HEADER LYASE 10-NOV-13 4NJJ TITLE CRYSTAL STRUCTURE OF QUEE FROM BURKHOLDERIA MULTIVORANS IN COMPLEX TITLE 2 WITH ADOMET, 6-CARBOXY-5,6,7,8-TETRAHYDROPTERIN, AND MANGANESE(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 7-CARBOXY-7-DEAZAGUANINE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CDG SYNTHASE, QUEUOSINE BIOSYNTHESIS PROTEIN QUEE; COMPND 5 EC: 4.3.99.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA MULTIVORANS; SOURCE 3 ORGANISM_TAXID: 395019; SOURCE 4 STRAIN: ATCC 17616 / 249; SOURCE 5 GENE: QUEE, BMUL_3115, BMULJ_00116; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ADOMET RADICAL ENZYME, MODIFIED PARTIAL TIM BARREL-LIKE STRUCTURE, KEYWDS 2 RADICAL SAM FOLD, RADICAL ADOMET FOLD, SYNTHASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR D.P.DOWLING,N.A.BRUENDER,A.P.YOUNG,R.M.MCCARTY,V.BANDARIAN, AUTHOR 2 C.L.DRENNAN REVDAT 5 20-SEP-23 4NJJ 1 REMARK SEQADV LINK REVDAT 4 02-JUL-14 4NJJ 1 HETSYN REVDAT 3 05-FEB-14 4NJJ 1 JRNL REVDAT 2 22-JAN-14 4NJJ 1 JRNL REVDAT 1 25-DEC-13 4NJJ 0 JRNL AUTH D.P.DOWLING,N.A.BRUENDER,A.P.YOUNG,R.M.MCCARTY,V.BANDARIAN, JRNL AUTH 2 C.L.DRENNAN JRNL TITL RADICAL SAM ENZYME QUEE DEFINES A NEW MINIMAL CORE FOLD AND JRNL TITL 2 METAL-DEPENDENT MECHANISM. JRNL REF NAT.CHEM.BIOL. V. 10 106 2014 JRNL REFN ISSN 1552-4450 JRNL PMID 24362703 JRNL DOI 10.1038/NCHEMBIO.1426 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 21361 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1048 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 48.1710 - 6.5019 0.97 2620 147 0.1379 0.1699 REMARK 3 2 6.5019 - 5.1627 1.00 2736 125 0.1386 0.1512 REMARK 3 3 5.1627 - 4.5106 1.00 2706 138 0.1264 0.1507 REMARK 3 4 4.5106 - 4.0985 1.00 2673 146 0.1267 0.1755 REMARK 3 5 4.0985 - 3.8048 1.00 2704 143 0.1509 0.1741 REMARK 3 6 3.8048 - 3.5806 1.00 2702 154 0.1824 0.2543 REMARK 3 7 3.5806 - 3.4013 1.00 2669 162 0.1845 0.2125 REMARK 3 8 3.4013 - 3.2533 1.00 2691 137 0.1951 0.2567 REMARK 3 9 3.2533 - 3.1281 1.00 2734 120 0.2065 0.2779 REMARK 3 10 3.1281 - 3.0201 1.00 2680 171 0.2094 0.2371 REMARK 3 11 3.0201 - 2.9257 1.00 2703 129 0.1961 0.2615 REMARK 3 12 2.9257 - 2.8421 1.00 2700 124 0.1957 0.2285 REMARK 3 13 2.8421 - 2.7673 1.00 2677 170 0.2177 0.2580 REMARK 3 14 2.7673 - 2.6998 0.99 2662 142 0.2633 0.3552 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.20 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 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 : 0.004 3452 REMARK 3 ANGLE : 0.773 4720 REMARK 3 CHIRALITY : 0.027 500 REMARK 3 PLANARITY : 0.004 656 REMARK 3 DIHEDRAL : 11.507 1296 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 4NJJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-NOV-13. REMARK 100 THE DEPOSITION ID IS D_1000083282. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.7399 REMARK 200 MONOCHROMATOR : CRYOGENICALLY-COOLED SINGLE REMARK 200 CRYSTAL SI(220) SIDE BOUNCE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21371 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 48.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07600 REMARK 200 FOR THE DATA SET : 27.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 8.