HEADER ELECTRON TRANSPORT 06-MAY-22 7ZS8 TITLE MIXED-VALENCE, ACTIVE FORM, OF CYTOCHROME C PEROXIDASE FROM OBLIGATE TITLE 2 HUMAN PATHOGENIC BACTERIUM NEISSERIA GONORRHOEAE AT 1.4 ANGSTROM TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME-C PEROXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTEIN CCPR; COMPND 5 EC: 1.11.1.5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE; SOURCE 3 ORGANISM_TAXID: 485; SOURCE 4 GENE: CCPA, E8M64_00570, ERS135259_00627, NCTC13484_01765; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NEISSERIA GONORRHOEAE, BACTERIAL PEROXIDASE, ROS DETOXIFICATION, KEYWDS 2 ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR A.L.CARVALHO,M.J.ROMAO,S.PAULETA,C.NOBREGA REVDAT 3 07-FEB-24 7ZS8 1 REMARK REVDAT 2 26-APR-23 7ZS8 1 JRNL REVDAT 1 12-APR-23 7ZS8 0 JRNL AUTH C.S.NOBREGA,A.L.CARVALHO,M.J.ROMAO,S.R.PAULETA JRNL TITL STRUCTURAL CHARACTERIZATION OF NEISSERIA GONORRHOEAE JRNL TITL 2 BACTERIAL PEROXIDASE-INSIGHTS INTO THE CATALYTIC CYCLE OF JRNL TITL 3 BACTERIAL PEROXIDASES. JRNL REF INT J MOL SCI V. 24 2023 JRNL REFN ESSN 1422-0067 JRNL PMID 37047219 JRNL DOI 10.3390/IJMS24076246 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 118011 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6220 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8622 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2760 REMARK 3 BIN FREE R VALUE SET COUNT : 477 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5050 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 176 REMARK 3 SOLVENT ATOMS : 576 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : -1.55000 REMARK 3 B33 (A**2) : 1.77000 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): 0.070 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.053 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.368 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5438 ; 0.012 ; 0.018 REMARK 3 BOND LENGTHS OTHERS (A): 5040 ; 0.001 ; 0.019 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7423 ; 1.972 ; 1.920 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11646 ; 1.193 ; 2.740 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 666 ; 5.726 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 276 ;36.305 ;23.841 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 897 ;11.688 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;19.409 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 759 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6287 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1241 ; 0.012 ; 0.020 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): 2624 ; 1.784 ; 1.667 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2623 ; 1.781 ; 1.666 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3276 ; 2.322 ; 2.501 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3277 ; 2.322 ; 2.502 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2814 ; 3.027 ; 1.905 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2812 ; 3.028 ; 1.905 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4138 ; 4.261 ; 2.738 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6529 ; 4.920 ;20.533 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6383 ; 4.864 ;20.071 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7ZS8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1292122827. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-16 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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 124619 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 39.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.06560 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: 6FU3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.0, 30 % 5/4 PO/OH, 2 MM REMARK 280 CACL2, 10 MM SODIUM ASCORBATE AND 0.2 MM FMN, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 278K 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 39.42100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.86550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.57200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.86550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.42100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.57200 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -167.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 B 1 REMARK 465 GLY B 2 REMARK 465 GLU B 325 REMARK 465 SER B 326 REMARK 465 LYS B 327 REMARK 465 PRO B 328 REMARK 465 ASP B 329 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 OE1 GLN B 16 O HOH B 501 1.92 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 ASP A 274 CB - CG - OD1 ANGL. DEV. = 6.4 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 97 162.98 81.18 REMARK 500 GLU A 118 -99.72 -110.97 REMARK 500 ASP A 148 83.34 -155.31 REMARK 500 PHE A 265 173.28 73.65 REMARK 500 LEU A 320 55.54 -117.30 REMARK 500 PHE B 97 157.70 76.95 REMARK 500 GLU B 118 -101.71 -111.17 REMARK 500 ASP B 148 86.68 -165.47 REMARK 500 PHE B 265 173.61 72.55 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 HEC A 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 59 NE2 REMARK 620 2 HEC A 401 NA 90.8 REMARK 620 3 HEC A 401 NB 90.6 88.3 REMARK 620 4 HEC A 401 NC 90.1 179.0 91.2 REMARK 620 5 HEC A 401 ND 94.1 91.7 175.3 88.7 REMARK 620 6 HOH A 569 O 175.5 92.9 92.0 86.2 83.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 83 OD1 REMARK 620 2 THR A 261 O 149.4 REMARK 620 3 PRO A 263 O 96.5 83.2 REMARK 620 4 HOH A 535 O 70.4 139.4 83.8 REMARK 620 5 HOH A 539 O 135.5 72.7 105.2 73.9 REMARK 620 6 HOH A 605 O 84.9 89.1 167.1 108.6 82.3 REMARK 620 7 HOH A 644 O 78.4 71.2 83.5 144.6 141.5 84.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 155 OD1 REMARK 620 2 THR A 158 OG1 126.3 REMARK 620 3 HOH A 652 O 140.3 66.5 REMARK 620 4 HOH A 763 O 122.3 97.7 87.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC A 402 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 204 NE2 REMARK 620 2 HEC A 402 NA 93.0 REMARK 620 3 HEC A 402 NB 86.1 90.3 REMARK 620 4 HEC A 402 NC 89.4 177.5 89.2 REMARK 620 5 HEC A 402 ND 98.3 90.4 175.5 89.9 REMARK 620 6 MET A 280 SD 171.6 89.8 85.9 87.7 89.