HEADER OXIDOREDUCTASE 18-NOV-08 3FAQ TITLE CRYSTAL STRUCTURE OF LACTOPEROXIDASE COMPLEX WITH CYANIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACTOPEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 118-712; COMPND 5 SYNONYM: LPO,WBLP; COMPND 6 EC: 1.11.1.7 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BUBALUS BUBALIS; SOURCE 3 ORGANISM_COMMON: WATER BUFFALO; SOURCE 4 ORGANISM_TAXID: 89462; SOURCE 5 STRAIN: MAMMARY GLAND SECRETION KEYWDS COMPLEX, HEME, PEROXIDASE, INHIBITOR, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR I.A.SHEIKH,N.SINGH,S.SHARMA,P.KAUR,A.SRINIVASAN,T.P.SINGH REVDAT 7 08-NOV-23 3FAQ 1 REMARK REVDAT 6 28-JUN-23 3FAQ 1 COMPND SOURCE REMARK DBREF REVDAT 6 2 1 HETSYN LINK ATOM REVDAT 5 29-JUL-20 3FAQ 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE ATOM REVDAT 4 21-DEC-16 3FAQ 1 TITLE REVDAT 3 13-JUL-11 3FAQ 1 VERSN REVDAT 2 09-JUN-09 3FAQ 1 JRNL REVDAT 1 31-MAR-09 3FAQ 0 JRNL AUTH I.A.SHEIKH,A.K.SINGH,N.SINGH,M.SINHA,S.B.SINGH,A.BHUSHAN, JRNL AUTH 2 P.KAUR,A.SRINIVASAN,S.SHARMA,T.P.SINGH JRNL TITL STRUCTURAL EVIDENCE OF SUBSTRATE SPECIFICITY IN MAMMALIAN JRNL TITL 2 PEROXIDASES: STRUCTURE OF THE THIOCYANATE COMPLEX WITH JRNL TITL 3 LACTOPEROXIDASE AND ITS INTERACTIONS AT 2.4 A RESOLUTION JRNL REF J.BIOL.CHEM. V. 284 14849 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19339248 JRNL DOI 10.1074/JBC.M807644200 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 11.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 915824.040 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.0 REMARK 3 NUMBER OF REFLECTIONS : 15992 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) : 0.208 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 783 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2608 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE : 0.2910 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 136 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.025 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4778 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 204 REMARK 3 SOLVENT ATOMS : 274 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.38000 REMARK 3 B22 (A**2) : -9.60000 REMARK 3 B33 (A**2) : 6.22000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.58000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.35 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) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.38 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.180 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) : 1.380 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.410 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.600 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.500 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.49 REMARK 3 BSOL : 121.4 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 : ALL.PARAM REMARK 3 PARAMETER FILE 5 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ALL.TOP REMARK 3 TOPOLOGY FILE 5 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3FAQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050357. