HEADER OXIDOREDUCTASE 03-OCT-99 1D4D TITLE CRYSTAL STRUCTURE OF THE SUCCINATE COMPLEXED FORM OF THE TITLE 2 FLAVOCYTOCHROME C FUMARATE REDUCTASE OF SHEWANELLA PUTREFACIENS TITLE 3 STRAIN MR-1 CAVEAT 1D4D FAD A 600 HAS WRONG CHIRALITY AT ATOM C3' FAD A 600 HAS CAVEAT 2 1D4D WRONG CHIRALITY AT ATOM C4' COMPND MOL_ID: 1; COMPND 2 MOLECULE: FLAVOCYTOCHROME C FUMARATE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.3.99.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA ONEIDENSIS; SOURCE 3 ORGANISM_TAXID: 70863; SOURCE 4 STRAIN: MR-1 KEYWDS TETRAHEME FLAVOCYTOCHROME C FUMARATE REDUCTASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR D.LEYS,A.S.TSAPIN,T.E.MEYER,M.A.CUSANOVICH,J.J.VAN BEEUMEN REVDAT 5 20-NOV-24 1D4D 1 REMARK REVDAT 4 03-MAR-21 1D4D 1 CAVEAT COMPND REMARK HET REVDAT 4 2 1 HETNAM HETSYN FORMUL LINK REVDAT 4 3 1 SITE ATOM REVDAT 3 31-JAN-18 1D4D 1 REMARK REVDAT 2 24-FEB-09 1D4D 1 VERSN REVDAT 1 01-DEC-99 1D4D 0 JRNL AUTH D.LEYS,A.S.TSAPIN,K.H.NEALSON,T.E.MEYER,M.A.CUSANOVICH, JRNL AUTH 2 J.J.VAN BEEUMEN JRNL TITL STRUCTURE AND MECHANISM OF THE FLAVOCYTOCHROME C FUMARATE JRNL TITL 2 REDUCTASE OF SHEWANELLA PUTREFACIENS MR-1. JRNL REF NAT.STRUCT.BIOL. V. 6 1113 1999 JRNL REFN ISSN 1072-8368 JRNL PMID 10581551 JRNL DOI 10.1038/70051 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 19275 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.305 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1041 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3965 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 233 REMARK 3 SOLVENT ATOMS : 56 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D4D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-OCT-99. REMARK 100 THE DEPOSITION ID IS D_1000009777. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 107.0 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LURE REMARK 200 BEAMLINE : DW21B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21659 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE WITH ADDED ETHANOL REMARK 280 AND SUCCINATE, BICINE, PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 21K, TEMPERATURE 294.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 108.23450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.43150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.43150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 162.35175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.43150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.43150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 54.11725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.43150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.43150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 162.35175 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.43150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.43150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 54.11725 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 108.23450 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 