLY ILE ARG HIS HIS HIS HIS HIS HIS SEQRES 1 B 427 PRO LYS ILE ASN SER PHE ASN TYR ASN ASP PRO VAL ASN SEQRES 2 B 427 ASP ARG THR ILE LEU TYR ILE LYS PRO GLY GLY CYS GLN SEQRES 3 B 427 GLU PHE TYR LYS SER PHE ASN ILE MET LYS ASN ILE TRP SEQRES 4 B 427 ILE ILE PRO GLU ARG ASN VAL ILE GLY THR THR PRO GLN SEQRES 5 B 427 ASP PHE HIS PRO PRO THR SER LEU LYS ASN GLY ASP SER SEQRES 6 B 427 SER TYR TYR ASP PRO ASN TYR LEU GLN SER ASP GLU GLU SEQRES 7 B 427 LYS ASP ARG PHE LEU LYS ILE VAL THR LYS ILE PHE ASN SEQRES 8 B 427 ARG ILE ASN ASN ASN LEU SER GLY GLY ILE LEU LEU GLU SEQRES 9 B 427 GLU LEU SER LYS ALA ASN PRO TYR LEU GLY ASN ASP ASN SEQRES 10 B 427 THR PRO ASP ASN GLN PHE HIS ILE GLY ASP ALA SER ALA SEQRES 11 B 427 VAL GLU ILE LYS PHE SER ASN GLY SER GLN ASP ILE LEU SEQRES 12 B 427 LEU PRO ASN VAL ILE ILE MET GLY ALA GLU PRO ASP LEU SEQRES 13 B 427 PHE GLU THR ASN SER SER ASN ILE SER LEU ARG ASN ASN SEQRES 14 B 427 TYR MET PRO SER ASN HIS GLY PHE GLY SER ILE ALA ILE SEQRES 15 B 427 VAL THR PHE SER PRO GLU TYR SER PHE ARG PHE ASN ASP SEQRES 16 B 427 ASN SER MET ASN GLU PHE ILE GLN ASP PRO ALA LEU THR SEQRES 17 B 427 LEU MET HIS GLU LEU ILE HIS SER LEU HIS GLY LEU TYR SEQRES 18 B 427 GLY ALA LYS GLY ILE THR THR LYS TYR THR ILE THR GLN SEQRES 19 B 427 LYS GLN ASN PRO LEU ILE THR ASN ILE ARG GLY THR ASN SEQRES 20 B 427 ILE GLU GLU PHE LEU THR PHE GLY GLY THR ASP LEU ASN SEQRES 21 B 427 ILE ILE THR SER ALA GLN SER ASN ASP ILE TYR THR ASN SEQRES 22 B 427 LEU LEU ALA ASP TYR LYS LYS ILE ALA SER LYS LEU SER SEQRES 23 B 427 LYS VAL GLN VAL SER ASN PRO LEU LEU ASN PRO TYR LYS SEQRES 24 B 427 ASP VAL PHE GLU ALA LYS TYR GLY LEU ASP LYS ASP ALA SEQRES 25 B 427 SER GLY ILE TYR SER VAL ASN ILE ASN LYS PHE ASN ASP SEQRES 26 B 427 ILE PHE LYS LYS LEU TYR SER PHE THR GLU PHE ASP LEU SEQRES 27 B 427 ALA THR LYS PHE GLN VAL LYS CYS ARG GLN THR TYR ILE SEQRES 28 B 427 GLY GLN TYR LYS TYR PHE LYS LEU SER ASN LEU LEU ASN SEQRES 29 B 427 ASP SER ILE TYR ASN ILE SER GLU GLY TYR ASN ILE ASN SEQRES 30 B 427 ASN LEU LYS VAL ASN PHE ARG GLY GLN ASN ALA ASN LEU SEQRES 31 B 427 ASN PRO ARG ILE ILE THR PRO ILE THR GLY ARG GLY LEU SEQRES 32 B 427 VAL LYS LYS ILE ILE ARG PHE CYS LYS ASN ILE VAL SER SEQRES 33 B 427 VAL LYS GLY ILE ARG HIS HIS HIS HIS HIS HIS SEQRES 1 C 5 ARG ILE MET GLU NH2 SEQRES 1 D 5 ARG ILE MET GLU NH2 HET NH2 D 184 1 HET ZN A 428 1 HET SO4 A 891 5 HET SO4 A 892 5 HET SO4 A 893 5 HET SO4 A 894 5 HET SO4 A 896 5 HET