HEADER BIOSYNTHETIC PROTEIN 13-DEC-22 8BYK TITLE THE STRUCTURE OF MADC FROM CLOSTRIDIUM MADDINGLEY REVEALS NEW INSIGHTS TITLE 2 INTO CLASS I LANTHIPEPTIDE CYCLASES COMPND MOL_ID: 1; COMPND 2 MOLECULE: LANTHIONINE SYNTHETASE C-LIKE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM; SOURCE 3 ORGANISM_TAXID: 1485; SOURCE 4 GENE: A370_05564; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYCLASE, LANTIBIOTIC, BIOSYNTHETIC, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.V.KNOSPE,M.KAMEL,O.SPITZ,A.HOEPPNER,S.GALLE,J.REINERS,A.KEDROV, AUTHOR 2 S.H.SMITS,L.SCHMITT REVDAT 1 22-FEB-23 8BYK 0 JRNL AUTH C.V.KNOSPE,M.KAMEL,O.SPITZ,A.HOEPPNER,S.GALLE,J.REINERS, JRNL AUTH 2 A.KEDROV,S.H.J.SMITS,L.SCHMITT JRNL TITL THE STRUCTURE OF MADC FROM CLOSTRIDIUM MADDINGLEY REVEALS JRNL TITL 2 NEW INSIGHTS INTO CLASS I LANTHIPEPTIDE CYCLASES. JRNL REF FRONT MICROBIOL V. 13 57217 2022 JRNL REFN ESSN 1664-302X JRNL PMID 36741885 JRNL DOI 10.3389/FMICB.2022.1057217 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 47059 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3418 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 294 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8BYK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-DEC-22. REMARK 100 THE DEPOSITION ID IS D_1292127382. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-AUG-19 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 : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47068 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 41.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.6300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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 (%): 40.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM CHLORIDE AND MPD, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 27.07000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.62900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.05950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.62900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.07000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.05950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 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 GLU A 30 REMARK 465 LYS A 31 REMARK 465 ASN A 32 REMARK 465 TYR A 33 REMARK 465 ILE A 34 REMARK 465 ASN A 35 REMARK 465 PHE A 36 REMARK 465 GLU A 37 REMARK 465 GLY A 38 REMARK 465 ASN A 39 REMARK 465 PHE A 40 REMARK 465 LEU A 41 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 -2 OG REMARK 470 HIS A -1 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 0 CG SD CE REMARK 470 MET A 1 CG SD CE REMARK 470 LYS A 22 CG CD CE NZ REMARK 470 GLU A 25 CG CD OE1 OE2 REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 GLU A 383 CG CD OE1 OE2 REMARK 470 LYS A 384 CG CD CE NZ REMARK 470 GLU A 396 CG CD OE1 OE2 REMARK 470 GLU A 397 CG CD OE1 OE2 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 O HOH A 935 O HOH A 988 1.89 REMARK 500 O HOH A 920 O HOH A 937 1.98 REMARK 500 O HOH A 705 O HOH A 724 2.00 REMARK 500 O HOH A 705 O HOH A 932 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 65 CD GLU A 65 OE2 0.078 REMARK 500 GLU A 138 CD GLU A 138 OE2 0.083 REMARK 500 GLU A 172 CD GLU A 172 OE1 0.078 REMARK 500 GLU A 172 CD GLU A 172 OE2 0.129 REMARK 500 GLU A 186 CG GLU A 186 CD 0.196 REMARK 500 GLU A 206 CG GLU A 206 CD 0.092 REMARK 500 GLU A 219 CD GLU A 219 OE2 0.069 REMARK 500 GLU A 271 CB GLU A 271 CG -0.162 REMARK 500 GLU A 271 CD GLU A 271 OE1 -0.098 REMARK 500 VAL A 288 CB VAL A 288 