HEADER ELECTRON TRANSPORT 22-DEC-22 8HUA TITLE SERIAL SYNCHROTRON CRYSTALLOGRAPHY STRUCTURE OF BA3-TYPE CYTOCHROME C TITLE 2 OXIDASE FROM THERMUS THERMOPHILUS USING A GONIOMETER COMPATIBLE FLOW- TITLE 3 CELL COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C OXIDASE SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYTOCHROME C BA(3) SUBUNIT I,CYTOCHROME C OXIDASE COMPND 5 POLYPEPTIDE I,CYTOCHROME CBA3 SUBUNIT 1; COMPND 6 EC: 7.1.1.9; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CYTOCHROME C OXIDASE SUBUNIT 2; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: CYTOCHROME C BA(3) SUBUNIT II,CYTOCHROME C OXIDASE COMPND 12 POLYPEPTIDE II,CYTOCHROME CBA3 SUBUNIT 2; COMPND 13 EC: 7.1.1.9; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: CYTOCHROME C OXIDASE POLYPEPTIDE 2A; COMPND 17 CHAIN: C; COMPND 18 SYNONYM: CYTOCHROME C BA(3) SUBUNIT IIA,CYTOCHROME C OXIDASE COMPND 19 POLYPEPTIDE IIA,CYTOCHROME CBA3 SUBUNIT 2A; COMPND 20 EC: 7.1.1.9; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 GENE: CBAA, TTHA1135; SOURCE 5 EXPRESSION_SYSTEM: THERMUS THERMOPHILUS HB8; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 300852; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8; SOURCE 9 ORGANISM_TAXID: 300852; SOURCE 10 STRAIN: HB8; SOURCE 11 GENE: CBAB, CTAC, TTHA1134; SOURCE 12 EXPRESSION_SYSTEM: THERMUS THERMOPHILUS HB8; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 300852; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: HB8; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8; SOURCE 17 ORGANISM_TAXID: 330852; SOURCE 18 STRAIN: HB8; SOURCE 19 GENE: CBAD, TTHA1133; SOURCE 20 EXPRESSION_SYSTEM: THERMUS THERMOPHILUS HB8; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 300852; SOURCE 22 EXPRESSION_SYSTEM_STRAIN: HB8 KEYWDS MEMBRANE PROTEIN, BIOENERGETICS, SERIAL CRYSTALLOGRAPHY, LIPIDIC KEYWDS 2 CUBIC PHASE, FLOW-CELL, SAMPLE DELIVERY SYSTEM, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.GHOSH,D.ZORIC,M.BJELCIC,J.JOHANNESSON,E.SANDELIN,G.BRANDEN,R.NEUTZE REVDAT 2 26-APR-23 8HUA 1 JRNL REVDAT 1 01-MAR-23 8HUA 0 JRNL AUTH S.GHOSH,D.ZORIC,P.DAHL,M.BJELCIC,J.JOHANNESSON,E.SANDELIN, JRNL AUTH 2 P.BORJESSON,A.BJORLING,A.BANACORE,P.EDLUND,O.AURELIUS, JRNL AUTH 3 M.MILAS,J.NAN,A.SHILOVA,A.GONZALEZ,U.MUELLER,G.BRANDEN, JRNL AUTH 4 R.NEUTZE JRNL TITL A SIMPLE GONIOMETER-COMPATIBLE FLOW CELL FOR SERIAL JRNL TITL 2 SYNCHROTRON X-RAY CRYSTALLOGRAPHY. JRNL REF J.APPL.CRYSTALLOGR. V. 56 449 2023 JRNL REFN ISSN 0021-8898 JRNL PMID 37032973 JRNL DOI 10.1107/S1600576723001036 REMARK 2 REMARK 2 RESOLUTION. 