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 291 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54132 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15992 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.7 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 3ERH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM IODIDE,PEG3350, PH6.8, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 40.33250 REMARK 290 SMTRY3 2 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 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 FE HEM A 601 C CYN A 605 1.87 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 PRO A 234 CD PRO A 234 N 0.094 REMARK 500 PRO A 234 CA PRO A 234 C -0.125 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 PRO A 9 CA - N - CD ANGL. DEV. = -11.6 DEGREES REMARK 500 PRO A 11 C - N - CA ANGL. DEV. = 9.5 DEGREES REMARK 500 VAL A 166 N - CA - C ANGL. DEV. = 23.1 DEGREES REMARK 500 CYS A 167 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 PRO A 171 C - N - CA ANGL. DEV. = 10.1 DEGREES REMARK 500 PRO A 197 C - N - CD ANGL. DEV. = -19.2 DEGREES REMARK 500 ASN A 216 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 PRO A 234 C - N - CA ANGL. DEV. = 55.6 DEGREES REMARK 500 PRO A 234 C - N - CD ANGL. DEV. = -32.6 DEGREES REMARK 500 PRO A 234 CA - N - CD ANGL. DEV. = -32.6 DEGREES REMARK 500 PRO A 234 N - CA - CB ANGL. DEV. = 20.6 DEGREES REMARK 500 PRO A 234 N - CD - CG ANGL. DEV. = 23.2 DEGREES REMARK 500 SER A 235 C - N - CA ANGL. DEV. = -21.5 DEGREES REMARK 500 PRO A 326 C - N - CD ANGL. DEV. = -14.5 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 TRP A 2 159.35 -41.64 REMARK 500 PRO A 9 -167.69 -59.18 REMARK 500 PRO A 11 -128.98 -50.90 REMARK 500 LEU A 12 79.89 -21.93 REMARK 500 LYS A 14 86.36 32.28 REMARK 500 ASN A 18 -14.70 -162.73 REMARK 500 LEU A 55 -46.46 -131.14 REMARK 500 ALA A 56 -32.42 -152.57 REMARK 500 ASN A 95 44.60 -144.34 REMARK 500 ASN A 122 68.68 81.67 REMARK 500 CYS A 133 40.61 34.79 REMARK 500 ASP A 137 -124.38 48.87 REMARK 500 ASN A 147 17.63 81.35 REMARK 500 PRO A 168 -123.56 -131.50 REMARK 500 THR A 169 -17.37 -175.39 REMARK 500 PRO A 171 90.61 -2.38 REMARK 500 SER A 174 -107.67 -59.64 REMARK 500 PRO A 209 34.49 -87.92 REMARK 500 PRO A 234 116.65 160.12 REMARK 500 ASN A 241 85.22 -171.12 REMARK 500 THR A 242 0.56 -67.87 REMARK 500 ASP A 389 49.57 -156.61 REMARK 500 PRO A 424 -19.91 -46.08 REMARK 500 HIS A 429 70.00 -100.13 