CG2 -0.165 REMARK 500 GLU A 323 CD GLU A 323 OE1 -0.075 REMARK 500 TYR A 358 CE1 TYR A 358 CZ -0.083 REMARK 500 GLU A 437 CD GLU A 437 OE1 -0.079 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 THR A 93 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 ARG A 115 NE - CZ - NH1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG A 141 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 178 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 178 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 GLU A 186 OE1 - CD - OE2 ANGL. DEV. = 13.7 DEGREES REMARK 500 ASP A 252 CB - CG - OD1 ANGL. DEV. = -7.7 DEGREES REMARK 500 ASP A 252 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 294 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 294 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 TYR A 299 CD1 - CE1 - CZ ANGL. DEV. = -5.9 DEGREES REMARK 500 ASP A 372 CB - CG - OD2 ANGL. DEV. = -6.6 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 PHE A 44 87.07 -64.02 REMARK 500 THR A 93 -41.07 138.41 REMARK 500 PHE A 264 59.76 -94.64 REMARK 500 ASN A 272 96.46 -160.09 REMARK 500 TYR A 339 -19.80 -143.54 REMARK 500 HIS A 345 39.09 -144.64 REMARK 500 PRO A 428 38.25 -85.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 993 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A 994 DISTANCE = 6.43 ANGSTROMS 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 NA A 602 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 151 OH REMARK 620 2 TRP A 201 O 115.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 603 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 219 OE2 REMARK 620 2 HOH A 818 O 108.9 REMARK 620 3 HOH A 968 O 111.5 105.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 298 SG REMARK 620 2 CYS A 344 SG 114.2 REMARK 620 3 HIS A 345 ND1 116.1 115.1 REMARK 620 4 HIS A 501 ND1 109.1 102.9 96.7 REMARK 620 N 1 2 3 DBREF 8BYK A 1 438 UNP K6THC9 K6THC9_9CLOT 1 438 SEQADV 8BYK SER A -2 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK HIS A -1 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK MET A 0 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 498 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 499 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 500 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK HIS A 501 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK HIS A 502 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 503 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 504 UNP K6THC9 EXPRESSION TAG SEQADV 8BYK ALA A 505 UNP K6THC9 EXPRESSION TAG SEQRES 1 A 449 SER HIS MET MET ARG ASN ARG SER VAL ARG ASN ILE VAL SEQRES 2 A 449 TRP ASP ILE GLY GLU LYS LEU SER ASP TYR GLU LYS VAL SEQRES 3 A 449 LYS GLU ILE VAL ASN ASN GLU LYS ASN TYR ILE ASN PHE SEQRES 4 A 449 GLU GLY ASN PHE LEU ASN PRO PHE ASN GLU LEU SER LEU SEQRES 5 A 449 SER HIS GLY ILE PRO ALA LEU CYS VAL LEU TYR GLY GLU SEQRES 6 A 449 LEU ASN GLU GLN TYR PRO GLU GLN GLY TRP ASP VAL ILE SEQRES 7 A 449 GLY HIS GLU TYR MET LYS ARG MET GLY GLU TYR ILE GLU SEQRES 8 A 449 GLU LYS GLY ILE THR SER LEU SER MET PHE SER GLY VAL SEQRES 9 A 449 SER GLY ILE GLY LEU SER ALA VAL CYS LEU SER ASN ASN SEQRES 10 A 449 ARG SER ARG TYR GLY ASN PHE ILE SER SER MET ASN SER SEQRES 11 A 449 PHE ILE GLU GLU ASN ILE PRO GLY PHE ILE GLU ILE LEU SEQRES 12 A 449 ARG ASN LYS GLU SER LEU ASN MET SER ASP TYR ASP VAL SEQRES 13 A 449 ILE GLU GLY VAL CYS GLY ILE ALA ASN TYR CYS MET LEU SEQRES 14 A 449 PHE PRO ASN ASN GLU GLU MET LYS GLN ALA LEU ARG LEU SEQRES 15 A 449 ILE VAL GLY TYR ILE ILE GLU LEU