2.12 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 63185 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.076 REMARK 3 FREE R VALUE TEST SET COUNT : 3207 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4429 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3120 REMARK 3 BIN FREE R VALUE SET COUNT : 205 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5910 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 384 REMARK 3 SOLVENT ATOMS : 104 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01400 REMARK 3 B22 (A**2) : -0.01600 REMARK 3 B33 (A**2) : -0.00400 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.907 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6491 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 6397 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8841 ; 1.720 ; 1.661 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14636 ; 1.276 ; 1.575 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 749 ; 6.262 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 263 ;32.985 ;20.608 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 890 ;14.473 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;21.384 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 777 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7062 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1534 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1316 ; 0.221 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 41 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3105 ; 0.174 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 140 ; 0.130 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 5 ; 0.120 ; 0.200 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): 3005 ; 3.664 ; 4.676 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3003 ; 3.662 ; 4.675 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3751 ; 4.861 ; 7.004 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3751 ; 4.861 ; 7.004 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3484 ; 4.689 ; 5.439 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3485 ; 4.688 ; 5.440 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5089 ; 6.886 ; 7.842 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5090 ; 6.885 ; 7.844 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8HUA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ. REMARK 100 THE DEPOSITION ID IS D_1300034318. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-19 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 5.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX IV REMARK 200 BEAMLINE : BIOMAX 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTFEL REMARK 200 DATA SCALING SOFTWARE : CRYSTFEL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65010 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 25.802 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 123.6 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M NACL, 100 MM MES PH 5.3 WITH 36 REMARK 280 % TO 39 % (V/V) PEG 400, LIPIDIC CUBIC PHASE, 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 73.03000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.08500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 73.03000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 50.08500 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -155.