REMARK 500 LYS A 485 -23.66 54.69 REMARK 500 GLU A 503 106.01 -51.07 REMARK 500 PRO A 533 129.15 -39.18 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 974 DISTANCE = 6.08 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 CA A 604 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 110 O REMARK 620 2 ASP A 110 OD1 76.9 REMARK 620 3 THR A 184 O 76.4 135.5 REMARK 620 4 THR A 184 OG1 129.1 152.2 68.7 REMARK 620 5 PHE A 186 O 121.9 77.9 87.0 92.5 REMARK 620 6 ASP A 188 OD1 149.1 81.4 133.8 70.8 73.4 REMARK 620 7 SER A 190 OG 76.3 88.6 118.2 88.7 153.1 81.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 351 NE2 REMARK 620 2 HEM A 601 NA 94.4 REMARK 620 3 HEM A 601 NB 97.2 84.8 REMARK 620 4 HEM A 601 NC 92.5 173.1 95.4 REMARK 620 5 HEM A 601 ND 85.7 96.6 176.6 82.9 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ERH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF SUBSTRATE COMPLEXES WITH LACTOPEROXIDASES REMARK 900 FROM TWO DIFFERENT SPECIES DBREF 3FAQ A 1 595 UNP A5JUY8 PERL_BUBBU 118 712 SEQRES 1 A 595 SER TRP GLU VAL GLY CYS GLY ALA PRO VAL PRO LEU VAL SEQRES 2 A 595 LYS CYS ASP GLU ASN SER PRO TYR ARG THR ILE THR GLY SEQRES 3 A 595 ASP CYS ASN ASN ARG ARG SER PRO ALA LEU GLY ALA ALA SEQRES 4 A 595 ASN ARG ALA LEU ALA ARG TRP LEU PRO ALA GLU TYR GLU SEQRES 5 A 595 ASP GLY LEU ALA LEU PRO PHE GLY TRP THR GLN ARG LYS SEQRES 6 A 595 THR ARG ASN GLY PHE ARG VAL PRO LEU ALA ARG GLU VAL SEQRES 7 A 595 SER ASN LYS ILE VAL GLY TYR LEU ASP GLU GLU GLY VAL SEQRES 8 A 595 LEU ASP GLN ASN ARG SER LEU LEU PHE MET GLN TRP GLY SEQRES 9 A 595 GLN ILE VAL ASP HIS ASP LEU ASP PHE ALA PRO GLU THR SEQRES 10 A 595 GLU LEU GLY SER ASN GLU HIS SER LYS THR GLN CYS GLU SEQRES 11 A 595 GLU TYR CYS ILE GLN GLY ASP ASN CYS PHE PRO ILE MET SEQRES 12 A 595 PHE PRO LYS ASN ASP PRO LYS LEU LYS THR GLN GLY LYS SEQRES 13 A 595 CYS MET PRO PHE PHE ARG ALA GLY PHE VAL CYS PRO THR SEQRES 14 A 595 PRO PRO TYR GLN SER LEU ALA ARG GLU GLN ILE ASN ALA SEQRES 15 A 595 VAL THR SER PHE LEU ASP ALA SER LEU VAL TYR GLY SER SEQRES 16 A 595 GLU PRO SEP LEU ALA SER ARG LEU ARG ASN LEU SER SER SEQRES 17 A 595 PRO LEU GLY LEU MET ALA VAL ASN GLN GLU ALA TRP ASP SEQRES 18 A 595 HIS GLY LEU ALA TYR LEU PRO PHE ASN ASN LYS LYS PRO SEQRES 19 A 595 SER PRO CYS GLU PHE ILE ASN THR THR ALA ARG VAL PRO SEQRES 20 A 595 CYS PHE LEU ALA GLY ASP PHE ARG ALA SER GLU GLN ILE SEQRES 21 A 595 LEU LEU ALA THR ALA HIS THR LEU LEU LEU ARG GLU HIS SEQRES 22 A 595 ASN ARG LEU ALA ARG GLU LEU LYS LYS LEU ASN PRO HIS SEQRES 23 A 595 TRP ASN GLY GLU LYS LEU TYR GLN GLU ALA ARG LYS ILE SEQRES 24 A 595 LEU GLY ALA PHE ILE GLN ILE ILE THR PHE ARG ASP TYR SEQRES 25 A 595 LEU PRO ILE VAL LEU GLY SER GLU MET GLN LYS TRP ILE SEQRES 26 A 595 PRO PRO TYR GLN GLY TYR ASN ASN SER VAL ASP PRO