ALA A 0 REMARK 465 ALA A 1 REMARK 465 PRO A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 54 REMARK 465 ASP A 55 REMARK 465 LYS A 56 REMARK 465 ALA A 284 REMARK 465 SER A 285 REMARK 465 LYS A 472 REMARK 465 ASP A 570 REMARK 465 ASN A 571 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 LYS A 23 CB CG CD CE NZ REMARK 470 LYS A 46 CG CD CE NZ REMARK 470 LYS A 99 CG CD CE NZ REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 ASP A 108 CG OD1 OD2 REMARK 470 LYS A 111 CG CD CE NZ REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 LYS A 177 CG CD CE NZ REMARK 470 LYS A 181 CG CD CE NZ REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 LYS A 187 CG CD CE NZ REMARK 470 LYS A 197 CG CD CE NZ REMARK 470 LYS A 209 CG CD CE NZ REMARK 470 ALA A 212 CB REMARK 470 SER A 215 OG REMARK 470 SER A 216 OG REMARK 470 SER A 224 OG REMARK 470 VAL A 240 CG1 CG2 REMARK 470 LYS A 266 CG CD CE NZ REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 ASP A 306 CG OD1 OD2 REMARK 470 SER A 323 OG REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 LYS A 328 CG CD CE NZ REMARK 470 LYS A 330 CG CD CE NZ REMARK 470 LYS A 333 CG CD CE NZ REMARK 470 GLN A 350 CG CD OE1 NE2 REMARK 470 GLU A 390 CG CD OE1 OE2 REMARK 470 GLN A 410 CG CD OE1 NE2 REMARK 470 LYS A 426 CG CD CE NZ REMARK 470 LYS A 429 CG CD CE NZ REMARK 470 LYS A 444 CG CD CE NZ REMARK 470 GLU A 447 CG CD OE1 OE2 REMARK 470 GLU A 448 CG CD OE1 OE2 REMARK 470 LYS A 451 CG CD CE NZ REMARK 470 GLU A 480 CG CD OE1 OE2 REMARK 470 SER A 519 OG REMARK 470 LYS A 521 CG CD CE NZ REMARK 470 THR A 522 OG1 CG2 REMARK 470 LYS A 524 CG CD CE NZ REMARK 470 ALA A 542 CB REMARK 470 ALA A 549 CB REMARK 470 SER A 551 OG REMARK 470 LYS A 566 CG CD CE NZ REMARK 470 LYS A 569 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 SG CYS A 15 CAB HEC A 603 2.10 REMARK 500 O ILE A 190 OD1 ASP A 194 2.15 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 GLU A 11 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 HIS A 19 CA - CB - CG ANGL. DEV. = -10.9 DEGREES REMARK 500 ARG A 102 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 VAL A 122 N - CA - CB ANGL. DEV. = 17.1 DEGREES REMARK 500 ARG A 145 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 146 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ALA A 147 CB - CA - C ANGL. DEV. = 10.2 DEGREES REMARK 500 ALA A 147 CA - C - O ANGL. DEV. = 12.6 DEGREES REMARK 500 ALA A 147 CA - C - N ANGL. DEV. = -12.7 DEGREES REMARK 500 GLY A 169 N - CA - C ANGL. DEV. = 15.4 DEGREES REMARK 500 ALA A 174 CA - C - N ANGL. DEV. = -18.2 DEGREES REMARK 500 THR A 176 C - N - CA ANGL. DEV. = 21.0 DEGREES REMARK 500 GLN A 179 C - N - CA ANGL. DEV. = 19.1 DEGREES REMARK 500 GLN A 179 CB - CG - CD ANGL. DEV. = 15.8 DEGREES REMARK 500 ARG A 200 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 242 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 242 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 VAL A 252 CB - CA - C ANGL. DEV. = -11.6 DEGREES REMARK 500 ASP A 262 