3M8M - Header Asymmetric Unit

HEADER OXIDOREDUCTASE 18-MAR-10 3M8M

TITLE 1.05 A STRUCTURE OF MANGANESE-FREE MANGANESE PEROXIDASE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: MANGANESE PEROXIDASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MNP-1, MNP1, MANGANESE PEROXIDASE ISOZYME 1, PEROXIDASE COMPND 5 MANGANESE-DEPENDENT 1, PEROXIDASE MANGANESE-DEPENDENT I; COMPND 6 EC: 1.11.1.13

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PHANEROCHAETE CHRYSOSPORIUM; SOURCE 3 ORGANISM_COMMON: WHITE-ROT FUNGUS; SOURCE 4 ORGANISM_TAXID: 5306

KEYWDS PEROXIDASE, HEME, MN(II)-BINDING SITE, CA(II)-BINDING SITE, KEYWDS 2 GLYCOSYLATION, HIGH RESOLUTION, CALCIUM, DISULFIDE BOND, KEYWDS 3 GLYCOPROTEIN, HYDROGEN PEROXIDE, IRON, LIGNIN DEGRADATION, KEYWDS 4 MANGANESE, METAL-BINDING, OXIDOREDUCTASE, SECRETED

EXPDTA X-RAY DIFFRACTION

AUTHOR M.SUNDARAMOORTHY,M.H.GOLD,T.L.POULOS

REVDAT 2 26-MAY-10 3M8M 1 JRNL REVDAT 1 14-APR-10 3M8M 0

JRNL AUTH M.SUNDARAMOORTHY,M.H.GOLD,T.L.POULOS JRNL TITL ULTRAHIGH (0.93A) RESOLUTION STRUCTURE OF MANGANESE JRNL TITL 2 PEROXIDASE FROM PHANEROCHAETE CHRYSOSPORIUM: IMPLICATIONS JRNL TITL 3 FOR THE CATALYTIC MECHANISM. JRNL REF J.INORG.BIOCHEM. V. 104 683 2010 JRNL REFN ISSN 0162-0134 JRNL PMID 20356630 JRNL DOI 10.1016/J.JINORGBIO.2010.02.011

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.SUNDARAMOORTHY,H.L.YOUNGS,M.H.GOLD,T.L.POULOS REMARK 1 TITL HIGH-RESOLUTION CRYSTAL STRUCTURE OF MANGANESE PEROXIDASE: REMARK 1 TITL 2 SUBSTRATE AND INHIBITOR COMPLEXES. REMARK 1 REF BIOCHEMISTRY V. 44 6463 2005 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 15850380 REMARK 1 DOI 10.1021/BI047318E REMARK 1 REFERENCE 2 REMARK 1 AUTH M.SUNDARAMOORTHY,K.KISHI,M.H.GOLD,T.L.POULOS REMARK 1 TITL THE CRYSTAL STRUCTURE OF MANGANESE PEROXIDASE FROM REMARK 1 TITL 2 PHANEROCHAETE CHRYSOSPORIUM AT 2.06-A RESOLUTION. REMARK 1 REF J.BIOL.CHEM. V. 269 32759 1994 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 7806497

REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.7 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.116 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.116 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.139 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 3352 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 156881 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.111 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 144728 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2623 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 561 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 30135 REMARK 3 NUMBER OF RESTRAINTS : 36425 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 ANGLE DISTANCES (A) : 0.038 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.029 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.131 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.154 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.058 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.005 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.051 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.097 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-228 REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF) BY 0.023

REMARK 4 REMARK 4 3M8M COMPLIES WITH FORMAT V. 3.20, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-MAR-10. REMARK 100 THE RCSB ID CODE IS RCSB058245.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-DEC-97 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : MAR IMAGING PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 161090 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 160.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.21000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: AB INITIO REMARK 200 SOFTWARE USED: DIFFERENCE FOURIER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 8000, 0.2 M AMMONIUM SULFATE, REMARK 280 0.1 M SODIUM CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 80.28500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.65000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 80.28500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.65000 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 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 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 ASN A 217 CG OD1 ND2 REMARK 470 MET A 346 CG SD CE