ARG SEQRES 27 A 595 ILE SER ASN VAL PHE THR PHE ALA PHE ARG PHE GLY HIS SEQRES 28 A 595 MET GLU VAL PRO SER THR VAL SER ARG LEU ASP GLU ASN SEQRES 29 A 595 TYR GLN PRO TRP GLY PRO GLU ALA GLU LEU PRO LEU HIS SEQRES 30 A 595 THR LEU PHE PHE ASN THR TRP ARG ILE ILE LYS ASP GLY SEQRES 31 A 595 GLY ILE ASP PRO LEU THR ARG GLY LEU LEU ALA LYS LYS SEQRES 32 A 595 SER LYS LEU MET ASN GLN ASP LYS MET VAL THR SER GLU SEQRES 33 A 595 LEU ARG ASN LYS LEU PHE GLN PRO THR HIS LYS ILE HIS SEQRES 34 A 595 GLY PHE ASP LEU ALA ALA ILE ASN LEU GLN ARG CYS ARG SEQRES 35 A 595 ASP HIS GLY MET PRO GLY TYR ASN SER TRP ARG GLY PHE SEQRES 36 A 595 CYS GLY LEU SER GLN PRO LYS THR LEU LYS GLY LEU GLN SEQRES 37 A 595 THR VAL LEU LYS ASN LYS ILE LEU ALA LYS LYS LEU MET SEQRES 38 A 595 ASP LEU TYR LYS THR PRO ASP ASN ILE ASP ILE TRP ILE SEQRES 39 A 595 GLY GLY ASN ALA GLU PRO MET VAL GLU ARG GLY ARG VAL SEQRES 40 A 595 GLY PRO LEU LEU ALA CYS LEU LEU GLY ARG GLN PHE GLN SEQRES 41 A 595 GLN ILE ARG ASP GLY ASP ARG PHE TRP TRP GLU ASN PRO SEQRES 42 A 595 GLY VAL PHE THR GLU LYS GLN ARG ASP SER LEU GLN LYS SEQRES 43 A 595 PHE SER PHE SER ARG LEU ILE CYS ASP ASN THR HIS ILE SEQRES 44 A 595 THR LYS VAL PRO LEU HIS ALA PHE GLN ALA ASN ASN TYR SEQRES 45 A 595 PRO HIS ASP PHE VAL ASP CYS SER THR VAL ASP LYS LEU SEQRES 46 A 595 ASP LEU SER PRO TRP ALA SER ARG GLU ASN MODRES 3FAQ SEP A 198 SER MODIFIED RESIDUE HET SEP A 198 10 HET NAG B 1 14 HET NAG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET MAN D 3 11 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET MAN E 4 11 HET HEM A 601 43 HET SCN A 602 3 HET SCN A 603 3 HET CA A 604 1 HET CYN A 605 2 HET IOD A 606 1 HET IOD A 607 1 HET IOD A 608 1 HET IOD A 609 1 HET IOD A 610 1 HET IOD A 611 1 HET IOD A 612 1 HETNAM SEP PHOSPHOSERINE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM SCN THIOCYANATE ION HETNAM CA CALCIUM ION HETNAM CYN CYANIDE ION HETNAM IOD IODIDE ION HETSYN SEP PHOSPHONOSERINE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN HEM HEME FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 NAG 8(C8 H15 N O6) FORMUL 4 MAN 2(C6 H12 O6) FORMUL 5 BMA C6 H12 O6 FORMUL 6 HEM C34 H32 FE N4 O4 FORMUL 7 SCN 2(C N S 1-) FORMUL 9 CA CA 2+ FORMUL 10 CYN C N 1- FORMUL 11 IOD 7(I 1-) FORMUL 18 HOH *274(H2 O) HELIX 1 1 LEU A 74 VAL A 83 1 10 HELIX 2 2 LEU A 98 ASP A 112 1 15 HELIX 3 3 HIS A 124 GLU A 131 1 8 HELIX 4 4 ASP A 148 GLN A 154 1 7 HELIX 5 5 ALA A 189 GLY A 194 1 6 HELIX 6 6 SEP A 198 LEU A 203 1 6 HELIX 7 7 SER A 235 ILE A 240 1 6 HELIX 8 8 ARG A 255 GLU A 258 5 4 HELIX 9 9 GLN A 259 LYS A 282 1 24 HELIX 10 10 ASN A 288 ASP A 311 1 24 HELIX 11 11 TYR A 312 VAL A 316 5 5 HELIX 12 12 LEU A 317 SER A 319 5 3 HELIX 13 13 GLU A 320 ILE A 325 1 6 HELIX 14 14 VAL A 342 PHE A 347 1 6 HELIX 15 15 ARG A 