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 267 CA - C - N ANGL. DEV. = 15.9 DEGREES REMARK 500 LYS A 317 N - CA - CB ANGL. DEV. = 12.0 DEGREES REMARK 500 ASP A 326 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 356 NE - CZ - NH1 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 393 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ASP A 421 N - CA - CB ANGL. DEV. = -12.4 DEGREES REMARK 500 ARG A 425 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG A 425 NE - CZ - NH1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 425 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 LYS A 426 CA - C - N ANGL. DEV. = 13.6 DEGREES REMARK 500 SER A 427 N - CA - CB ANGL. DEV. = 9.1 DEGREES REMARK 500 ASN A 438 CA - CB - CG ANGL. DEV. = 17.1 DEGREES REMARK 500 GLY A 474 N - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 ALA A 491 CA - C - O ANGL. DEV. = -16.0 DEGREES REMARK 500 ALA A 491 O - C - N ANGL. DEV. = 11.6 DEGREES REMARK 500 PRO A 492 N - CA - CB ANGL. DEV. = 7.9 DEGREES REMARK 500 TYR A 494 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 558 CD - NE - CZ ANGL. DEV. = 12.5 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 LEU A 5 -52.67 -26.81 REMARK 500 MET A 12 -118.30 -69.60 REMARK 500 ALA A 120 37.25 -59.26 REMARK 500 VAL A 122 110.41 -161.89 REMARK 500 ASP A 146 66.45 -67.39 REMARK 500 ALA A 147 93.07 84.74 REMARK 500 GLU A 175 -122.31 87.81 REMARK 500 THR A 176 1.75 -53.57 REMARK 500 PRO A 178 -13.96 -35.10 REMARK 500 GLN A 179 -55.01 -25.18 REMARK 500 LYS A 181 -11.64 -47.44 REMARK 500 ASN A 201 12.73 58.21 REMARK 500 SER A 215 -75.87 -39.67 REMARK 500 MET A 229 71.32 -112.90 REMARK 500 SER A 239 -99.41 -108.44 REMARK 500 ARG A 242 15.31 -157.41 REMARK 500 ARG A 267 -162.17 -77.74 REMARK 500 TYR A 301 147.92 -177.05 REMARK 500 LYS A 317 -34.85 109.98 REMARK 500 PHE A 394 16.32 -159.33 REMARK 500 GLN A 410 22.93 -76.42 REMARK 500 LYS A 412 103.62 -45.92 REMARK 500 SER A 427 -31.95 108.74 REMARK 500 ASP A 454 42.44 71.20 REMARK 500 ALA A 477 44.16 -71.88 REMARK 500 GLN A 478 -50.46 -138.96 REMARK 500 LEU A 488 55.73 76.73 REMARK 500 HIS A 503 -54.43 -124.69 REMARK 500 LYS A 521 -90.56 -63.36 REMARK 500 ALA A 523 29.43 -69.81 REMARK 500 ALA A 568 -63.71 85.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 VAL A 210 -12.25 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 604 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 9 NE2 REMARK 620 2 HEC A 604 NA 99.6 REMARK 620 3 HEC A 604 NB 94.8 89.9 REMARK 620 4 HEC A 604 NC 82.8 177.5 89.7 REMARK 620 5 HEC A 604 ND 89.2 90.8 175.8 89.4 REMARK 620 6 HIS A 42 NE2 174.8 85.5 85.9 92.0 90.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC A 603 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 19 NE2 REMARK 620 2 HEC A 603 NA 79.3 REMARK 620 3 HEC A 603 NB 89.1 91.1 REMARK 620 4 HEC A 603 NC 97.3 176.6 88.6 REMARK 620 5 HEC A 603 ND 89.1 89.6 177.9 90.6 REMARK 620 6 HIS A 77 NE2 167.2 88.5 87.1 94.8 94.