SO4 A 897 5 HET ZN B 822 1 HET SO4 B 890 5 HET SO4 B 895 5 HETNAM NH2 AMINO GROUP HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 4 NH2 H2 N FORMUL 5 ZN 2(ZN 2+) FORMUL 6 SO4 8(O4 S 2-) FORMUL 15 HOH *251(H2 O) HELIX 1 1 THR A 50 HIS A 55 5 6 HELIX 2 2 SER A 75 ASN A 95 1 21 HELIX 3 3 ASN A 96 SER A 107 1 12 HELIX 4 4 LEU A 166 TYR A 170 5 5 HELIX 5 5 MET A 171 HIS A 175 5 5 HELIX 6 6 ASP A 204 TYR A 221 1 18 HELIX 7 7 ALA A 223 THR A 228 1 6 HELIX 8 8 ILE A 248 GLY A 255 1 8 HELIX 9 9 GLY A 256 ASN A 260 5 5 HELIX 10 10 THR A 263 VAL A 288 1 26 HELIX 11 11 ASN A 292 LEU A 294 5 3 HELIX 12 12 LEU A 295 TYR A 306 1 12 HELIX 13 13 ASN A 319 PHE A 333 1 15 HELIX 14 14 THR A 334 GLN A 343 1 10 HELIX 15 15 LYS A 380 ASN A 387 5 8 HELIX 16 16 ASN A 391 ARG A 393 5 3 HELIX 17 17 GLY A 402 ILE A 408 1 7 HELIX 18 18 THR B 50 HIS B 55 5 6 HELIX 19 19 SER B 75 ASN B 95 1 21 HELIX 20 20 ASN B 96 LYS B 108 1 13 HELIX 21 21 MET B 171 HIS B 175 5 5 HELIX 22 22 ASP B 204 TYR B 221 1 18 HELIX 23 23 ILE B 248 GLY B 255 1 8 HELIX 24 24 GLY B 256 ASN B 260 5 5 HELIX 25 25 THR B 263 LYS B 287 1 25 HELIX 26 26 ASN B 292 LEU B 295 5 4 HELIX 27 27 ASN B 296 TYR B 306 1 11 HELIX 28 28 ASN B 319 PHE B 333 1 15 HELIX 29 29 THR B 334 PHE B 342 1 9 HELIX 30 30 ILE B 376 ASN B 387 5 12 HELIX 31 31 ASN B 391 ILE B 395 5 5 HELIX 32 32 GLY B 400 ILE B 407 1 8 SHEET 1 A 8 GLN A 140 LEU A 143 0 SHEET 2 A 8 VAL A 131 LYS A 134 -1 N ILE A 133 O ASP A 141 SHEET 3 A 8 ILE A 17 LYS A 21 -1 N LYS A 21 O GLU A 132 SHEET 4 A 8 TYR A 29 MET A 35 -1 O SER A 31 N LEU A 18 SHEET 5 A 8 ILE A 38 ILE A 41 -1 O ILE A 38 N MET A 35 SHEET 6 A 8 VAL A 147 MET A 150 1 O ILE A 149 N TRP A 39 SHEET 7 A 8 ALA A 181 THR A 184 1 O VAL A 183 N MET A 150 SHEET 8 A 8 ASN A 160 ASN A 163 -1 N ASN A 160 O THR A 184 SHEET 1 B 4 GLU A 200 ILE A 202 0 SHEET 2 B 4 TYR A 189 ASN A 194 -1 N PHE A 193 O PHE A 201 SHEET 3 B 4 TYR A 356 LEU A 359 -1 O PHE A 357 N SER A 190 SHEET 4 B 4 ILE A 395 THR A 396 -1 O THR A 396 N LYS A 358 SHEET 1 C 2 THR A 231 ILE A 232 0 SHEET 2 C 2 THR A 246 ASN A 247 -1 O THR A 246 N ILE A 232 SHEET 1 D 2 LEU A 308 LYS A 310 0 SHEET 2 D 2 TYR A 316 VAL A 318 -1 O SER A 317 N ASP A 309 SHEET 1 E 8 GLN B 140 LEU B 143 0 SHEET 2 E 8 VAL B 131 LYS B 134 -1 N VAL B 131 O LEU B 143 SHEET 3 E 8 ILE B 17 LYS B 21 -1 N LYS B 21 O GLU B 132 SHEET 4 E 8 TYR B 29 MET B 35 -1 O SER B 31 N LEU B 18 SHEET 5 E 8 ILE B 38 ARG B 44 -1 O ILE B 40 N PHE B 32 