HEADER ELECTRON TRANSPORT 02-AUG-16 5L31 TITLE CRYSTAL STRUCTURE OF AN ENGINEERED METAL-FREE RIDC1 VARIANT CONTAINING TITLE 2 FIVE DISULFIDE BONDS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SOLUBLE CYTOCHROME B562; COMPND 3 CHAIN: A, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 23-128; COMPND 5 SYNONYM: CYTOCHROME B-562; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SOLUBLE CYTOCHROME B562; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 23-128; COMPND 11 SYNONYM: CYTOCHROME B-562; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: CYBC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 9 ORGANISM_TAXID: 562; SOURCE 10 GENE: CYBC; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENGINEERED PROTEIN, CYTOCHROME, COMPLEX, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR F.A.TEZCAN,L.A.CHURCHFIELD REVDAT 6 15-NOV-23 5L31 1 REMARK REVDAT 5 04-OCT-23 5L31 1 REMARK REVDAT 4 10-MAR-21 5L31 1 COMPND REMARK HET HETNAM REVDAT 4 2 1 HETSYN FORMUL LINK ATOM REVDAT 3 27-NOV-19 5L31 1 REMARK REVDAT 2 13-SEP-17 5L31 1 REMARK REVDAT 1 09-NOV-16 5L31 0 JRNL AUTH L.A.CHURCHFIELD,A.MEDINA-MORALES,J.D.BRODIN,A.PEREZ, JRNL AUTH 2 F.A.TEZCAN JRNL TITL DE NOVO DESIGN OF AN ALLOSTERIC METALLOPROTEIN ASSEMBLY WITH JRNL TITL 2 STRAINED DISULFIDE BONDS. JRNL REF J.AM.CHEM.SOC. V. 138 13163 2016 JRNL REFN ESSN 1520-5126 JRNL PMID 27649076 JRNL DOI 10.1021/JACS.6B08458 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 16402 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 866 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1171 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3222 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 174 REMARK 3 SOLVENT ATOMS : 64 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.29000 REMARK 3 B22 (A**2) : 1.32000 REMARK 3 B33 (A**2) : -1.61000 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): 0.643 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.300 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.245 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.482 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3494 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3209 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4776 ; 1.302 ; 2.013 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7383 ; 0.983 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 414 ; 5.041 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 158 ;46.128 ;26.456 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 570 ;16.997 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;10.030 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 494 ; 0.062 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4042 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 782 ; 0.009 ; 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): 1671 ; 1.809 ; 5.495 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1670 ; 1.807 ; 5.495 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2080 ; 3.051 ; 8.229 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 106 2 REMARK 3 1 B 1 B 106 2 REMARK 3 1 C 1 C 106 2 REMARK 3 1 D 1 D 106 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 908 ; 0.770 ; 0.500 REMARK 3 MEDIUM POSITIONAL 1 B (A): 908 ; 0.740 ; 0.500 REMARK 3 MEDIUM POSITIONAL 1 C (A): 908 ; 0.760 ; 0.500 REMARK 3 MEDIUM POSITIONAL 1 D (A): 908 ; 0.830 ; 0.500 REMARK 3 TIGHT THERMAL 1 A (A**2): 592 ;11.680 ; 0.500 REMARK 3 TIGHT THERMAL 1 B (A**2): 592 ;11.240 ; 0.500 REMARK 3 TIGHT THERMAL 1 C (A**2): 592 ;12.960 ; 0.500 REMARK 3 TIGHT THERMAL 1 D (A**2): 592 ;10.630 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 908 ;11.980 ; 2.000 REMARK 3 MEDIUM THERMAL 1 B (A**2): 908 ;11.440 ; 2.000 REMARK 3 MEDIUM THERMAL 1 C (A**2): 908 ;13.050 ; 2.000 REMARK 3 MEDIUM THERMAL 1 D (A**2): 908 ;10.780 ; 2.000 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 : 1.20 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5L31 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000220282. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 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 : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI (111) AND SI(220) DOUBLE REMARK 200 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17325 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 38.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06700 REMARK 200 FOR THE DATA SET : 14.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.700 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: 4JEA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: DROP CONSISTS OF 1 UL OF 45% MPD, AND REMARK 280 0.1 M BIS TRIS (PH 6.5) MIXED WITH 1.5 UL OF 2.8 MM PROTEIN, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 31.29700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.03150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.76700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.03150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.29700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.76700 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 LYS C 47 REMARK 465 LEU C 48 REMARK 465 GLU C 49 REMARK 465 ASP C 50 REMARK 465 LYS C 51 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 CH2 TRP C 41 O HOH C 309 1.57 REMARK 500 OD2 ASP C 60 NZ LYS C 104 1.72 REMARK 500 CZ2 TRP C 41 O HOH C 309 2.04 REMARK 500 SG CYS C 101 CBC HEC C 201 2.06 REMARK 500 SG CYS C 98 CBB HEC C 201 2.07 REMARK 500 SG CYS D 101 CBC HEC D 201 2.09 REMARK 500 SG CYS D 98 CBB HEC D 201 2.12 REMARK 500 SG CYS B 98 CBB HEC B 201 2.14 REMARK 500 SG CYS A 98 CBB HEC A 201 2.15 REMARK 500 SG CYS B 101 CBC HEC B 201 2.17 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 CYS D 101 CA - CB - SG ANGL. DEV. = 6.7 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 LYS B 83 64.43 -100.77 REMARK 500 LYS C 104 -72.04 -64.82 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 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 7 SD REMARK 620 2 HEC A 201 NA 90.0 REMARK 620 3 HEC A 201 NB 88.6 89.1 REMARK 620 4 HEC A 201 NC 96.9 173.0 89.5 REMARK 620 5 HEC A 201 ND 95.2 90.2 176.1 90.8 REMARK 620 6 HIS A 102 NE2 172.1 84.4 85.8 88.6 90.