HEADER TOXIN 27-APR-23 8OW8 TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF A BOTULINUM NEUROTOXIN TITLE 2 HOMOLOGUE FROM ENTEROCOCCUS FAECIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: BOTULINUM-LIKE TOXIN EBONT/J LIGHT CHAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LC; COMPND 5 EC: 3.4.24.69; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS; SOURCE 3 ORGANISM_TAXID: 1350; SOURCE 4 GENE: A5816_002916; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BOTULINUM NEUROTOXIN, HOMOLOGUE, ENTEROCOCCUS FAECIUM, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR K.S.GREGORY,K.R.ACHARYA,S.M.LIU REVDAT 2 06-SEP-23 8OW8 1 JRNL REVDAT 1 30-AUG-23 8OW8 0 JRNL AUTH K.S.GREGORY,P.R.HALL,J.P.ONUH,O.O.MOJANAGA,S.M.LIU, JRNL AUTH 2 K.R.ACHARYA JRNL TITL CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF A BOTULINUM JRNL TITL 2 NEUROTOXIN HOMOLOGUE FROM ENTEROCOCCUS FAECIUM : POTENTIAL JRNL TITL 3 INSIGHTS INTO SUBSTRATE RECOGNITION. JRNL REF INT J MOL SCI V. 24 2023 JRNL REFN ESSN 1422-0067 JRNL PMID 37628902 JRNL DOI 10.3390/IJMS241612721 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.43 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 37257 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.051 REMARK 3 FREE R VALUE TEST SET COUNT : 1882 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2534 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.3380 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3218 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 156 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.26600 REMARK 3 B22 (A**2) : 1.26600 REMARK 3 B33 (A**2) : -2.53200 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): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.139 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.517 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3319 ; 0.011 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3151 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4489 ; 1.910 ; 1.659 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7285 ; 0.606 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 401 ; 7.449 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 13 ;15.224 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 593 ;17.226 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 497 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3804 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 734 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 654 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 61 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1674 ; 0.187 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 164 ; 0.163 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.208 ; 0.200 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): 1604 ; 3.912 ; 3.808 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1604 ; 3.912 ; 3.808 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2002 ; 5.270 ; 6.822 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2003 ; 5.269 ; 6.825 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1715 ; 4.904 ; 4.176 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1716 ; 4.903 ; 4.178 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2486 ; 6.671 ; 7.483 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2487 ; 6.670 ; 7.484 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 413 REMARK 3 ORIGIN FOR THE GROUP (A): 43.8046 -16.8654 18.0325 REMARK 3 T TENSOR REMARK 3 T11: 0.1180 T22: 0.1724 REMARK 3 T33: 0.0176 T12: -0.0687 REMARK 3 T13: 0.0178 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 1.4734 L22: 1.3435 REMARK 3 L33: 1.5572 L12: -0.3734 REMARK 3 L13: -0.3570 L23: 0.1597 REMARK 3 S TENSOR REMARK 3 S11: -0.0343 S12: -0.1300 S13: -0.0447 REMARK 3 S21: 0.0554 S22: 0.0282 S23: -0.0825 REMARK 3 S31: 0.1118 S32: 0.3045 S33: 0.0061 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8OW8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-APR-23. REMARK 100 THE DEPOSITION ID IS D_1292130048. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : DIALS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37319 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 143.