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC B 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 59 NE2 REMARK 620 2 HEC B 401 NA 88.4 REMARK 620 3 HEC B 401 NB 90.2 89.9 REMARK 620 4 HEC B 401 NC 93.8 177.7 90.6 REMARK 620 5 HEC B 401 ND 94.4 90.4 175.5 88.9 REMARK 620 6 HOH B 571 O 177.0 92.5 92.7 85.2 82.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 83 OD1 REMARK 620 2 THR B 261 O 151.1 REMARK 620 3 PRO B 263 O 96.3 83.1 REMARK 620 4 HOH B 537 O 70.7 137.5 84.1 REMARK 620 5 HOH B 619 O 135.2 71.7 105.0 72.9 REMARK 620 6 HOH B 625 O 85.0 89.6 167.2 108.2 82.5 REMARK 620 7 HOH B 667 O 79.4 71.8 82.4 145.5 141.5 85.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC B 402 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 204 NE2 REMARK 620 2 HEC B 402 NA 92.7 REMARK 620 3 HEC B 402 NB 87.7 89.9 REMARK 620 4 HEC B 402 NC 89.9 177.3 89.4 REMARK 620 5 HEC B 402 ND 95.6 91.0 176.6 89.5 REMARK 620 6 MET B 280 SD 173.2 91.2 86.7 86.1 89.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 272 OE1 REMARK 620 2 HOH B 730 O 132.3 REMARK 620 3 HOH B 789 O 118.5 60.7 REMARK 620 N 1 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6FU3 RELATED DB: PDB DBREF1 7ZS8 A 3 329 UNP A0A1D3HIT0_NEIGO DBREF2 7ZS8 A A0A1D3HIT0 59 385 DBREF1 7ZS8 B 3 329 UNP A0A1D3HIT0_NEIGO DBREF2 7ZS8 B A0A1D3HIT0 59 385 SEQADV 7ZS8 MET A 1 UNP A0A1D3HIT INITIATING METHIONINE SEQADV 7ZS8 GLY A 2 UNP A0A1D3HIT EXPRESSION TAG SEQADV 7ZS8 MET B 1 UNP A0A1D3HIT INITIATING METHIONINE SEQADV 7ZS8 GLY B 2 UNP A0A1D3HIT EXPRESSION TAG SEQRES 1 A 329 MET GLY GLU ASP GLN ASP LEU LEU LYS ARG ALA GLN GLY SEQRES 2 A 329 VAL PHE GLN PRO LEU PRO THR VAL GLU GLU MET GLN LYS SEQRES 3 A 329 ILE ARG PRO PHE THR GLU GLU GLN VAL LYS LEU GLY HIS SEQRES 4 A 329 GLN LEU TRP TYR GLU PRO ARG LEU SER LYS GLY ASN THR SEQRES 5 A 329 VAL SER CYS ASN SER CYS HIS ASN LEU ALA SER ALA GLY SEQRES 6 A 329 VAL ASP ASN MET PRO THR SER GLN GLY HIS LYS GLY GLN SEQRES 7 A 329 PHE GLY GLY ARG ASN SER PRO THR ALA LEU ASN ALA ALA SEQRES 8 A 329 LEU LEU GLY SER GLN PHE TRP ASP GLY ARG ALA ALA ASP SEQRES 9 A 329 VAL GLU GLU GLN ALA GLY GLY PRO LEU VAL ASN PRO VAL SEQRES 10 A 329 GLU MET ALA ASN ASP SER GLN GLU ALA ALA ALA ALA LYS SEQRES 11 A 329 ILE ALA LYS VAL PRO GLU TYR GLN GLU MET PHE LYS LYS SEQRES 12 A 329 ALA PHE PRO GLU ASP GLY ALA VAL SER PHE LYS ASN ILE SEQRES 13 A 329 THR THR ALA LEU GLY ALA PHE GLU ARG THR LEU LEU THR SEQRES 14 A 329 PRO THR LYS TRP ASP GLU TYR LEU LYS GLY ASN VAL ASN SEQRES 15 A 329 ALA LEU SER GLU GLN GLU ARG LYS GLY VAL ARG ALA PHE SEQRES 16 A 329 MET ASP ASN GLY CYS ILE ALA CYS HIS ASN GLY VAL ASN SEQRES 17 A 329 LEU GLY GLY THR THR PHE GLN LYS PHE GLY LEU VAL GLN SEQRES 18 A 329 GLY PRO TYR TRP LYS PHE ILE GLU ASP PRO LYS ARG ASP SEQRES 19 A 329 LYS GLY ARG ALA ASP VAL THR LYS LYS THR GLU ASP GLU SEQRES 20 A 329 PHE PHE PHE ARG VAL PRO GLY LEU ARG ASN VAL ALA LYS SEQRES 21 A 329 THR TYR PRO TYR PHE HIS ASN GLY SER VAL TRP GLU LEU SEQRES 22 A 329 ASP LYS ALA VAL THR ILE MET GLY LYS ALA GLN LEU GLY SEQRES 