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC B 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET B 7 SD REMARK 620 2 HEC B 201 NA 88.9 REMARK 620 3 HEC B 201 NB 84.9 89.1 REMARK 620 4 HEC B 201 NC 96.0 173.7 87.5 REMARK 620 5 HEC B 201 ND 98.1 92.9 176.4 90.3 REMARK 620 6 HIS B 102 NE2 169.1 87.0 84.8 87.5 92.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 50 OD1 REMARK 620 2 HOH B 319 O 162.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC C 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET C 7 SD REMARK 620 2 HEC C 201 NA 90.4 REMARK 620 3 HEC C 201 NB 86.9 88.7 REMARK 620 4 HEC C 201 NC 97.1 172.1 89.4 REMARK 620 5 HEC C 201 ND 98.3 91.4 174.9 89.9 REMARK 620 6 HIS C 102 NE2 167.8 81.7 83.8 90.5 91.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC D 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET D 7 SD REMARK 620 2 HEC D 201 NA 95.2 REMARK 620 3 HEC D 201 NB 89.2 89.2 REMARK 620 4 HEC D 201 NC 92.3 172.0 88.2 REMARK 620 5 HEC D 201 ND 94.5 92.3 175.9 89.9 REMARK 620 6 HIS D 102 NE2 174.0 87.4 96.3 85.4 80.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEC A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEC B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide HEM C 201 and CYS C REMARK 800 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide HEM C 201 and CYS C REMARK 800 98 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide HEM D 201 and CYS D REMARK 800 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide HEM D 201 and CYS D REMARK 800 98 DBREF 5L31 A 1 106 UNP P0ABE7 C562_ECOLX 23 128 DBREF 5L31 B 1 106 UNP P0ABE7 C562_ECOLX 23 128 DBREF 5L31 C 1 106 UNP P0ABE7 C562_ECOLX 23 128 DBREF 5L31 D 1 106 UNP P0ABE7 C562_ECOLX 23 128 SEQADV 5L31 ALA A 34 UNP P0ABE7 ARG 56 ENGINEERED MUTATION SEQADV 5L31 CYS A 38 UNP P0ABE7 LEU 60 ENGINEERED MUTATION SEQADV 5L31 TRP A 41 UNP P0ABE7 GLN 63 ENGINEERED MUTATION SEQADV 5L31 SER A 42 UNP P0ABE7 LYS 64 ENGINEERED MUTATION SEQADV 5L31 HIS A 59 UNP P0ABE7 LYS 81 ENGINEERED MUTATION SEQADV 5L31 TRP A 66 UNP P0ABE7 ASP 88 ENGINEERED MUTATION SEQADV 5L31 ILE A 69 UNP P0ABE7 VAL 91 ENGINEERED MUTATION SEQADV 5L31 HIS A 73 UNP P0ABE7 ASP 95 ENGINEERED MUTATION SEQADV 5L31 HIS A 77 UNP P0ABE7 LYS 99 ENGINEERED MUTATION SEQADV 5L31 CYS A 81 UNP P0ABE7 GLU 103 ENGINEERED MUTATION SEQADV 5L31 CYS A 96 UNP P0ABE7 THR 118 ENGINEERED MUTATION SEQADV 5L31 CYS A 98 UNP P0ABE7 ARG 120 ENGINEERED MUTATION SEQADV 5L31 CYS A 101 UNP P0ABE7 TYR 123 ENGINEERED MUTATION SEQADV 5L31 ALA B 34 UNP P0ABE7 ARG 56 ENGINEERED