HEADER TRANSFERASE 10-MAR-14 4P3X TITLE STRUCTURE OF THE FE4S4 QUINOLINATE SYNTHASE NADA FROM THERMOTOGA TITLE 2 MARITIMA COMPND MOL_ID: 1; COMPND 2 MOLECULE: QUINOLINATE SYNTHASE A; COMPND 3 CHAIN: A; COMPND 4 EC: 2.5.1.72; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 243274; SOURCE 4 STRAIN: ATCC 43589 / MSB8 / DSM 3109 / JCM 10099; SOURCE 5 GENE: NADA, TM_1644; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PT7 KEYWDS HOLO-PROTEIN, NAD BIOSYNTHESIS, CATALYTIC TRIAD, IRON SULFUR CLUSTER, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.V.CHERRIER,A.CHAN,C.DARNAULT,D.REICHMANN,P.AMARA,S.OLLAGNIER DE AUTHOR 2 CHOUDENS,J.C.FONTECILLA-CAMPS REVDAT 4 27-SEP-23 4P3X 1 REMARK LINK REVDAT 3 22-NOV-17 4P3X 1 SOURCE REMARK REVDAT 2 01-OCT-14 4P3X 1 JRNL REVDAT 1 02-APR-14 4P3X 0 JRNL AUTH M.V.CHERRIER,A.CHAN,C.DARNAULT,D.REICHMANN,P.AMARA, JRNL AUTH 2 S.OLLAGNIER DE CHOUDENS,J.C.FONTECILLA-CAMPS JRNL TITL THE CRYSTAL STRUCTURE OF FE4S4 QUINOLINATE SYNTHASE UNRAVELS JRNL TITL 2 AN ENZYMATIC DEHYDRATION MECHANISM THAT USES TYROSINE AND A JRNL TITL 3 HYDROLASE-TYPE TRIAD. JRNL REF J.AM.CHEM.SOC. V. 136 5253 2014 JRNL REFN ESSN 1520-5126 JRNL PMID 24650327 JRNL DOI 10.1021/JA501431B REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 38724 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1936 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 30.1472 - 3.9740 0.99 2783 147 0.1997 0.2235 REMARK 3 2 3.9740 - 3.1554 1.00 2683 141 0.1777 0.2082 REMARK 3 3 3.1554 - 2.7568 1.00 2656 140 0.1864 0.2251 REMARK 3 4 2.7568 - 2.5049 1.00 2640 139 0.1860 0.2351 REMARK 3 5 2.5049 - 2.3254 1.00 2623 138 0.1782 0.2501 REMARK 3 6 2.3254 - 2.1884 1.00 2626 138 0.1721 0.2226 REMARK 3 7 2.1884 - 2.0788 1.00 2608 138 0.1732 0.2394 REMARK 3 8 2.0788 - 1.9883 1.00 2604 137 0.1732 0.2625 REMARK 3 9 1.9883 - 1.9118 1.00 2616 138 0.1879 0.2607 REMARK 3 10 1.9118 - 1.8458 1.00 2569 133 0.2031 0.2539 REMARK 3 11 1.8458 - 1.7881 1.00 2605 137 0.2093 0.2952 REMARK 3 12 1.7881 - 1.7370 1.00 2618 139 0.2088 0.3058 REMARK 3 13 1.7370 - 1.6913 1.00 2576 136 0.2275 0.3158 REMARK 3 14 1.6913 - 1.6500 1.00 2581 135 0.2566 0.3542 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.450 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.76 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.44 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 2565 REMARK 3 ANGLE : 1.444 3485 REMARK 3 CHIRALITY : 0.094 396 REMARK 3 PLANARITY : 0.007 442 REMARK 3 DIHEDRAL : 13.268 1016 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4P3X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000200652. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.979736 REMARK 200 MONOCHROMATOR : 111 SILICON SINGLE CRISTALS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38765 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 30.