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 26 CD GLU A 26 OE2 0.067 REMARK 500 ALA A 357 C ALA A 357 O 0.231 REMARK 500 ALA A 357 C ALA A 357 OXT 0.296 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 8 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 8 NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG A 42 CD - NE - CZ ANGL. DEV. = 11.5 DEGREES REMARK 500 THR A 44 OG1 - CB - CG2 ANGL. DEV. = 29.6 DEGREES REMARK 500 THR A 44 CA - CB - CG2 ANGL. DEV. = -13.4 DEGREES REMARK 500 ARG A 53 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 GLN A 183 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 PHE A 264 CB - CG - CD1 ANGL. DEV. = 4.2 DEGREES REMARK 500 GLN A 330 OE1 - CD - NE2 ANGL. DEV. = 14.2 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 CYS A 33 51.73 -91.83 REMARK 500 VAL A 73 -87.90 -100.64 REMARK 500 SER A 309 -1.32 89.34 REMARK 500 CYS A 348 60.57 -156.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLN A 262 24.9 L L OUTSIDE RANGE 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 A1156 DISTANCE = 5.63 ANGSTROMS REMARK 525 HOH A1500 DISTANCE = 5.63 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 HEM A 396 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 173 NE2 REMARK 620 2 HEM A 396 NA 96.6 REMARK 620 3 HEM A 396 NB 92.8 89.6 REMARK 620 4 HEM A 396 NC 97.1 166.3 90.5 REMARK 620 5 HEM A 396 ND 98.0 89.3 169.2 88.1 REMARK 620 6 HOH A1137 O 173.3 79.7 81.6 86.7 87.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 372 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 47 OD2 REMARK 620 2 HOH A1127 O 173.8 REMARK 620 3 HOH A1085 O 91.1 86.4 REMARK 620 4 ASP A 64 OD1 84.4 95.1 151.3 REMARK 620 5 GLY A 62 O 97.0 88.6 138.6 70.1 REMARK 620 6 ASP A 47 O 81.7 103.0 73.6 133.1 67.6 REMARK 620 7 SER A 66 OG 89.6 84.2 75.6 76.0 144.6 147.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 371 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 174 O REMARK 620 2 THR A 193 O 80.7 REMARK 620 3 ASP A 191 OD2 93.4 127.1 REMARK 620 4 ASP A 198 OD1 142.1 127.0 88.2 REMARK 620 5 SER A 174 OG 72.6 144.4 78.3 70.7 REMARK 620 6 THR A 196 O 83.4 77.6 154.4 79.2 76.4 REMARK 620 7 THR A 193 OG1 146.0 69.6 91.8 71.6 141.2 105.1 REMARK 620 8 ASP A 191 OD1 79.5 76.3 51.1 127.8 119.9 150.8 77.8 REMARK 620 N 1 2 3 4 5 6 7

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN A 364 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 372 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 391 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 392 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 396

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YYD RELATED DB: PDB REMARK 900 RELATED ID: 1MNP RELATED DB: PDB REMARK 900 RELATED ID: 1YZP RELATED DB: PDB REMARK 900 RELATED ID: 3M5Q RELATED DB: PDB