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 26.30 REMARK 200 R MERGE (I) : 0.12900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 26.60 REMARK 200 R MERGE FOR SHELL (I) : 3.80700 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SPG (SUCCINIC ACID, SODIUM REMARK 280 PHOSPHATE MONOBASIC MONOHYDRATE, AND GLYCINE) BUFFER PH 7.0, 25% REMARK 280 W/V PEG 1500, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 71.94700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 71.94700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.84750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 71.94700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 71.94700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 25.84750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 71.94700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 71.94700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 25.84750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 71.94700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 71.94700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 25.84750 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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL 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 -17 REMARK 465 ALA 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 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 GLU A -5 REMARK 465 VAL A -4 REMARK 465 LEU A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 SER A 249 REMARK 465 ASN A 250 REMARK 465 PRO A 251 REMARK 465 ASN A 252 REMARK 465 SER A 253 REMARK 465 LEU A 254 REMARK 465 PHE A 255 REMARK 465 SER A 256 REMARK 465 SER A 257 REMARK 465 TRP A 258 REMARK 465 PHE A 259 REMARK 465 SER A 260 REMARK 465 SER A 261 REMARK 465 ALA A 414 REMARK 465 LEU A 415 REMARK 465 ALA A 416 REMARK 465 ARG A 417 REMARK 465 GLY A 418 REMARK 465 ALA A 419 REMARK 465 VAL A 420 REMARK 465 VAL A 421 REMARK 465 ARG A 422 REMARK 465 ALA A 423 REMARK 465 CYS A 424 REMARK 465 PRO A 425 REMARK 465 GLN A 426 REMARK 465 ALA A 427 REMARK 465 PHE A 428 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HE2 HIS A 225 ZN ZN A 501 1.15 REMARK 500 HE2 HIS A 229 ZN ZN A 501 1.22 REMARK 500 O LEU A 116 HG SER A 120 1.49 REMARK 500 HH TYR A 367 O3 PO4 A 503 1.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 22 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 MET A 1 -61.52 -134.34 REMARK 500 ASP A 16 -88.25 -118.68 REMARK 500 ASP A 31 46.07 72.88 REMARK 500 ASP A 80 94.95 -162.53 REMARK 500 LEU A 84 30.02 78.79 REMARK 500 SER A 127 58.24 -141.44 REMARK 500 ASN A 128 40.92 80.71 REMARK 500 ASP A 143 -168.98 -75.21 REMARK 500 LYS A 150 -179.29 -172.43 REMARK 500 GLN A 331 55.38 -142.95 REMARK 500 LEU A 395 32.53 71.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ILE A 412 SER A 413 146.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 103 0.22 SIDE CHAIN REMARK 500 ARG A 119 0.10 SIDE CHAIN REMARK 500 ARG A 177 0.13 SIDE CHAIN REMARK 500 ARG A 181 0.08 SIDE CHAIN 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 225 NE2 REMARK 620 2 HIS A 229 NE2 102.5 REMARK 620 3 GLU A 269 OE1 103.2 106.3 REMARK 620 4 GLU A 269 OE2 157.8 89.0 54.9 REMARK 620 5 PO4 A 503 O2 100.2 105.9 134.5 94.7 REMARK 620 N 1 2 3 4 DBREF1 8OW8 A 1 425 UNP BXJ_ENTS3 DBREF2 8OW8 A A0A242DI27 1 425 SEQADV 8OW8 MET A -17 UNP A0A242DI2 INITIATING METHIONINE SEQADV 8OW8 ALA A -16 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -15 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -14 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -13 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -12 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -11 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 HIS A -10 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 SER A -9 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 SER A -8 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 GLY A -7 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 LEU A -6 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 GLU A -5 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 VAL A -4 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 LEU A -3 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 PHE A -2 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 GLN A -1 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 GLY A 0 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 GLN A 426 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 ALA A 427 UNP A0A242DI2 EXPRESSION TAG SEQADV 8OW8 PHE A 428 UNP A0A242DI2 EXPRESSION TAG SEQRES 1 A 446 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 