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.16200 REMARK 200 FOR THE DATA SET : 10.2200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.78 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.720 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: 1WZU REMARK 200 REMARK 200 REMARK: POLYCRYSTALLINE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 123 MM TRIS 50 MM KCL 61% MPD 100 MM REMARK 280 MES, PH 6.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 46.97000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.97000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 21.46000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 78.60500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 21.46000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 78.60500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.97000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 21.46000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 78.60500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.97000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 21.46000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 78.60500 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 612 LIES ON A SPECIAL POSITION. REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 86 CG CD NE CZ NH1 NH2 REMARK 480 GLU A 94 CG CD OE1 OE2 REMARK 480 GLU A 129 CG CD OE1 OE2 REMARK 480 ARG A 145 CD NE CZ NH1 NH2 REMARK 480 ASN A 165 CG OD1 ND2 REMARK 480 LYS A 184 CE NZ REMARK 480 LYS A 215 CD CE NZ REMARK 480 LYS A 288 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 O HOH A 545 O HOH A 615 2.07 REMARK 500 O PRO A 82 O HOH A 540 2.10 REMARK 500 O HOH A 548 O HOH A 616 2.12 REMARK 500 O HOH A 579 O HOH A 585 2.13 REMARK 500 O HOH A 533 O HOH A 535 2.14 REMARK 500 O HOH A 466 O HOH A 475 2.15 REMARK 500 O HOH A 506 O HOH A 518 2.15 REMARK 500 O HOH A 480 O HOH A 572 2.16 REMARK 500 O HOH A 559 O HOH A 596 2.19 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 O HOH A 419 O HOH A 457 4555 2.15 REMARK 500 O HOH A 412 O HOH A 412 3654 2.16 REMARK 500 O HOH A 465 O HOH A 465 3654 2.17 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 165 32.79 35.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 584 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A 585 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A 612 DISTANCE = 7.26 ANGSTROMS 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 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A -6 N REMARK 620 2 MET A -6 O 77.6 REMARK 620 3 HIS A -4 NE2 136.8 74.2 REMARK 620 4 HIS A -1 NE2 94.2 87.1 52.7 REMARK 620 5 HIS A 0 NE2 123.8 73.6 15.1 38.1 REMARK 620 6 HOH A 404 O 84.6 92.2 128.1 178.7 142.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 81 SG REMARK 620 2 SF4 A 301 S1 114.1 REMARK 620 3 SF4 A 301 S2 111.6 100.0 REMARK 620 4 SF4 A 301 S3 130.7 97.5 98.