CYS LYS ASP LYS THR SEQRES 16 A 449 ILE ASN GLY LEU VAL LEU PRO GLY TRP TYR ILE SER ALA SEQRES 17 A 449 GLU ASN GLN PHE SER LYS VAL ASP GLN LYS LEU TRP PRO SEQRES 18 A 449 GLU GLY CYS PHE ASN ILE GLY LEU SER HIS GLY VAL PRO SEQRES 19 A 449 GLY MET LEU LEU VAL LEU CYS ASN SER THR LYS CYS GLY SEQRES 20 A 449 ILE HIS LEU GLU ASP GLN ASP ASP SER ILE ASN LYS LEU SEQRES 21 A 449 VAL ASP PHE LEU ILE LYS PHE HIS ILE SER ASN ASP LYS SEQRES 22 A 449 GLU ASN TYR TRP GLY SER HIS ILE SER LEU GLU GLU TYR SEQRES 23 A 449 ARG GLU GLY LYS VAL ASN SER THR ASN SER ARG ASP ALA SEQRES 24 A 449 TRP CYS TYR GLY THR PRO GLY ALA ALA TYR SER VAL LEU SEQRES 25 A 449 ILE ALA GLY LYS TYR LEU ASN ASN MET GLU TYR ILE ASP SEQRES 26 A 449 GLU ALA VAL ASN ALA MET LYS GLY ALA ILE ASN ARG LEU SEQRES 27 A 449 ARG ASP ILE TYR SER PRO THR PHE CYS HIS GLY PHE SER SEQRES 28 A 449 GLY ILE ALA TYR ILE SER ASN ARG PHE TYR GLU VAL THR SEQRES 29 A 449 LYS GLN GLN ASP PHE LYS LYS ALA ALA ILE ASP LEU THR SEQRES 30 A 449 ASP LYS ILE LEU GLU LEU TYR ASP GLU LYS ALA PRO PHE SEQRES 31 A 449 GLY PHE TYR ASN MET GLU LYS SER GLU GLU GLY MET ASP SEQRES 32 A 449 TYR LEU ASP TYR ILE GLY ILE ILE ASP GLY VAL THR GLY SEQRES 33 A 449 ILE ILE LEU THR LEU LEU ALA ILE GLU ASN GLY LYS LYS SEQRES 34 A 449 THR PRO TRP ASP CYS ALA PHE SER LEU GLN GLU VAL ALA SEQRES 35 A 449 ALA ALA HIS HIS ALA ALA ALA HET ZN A 601 1 HET NA A 602 1 HET NA A 603 1 HET MPD A 604 8 HET MPD A 605 8 HET MPD A 606 8 HET ACT A 607 4 HET CL A 608 1 HETNAM ZN ZINC ION HETNAM NA SODIUM ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION FORMUL 2 ZN ZN 2+ FORMUL 3 NA 2(NA 1+) FORMUL 5 MPD 3(C6 H14 O2) FORMUL 8 ACT C2 H3 O2 1- FORMUL 9 CL CL 1- FORMUL 10 HOH *294(H2 O) HELIX 1 AA1 SER A -2 LEU A 17 1 20 HELIX 2 AA2 ASP A 19 ASN A 28 1 10 HELIX 3 AA3 GLY A 52 TYR A 67 1 16 HELIX 4 AA4 GLY A 71 GLY A 91 1 21 HELIX 5 AA5 GLY A 100 LEU A 111 1 12 HELIX 6 AA6 TYR A 118 LYS A 143 1 26 HELIX 7 AA7 ASN A 147 ASP A 152 1 6 HELIX 8 AA8 GLY A 156 MET A 165 1 10 HELIX 9 AA9 ASN A 170 LYS A 189 1 20 HELIX 10 AB1 SER A 204 GLN A 208 5 5 HELIX 11 AB2 SER A 210 TRP A 217 1 8 HELIX 12 AB3 GLY A 229 SER A 240 1 12 HELIX 13 AB4 ASP A 249 PHE A 264 1 16 HELIX 14 AB5 LEU A 280 GLY A 286 1 7 HELIX 15 AB6 GLY A 300 ASN A 316 1 17 HELIX 16 AB7 ASN A 317 LEU A 335 1 19 HELIX 17 AB8 GLY A 346 LYS A 362 1 17 HELIX 18 AB9 GLN A 363 LEU A 380 1 18 HELIX 19 AC1 GLY A 410 GLY A 424 1 15 HELIX 20 AC2 PRO A 428 SER A 434 5 7 HELIX 21 AC3 ALA A 499 ALA A 503 1 5 SHEET 1 AA1 2 LYS A 191 ILE A 193 0 SHEET 2 AA1 2 LEU A 196 LEU A 198 -1 O LEU A 198 N LYS A 191 SHEET 1 AA2 2 CYS A 221 ASN A 223 0 SHEET 2 AA2 2 HIS A 277 SER A 279 -1 O ILE A 278 N PHE A 222 SHEET 1 AA3 2 ILE A 266 SER A 267 0 SHEET 2 AA3 2 ASN A 272 TYR A 273 -1 O TYR A 273 N ILE A 266 SHEET 1 AA4 2 ASN A 391 LYS A 394 0 SHEET 2 AA4 2 MET A 399 LEU A 402 -1 O ASP A 400 N GLU A 393 LINK OH TYR A 151 NA NA A 602 1555 1555 3.07 LINK O TRP A 201 NA NA A 602 1555 1555 2.77 LINK OE2 GLU A 219 NA NA A 603 1555 1555 2.99 LINK SG CYS A 298 ZN ZN A 601 1555 1555 2.29 LINK SG CYS A 344 ZN ZN A 601 1555 1555 2.30 LINK ND1 HIS A 345 ZN ZN A 601 1555 1555 2.10 LINK ND1 HIS A 501 ZN ZN A 601 1555 1555 2.18 LINK NA NA A 603 O HOH A 818 1555 1555 2.73 LINK NA NA A 603 O HOH A 968 1555 1555 2.60 CISPEP 1 ILE A 92 THR A 93 0 -16.01 CRYST1 54.140 66.119 117.258 90.00 90.00 90.00 P 21 21 21 4 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 0.018471 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015124 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008528 0.00000