348 VAL A 354 5 7 HELIX 16 16 HIS A 377 PHE A 380 5 4 HELIX 17 17 THR A 383 LYS A 388 1 6 HELIX 18 18 ILE A 392 LYS A 402 1 11 HELIX 19 19 THR A 414 ASN A 419 1 6 HELIX 20 20 ASP A 432 HIS A 444 1 13 HELIX 21 21 GLY A 448 CYS A 456 1 9 HELIX 22 22 THR A 463 LYS A 472 1 10 HELIX 23 23 ASN A 473 LYS A 485 1 13 HELIX 24 24 THR A 486 ILE A 490 5 5 HELIX 25 25 ASP A 491 ALA A 498 1 8 HELIX 26 26 GLY A 508 GLY A 525 1 18 HELIX 27 27 THR A 537 GLN A 545 1 9 HELIX 28 28 SER A 548 THR A 557 1 10 HELIX 29 29 SER A 580 VAL A 582 5 3 HELIX 30 30 LEU A 587 ALA A 591 5 5 SHEET 1 A 2 ARG A 41 ALA A 42 0 SHEET 2 A 2 ILE A 180 ASN A 181 -1 O ASN A 181 N ARG A 41 SHEET 1 B 2 LEU A 92 SER A 97 0 SHEET 2 B 2 LYS A 403 LYS A 405 -1 O SER A 404 N ASP A 93 SHEET 1 C 2 ILE A 142 MET A 143 0 SHEET 2 C 2 CYS A 157 MET A 158 -1 O MET A 158 N ILE A 142 SHEET 1 D 2 THR A 357 SER A 359 0 SHEET 2 D 2 GLU A 373 PRO A 375 -1 O LEU A 374 N VAL A 358 SHEET 1 E 2 LEU A 421 PHE A 422 0 SHEET 2 E 2 HIS A 429 PHE A 431 -1 O PHE A 431 N LEU A 421 SHEET 1 F 2 LYS A 561 PRO A 563 0 SHEET 2 F 2 PHE A 576 ASP A 578 -1 O VAL A 577 N VAL A 562 SSBOND 1 CYS A 6 CYS A 167 1555 1555 2.91 SSBOND 2 CYS A 15 CYS A 28 1555 1555 2.01 SSBOND 3 CYS A 129 CYS A 139 1555 1555 2.03 SSBOND 4 CYS A 133 CYS A 157 1555 1555 2.44 SSBOND 5 CYS A 237 CYS A 248 1555 1555 2.02 SSBOND 6 CYS A 456 CYS A 513 1555 1555 2.03 SSBOND 7 CYS A 554 CYS A 579 1555 1555 2.04 LINK ND2 ASN A 95 C1 NAG B 1 1555 1555 1.45 LINK OD2 ASP A 108 CMD HEM A 601 1555 1555 1.50 LINK C PRO A 197 N SEP A 198 1555 1555 1.33 LINK C SEP A 198 N LEU A 199 1555 1555 1.31 LINK ND2 ASN A 205 C1 NAG C 1 1555 1555 1.46 LINK ND2 ASN A 241 C1 NAG D 1 1555 1555 1.46 LINK OE2 GLU A 258 CMB HEM A 601 1555 1555 1.51 LINK ND2 ASN A 332 C1 NAG E 1 1555 1555 1.46 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.39 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.38 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.40 LINK O4 NAG D 2 C1 MAN D 3 1555 1555 1.40 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.41 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.39 LINK O4 BMA E 3 C1 MAN E 4 1555 1555 1.39 LINK O ASP A 110 CA CA A 604 1555 1555 2.48 LINK OD1 ASP A 110 CA CA A 604 1555 1555 2.48 LINK O THR A 184 CA CA A 604 1555 1555 2.79 LINK OG1 THR A 184 CA CA A 604 1555 1555 2.66 LINK O PHE A 186 CA CA A 604 1555 1555 2.60 LINK OD1 ASP A 188 CA CA A 604 1555 1555 2.69 LINK OG SER A 190 CA CA A 604 1555 1555 2.58 LINK NE2 HIS A 351 FE HEM A 601 1555 1555 2.22 CISPEP 1 TYR A 572 PRO A 573 0 0.31 CRYST1 54.453 80.665 77.796 90.00 102.87 90.00 P 1 21 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 0.018364 0.000000 0.004195 0.00000 SCALE2 0.000000 0.012397 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013185 0.00000