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 168 SG REMARK 620 2 SF4 A 301 S2 115.5 REMARK 620 3 SF4 A 301 S3 124.4 98.5 REMARK 620 4 SF4 A 301 S4 121.1 95.1 96.3 REMARK 620 5 HOH A 552 O 89.3 65.0 146.1 58.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 254 SG REMARK 620 2 SF4 A 301 S1 120.2 REMARK 620 3 SF4 A 301 S3 127.7 97.4 REMARK 620 4 SF4 A 301 S4 113.5 95.9 95.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 533 O REMARK 620 2 SF4 A 301 S1 124.4 REMARK 620 3 SF4 A 301 S2 114.2 98.8 REMARK 620 4 SF4 A 301 S4 122.9 96.2 94.0 REMARK 620 5 HOH A 535 O 48.2 145.5 67.7 115.7 REMARK 620 6 HOH A 552 O 81.2 154.2 69.5 63.1 52.6 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 SF4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WZU RELATED DB: PDB REMARK 900 RELATED ID: 4HHE RELATED DB: PDB DBREF 4P3X A 1 298 UNP Q9X1X7 NADA_THEMA 1 298 SEQADV 4P3X MET A -6 UNP Q9X1X7 INITIATING METHIONINE SEQADV 4P3X HIS A -5 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X HIS A -4 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X HIS A -3 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X HIS A -2 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X HIS A -1 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X HIS A 0 UNP Q9X1X7 EXPRESSION TAG SEQADV 4P3X ARG A 219 UNP Q9X1X7 LYS 219 ENGINEERED MUTATION SEQRES 1 A 305 MET HIS HIS HIS HIS HIS HIS MET VAL ASP GLU ILE LEU SEQRES 2 A 305 LYS LEU LYS LYS GLU LYS GLY TYR ILE ILE LEU ALA HIS SEQRES 3 A 305 ASN TYR GLN ILE PRO GLU LEU GLN ASP ILE ALA ASP PHE SEQRES 4 A 305 VAL GLY ASP SER LEU GLN LEU ALA ARG LYS ALA MET GLU SEQRES 5 A 305 LEU SER GLU LYS LYS ILE LEU PHE LEU GLY VAL ASP PHE SEQRES 6 A 305 MET ALA GLU LEU VAL LYS ILE LEU ASN PRO ASP LYS LYS SEQRES 7 A 305 VAL ILE VAL PRO ASP ARG SER ALA THR CYS PRO MET ALA SEQRES 8 A 305 ASN ARG LEU THR PRO GLU ILE ILE ARG GLU TYR ARG GLU SEQRES 9 A 305 LYS PHE PRO ASP ALA PRO VAL VAL LEU TYR VAL ASN SER SEQRES 10 A 305 THR SER GLU CYS LYS THR LEU ALA ASP VAL ILE CYS THR SEQRES 11 A 305 SER ALA ASN ALA VAL GLU VAL VAL LYS LYS LEU ASP SER SEQRES 12 A 305 SER VAL VAL ILE PHE GLY PRO ASP ARG ASN LEU GLY GLU SEQRES 13 A 305 TYR VAL ALA GLU LYS THR GLY LYS LYS VAL ILE THR ILE SEQRES 14 A 305 PRO GLU ASN GLY HIS CYS PRO VAL HIS GLN PHE ASN ALA SEQRES 15 A 305 GLU SER ILE ASP ALA VAL ARG LYS LYS TYR PRO ASP ALA SEQRES 16 A 305 LYS VAL ILE VAL HIS PRO GLU CYS PRO LYS PRO VAL ARG SEQRES 17 A 305 ASP LYS ALA ASP TYR VAL GLY SER THR GLY GLN MET GLU SEQRES 18 A 305 LYS ILE PRO GLU ARG ASP PRO SER ARG ILE PHE VAL ILE SEQRES 19 A 305 GLY THR GLU ILE GLY MET ILE HIS LYS LEU LYS LYS LYS SEQRES 20 A 305 PHE PRO ASP ARG GLU PHE VAL PRO LEU GLU MET ALA VAL SEQRES 21 A 305 CYS VAL ASN MET LYS LYS ASN THR LEU GLU ASN THR LEU SEQRES 22 A 305 HIS ALA LEU GLN THR GLU SER PHE GLU VAL ILE LEU PRO SEQRES 23 A 305 LYS GLU VAL