23 A 329 LYS ASP ILE PRO LYS GLU ASP VAL ASP ASN ILE VAL VAL SEQRES 24 A 329 PHE LEU ASN ALA LEU SER GLY ASN VAL SER GLU SER ALA SEQRES 25 A 329 ARG THR MET PRO GLU LEU PRO LEU THR ALA PRO MET GLU SEQRES 26 A 329 SER LYS PRO ASP SEQRES 1 B 329 MET GLY GLU ASP GLN ASP LEU LEU LYS ARG ALA GLN GLY SEQRES 2 B 329 VAL PHE GLN PRO LEU PRO THR VAL GLU GLU MET GLN LYS SEQRES 3 B 329 ILE ARG PRO PHE THR GLU GLU GLN VAL LYS LEU GLY HIS SEQRES 4 B 329 GLN LEU TRP TYR GLU PRO ARG LEU SER LYS GLY ASN THR SEQRES 5 B 329 VAL SER CYS ASN SER CYS HIS ASN LEU ALA SER ALA GLY SEQRES 6 B 329 VAL ASP ASN MET PRO THR SER GLN GLY HIS LYS GLY GLN SEQRES 7 B 329 PHE GLY GLY ARG ASN SER PRO THR ALA LEU ASN ALA ALA SEQRES 8 B 329 LEU LEU GLY SER GLN PHE TRP ASP GLY ARG ALA ALA ASP SEQRES 9 B 329 VAL GLU GLU GLN ALA GLY GLY PRO LEU VAL ASN PRO VAL SEQRES 10 B 329 GLU MET ALA ASN ASP SER GLN GLU ALA ALA ALA ALA LYS SEQRES 11 B 329 ILE ALA LYS VAL PRO GLU TYR GLN GLU MET PHE LYS LYS SEQRES 12 B 329 ALA PHE PRO GLU ASP GLY ALA VAL SER PHE LYS ASN ILE SEQRES 13 B 329 THR THR ALA LEU GLY ALA PHE GLU ARG THR LEU LEU THR SEQRES 14 B 329 PRO THR LYS TRP ASP GLU TYR LEU LYS GLY ASN VAL ASN SEQRES 15 B 329 ALA LEU SER GLU GLN GLU ARG LYS GLY VAL ARG ALA PHE SEQRES 16 B 329 MET ASP ASN GLY CYS ILE ALA CYS HIS ASN GLY VAL ASN SEQRES 17 B 329 LEU GLY GLY THR THR PHE GLN LYS PHE GLY LEU VAL GLN SEQRES 18 B 329 GLY PRO TYR TRP LYS PHE ILE GLU ASP PRO LYS ARG ASP SEQRES 19 B 329 LYS GLY ARG ALA ASP VAL THR LYS LYS THR GLU ASP GLU SEQRES 20 B 329 PHE PHE PHE ARG VAL PRO GLY LEU ARG ASN VAL ALA LYS SEQRES 21 B 329 THR TYR PRO TYR PHE HIS ASN GLY SER VAL TRP GLU LEU SEQRES 22 B 329 ASP LYS ALA VAL THR ILE MET GLY LYS ALA GLN LEU GLY SEQRES 23 B 329 LYS ASP ILE PRO LYS GLU ASP VAL ASP ASN ILE VAL VAL SEQRES 24 B 329 PHE LEU ASN ALA LEU SER GLY ASN VAL SER GLU SER ALA SEQRES 25 B 329 ARG THR MET PRO GLU LEU PRO LEU THR ALA PRO MET GLU SEQRES 26 B 329 SER LYS PRO ASP HET HEC A 401 43 HET HEC A 402 43 HET CA A 403 1 HET NA A 404 1 HET HEC B 401 43 HET HEC B 402 43 HET CA B 403 1 HET NA B 404 1 HETNAM HEC HEME C HETNAM CA CALCIUM ION HETNAM NA SODIUM ION FORMUL 3 HEC 4(C34 H34 FE N4 O4) FORMUL 5 CA 2(CA 2+) FORMUL 6 NA 2(NA 1+) FORMUL 11 HOH *576(H2 O) HELIX 1 AA1 GLY A 2 PHE A 15 1 14 HELIX 2 AA2 VAL A 21 ILE A 27 5 7 HELIX 3 AA3 THR A 31 TYR A 43 1 13 HELIX 4 AA4 GLU A 44 SER A 48 5 5 HELIX 5 AA5 SER A 54 HIS A 59 1 6 HELIX 6 AA6 GLY A 74 GLN A 78 5 5 HELIX 7 AA7 ASN A 89 LEU A 93 5 5 HELIX 8 AA8 ASP A 104 ASN A 115 1 12 HELIX 9 AA9 SER A 123 LYS A 130 1 8 HELIX 10 AB1 VAL A 134 PHE A 145 1 12 HELIX 11 AB2 SER A 152 ARG A 165 1 14 HELIX 12 AB3 THR A 171 LYS A 178 1 8 HELIX 13 AB4 ASN A 180 LEU A 184 5 5 HELIX 14 AB5 SER A 185 ASN A 198 1 14 HELIX 15 AB6 GLY A 199 CYS A 203 5 5 HELIX 16 AB7 PRO A 223 PHE A 227 5 5 HELIX 17 AB8 ARG A 237 LYS A 242 1 6 HELIX 18 AB9 LYS A 243 GLU A 247 5 5 HELIX 19 AC1 ASN A 257 THR A 261 5 5 HELIX 20 AC2 GLU A 272 GLY A 286 1 15 HELIX 21 AC3 PRO A 290 ALA A 303 1 14 HELIX 22 AC4 SER A 309 THR A 314 1 6 HELIX 23 AC5 ALA A 322 SER A 326 