MUTATION SEQADV 5L31 CSO B 38 UNP P0ABE7 LEU 60 ENGINEERED MUTATION SEQADV 5L31 TRP B 41 UNP P0ABE7 GLN 63 ENGINEERED MUTATION SEQADV 5L31 SER B 42 UNP P0ABE7 LYS 64 ENGINEERED MUTATION SEQADV 5L31 HIS B 59 UNP P0ABE7 LYS 81 ENGINEERED MUTATION SEQADV 5L31 TRP B 66 UNP P0ABE7 ASP 88 ENGINEERED MUTATION SEQADV 5L31 ILE B 69 UNP P0ABE7 VAL 91 ENGINEERED MUTATION SEQADV 5L31 HIS B 73 UNP P0ABE7 ASP 95 ENGINEERED MUTATION SEQADV 5L31 HIS B 77 UNP P0ABE7 LYS 99 ENGINEERED MUTATION SEQADV 5L31 CYS B 81 UNP P0ABE7 GLU 103 ENGINEERED MUTATION SEQADV 5L31 CYS B 96 UNP P0ABE7 THR 118 ENGINEERED MUTATION SEQADV 5L31 CYS B 98 UNP P0ABE7 ARG 120 ENGINEERED MUTATION SEQADV 5L31 CYS B 101 UNP P0ABE7 TYR 123 ENGINEERED MUTATION SEQADV 5L31 ALA C 34 UNP P0ABE7 ARG 56 ENGINEERED MUTATION SEQADV 5L31 CYS C 38 UNP P0ABE7 LEU 60 ENGINEERED MUTATION SEQADV 5L31 TRP C 41 UNP P0ABE7 GLN 63 ENGINEERED MUTATION SEQADV 5L31 SER C 42 UNP P0ABE7 LYS 64 ENGINEERED MUTATION SEQADV 5L31 HIS C 59 UNP P0ABE7 LYS 81 ENGINEERED MUTATION SEQADV 5L31 TRP C 66 UNP P0ABE7 ASP 88 ENGINEERED MUTATION SEQADV 5L31 ILE C 69 UNP P0ABE7 VAL 91 ENGINEERED MUTATION SEQADV 5L31 HIS C 73 UNP P0ABE7 ASP 95 ENGINEERED MUTATION SEQADV 5L31 HIS C 77 UNP P0ABE7 LYS 99 ENGINEERED MUTATION SEQADV 5L31 CYS C 81 UNP P0ABE7 GLU 103 ENGINEERED MUTATION SEQADV 5L31 CYS C 96 UNP P0ABE7 THR 118 ENGINEERED MUTATION SEQADV 5L31 CYS C 98 UNP P0ABE7 ARG 120 ENGINEERED MUTATION SEQADV 5L31 CYS C 101 UNP P0ABE7 TYR 123 ENGINEERED MUTATION SEQADV 5L31 ALA D 34 UNP P0ABE7 ARG 56 ENGINEERED MUTATION SEQADV 5L31 CYS D 38 UNP P0ABE7 LEU 60 ENGINEERED MUTATION SEQADV 5L31 TRP D 41 UNP P0ABE7 GLN 63 ENGINEERED MUTATION SEQADV 5L31 SER D 42 UNP P0ABE7 LYS 64 ENGINEERED MUTATION SEQADV 5L31 HIS D 59 UNP P0ABE7 LYS 81 ENGINEERED MUTATION SEQADV 5L31 TRP D 66 UNP P0ABE7 ASP 88 ENGINEERED MUTATION SEQADV 5L31 ILE D 69 UNP P0ABE7 VAL 91 ENGINEERED MUTATION SEQADV 5L31 HIS D 73 UNP P0ABE7 ASP 95 ENGINEERED MUTATION SEQADV 5L31 HIS D 77 UNP P0ABE7 LYS 99 ENGINEERED MUTATION SEQADV 5L31 CYS D 81 UNP P0ABE7 GLU 103 ENGINEERED MUTATION SEQADV 5L31 CYS D 96 UNP P0ABE7 THR 118 ENGINEERED MUTATION SEQADV 5L31 CYS D 98 UNP P0ABE7 ARG 120 ENGINEERED MUTATION SEQADV 5L31 CYS D 101 UNP P0ABE7 TYR 123 ENGINEERED MUTATION SEQRES 1 A 106 ALA ASP LEU GLU ASP ASN MET GLU THR LEU ASN ASP ASN SEQRES 2 A 106 LEU LYS VAL ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL SEQRES 3 A 106 LYS ASP ALA LEU THR LYS MET ALA ALA ALA ALA CYS ASP SEQRES 4 A 106 ALA TRP SER ALA THR PRO PRO LYS LEU GLU ASP LYS SER SEQRES 5 A 106 PRO ASP SER PRO GLU MET HIS ASP PHE ARG HIS GLY PHE SEQRES 6 A 106 TRP ILE LEU ILE GLY GLN ILE HIS ASP ALA LEU HIS LEU SEQRES 7 A 106 ALA ASN CYS GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA SEQRES 8 A 106 GLU GLN LEU LYS CYS THR CYS ASN ALA CYS HIS GLN LYS SEQRES 9 A 106 TYR ARG SEQRES 1 B 106 ALA ASP LEU GLU ASP ASN MET GLU THR LEU ASN ASP