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC A 602 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 60 NE2 REMARK 620 2 HEC A 602 NA 92.8 REMARK 620 3 HEC A 602 NB 101.7 90.0 REMARK 620 4 HEC A 602 NC 91.9 175.3 88.4 REMARK 620 5 HEC A 602 ND 84.6 90.8 173.6 90.3 REMARK 620 6 HIS A 74 NE2 165.7 83.8 92.2 91.9 81.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 63 NE2 REMARK 620 2 HEC A 601 NA 81.3 REMARK 620 3 HEC A 601 NB 95.0 90.1 REMARK 620 4 HEC A 601 NC 99.8 178.9 89.5 REMARK 620 5 HEC A 601 ND 86.2 90.1 178.8 90.3 REMARK 620 6 HIS A 88 NE2 172.7 94.2 79.3 84.7 99.6 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEC A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEC A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEC A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SIN A 700 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1D4C RELATED DB: PDB REMARK 900 UNCOMPLEXED FORM REMARK 900 RELATED ID: 1D4D RELATED DB: PDB REMARK 900 SUCCINATE COMPLEXED FORM REMARK 900 RELATED ID: 1D4E RELATED DB: PDB REMARK 900 COMPLEXED WITH FUMARATE DBREF 1D4D A 0 571 UNP P83223 FRDA_SHEON 25 596 SEQRES 1 A 572 ALA ALA PRO GLU VAL LEU ALA ASP PHE HIS GLY GLU MET SEQRES 2 A 572 GLY GLY CYS ASP SER CYS HIS VAL SER ASP LYS GLY GLY SEQRES 3 A 572 VAL THR ASN ASP ASN LEU THR HIS GLU ASN GLY GLN CYS SEQRES 4 A 572 VAL SER CYS HIS GLY ASP LEU LYS GLU LEU ALA ALA ALA SEQRES 5 A 572 ALA PRO LYS ASP LYS VAL SER PRO HIS LYS SER HIS LEU SEQRES 6 A 572 ILE GLY GLU ILE ALA CYS THR SER CYS HIS LYS GLY HIS SEQRES 7 A 572 GLU LYS SER VAL ALA TYR CYS ASP ALA CYS HIS SER PHE SEQRES 8 A 572 GLY PHE ASP MET PRO PHE GLY GLY LYS TRP GLU ARG LYS SEQRES 9 A 572 PHE VAL PRO VAL ASP ALA ASP LYS ALA ALA GLN ASP LYS SEQRES 10 A 572 ALA ILE ALA ALA GLY VAL LYS GLU THR THR ASP VAL VAL SEQRES 11 A 572 ILE ILE GLY SER GLY GLY ALA GLY LEU ALA ALA ALA VAL SEQRES 12 A 572 SER ALA ARG ASP ALA GLY ALA LYS VAL ILE LEU LEU GLU SEQRES 13 A 572 LYS GLU PRO ILE PRO GLY GLY ASN THR LYS LEU ALA ALA SEQRES 14 A 572 GLY GLY MET ASN ALA ALA GLU THR LYS PRO GLN ALA LYS SEQRES 15 A 572 LEU GLY ILE GLU ASP LYS LYS GLN ILE MET ILE ASP ASP SEQRES 16 A 572 THR MET LYS GLY GLY ARG ASN ILE ASN ASP PRO GLU LEU SEQRES 17 A 572 VAL LYS VAL LEU ALA ASN ASN SER SER ASP SER ILE ASP SEQRES 18 A 572 TRP LEU THR SER MET GLY ALA ASP MET THR ASP VAL GLY SEQRES 19 A 572 ARG MET GLY GLY ALA SER VAL ASN ARG SER HIS ARG PRO SEQRES 20 A 572 THR GLY GLY ALA GLY VAL GLY ALA HIS VAL ALA GLN VAL SEQRES 21 A 572 LEU TRP ASP ASN ALA VAL LYS ARG GLY THR ASP ILE ARG SEQRES 22 A 572 LEU ASN SER ARG VAL VAL ARG ILE LEU GLU ASP ALA SER SEQRES 23 A 572 GLY LYS VAL THR GLY VAL LEU VAL LYS GLY GLU TYR THR SEQRES 24 A 572 GLY TYR TYR VAL ILE LYS ALA ASP ALA VAL VAL ILE ALA SEQRES 25 A 572 ALA GLY GLY PHE ALA LYS ASN ASN GLU ARG VAL SER LYS SEQRES 26 A 572 TYR ASP PRO LYS LEU LYS GLY PHE LYS ALA THR ASN HIS SEQRES 27 A 572 PRO GLY ALA THR GLY ASP GLY LEU ASP VAL ALA LEU GLN SEQRES 28 A 572 ALA GLY ALA ALA THR ARG ASP LEU GLN TYR ILE GLN ALA SEQRES 29 A 572 HIS PRO THR TYR SER PRO ALA GLY GLY VAL