DBREF 3M8M A 1 357 UNP Q02567 PEM1_PHACH 22 378

SEQRES 1 A 357 ALA VAL CYS PRO ASP GLY THR ARG VAL SER HIS ALA ALA SEQRES 2 A 357 CYS CYS ALA PHE ILE PRO LEU ALA GLN ASP LEU GLN GLU SEQRES 3 A 357 THR ILE PHE GLN ASN GLU CYS GLY GLU ASP ALA HIS GLU SEQRES 4 A 357 VAL ILE ARG LEU THR PHE HIS ASP ALA ILE ALA ILE SER SEQRES 5 A 357 ARG SER GLN GLY PRO LYS ALA GLY GLY GLY ALA ASP GLY SEQRES 6 A 357 SER MET LEU LEU PHE PRO THR VAL GLU PRO ASN PHE SER SEQRES 7 A 357 ALA ASN ASN GLY ILE ASP ASP SER VAL ASN ASN LEU ILE SEQRES 8 A 357 PRO PHE MET GLN LYS HIS ASN THR ILE SER ALA ALA ASP SEQRES 9 A 357 LEU VAL GLN PHE ALA GLY ALA VAL ALA LEU SER ASN CYS SEQRES 10 A 357 PRO GLY ALA PRO ARG LEU GLU PHE LEU ALA GLY ARG PRO SEQRES 11 A 357 ASN LYS THR ILE ALA ALA VAL ASP GLY LEU ILE PRO GLU SEQRES 12 A 357 PRO GLN ASP SER VAL THR LYS ILE LEU GLN ARG PHE GLU SEQRES 13 A 357 ASP ALA GLY GLY PHE THR PRO PHE GLU VAL VAL SER LEU SEQRES 14 A 357 LEU ALA SER HIS SER VAL ALA ARG ALA ASP LYS VAL ASP SEQRES 15 A 357 GLN THR ILE ASP ALA ALA PRO PHE ASP SER THR PRO PHE SEQRES 16 A 357 THR PHE ASP THR GLN VAL PHE LEU GLU VAL LEU LEU LYS SEQRES 17 A 357 GLY VAL GLY PHE PRO GLY SER ALA ASN ASN THR GLY GLU SEQRES 18 A 357 VAL ALA SER PRO LEU PRO LEU GLY SER GLY SER ASP THR SEQRES 19 A 357 GLY GLU MET ARG LEU GLN SER ASP PHE ALA LEU ALA HIS SEQRES 20 A 357 ASP PRO ARG THR ALA CYS ILE TRP GLN GLY PHE VAL ASN SEQRES 21 A 357 GLU GLN ALA PHE MET ALA ALA SER PHE ARG ALA ALA MET SEQRES 22 A 357 SER LYS LEU ALA VAL LEU GLY HIS ASN ARG ASN SER LEU SEQRES 23 A 357 ILE ASP CYS SER ASP VAL VAL PRO VAL PRO LYS PRO ALA SEQRES 24 A 357 THR GLY GLN PRO ALA MET PHE PRO ALA SER THR GLY PRO SEQRES 25 A 357 GLN ASP LEU GLU LEU SER CYS PRO SER GLU ARG PHE PRO SEQRES 26 A 357 THR LEU THR THR GLN PRO GLY ALA SER GLN SER LEU ILE SEQRES 27 A 357 ALA HIS CYS PRO ASP GLY SER MET SER CYS PRO GLY VAL SEQRES 28 A 357 GLN PHE ASN GLY PRO ALA

MODRES 3M8M ASN A 131 ASN GLYCOSYLATION SITE MODRES 3M8M SER A 336 SER GLYCOSYLATION SITE

HET NAG A 361 14 HET NAG A 362 14 HET MAN A 364 11 HET CA A 371 1 HET CA A 372 1 HET GOL A 391 6 HET GOL A 392 6 HET HEM A 396 43

HETNAM NAG N-ACETYL-D-GLUCOSAMINE HETNAM MAN ALPHA-D-MANNOSE HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE

HETSYN HEM HEME

FORMUL 2 NAG 2(C8 H15 N O6) FORMUL 3 MAN C6 H12 O6 FORMUL 4 CA 2(CA 2+) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 8 HEM C34 H32 FE N4 O4 FORMUL 9 HOH *561(H2 O)

HELIX 1 1 HIS A 11 CYS A 15 5 5 HELIX 2 2 ALA A 16 ILE A 28 1 13 HELIX 3 3 GLY A 34 ALA A 50 1 17 HELIX 4 4 GLY A 56 GLY A 60 5 5 HELIX 5 5 GLY A 65 PHE A 70 1 6 HELIX 6 6 VAL A 73 ASN A 81 5 9 HELIX 7 7 ILE A 83 HIS A 97 1 15 HELIX 8 8 SER A 101 ASN A 116 1 16 HELIX 9 9 SER A 147 GLY A 160 1 14 HELIX 10 10 THR A 162 LEU A 170 1 9 HELIX 11 11 ALA A 171 VAL A 175 5 5 HELIX 12 12 THR A 199 LEU A 206 1 8 HELIX 13 13 GLN A 240 ASP A 248 1 9 HELIX 14 14 THR A 251 PHE A 258 1 8 HELIX 15 15 GLU A 261 ALA A 277 1 17 HELIX 16 16 ASN A 282 LEU A 286 5 5 HELIX 17 17 SER A 290 VAL A 293 5 4 HELIX 18 18 GLY A 311 LEU A 315 5 5

SHEET 1 A 2 LEU A 126 ALA A 127 0 SHEET 2 A 2 ILE A 287 ASP A 288 -1 O ILE A 287 N ALA A 127 SHEET 1 B 2 ARG A 177 ALA A 178 0 SHEET 2 B 2 ALA A 188 PRO A 189 -1 O ALA A 188 N ALA A 178 SHEET 1 C 2 GLU A 221 VAL A 222 0 SHEET 2 C 2 ARG A 238 LEU A 239 -1 O ARG A 238 N VAL A 222