ASN SEQRES 2 B 106 LEU LYS VAL ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL SEQRES 3 B 106 LYS ASP ALA LEU THR LYS MET ALA ALA ALA ALA CSO ASP SEQRES 4 B 106 ALA TRP SER ALA THR PRO PRO LYS LEU GLU ASP LYS SER SEQRES 5 B 106 PRO ASP SER PRO GLU MET HIS ASP PHE ARG HIS GLY PHE SEQRES 6 B 106 TRP ILE LEU ILE GLY GLN ILE HIS ASP ALA LEU HIS LEU SEQRES 7 B 106 ALA ASN CYS GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA SEQRES 8 B 106 GLU GLN LEU LYS CYS THR CYS ASN ALA CYS HIS GLN LYS SEQRES 9 B 106 TYR ARG SEQRES 1 C 106 ALA ASP LEU GLU ASP ASN MET GLU THR LEU ASN ASP ASN SEQRES 2 C 106 LEU LYS VAL ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL SEQRES 3 C 106 LYS ASP ALA LEU THR LYS MET ALA ALA ALA ALA CYS ASP SEQRES 4 C 106 ALA TRP SER ALA THR PRO PRO LYS LEU GLU ASP LYS SER SEQRES 5 C 106 PRO ASP SER PRO GLU MET HIS ASP PHE ARG HIS GLY PHE SEQRES 6 C 106 TRP ILE LEU ILE GLY GLN ILE HIS ASP ALA LEU HIS LEU SEQRES 7 C 106 ALA ASN CYS GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA SEQRES 8 C 106 GLU GLN LEU LYS CYS THR CYS ASN ALA CYS HIS GLN LYS SEQRES 9 C 106 TYR ARG SEQRES 1 D 106 ALA ASP LEU GLU ASP ASN MET GLU THR LEU ASN ASP ASN SEQRES 2 D 106 LEU LYS VAL ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL SEQRES 3 D 106 LYS ASP ALA LEU THR LYS MET ALA ALA ALA ALA CYS ASP SEQRES 4 D 106 ALA TRP SER ALA THR PRO PRO LYS LEU GLU ASP LYS SER SEQRES 5 D 106 PRO ASP SER PRO GLU MET HIS ASP PHE ARG HIS GLY PHE SEQRES 6 D 106 TRP ILE LEU ILE GLY GLN ILE HIS ASP ALA LEU HIS LEU SEQRES 7 D 106 ALA ASN CYS GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA SEQRES 8 D 106 GLU GLN LEU LYS CYS THR CYS ASN ALA CYS HIS GLN LYS SEQRES 9 D 106 TYR ARG HET CSO B 38 7 HET HEC A 201 43 HET HEC B 201 43 HET NA B 202 1 HET HEC C 201 43 HET NA C 202 1 HET HEC D 201 43 HETNAM CSO S-HYDROXYCYSTEINE HETNAM HEC HEME C HETNAM NA SODIUM ION FORMUL 2 CSO C3 H7 N O3 S FORMUL 5 HEC 4(C34 H34 FE N4 O4) FORMUL 7 NA 2(NA 1+) FORMUL 11 HOH *64(H2 O) HELIX 1 AA1 ASP A 2 LYS A 19 1 18 HELIX 2 AA2 ASN A 22 TRP A 41 1 20 HELIX 3 AA3 PRO A 45 GLU A 49 5 5 HELIX 4 AA4 SER A 55 CYS A 81 1 27 HELIX 5 AA5 LYS A 83 LEU A 94 1 12 HELIX 6 AA6 LEU A 94 ARG A 106 1 13 HELIX 7 AA7 ASP B 2 ALA B 20 1 19 HELIX 8 AA8 ASN B 22 TRP B 41 1 20 HELIX 9 AA9 PRO B 45 GLU B 49 5 5 HELIX 10 AB1 SER B 55 CYS B 81 1 27 HELIX 11 AB2 LYS B 83 LEU B 94 1 12 HELIX 12 AB3 LEU B 94 ARG B 106 1 13 HELIX 13 AB4 ASP C 2 LYS C 19 1 18 HELIX 14 AB5 ASN C 22 TRP C 41 1 20 HELIX 15 AB6 SER C 55 CYS C 81 1 27 HELIX 16 AB7 LYS C 83 LEU C 94 1 12 HELIX 17 AB8 LEU C 94 ARG C 106 1 13 HELIX 18 AB9 ASP D 2 LYS D 19 1 18 HELIX 19 AC1 ASN D 22 ALA D 40 1 19 HELIX 20 AC2 PRO D 45 GLU D 49 5 5 HELIX 21 AC3 SER D 55 CYS D 81 1 27 HELIX 22 AC4 LYS D 83 GLN D 93 1 11 HELIX 23 AC5 LEU D 94 ARG D 106 1 13 SSBOND 1 CYS A 38 CYS C 38 1555 1555 2.05 SSBOND 2 CYS A 81 CYS D 81 1555 1555 2.02 SSBOND 3 CYS A 96 CYS B 96 