5 5 HELIX 24 AC6 ASP B 4 PHE B 15 1 12 HELIX 25 AC7 VAL B 21 ILE B 27 5 7 HELIX 26 AC8 THR B 31 TYR B 43 1 13 HELIX 27 AC9 GLU B 44 SER B 48 5 5 HELIX 28 AD1 SER B 54 HIS B 59 1 6 HELIX 29 AD2 ASN B 60 ALA B 64 5 5 HELIX 30 AD3 GLY B 74 GLN B 78 5 5 HELIX 31 AD4 ASN B 89 LEU B 93 5 5 HELIX 32 AD5 ASP B 104 ASN B 115 1 12 HELIX 33 AD6 SER B 123 LYS B 133 1 11 HELIX 34 AD7 VAL B 134 PHE B 145 1 12 HELIX 35 AD8 SER B 152 ARG B 165 1 14 HELIX 36 AD9 THR B 171 LYS B 178 1 8 HELIX 37 AE1 ASN B 180 LEU B 184 5 5 HELIX 38 AE2 SER B 185 ASN B 198 1 14 HELIX 39 AE3 GLY B 199 CYS B 203 5 5 HELIX 40 AE4 PRO B 223 PHE B 227 5 5 HELIX 41 AE5 ARG B 237 LYS B 242 1 6 HELIX 42 AE6 LYS B 243 GLU B 247 5 5 HELIX 43 AE7 ASN B 257 THR B 261 5 5 HELIX 44 AE8 GLU B 272 GLY B 286 1 15 HELIX 45 AE9 PRO B 290 ALA B 303 1 14 SHEET 1 AA1 2 PHE A 214 LYS A 216 0 SHEET 2 AA1 2 PHE A 249 ARG A 251 -1 O PHE A 250 N GLN A 215 SHEET 1 AA2 2 PHE B 214 LYS B 216 0 SHEET 2 AA2 2 PHE B 249 ARG B 251 -1 O PHE B 250 N GLN B 215 LINK SG CYS A 55 CAB HEC A 401 1555 1555 1.79 LINK SG CYS A 58 CAC HEC A 401 1555 1555 1.85 LINK SG CYS A 200 CAB HEC A 402 1555 1555 1.71 LINK SG CYS A 203 CAC HEC A 402 1555 1555 1.78 LINK SG CYS B 55 CAB HEC B 401 1555 1555 1.77 LINK SG CYS B 58 CAC HEC B 401 1555 1555 1.83 LINK SG CYS B 200 CAB HEC B 402 1555 1555 1.68 LINK SG CYS B 203 CAC HEC B 402 1555 1555 1.80 LINK NE2 HIS A 59 FE HEC A 401 1555 1555 2.02 LINK OD1 ASN A 83 CA CA A 403 1555 1555 2.35 LINK OD1 ASN A 155 NA NA A 404 1555 1555 2.77 LINK OG1 THR A 158 NA NA A 404 1555 1555 2.88 LINK NE2 HIS A 204 FE HEC A 402 1555 1555 2.02 LINK O THR A 261 CA CA A 403 1555 1555 2.38 LINK O PRO A 263 CA CA A 403 1555 1555 2.35 LINK SD MET A 280 FE HEC A 402 1555 1555 2.31 LINK FE HEC A 401 O HOH A 569 1555 1555 2.08 LINK CA CA A 403 O HOH A 535 1555 1555 2.43 LINK CA CA A 403 O HOH A 539 1555 1555 2.42 LINK CA CA A 403 O HOH A 605 1555 1555 2.36 LINK CA CA A 403 O HOH A 644 1555 1555 2.51 LINK NA NA A 404 O HOH A 652 1555 3454 3.18 LINK NA NA A 404 O HOH A 763 1555 1555 3.18 LINK NE2 HIS B 59 FE HEC B 401 1555 1555 2.01 LINK OD1 ASN B 83 CA CA B 403 1555 1555 2.32 LINK NE2 HIS B 204 FE HEC B 402 1555 1555 2.09 LINK O THR B 261 CA CA B 403 1555 1555 2.36 LINK O PRO B 263 CA CA B 403 1555 1555 2.38 LINK OE1 GLU B 272 NA NA B 404 1555 1555 3.06 LINK SD MET B 280 FE HEC B 402 1555 1555 2.36 LINK FE HEC B 401 O HOH B 571 1555 1555 2.06 LINK CA CA B 403 O HOH B 537 1555 1555 2.45 LINK CA CA B 403 O HOH B 619 1555 1555 2.38 LINK CA CA B 403 O HOH B 625 1555 1555 2.36 LINK CA CA B 403 O HOH B 667 1555 1555 2.52 LINK NA NA B 404 O HOH B 730 1555 1555 2.94 LINK NA NA B 404 O HOH B 789 1555 1555 2.33 CISPEP 1 GLY A 222 PRO A 223 0 3.42 CISPEP 2 TYR A 262 PRO A 263 0 -8.48 CISPEP 3 GLY B 222 PRO B 223 0 -0.34 CISPEP 4 TYR B 262 PRO B 263 0 -8.52 CRYST1 78.842 89.144 89.731 90.00 90.00 90.00 P 21 21 21 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 0.012684 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011218 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011144 0.00000