SSBOND 1 CYS A 3 CYS A 15 1555 1555 2.07 SSBOND 2 CYS A 14 CYS A 289 1555 1555 2.04 SSBOND 3 CYS A 33 CYS A 117 1555 1555 2.04 SSBOND 4 CYS A 253 CYS A 319 1555 1555 2.07 SSBOND 5 CYS A 341 CYS A 348 1555 1555 2.05

LINK O4 NAG A 361 C1 NAG A 362 1555 1555 1.41 LINK ND2 ASN A 131 C1 NAG A 361 1555 1555 1.44 LINK NE2 HIS A 173 FE HEM A 396 1555 1555 2.11 LINK OD2 ASP A 47 CA CA A 372 1555 1555 2.31 LINK CA CA A 372 O HOH A1127 1555 1555 2.35 LINK O SER A 174 CA CA A 371 1555 1555 2.36 LINK FE HEM A 396 O HOH A1137 1555 1555 2.37 LINK O THR A 193 CA CA A 371 1555 1555 2.37 LINK CA CA A 372 O HOH A1085 1555 1555 2.39 LINK OD1 ASP A 64 CA CA A 372 1555 1555 2.39 LINK OD2 ASP A 191 CA CA A 371 1555 1555 2.42 LINK O GLY A 62 CA CA A 372 1555 1555 2.44 LINK O ASP A 47 CA CA A 372 1555 1555 2.44 LINK OD1 ASP A 198 CA CA A 371 1555 1555 2.46 LINK OG SER A 174 CA CA A 371 1555 1555 2.47 LINK OG SER A 66 CA CA A 372 1555 1555 2.49 LINK O THR A 196 CA CA A 371 1555 1555 2.49 LINK OG1 THR A 193 CA CA A 371 1555 1555 2.50 LINK OD1 ASP A 191 CA CA A 371 1555 1555 2.64 LINK OG SER A 336 C1 MAN A 364 1555 1555 1.40

SITE 1 AC1 9 ASN A 98 THR A 99 ASN A 131 NAG A 362 SITE 2 AC1 9 HOH A1090 HOH A1117 HOH A1242 HOH A1303 SITE 3 AC1 9 HOH A1487 SITE 1 AC2 7 MET A 94 GLN A 95 ASN A 98 NAG A 361 SITE 2 AC2 7 HOH A1228 HOH A1451 HOH A1572 SITE 1 AC3 7 HIS A 11 PRO A 331 GLY A 332 ALA A 333 SITE 2 AC3 7 SER A 334 GLN A 335 SER A 336 SITE 1 AC4 5 SER A 174 ASP A 191 THR A 193 THR A 196 SITE 2 AC4 5 ASP A 198 SITE 1 AC5 6 ASP A 47 GLY A 62 ASP A 64 SER A 66 SITE 2 AC5 6 HOH A1085 HOH A1127 SITE 1 AC6 7 ASP A 23 THR A 27 LYS A 96 GLU A 156 SITE 2 AC6 7 HOH A1092 HOH A1289 HOH A1554 SITE 1 AC7 8 LEU A 69 PHE A 70 THR A 72 LYS A 132 SITE 2 AC7 8 THR A 133 HOH A1117 HOH A1196 HOH A1422 SITE 1 AC8 27 GLU A 35 HIS A 38 GLU A 39 ARG A 42 SITE 2 AC8 27 PHE A 45 GLU A 143 PRO A 144 ILE A 151 SITE 3 AC8 27 LEU A 169 LEU A 170 SER A 172 HIS A 173 SITE 4 AC8 27 ALA A 176 ARG A 177 ALA A 178 ASP A 179 SITE 5 AC8 27 LYS A 180 VAL A 181 PHE A 190 SER A 241 SITE 6 AC8 27 HOH A1074 HOH A1108 HOH A1137 HOH A1191 SITE 7 AC8 27 HOH A1225 HOH A1585 HOH A1588

CRYST1 160.570 45.300 52.830 90.00 97.31 90.00 C 1 2 1 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 0.006228 0.000000 0.000799 0.00000

SCALE2 0.000000 0.022075 0.000000 0.00000

SCALE3 0.000000 0.000000 0.019084 0.00000