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 HIS A 1 REMARK 465 ALA A 2 REMARK 465 VAL A 3 REMARK 465 ARG A 4 REMARK 465 ALA A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 ILE A 8 REMARK 465 MET B 1 REMARK 465 MET C 1 REMARK 465 GLU C 2 REMARK 465 GLU C 3 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 ARG A 10 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 13 CG CD OE1 OE2 REMARK 470 ARG A 330 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 9 CG CD CE NZ 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 NE2 HIS A 233 CE2 TYR A 237 1.63 REMARK 500 OE1 GLU A 516 NE2 HIS B 8 1.67 REMARK 500 OE1 GLU A 516 OD1 ASP A 517 1.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 500 OE2 GLU A 500 2656 1.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 516 CD GLU A 516 OE1 0.072 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 ASN A 102 99.23 -51.72 REMARK 500 ALA A 129 52.90 -147.84 REMARK 500 LEU A 132 170.76 70.12 REMARK 500 PHE A 135 57.48 32.42 REMARK 500 ASN A 174 53.47 -152.68 REMARK 500 PHE A 207 -59.16 -121.71 REMARK 500 ILE A 250 -50.03 -131.20 REMARK 500 SER A 261 114.36 -161.45 REMARK 500 PRO A 278 43.36 -83.80 REMARK 500 SER A 368 41.07 -88.67 REMARK 500 PHE A 369 -95.32 52.45 REMARK 500 SER A 391 -75.43 -112.85 REMARK 500 ASP B 111 -92.82 -133.75 REMARK 500 ASN B 124 85.46 -159.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 516 ASP A 517 -147.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 OLC A 604 REMARK 610 OLC A 605 REMARK 610 OLC A 606 REMARK 610 OLC A 607 REMARK 610 OLC A 608 REMARK 610 OLC A 609 REMARK 610 OLC A 610 REMARK 610 OLC A 611 REMARK 610 OLC A 612 REMARK 610 OLC A 613 REMARK 610 OLC B 201 REMARK 610 OLC C 101 REMARK 610 OLC C 102 REMARK 610 OLC C 103 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 602 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 72 NE2 REMARK 620 2 HEM A 602 NA 88.5 REMARK 620 3 HEM A 602 NB 88.7 87.1 REMARK 620 4 HEM A 602 NC 85.8 173.3 89.1 REMARK 620 5 HEM A 602 ND 88.2 89.6 175.6 93.9 REMARK 620 6 HIS A 386 NE2 178.8 90.7 90.3 94.8 92.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 601 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 233 ND1 REMARK 620 2 HIS A 282 NE2 97.2 REMARK 620 3 HIS A 283 NE2 147.1 92.0 REMARK 620 4 HOH A 752 O 91.2 139.5 102.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HAS A 603 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 384 NE2 REMARK 620 2 HAS A 603 NA 95.0 REMARK 620 3 HAS A 603 NB 96.9 168.1 REMARK 620 4 HAS A 603 NC 99.1 88.6 88.0 REMARK 620 5 HAS A 603 ND 96.2 89.0 91.2 164.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CUA B 202 CU2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 114 ND1 REMARK 620 2 CUA B 202 CU1 138.3 REMARK 620 3 CYS B 149 SG 124.8 56.5 REMARK 620 4 CYS B 153 SG 102.5 54.3 110.5 REMARK 620 5 MET B 160 SD 93.9 125.4 112.8 110.