HEADER OXIDOREDUCTASE 09-FEB-04 1SAU TITLE THE GAMMA SUBUNIT OF THE DISSIMILATORY SULFITE REDUCTASE (DSRC) FROM TITLE 2 ARCHAEOGLOBUS FULGIDUS AT 1.1 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SULFITE REDUCTASE, DESULFOVIRIDIN-TYPE SUBUNIT GAMMA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DSRC, DISSIMILATORY SULFITE REDUCTASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 224325; SOURCE 4 STRAIN: DSM 4304; SOURCE 5 GENE: DSRC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) / K12; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCR2.1-TOPO KEYWDS ORTHOGONAL HELICAL BUNDLE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR G.J.MANDER,M.S.WEISS,R.HEDDERICH,J.KAHNT,U.ERMLER,E.WARKENTIN REVDAT 6 13-JUL-11 1SAU 1 VERSN REVDAT 5 24-FEB-09 1SAU 1 VERSN REVDAT 4 06-SEP-05 1SAU 1 JRNL REVDAT 3 26-JUL-05 1SAU 1 TITLE JRNL COMPND SOURCE REVDAT 2 05-APR-05 1SAU 1 REMARK REVDAT 1 15-FEB-05 1SAU 0 JRNL AUTH M.S.WEISS,G.MANDER,R.HEDDERICH,K.DIEDERICHS,U.ERMLER, JRNL AUTH 2 E.WARKENTIN JRNL TITL DETERMINATION OF A NOVEL STRUCTURE BY A COMBINATION OF JRNL TITL 2 LONG-WAVELENGTH SULFUR PHASING AND RADIATION-DAMAGE-INDUCED JRNL TITL 3 PHASING. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 60 686 2004 JRNL REFN ISSN 0907-4449 JRNL PMID 15039557 JRNL DOI 10.1107/S0907444904003002 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.S.WEISS,G.MANDER,R.HEDDERICH,K.DIEDERICHS,U.ERMLER, REMARK 1 AUTH 2 E.WARKENTIN REMARK 1 TITL DETERMINATION OF A NOVEL STRUCTURE BY A COMBINATION OF REMARK 1 TITL 2 LONG-WAVELENGTH SULFUR PHASING AND RADIATION-DAMAGE-INDUCED REMARK 1 TITL 3 PHASING. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 60 686 2004 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 15039557 REMARK 2 REMARK 2 RESOLUTION. 1.12 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) : 1.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT 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) : 0.109 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.109 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.137 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1973 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 39635 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.106 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.106 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.135 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 1892 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 38109 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 941 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 149 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 1062.50 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 938.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 18 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 10819 REMARK 3 NUMBER OF RESTRAINTS : 14685 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : 0.032 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.028 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.096 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.091 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.036 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.005 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.048 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.090 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-228. REMARK 3 RIDING HYDROGENS WERE USED IN REFINEMENT. REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF) BY 0.044 REMARK 4 REMARK 4 1SAU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-04. REMARK 100 THE RCSB ID CODE IS RCSB021564. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 9.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9393 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40859 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08300 REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 73.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.16500 REMARK 200 FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS, MPD, PH 9.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K, PH 9.50 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 19.96750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.57700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.26400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 28.57700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.96750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.26400 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 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 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 1 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 58 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 TYR A 60 CB - CG - CD2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 82 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 VAL A 81 -65.07 -108.35 REMARK 500 REMARK 500 REMARK: NULL DBREF 1SAU A 1 115 UNP O28055 O28055_ARCFU 1 115 SEQRES 1 A 115 MET PRO GLU LEU GLU VAL LYS GLY LYS LYS LEU ARG LEU SEQRES 2 A 115 ASP GLU ASP GLY PHE LEU GLN ASP TRP GLU GLU TRP ASP SEQRES 3 A 115 GLU GLU VAL ALA GLU ALA LEU ALA LYS ASP THR ARG PHE SEQRES 4 A 115 SER PRO GLN PRO ILE GLU LEU THR GLU GLU HIS TRP LYS SEQRES 5 A 115 ILE ILE ARG TYR LEU ARG ASP TYR PHE ILE LYS TYR GLY SEQRES 6 A 115 VAL ALA PRO PRO VAL ARG MET LEU VAL LYS HIS CYS LYS SEQRES 7 A 115 LYS GLU VAL ARG PRO ASP CYS ASN LEU GLN TYR ILE TYR SEQRES 8 A 115 LYS LEU PHE PRO GLN GLY PRO ALA LYS ASP ALA CYS ARG SEQRES 9 A 115 ILE ALA GLY LEU PRO LYS PRO THR GLY CYS VAL FORMUL 2 HOH *149(H2 O) HELIX 1 1 ASP A 21 TRP A 25 5 5 HELIX 2 2 ASP A 26 LYS A 35 1 10 HELIX 3 3 THR A 47 GLY A 65 1 19 HELIX 4 4 PRO A 69 VAL A 81 1 13 HELIX 5 5 ASN A 86 PHE A 94 1 9 HELIX 6 6 GLN A 96 ASP A 101 1 6 HELIX 7 7 ASP A 101 ALA A 106 1 6 SHEET 1 A 2 GLU A 3 VAL A 6 0 SHEET 2 A 2 LYS A 9 ARG A 12 -1 O LEU A 11 N LEU A 4 SSBOND 1 CYS A 77 CYS A 85 1555 1555 2.11 CRYST1 39.935 46.528 57.154 90.00 90.00 90.00 P 21 21 21 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 0.025041 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021492 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017497 0.00000