A 446 VAL LEU PHE GLN GLY MET VAL THR ILE ASN ASP LEU HIS SEQRES 3 A 446 TYR SER ASP PRO ILE ASP GLU ASP ASN ILE ILE ASN MET SEQRES 4 A 446 ARG ILE PRO LEU TYR ASP LEU GLU VAL ASP ASP GLN PHE SEQRES 5 A 446 ILE ASN HIS ASN VAL PRO ASP LEU LYS ALA PHE GLN VAL SEQRES 6 A 446 PHE PRO ASN VAL TRP VAL VAL PRO GLU ARG TYR THR PHE SEQRES 7 A 446 TYR SER THR MET LYS ASN LEU ASP ALA PRO ALA ASN PRO SEQRES 8 A 446 SER ARG SER SER TYR TYR ASP PRO THR TYR LEU GLN SER SEQRES 9 A 446 ASP ALA GLU LYS GLU VAL PHE LEU GLN GLN MET ILE LEU SEQRES 10 A 446 LEU PHE LYS ARG ILE ASN SER THR GLN GLU GLY GLN GLN SEQRES 11 A 446 PHE LEU ASN LEU LEU SER ARG SER ILE PRO VAL PRO TYR SEQRES 12 A 446 GLU SER ASN GLY ASP VAL ALA MET GLY THR THR GLN VAL SEQRES 13 A 446 ILE LYS GLN MET ASP ASP LYS GLY ASN VAL LEU LYS HIS SEQRES 14 A 446 ARG ARG ALA HIS ILE ILE ILE TYR GLY PRO GLY PRO ASP SEQRES 15 A 446 LEU MET ALA LYS GLY SER LYS ALA LEU THR LYS SER ARG SEQRES 16 A 446 GLU THR GLY ARG GLY CYS MET ALA GLU ILE TYR PHE SER SEQRES 17 A 446 PRO MET TYR HIS LYS THR TYR SER THR LYS LEU THR ASN SEQRES 18 A 446 LYS ASN SER LEU VAL ASP LYS SER VAL GLN GLU PHE VAL SEQRES 19 A 446 PRO ASP PRO ALA VAL THR LEU ILE HIS GLU LEU CYS HIS SEQRES 20 A 446 GLY LEU HIS ALA LEU TYR GLY ILE ASP LEU GLY ASN VAL SEQRES 21 A 446 GLY SER TRP GLU PHE ASN SER ASN PRO ASN SER LEU PHE SEQRES 22 A 446 SER SER TRP PHE SER SER LYS GLU ALA VAL ASN PHE GLU SEQRES 23 A 446 GLU VAL MET THR PHE GLY GLY GLU ASP VAL LYS VAL ILE SEQRES 24 A 446 LYS SER GLU ILE ASP LYS LYS ILE PRO GLY ILE LEU ASN SEQRES 25 A 446 LEU ILE LYS THR THR VAL GLU PRO ILE ILE ASN LYS ILE SEQRES 26 A 446 THR ASP PRO HIS ASP GLU MET LEU GLN CYS LEU GLN SER SEQRES 27 A 446 LYS TYR PRO SER LEU LYS GLY THR LEU GLY GLN PHE PHE SEQRES 28 A 446 PHE ASP ASP THR GLN LEU GLU LYS ASP ILE ARG ASP LEU SEQRES 29 A 446 TRP MET VAL MET ASN GLU THR MET PHE ALA GLU ASN LEU SEQRES 30 A 446 LYS ALA LEU THR ARG ALA ARG TYR LEU VAL PRO LYS VAL SEQRES 31 A 446 GLU ASN ILE VAL GLN VAL ASP ILE LEU SER PRO ASN VAL SEQRES 32 A 446 TYR THR ILE ASP LYS GLY PHE ASN HIS LEU SER LYS GLY SEQRES 33 A 446 PHE LYS GLY GLN SER VAL SER GLN SER TYR PHE ARG LYS SEQRES 34 A 446 ILE SER ALA LEU ALA ARG GLY ALA VAL VAL ARG ALA CYS SEQRES 35 A 446 PRO GLN ALA PHE HET ZN A 501 1 HET PO4 A 502 5 HET PO4 A 503 5 HET PGE A 504 24 HET EDO A 505 10 HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 PO4 2(O4 P 3-) FORMUL 5 PGE C6 H14 O4 FORMUL 6 EDO C2 H6 O2 FORMUL 7 HOH *156(H2 O) HELIX 1 AA1 TYR A 61 LYS A 65 5 5 HELIX 2 AA2 SER A 86 ASN A 105 1 20 HELIX 3 AA3 THR A 107 SER A 120 1 14 HELIX 4 AA4 GLY A 134 THR A 136 5 3 HELIX 5 AA5 THR A 174 THR A 179 5 6 HELIX 6 AA6 LYS A 200 THR A 202 5 3 HELIX 7 AA7 ASP A 218 GLY A 236 1 19 HELIX 8 AA8 PHE A 267 GLY A 274 1 8 HELIX 9 AA9 ASP A 277 ASN A 305 1 29 HELIX 10 AB1 ASP A 312 TYR A 322 1 11 HELIX 11 AB2 ASP A 335 MET A 350 1 16 HELIX 12 AB3 ASN A 351 LEU A 359 1 9 HELIX 13 AB4 LYS A 390 HIS A 394 5 5 HELIX 14 AB5 PHE A 399 SER A 403 5 5 SHEET 1 AA1 8 VAL A 148 ARG A 153 0 SHEET 2 AA1 8 VAL A 138 MET A 142 -1 N GLN A 141 O LEU A 149 SHEET 3 AA1 8 ILE A 18 ARG A 22 -1 N ASN A 20 O MET A 142 SHEET 4 AA1 8 LEU A 42 PHE A 48 -1 O LEU A 42 N MET A 21 SHEET 5 AA1 8 VAL A 51 ARG A 57 -1 O VAL A 53 N PHE A 45 SHEET 6 AA1 8 ILE A 156 GLY A 160 1 O ILE A 158 N VAL A 54 SHEET 7 AA1 8 ALA A 185 TYR A 188 1 O ILE A 187 N ILE A 157 SHEET 8 AA1 8 GLY A 169 ALA A 172 -1 N LYS A 171 O GLU A 186 SHEET 1 AA2 2 GLU A 29 VAL A 30 0 SHEET 2 AA2 2 GLN A 33 PHE A 34 -1 O GLN A 33 N VAL A 30 SHEET 1 AA3 4 GLU A 214 PHE A 215 0 SHEET 2 AA3 4 TYR A 193 SER A 198 -1 N TYR A 197 O PHE A 215 SHEET 3 AA3 4 ASN A 374 GLN A 377 -1 O VAL A 376 N HIS A 194 SHEET 4 AA3 4 ARG A 410 ILE A 412 -1 O ILE A 412 N ILE A 375 SHEET 1 AA4 2 SER A 244 PHE A 247 0 SHEET 2 AA4 2 GLU A 263 ASN A 266 -1 O GLU A 263 N PHE A 247 SHEET 1 AA5 2 LEU A 325 THR A 328 0 SHEET 2 AA5 2 GLN A 331 PHE A 334 -1 O GLN A 331 N THR A 328 LINK NE2 HIS A 225 ZN ZN A 501 1555 1555 2.01 LINK NE2 HIS A 229 ZN ZN A 501 1555 1555 2.10 LINK OE1 GLU A 269 ZN ZN A 501 1555 1555 2.03 LINK OE2 GLU A 269 ZN ZN A 501 1555 1555 2.52 LINK ZN ZN A 501 O2 PO4 A 503 1555 1555 1.73 CRYST1 143.894 143.894 51.695 90.00 90.00 90.00 P 42 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 0.006950 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006950 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019344 0.00000