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CUA B 202 CU1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 149 SG REMARK 620 2 CUA B 202 CU2 55.3 REMARK 620 3 GLN B 151 O 86.4 108.1 REMARK 620 4 CYS B 153 SG 112.8 57.8 108.2 REMARK 620 5 HIS B 157 ND1 126.2 160.4 91.3 118.8 REMARK 620 N 1 2 3 4 DBREF 8HUA A 2 562 UNP Q5SJ79 COX1_THET8 2 562 DBREF 8HUA B 1 168 UNP Q5SJ80 COX2_THET8 1 168 DBREF 8HUA C 1 34 UNP P82543 COXA_THET8 1 34 SEQADV 8HUA MET A -6 UNP Q5SJ79 INITIATING METHIONINE SEQADV 8HUA HIS A -5 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A -4 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A -3 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A -2 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A -1 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A 0 UNP Q5SJ79 EXPRESSION TAG SEQADV 8HUA HIS A 1 UNP Q5SJ79 EXPRESSION TAG SEQRES 1 A 569 MET HIS HIS HIS HIS HIS HIS HIS ALA VAL ARG ALA SER SEQRES 2 A 569 GLU ILE SER ARG VAL TYR GLU ALA TYR PRO GLU LYS LYS SEQRES 3 A 569 ALA THR LEU TYR PHE LEU VAL LEU GLY PHE LEU ALA LEU SEQRES 4 A 569 ILE VAL GLY SER LEU PHE GLY PRO PHE GLN ALA LEU ASN SEQRES 5 A 569 TYR GLY ASN VAL ASP ALA TYR PRO LEU LEU LYS ARG LEU SEQRES 6 A 569 LEU PRO PHE VAL GLN SER TYR TYR GLN GLY LEU THR LEU SEQRES 7 A 569 HIS GLY VAL LEU ASN ALA ILE VAL PHE THR GLN LEU PHE SEQRES 8 A 569 ALA GLN ALA ILE MET VAL TYR LEU PRO ALA ARG GLU LEU SEQRES 9 A 569 ASN MET ARG PRO ASN MET GLY LEU MET TRP LEU SER TRP SEQRES 10 A 569 TRP MET ALA PHE ILE GLY LEU VAL VAL ALA ALA LEU PRO SEQRES 11 A 569 LEU LEU ALA ASN GLU ALA THR VAL LEU TYR THR PHE TYR SEQRES 12 A 569 PRO PRO LEU LYS GLY HIS TRP ALA PHE TYR LEU GLY ALA SEQRES 13 A 569 SER VAL PHE VAL LEU SER THR TRP VAL SER ILE TYR ILE SEQRES 14 A 569 VAL LEU ASP LEU TRP ARG ARG TRP LYS ALA ALA ASN PRO SEQRES 15 A 569 GLY LYS VAL THR PRO LEU VAL THR TYR MET ALA VAL VAL SEQRES 16 A 569 PHE TRP LEU MET TRP PHE LEU ALA SER LEU GLY LEU VAL SEQRES 17 A 569 LEU GLU ALA VAL LEU PHE LEU LEU PRO TRP SER PHE GLY SEQRES 18 A 569 LEU VAL GLU GLY VAL ASP PRO LEU VAL ALA ARG THR LEU SEQRES 19 A 569 PHE TRP TRP THR GLY HIS PRO ILE VAL TYR PHE TRP LEU SEQRES 20 A 569 LEU PRO ALA TYR ALA ILE ILE TYR THR ILE LEU PRO LYS SEQRES 21 A 569 GLN ALA GLY GLY LYS LEU VAL SER ASP PRO MET ALA ARG SEQRES 22 A 569 LEU ALA PHE LEU LEU PHE LEU LEU LEU SER THR PRO VAL SEQRES 23 A 569 GLY PHE HIS HIS GLN PHE ALA ASP PRO GLY ILE ASP PRO SEQRES 24 A 569 THR TRP LYS MET ILE HIS SER VAL LEU THR LEU PHE VAL SEQRES 25 A 569 ALA VAL PRO SER LEU MET THR ALA PHE THR VAL ALA ALA SEQRES 26 A 569 SER LEU GLU PHE ALA GLY ARG LEU ARG GLY GLY ARG GLY SEQRES 27 A 569 LEU PHE GLY TRP ILE ARG ALA LEU PRO TRP ASP ASN PRO SEQRES 28 A 569 ALA PHE VAL ALA PRO VAL LEU GLY LEU LEU GLY PHE ILE SEQRES 29 A 569 PRO GLY GLY ALA GLY GLY ILE VAL ASN ALA SER PHE THR