MET ILE THR SEQRES 30 A 572 GLU ALA VAL ARG GLY ASN GLY ALA ILE VAL VAL ASN ARG SEQRES 31 A 572 GLU GLY ASN ARG PHE MET ASN GLU ILE THR THR ARG ASP SEQRES 32 A 572 LYS ALA SER ALA ALA ILE LEU GLN GLN LYS GLY GLU SER SEQRES 33 A 572 ALA TYR LEU VAL PHE ASP ASP SER ILE ARG LYS SER LEU SEQRES 34 A 572 LYS ALA ILE GLU GLY TYR VAL HIS LEU ASN ILE VAL LYS SEQRES 35 A 572 GLU GLY LYS THR ILE GLU GLU LEU ALA LYS GLN ILE ASP SEQRES 36 A 572 VAL PRO ALA ALA GLU LEU ALA LYS THR VAL THR ALA TYR SEQRES 37 A 572 ASN GLY PHE VAL LYS SER GLY LYS ASP ALA GLN PHE GLU SEQRES 38 A 572 ARG PRO ASP LEU PRO ARG GLU LEU VAL VAL ALA PRO PHE SEQRES 39 A 572 TYR ALA LEU GLU ILE ALA PRO ALA VAL HIS HIS THR MET SEQRES 40 A 572 GLY GLY LEU VAL ILE ASP THR LYS ALA GLU VAL LYS SER SEQRES 41 A 572 GLU LYS THR ALA LYS PRO ILE THR GLY LEU TYR ALA ALA SEQRES 42 A 572 GLY GLU VAL THR GLY GLY VAL HIS GLY ALA ASN ARG LEU SEQRES 43 A 572 GLY GLY ASN ALA ILE SER ASP ILE VAL THR TYR GLY ARG SEQRES 44 A 572 ILE ALA GLY ALA SER ALA ALA LYS PHE ALA LYS ASP ASN HET HEC A 601 43 HET HEC A 602 43 HET HEC A 603 43 HET HEC A 604 43 HET FAD A 600 53 HET SIN A 700 8 HETNAM HEC HEME C HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM SIN SUCCINIC ACID FORMUL 2 HEC 4(C34 H34 FE N4 O4) FORMUL 6 FAD C27 H33 N9 O15 P2 FORMUL 7 SIN C4 H6 O4 FORMUL 8 HOH *56(H2 O) HELIX 1 1 VAL A 4 HIS A 9 1 6 HELIX 2 2 LEU A 31 GLY A 43 1 13 HELIX 3 3 ASP A 44 ALA A 52 1 9 HELIX 4 4 ALA A 69 CYS A 73 5 5 HELIX 5 5 ALA A 82 CYS A 87 5 6 HELIX 6 6 ASP A 110 ALA A 120 1 11 HELIX 7 7 GLY A 134 ASP A 146 1 13 HELIX 8 8 ASN A 163 ALA A 167 5 5 HELIX 9 9 GLN A 179 GLY A 183 5 5 HELIX 10 10 LYS A 188 GLY A 199 1 12 HELIX 11 11 ASP A 204 ASN A 214 1 11 HELIX 12 12 ASN A 214 MET A 225 1 12 HELIX 13 13 GLY A 251 ARG A 267 1 17 HELIX 14 14 ASN A 318 ASP A 326 1 9 HELIX 15 15 PRO A 327 LYS A 330 5 4 HELIX 16 16 GLY A 342 ALA A 351 1 10 HELIX 17 17 GLU A 377 ASN A 382 1 6 HELIX 18 18 THR A 400 GLN A 410 1 11 HELIX 19 19 GLN A 411 SER A 415 5 5 HELIX 20 20 ASP A 421 LYS A 426 1 6 HELIX 21 21 LYS A 429 LEU A 437 1 9 HELIX 22 22 THR A 445 ASP A 454 1 10 HELIX 23 23 PRO A 456 VAL A 471 1 16 HELIX 24 24 GLY A 547 PHE A 567 1 21 SHEET 1 A 4 GLU A 124 THR A 125 0 SHEET 2 A 4 GLY A 299 LYS A 304 1 O VAL A 302 N GLU A 124 SHEET 3 A 4 VAL A 288 GLY A 295 -1 O VAL A 291 N ILE A 303 SHEET 4 A 4 SER A 275 GLU A 282 -1 O ARG A 276 N LYS A 294 SHEET 1 B 6 ASP A 270 ARG A 272 0 SHEET 2 B 6 VAL A 151 LEU A 154 1 O VAL A 151 N ASP A 270 SHEET 3 B 6 VAL A 128 ILE A 131 1 O VAL A 128 N ILE A 152 SHEET 4 B 6 ALA A 307 ILE A 310 1 O ALA A 307 N VAL A 129 SHEET 5 B 6 PRO A 525 ALA A 531 1 O GLY A 528 N VAL A 308 SHEET 6 B 6 GLU A 516 LYS A 518 -1 O VAL A 517 N ILE A 526 SHEET 1 C 3 MET A 171 ASN A 172 0 SHEET 2 C 3 SER A 243 ARG A 245 -1 O HIS A 244 N MET A 171 SHEET 3 C 3 ASP A 231 GLY A 233 -1 N ASP A 231 O ARG A 245 SHEET 1 D 3 THR A 355 ARG A 356 0 SHEET 2 D 3 GLY A 508 VAL A 510 -1 N GLY A 508 O ARG A 356 SHEET 3 D 3 THR A 536 GLY A 537 1 N GLY A 537 O LEU A 509 SHEET 1 E 