1555 1555 2.02 SSBOND 4 CYS B 81 CYS C 81 1555 1555 2.02 SSBOND 5 CYS C 96 CYS D 96 1555 1555 2.05 LINK SG CYS A 98 CAB HEC A 201 1555 1555 1.68 LINK SG CYS A 101 CAC HEC A 201 1555 1555 1.70 LINK C ALA B 37 N CSO B 38 1555 1555 1.32 LINK C CSO B 38 N ASP B 39 1555 1555 1.30 LINK SG CYS B 98 CAB HEC B 201 1555 1555 1.66 LINK SG CYS B 101 CAC HEC B 201 1555 1555 1.67 LINK SG CYS C 98 CAB HEC C 201 1555 1555 1.64 LINK SG CYS C 101 CAC HEC C 201 1555 1555 1.68 LINK SG CYS D 98 CAB HEC D 201 1555 1555 1.64 LINK SG CYS D 101 CAC HEC D 201 1555 1555 1.68 LINK SD MET A 7 FE HEC A 201 1555 1555 2.15 LINK NE2 HIS A 102 FE HEC A 201 1555 1555 2.35 LINK SD MET B 7 FE HEC B 201 1555 1555 2.21 LINK OD1 ASP B 50 NA NA B 202 1555 1555 2.79 LINK NE2 HIS B 102 FE HEC B 201 1555 1555 2.37 LINK NA NA B 202 O HOH B 319 1555 1555 2.08 LINK OE1 GLU C 4 NA NA C 202 1555 1555 2.79 LINK SD MET C 7 FE HEC C 201 1555 1555 2.08 LINK NE2 HIS C 102 FE HEC C 201 1555 1555 2.40 LINK SD MET D 7 FE HEC D 201 1555 1555 2.17 LINK NE2 HIS D 102 FE HEC D 201 1555 1555 2.38 SITE 1 AC1 10 GLU A 4 MET A 7 ASN A 11 LEU A 14 SITE 2 AC1 10 PHE A 61 PHE A 65 CYS A 98 CYS A 101 SITE 3 AC1 10 HIS A 102 ARG A 106 SITE 1 AC2 12 MET B 7 GLU B 8 ASN B 11 PRO B 45 SITE 2 AC2 12 PRO B 46 PHE B 61 PHE B 65 CYS B 98 SITE 3 AC2 12 CYS B 101 HIS B 102 TYR B 105 ARG B 106 SITE 1 AC3 4 ASN A 99 GLU B 49 ASP B 50 HOH B 319 SITE 1 AC4 1 GLU C 4 SITE 1 AC5 14 GLU C 4 MET C 7 ASN C 11 PHE C 61 SITE 2 AC5 14 PHE C 65 THR C 97 CYS C 98 ASN C 99 SITE 3 AC5 14 ALA C 100 HIS C 102 GLN C 103 LYS C 104 SITE 4 AC5 14 TYR C 105 ARG C 106 SITE 1 AC6 15 GLU C 4 MET C 7 ASN C 11 PHE C 61 SITE 2 AC6 15 PHE C 65 LEU C 94 LYS C 95 CYS C 96 SITE 3 AC6 15 THR C 97 ASN C 99 ALA C 100 CYS C 101 SITE 4 AC6 15 HIS C 102 TYR C 105 ARG C 106 SITE 1 AC7 16 GLU D 4 MET D 7 LEU D 10 ASN D 11 SITE 2 AC7 16 PHE D 61 PHE D 65 THR D 97 CYS D 98 SITE 3 AC7 16 ASN D 99 ALA D 100 HIS D 102 GLN D 103 SITE 4 AC7 16 LYS D 104 TYR D 105 ARG D 106 HOH D 302 SITE 1 AC8 16 GLU D 4 MET D 7 LEU D 10 ASN D 11 SITE 2 AC8 16 PHE D 61 PHE D 65 LEU D 94 LYS D 95 SITE 3 AC8 16 CYS D 96 THR D 97 ASN D 99 ALA D 100 SITE 4 AC8 16 CYS D 101 HIS D 102 ARG D 106 HOH D 302 CRYST1 62.594 77.534 88.063 90.00 90.00 90.00 P 21 21 21 12 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 0.015976 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012898 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011356 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.300583 -0.952643 0.046056 20.30744 1 MTRIX2 2 -0.948498 -0.293513 0.119171 34.32474 1 MTRIX3 2 -0.100009 -0.079505 -0.991805 -4.20475 1 MTRIX1 3 -0.156265 0.728784 -0.666674 35.56081 1 MTRIX2 3 0.734453 -0.365573 -0.571783 -25.07584 1 MTRIX3 3 -0.660425 -0.578990 -0.478131 18.25222 1 MTRIX1 4 -0.783869 0.529368 0.324529 55.53630 1 MTRIX2 4 -0.110949 -0.633653 0.765620 8.96369 1 MTRIX3 4 0.610934 0.564139 0.555434 -23.37715 1