SEQRES 30 A 569 LEU ASP TYR VAL VAL HIS ASN THR ALA TRP VAL PRO GLY SEQRES 31 A 569 HIS PHE HIS LEU GLN VAL ALA SER LEU VAL THR LEU THR SEQRES 32 A 569 ALA MET GLY SER LEU TYR TRP LEU LEU PRO ASN LEU THR SEQRES 33 A 569 GLY LYS PRO ILE SER ASP ALA GLN ARG ARG LEU GLY LEU SEQRES 34 A 569 ALA VAL VAL TRP LEU TRP PHE LEU GLY MET MET ILE MET SEQRES 35 A 569 ALA VAL GLY LEU HIS TRP ALA GLY LEU LEU ASN VAL PRO SEQRES 36 A 569 ARG ARG ALA TYR ILE ALA GLN VAL PRO ASP ALA TYR PRO SEQRES 37 A 569 HIS ALA ALA VAL PRO MET VAL PHE ASN VAL LEU ALA GLY SEQRES 38 A 569 ILE VAL LEU LEU VAL ALA LEU LEU LEU PHE ILE TYR GLY SEQRES 39 A 569 LEU PHE SER VAL LEU LEU SER ARG GLU ARG LYS PRO GLU SEQRES 40 A 569 LEU ALA GLU ALA PRO LEU PRO PHE ALA GLU VAL ILE SER SEQRES 41 A 569 GLY PRO GLU ASP ARG ARG LEU VAL LEU ALA MET ASP ARG SEQRES 42 A 569 ILE GLY PHE TRP PHE ALA VAL ALA ALA ILE LEU VAL VAL SEQRES 43 A 569 LEU ALA TYR GLY PRO THR LEU VAL GLN LEU PHE GLY HIS SEQRES 44 A 569 LEU ASN PRO VAL PRO GLY TRP ARG LEU TRP SEQRES 1 B 168 MET VAL ASP GLU HIS LYS ALA HIS LYS ALA ILE LEU ALA SEQRES 2 B 168 TYR GLU LYS GLY TRP LEU ALA PHE SER LEU ALA MET LEU SEQRES 3 B 168 PHE VAL PHE ILE ALA LEU ILE ALA TYR THR LEU ALA THR SEQRES 4 B 168 HIS THR ALA GLY VAL ILE PRO ALA GLY LYS LEU GLU ARG SEQRES 5 B 168 VAL ASP PRO THR THR VAL ARG GLN GLU GLY PRO TRP ALA SEQRES 6 B 168 ASP PRO ALA GLN ALA VAL VAL GLN THR GLY PRO ASN GLN SEQRES 7 B 168 TYR THR VAL TYR VAL LEU ALA PHE ALA PHE GLY TYR GLN SEQRES 8 B 168 PRO ASN PRO ILE GLU VAL PRO GLN GLY ALA GLU ILE VAL SEQRES 9 B 168 PHE LYS ILE THR SER PRO ASP VAL ILE HIS GLY PHE HIS SEQRES 10 B 168 VAL GLU GLY THR ASN ILE ASN VAL GLU VAL LEU PRO GLY SEQRES 11 B 168 GLU VAL SER THR VAL ARG TYR THR PHE LYS ARG PRO GLY SEQRES 12 B 168 GLU TYR ARG ILE ILE CYS ASN GLN TYR CYS GLY LEU GLY SEQRES 13 B 168 HIS GLN ASN MET PHE GLY THR ILE VAL VAL LYS GLU SEQRES 1 C 34 MET GLU GLU LYS PRO LYS GLY ALA LEU ALA VAL ILE LEU SEQRES 2 C 34 VAL LEU THR LEU THR ILE LEU VAL PHE TRP LEU GLY VAL SEQRES 3 C 34 TYR ALA VAL PHE PHE ALA ARG GLY HET CU A 601 1 HET HEM A 602 43 HET HAS A 603 65 HET OLC A 604 23 HET OLC A 605 18 HET OLC A 606 17 HET OLC A 607 15 HET OLC A 608 18 HET OLC A 609 15 HET OLC A 610 20 HET OLC A 611 21 HET OLC A 612 9 HET OLC A 613 9 HET OLC B 201 20 HET CUA B 202 2 HET OLC B 203 25 HET OLC C 101 24 HET OLC C 102 15 HET OLC C 103 24 HETNAM CU COPPER (II) ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM HAS HEME-AS HETNAM OLC (2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE HETNAM CUA DINUCLEAR COPPER ION HETSYN HEM HEME HETSYN OLC 1-OLEOYL-R-GLYCEROL FORMUL 4 CU CU 2+ FORMUL 5 HEM C34 H32 FE N4 O4 FORMUL 6 HAS C54 H64 FE N4 O6 FORMUL 7 OLC 15(C21 H40 O4) FORMUL 18 CUA CU2 FORMUL 23 HOH *104(H2 O) HELIX 1 AA1 ARG A 10 TYR A 15 1 6 HELIX 2 AA2 PRO A 16 LEU A 37 1 22 HELIX 3 AA3 PHE A 38 TYR A 46 1 9 HELIX 4 AA4 ALA A 51 LEU A 59 1 9 HELIX 5 AA5 SER A 64 