ILE GLU LYS ALA LYS LYS PRO ILE LEU ARG SEQRES 24 A 305 MET PHE GLU LEU MET GLY HET SF4 A 301 8 HET ZN A 302 1 HET MPD A 303 8 HET MPD A 304 8 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM ZN ZINC ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 2 SF4 FE4 S4 FORMUL 3 ZN ZN 2+ FORMUL 4 MPD 2(C6 H14 O2) FORMUL 6 HOH *236(H2 O) HELIX 1 AA1 HIS A -5 GLY A 13 1 19 HELIX 2 AA2 ILE A 23 ALA A 30 1 8 HELIX 3 AA3 ASP A 35 MET A 44 1 10 HELIX 4 AA4 VAL A 56 ASN A 67 1 12 HELIX 5 AA5 CYS A 81 ARG A 86 1 6 HELIX 6 AA6 THR A 88 PHE A 99 1 12 HELIX 7 AA7 THR A 111 THR A 116 1 6 HELIX 8 AA8 ASN A 126 LEU A 134 1 9 HELIX 9 AA9 ASP A 144 GLY A 156 1 13 HELIX 10 AB1 CYS A 168 GLN A 172 5 5 HELIX 11 AB2 ASN A 174 TYR A 185 1 12 HELIX 12 AB3 PRO A 197 ALA A 204 1 8 HELIX 13 AB4 SER A 209 ASP A 220 1 12 HELIX 14 AB5 ILE A 231 PHE A 241 1 11 HELIX 15 AB6 ASN A 256 ASN A 260 5 5 HELIX 16 AB7 THR A 261 GLU A 272 1 12 HELIX 17 AB8 PRO A 279 MET A 297 1 19 SHEET 1 AA1 4 PHE A 32 GLY A 34 0 SHEET 2 AA1 4 TYR A 14 HIS A 19 1 N ALA A 18 O PHE A 32 SHEET 3 AA1 4 LYS A 50 LEU A 54 1 O LEU A 54 N LEU A 17 SHEET 4 AA1 4 LYS A 71 ILE A 73 1 O ILE A 73 N PHE A 53 SHEET 1 AA2 4 VAL A 120 CYS A 122 0 SHEET 2 AA2 4 VAL A 104 TYR A 107 1 N LEU A 106 O VAL A 120 SHEET 3 AA2 4 VAL A 138 GLY A 142 1 O ILE A 140 N VAL A 105 SHEET 4 AA2 4 LYS A 158 THR A 161 1 O ILE A 160 N VAL A 139 SHEET 1 AA3 4 TYR A 206 VAL A 207 0 SHEET 2 AA3 4 LYS A 189 VAL A 192 1 N VAL A 192 O TYR A 206 SHEET 3 AA3 4 ILE A 224 GLY A 228 1 O GLY A 228 N ILE A 191 SHEET 4 AA3 4 GLU A 245 PRO A 248 1 O VAL A 247 N ILE A 227 LINK N MET A -6 ZN ZN A 302 1555 1555 2.22 LINK O MET A -6 ZN ZN A 302 1555 1555 2.10 LINK NE2 HIS A -4 ZN ZN A 302 1555 3654 2.04 LINK NE2 HIS A -1 ZN ZN A 302 1555 1555 2.13 LINK NE2 HIS A 0 ZN ZN A 302 1555 3654 2.12 LINK SG CYS A 81 FE4 SF4 A 301 1555 1555 2.35 LINK SG CYS A 168 FE1 SF4 A 301 1555 1555 2.45 LINK SG CYS A 254 FE2 SF4 A 301 1555 1555 2.47 LINK FE3 SF4 A 301 O HOH A 533 1555 1555 2.37 LINK FE3 SF4 A 301 O HOH A 535 1555 1555 2.79 LINK FE1 SF4 A 301 O HOH A 552 1555 1555 2.79 LINK FE3 SF4 A 301 O HOH A 552 1555 1555 2.53 LINK ZN ZN A 302 O HOH A 404 1555 4555 2.15 CISPEP 1 GLY A 142 PRO A 143 0 3.32 CISPEP 2 ILE A 162 PRO A 163 0 -4.99 CISPEP 3 SER A 273 PHE A 274 0 0.47 SITE 1 AC1 8 CYS A 81 ASN A 109 CYS A 168 VAL A 170 SITE 2 AC1 8 CYS A 254 HOH A 533 HOH A 535 HOH A 552 SITE 1 AC2 5 MET A -6 HIS A -4 HIS A -1 HIS A 0 SITE 2 AC2 5 HOH A 404 SITE 1 AC3 7 ASP A 57 GLU A 61 ARG A 77 GLU A 218 SITE 2 AC3 7 VAL A 276 HOH A 417 HOH A 420 SITE 1 AC4 7 HIS A -5 PRO A 169 VAL A 170 GLN A 172 SITE 2 AC4 7 MET A 251 HOH A 442 HOH A 478 CRYST1 42.920 157.210 93.940 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.023299 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006361 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010645 0.00000