SHEET 6 E 8 VAL B 147 GLY B 151 1 O ILE B 149 N ILE B 41 SHEET 7 E 8 ALA B 181 THR B 184 1 O VAL B 183 N ILE B 148 SHEET 8 E 8 ASN B 160 ASN B 163 -1 N ASN B 160 O THR B 184 SHEET 1 F 3 GLU B 200 ILE B 202 0 SHEET 2 F 3 TYR B 189 ASN B 194 -1 N PHE B 193 O PHE B 201 SHEET 3 F 3 LYS B 355 LYS B 358 -1 O PHE B 357 N SER B 190 SHEET 1 G 2 THR B 231 ILE B 232 0 SHEET 2 G 2 THR B 246 ASN B 247 -1 O THR B 246 N ILE B 232 SHEET 1 H 2 LEU B 308 LYS B 310 0 SHEET 2 H 2 TYR B 316 VAL B 318 -1 O SER B 317 N ASP B 309 LINK C GLU D 183 N NH2 D 184 1555 1555 1.33 LINK NE2 HIS A 211 ZN ZN A 428 1555 1555 2.28 LINK NE2 HIS A 215 ZN ZN A 428 1555 1555 2.14 LINK OE2 GLU A 250 ZN ZN A 428 1555 1555 2.08 LINK ZN ZN A 428 O ARG C 180 1555 1555 2.26 LINK NE2 HIS B 211 ZN ZN B 822 1555 1555 2.04 LINK NE2 HIS B 215 ZN ZN B 822 1555 1555 2.02 LINK OE1 GLU B 250 ZN ZN B 822 1555 1555 2.14 LINK OE2 GLU B 250 ZN ZN B 822 1555 1555 2.41 LINK ZN ZN B 822 O ARG D 180 1555 1555 2.69 SITE 1 AC1 2 ASN B 242 GLU D 183 SITE 1 AC2 4 HIS A 211 HIS A 215 GLU A 250 ARG C 180 SITE 1 AC3 4 PHE A 357 PRO A 397 ILE A 398 ARG A 401 SITE 1 AC4 3 ARG A 192 LYS A 355 HOH A 971 SITE 1 AC5 5 ARG A 393 HOH A 960 HOH A1001 ASP B 311 SITE 2 AC5 5 ALA B 312 SITE 1 AC6 7 HIS A 124 GLY A 126 ASP A 127 ARG A 167 SITE 2 AC6 7 HOH A 943 HOH A 967 HOH A 998 SITE 1 AC7 4 ASN A 163 MET A 171 LYS A 224 HOH A 921 SITE 1 AC8 5 ASP A 195 ASN A 196 SER A 197 HOH A 911 SITE 2 AC8 5 ASN B 364 SITE 1 AC9 4 HIS B 211 HIS B 215 GLU B 250 ARG D 180 SITE 1 BC1 10 SER A 59 HIS B 124 GLY B 126 ASP B 127 SITE 2 BC1 10 LEU B 166 ARG B 167 HOH B 927 HOH B 981 SITE 3 BC1 10 HOH B 992 HOH B 994 SITE 1 BC2 4 SER B 162 ASN B 163 MET B 171 LYS B 224 SITE 1 BC3 12 THR A 159 PHE A 191 THR A 208 HIS A 211 SITE 2 BC3 12 GLU A 212 GLU A 250 GLU A 335 ARG A 347 SITE 3 BC3 12 TYR A 350 TYR A 354 TYR A 356 ZN A 428 SITE 1 BC4 25 GLU B 158 THR B 159 ASN B 160 SER B 161 SITE 2 BC4 25 PHE B 191 THR B 208 HIS B 211 GLU B 212 SITE 3 BC4 25 ILE B 240 THR B 241 ASN B 242 THR B 246 SITE 4 BC4 25 GLU B 250 GLU B 335 ARG B 347 TYR B 350 SITE 5 BC4 25 ILE B 351 GLY B 352 GLN B 353 TYR B 354 SITE 6 BC4 25 TYR B 356 ZN B 822 HOH B 901 NH2 D 184 SITE 7 BC4 25 HOH D 230 CRYST1 89.410 144.738 83.303 90.00 90.00 90.00 P 21 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 0.011184 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006909 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012004 0.00000