ILE A 78 1 15 HELIX 6 AA6 ILE A 78 ASN A 98 1 21 HELIX 7 AA7 ASN A 102 ALA A 126 1 25 HELIX 8 AA8 HIS A 142 ALA A 173 1 32 HELIX 9 AA9 PRO A 180 SER A 197 1 18 HELIX 10 AB1 SER A 197 PHE A 207 1 11 HELIX 11 AB2 PHE A 207 PHE A 213 1 7 HELIX 12 AB3 ASP A 220 HIS A 233 1 14 HELIX 13 AB4 HIS A 233 ILE A 250 1 18 HELIX 14 AB5 ILE A 250 ALA A 255 1 6 HELIX 15 AB6 SER A 261 SER A 276 1 16 HELIX 16 AB7 VAL A 279 GLN A 284 5 6 HELIX 17 AB8 ASP A 291 ARG A 327 1 37 HELIX 18 AB9 PHE A 333 ALA A 338 1 6 HELIX 19 AC1 ASN A 343 SER A 368 1 26 HELIX 20 AC2 LEU A 371 HIS A 376 1 6 HELIX 21 AC3 ALA A 379 VAL A 389 1 11 HELIX 22 AC4 SER A 391 LEU A 401 1 11 HELIX 23 AC5 TRP A 403 GLY A 410 1 8 HELIX 24 AC6 SER A 414 LEU A 445 1 32 HELIX 25 AC7 TYR A 452 VAL A 456 5 5 HELIX 26 AC8 TYR A 460 HIS A 462 5 3 HELIX 27 AC9 ALA A 463 SER A 494 1 32 HELIX 28 AD1 LYS A 498 GLU A 503 1 6 HELIX 29 AD2 GLU A 516 ASP A 525 1 10 HELIX 30 AD3 ARG A 526 HIS A 552 1 27 HELIX 31 AD4 ASP B 3 LEU B 37 1 35 HELIX 32 AD5 ALA B 38 ILE B 45 5 8 HELIX 33 AD6 ASP B 66 GLN B 69 5 4 HELIX 34 AD7 GLY B 156 ASN B 159 5 4 HELIX 35 AD8 PRO C 5 ARG C 33 1 29 SHEET 1 AA1 2 GLY A 218 VAL A 219 0 SHEET 2 AA1 2 VAL A 556 PRO A 557 -1 O VAL A 556 N VAL A 219 SHEET 1 AA2 3 VAL B 71 GLY B 75 0 SHEET 2 AA2 3 GLN B 78 PHE B 86 -1 O THR B 80 N VAL B 72 SHEET 3 AA2 3 GLY B 89 GLN B 91 -1 O GLN B 91 N LEU B 84 SHEET 1 AA3 4 VAL B 71 GLY B 75 0 SHEET 2 AA3 4 GLN B 78 PHE B 86 -1 O THR B 80 N VAL B 72 SHEET 3 AA3 4 GLU B 102 THR B 108 1 O LYS B 106 N VAL B 81 SHEET 4 AA3 4 SER B 133 THR B 138 -1 O TYR B 137 N ILE B 103 SHEET 1 AA4 5 ILE B 95 PRO B 98 0 SHEET 2 AA4 5 PHE B 161 LYS B 167 1 O VAL B 165 N ILE B 95 SHEET 3 AA4 5 GLY B 143 ILE B 148 -1 N TYR B 145 O ILE B 164 SHEET 4 AA4 5 HIS B 114 VAL B 118 -1 N HIS B 117 O ILE B 148 SHEET 5 AA4 5 ASN B 124 VAL B 127 -1 O VAL B 127 N HIS B 114 LINK NE2 HIS A 72 FE HEM A 602 1555 1555 2.09 LINK ND1 HIS A 233 CU CU A 601 1555 1555 1.98 LINK NE2 HIS A 282 CU CU A 601 1555 1555 1.92 LINK NE2 HIS A 283 CU CU A 601 1555 1555 2.03 LINK NE2 HIS A 384 FE HAS A 603 1555 1555 2.26 LINK NE2 HIS A 386 FE HEM A 602 1555 1555 2.05 LINK CU CU A 601 O HOH A 752 1555 1555 2.31 LINK ND1 HIS B 114 CU2 CUA B 202 1555 1555 1.99 LINK SG CYS B 149 CU1 CUA B 202 1555 1555 2.29 LINK SG CYS B 149 CU2 CUA B 202 1555 1555 2.26 LINK O GLN B 151 CU1 CUA B 202 1555 1555 2.46 LINK SG CYS B 153 CU1 CUA B 202 1555 1555 2.24 LINK SG CYS B 153 CU2 CUA B 202 1555 1555 2.34 LINK ND1 HIS B 157 CU1 CUA B 202 1555 1555 1.79 LINK SD MET B 160 CU2 CUA B 202 1555 1555 2.42 CISPEP 1 PRO A 137 PRO A 138 0 7.84 CISPEP 2 ALA B 87 PHE B 88 0 4.61 CISPEP 3 GLN B 91 PRO B 92 0 -4.60 CISPEP 4 ASN B 93 PRO B 94 0 3.20 CRYST1 146.060 100.170 96.620 90.00 126.76 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 0.006847 0.000000 0.005114 0.00000 SCALE2 0.000000 0.009983 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012919 0.00000