5 VAL A 373 MET A 374 0 SHEET 2 E 5 ILE A 361 SER A 368 -1 N SER A 368 O VAL A 373 SHEET 3 E 5 PHE A 493 THR A 505 -1 N ALA A 499 O TYR A 367 SHEET 4 E 5 ALA A 416 PHE A 420 -1 O ALA A 416 N ILE A 498 SHEET 5 E 5 ILE A 385 VAL A 387 -1 O ILE A 385 N VAL A 419 SHEET 1 E1 4 VAL A 373 MET A 374 0 SHEET 2 E1 4 ILE A 361 SER A 368 -1 N SER A 368 O VAL A 373 SHEET 3 E1 4 PHE A 493 THR A 505 -1 N ALA A 499 O TYR A 367 SHEET 4 E1 4 LYS A 441 GLY A 443 -1 N LYS A 441 O ALA A 495 LINK SG CYS A 18 CAC HEC A 603 1555 1555 2.01 LINK SG CYS A 38 CAB HEC A 604 1555 1555 1.97 LINK SG CYS A 41 CAC HEC A 604 1555 1555 2.08 LINK SG CYS A 70 CAB HEC A 602 1555 1555 1.94 LINK SG CYS A 73 CAC HEC A 602 1555 1555 2.08 LINK SG CYS A 84 CAB HEC A 601 1555 1555 1.88 LINK SG CYS A 87 CAC HEC A 601 1555 1555 1.96 LINK NE2 HIS A 9 FE HEC A 604 1555 1555 2.05 LINK NE2 HIS A 19 FE HEC A 603 1555 1555 1.89 LINK NE2 HIS A 42 FE HEC A 604 1555 1555 2.09 LINK NE2 HIS A 60 FE HEC A 602 1555 1555 2.04 LINK NE2 HIS A 63 FE HEC A 601 1555 1555 1.95 LINK NE2 HIS A 74 FE HEC A 602 1555 1555 2.04 LINK NE2 HIS A 77 FE HEC A 603 1555 1555 2.00 LINK NE2 HIS A 88 FE HEC A 601 1555 1555 1.94 CISPEP 1 ALA A 491 PRO A 492 0 -8.41 SITE 1 AC1 14 SER A 62 HIS A 63 LEU A 64 TYR A 83 SITE 2 AC1 14 CYS A 84 CYS A 87 HIS A 88 PHE A 90 SITE 3 AC1 14 LEU A 166 HIS A 337 VAL A 373 GLY A 433 SITE 4 AC1 14 TYR A 434 LEU A 437 SITE 1 AC2 21 HIS A 42 GLY A 43 LEU A 45 LEU A 48 SITE 2 AC2 21 PRO A 59 HIS A 60 ILE A 68 ALA A 69 SITE 3 AC2 21 CYS A 70 CYS A 73 HIS A 74 ASP A 93 SITE 4 AC2 21 MET A 94 PRO A 95 ILE A 202 TYR A 360 SITE 5 AC2 21 HEC A 604 HOH A 720 HOH A 721 HOH A 722 SITE 6 AC2 21 HOH A 748 SITE 1 AC3 15 ALA A 6 GLY A 14 CYS A 15 CYS A 18 SITE 2 AC3 15 HIS A 19 LYS A 23 GLY A 24 GLY A 25 SITE 3 AC3 15 VAL A 26 THR A 71 LYS A 75 GLY A 76 SITE 4 AC3 15 HIS A 77 TYR A 297 HOH A 745 SITE 1 AC4 15 LEU A 5 PHE A 8 HIS A 9 SER A 17 SITE 2 AC4 15 GLN A 37 CYS A 38 CYS A 41 HIS A 42 SITE 3 AC4 15 HIS A 74 PRO A 95 ARG A 200 TYR A 325 SITE 4 AC4 15 ASP A 326 TYR A 360 HEC A 602 SITE 1 AC5 43 GLY A 132 SER A 133 GLY A 134 ALA A 136 SITE 2 AC5 43 LEU A 154 GLU A 155 LYS A 156 GLU A 157 SITE 3 AC5 43 GLY A 161 GLY A 162 ASN A 163 THR A 164 SITE 4 AC5 43 ALA A 167 ALA A 168 GLY A 169 GLY A 170 SITE 5 AC5 43 SER A 275 ARG A 276 VAL A 277 ALA A 312 SITE 6 AC5 43 GLY A 313 THR A 335 ASN A 336 HIS A 337 SITE 7 AC5 43 ASP A 343 MET A 374 HIS A 503 HIS A 504 SITE 8 AC5 43 GLY A 533 GLU A 534 ARG A 544 GLY A 547 SITE 9 AC5 43 ASN A 548 ALA A 549 ILE A 550 ILE A 553 SITE 10 AC5 43 SIN A 700 HOH A 701 HOH A 702 HOH A 704 SITE 11 AC5 43 HOH A 705 HOH A 717 HOH A 726 SITE 1 AC6 10 GLY A 169 MET A 235 HIS A 364 THR A 376 SITE 2 AC6 10 GLU A 377 ARG A 401 HIS A 503 ARG A 544 SITE 3 AC6 10 GLY A 547 FAD A 600 CRYST1 72.863 72.863 216.469 90.00 90.00 90.00 P 43 21 2 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 0.013720 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013720 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004620 0.00000