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.55100 REMARK 200 FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 4NJG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ANAEROBIC, CRYSTALS FORMED IN 2.0 M REMARK 280 SODIUM DIPOTASSIUM PHOSPHATE, PH 6.8, 0.1 M SODIUM ACETATE, PH REMARK 280 4.5, BUFFER-EXCHANGED INTO 0.1 M HEPES, 30% V/V JEFFAMINE ED- REMARK 280 2001, PH 7.0, 0.1 M MANGANESE SULFATE, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K 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 52.65500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 59.58700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 59.58700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 78.98250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 59.58700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 59.58700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 26.32750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 59.58700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.58700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 78.98250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 59.58700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.58700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.32750 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 52.65500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -79.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 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 THR A 11 -163.60 -165.61 REMARK 500 ALA A 83 -146.92 -99.22 REMARK 500 THR B 11 -158.51 -164.02 REMARK 500 ASN B 60 18.47 58.18 REMARK 500 ALA B 83 -150.00 -96.45 REMARK 500 THR B 90 -158.00 -145.12 REMARK 500 PRO B 195 3.53 -66.25 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 SF4 A 301 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 31 SG REMARK 620 2 SF4 A 301 S1 113.3 REMARK 620 3 SF4 A 301 S2 96.0 104.1 REMARK 620 4 SF4 A 301 S3 131.4 104.0 104.2 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 46 SG REMARK 620 2 SF4 A 301 S2 123.3 REMARK 620 3 SF4 A 301 S3 108.3 104.3 REMARK 620 4 SF4 A 301 S4 110.8 104.3 104.2 REMARK 620 N 1 2 3 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 49 SG REMARK 620 2 SF4 A 301 S1 128.8 REMARK 620 3 SF4 A 301 S3 103.4 104.1 REMARK 620 4 SF4 A 301 S4 109.8 104.2 104.0 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 SAM A 302 N REMARK 620 2 SF4 A 301 S1 75.8 REMARK 620 3 SF4 A 301 S2 98.8 104.2 REMARK 620 4 SF4 A 301 S4 156.7 104.0 103.8 REMARK 620 5 SAM A 302 O 74.1 144.5 98.7 96.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 304 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 2K8 A 303 N5 REMARK 620 2 2K8 A 303 O4 72.8 REMARK 620 3 HOH A 416 O 100.3 71.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 301 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 31 SG REMARK 620 2 SF4 B 301 S1 114.2 REMARK 620 3 SF4 B 301 S2 99.1 104.2 REMARK 620 4 SF4 B 301 S3 128.1 104.0 104.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 301 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 46 SG REMARK 620 2 SF4 B 301 S2 127.1 REMARK 620 3 SF4 B 301 S3 104.5 104.2 REMARK 620 4 SF4 B 301 S4 110.6 104.0 104.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 301 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 49 SG REMARK 620 2 SF4 B 301 S1 125.6 REMARK 620 3 SF4 B 301 S3 106.6 104.0 REMARK 620 4 SF4 B 301 S4 110.5 104.1 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 301 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAM B 302 N REMARK 620 2 SF4 B 301 S1 76.7 REMARK 620 3 SF4 B 301 S2 95.4 103.9 REMARK 620 4 SF4 B 301 S4 160.0 104.0 103.7 REMARK 620 5 SAM B 302 O 77.2 147.9 96.8 94.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 304 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 2K8 B 303 N5 REMARK 620 2 2K8 B 303 O4 70.8 REMARK 620 3 HOH B 418 O 115.5 77.6 REMARK 620 4 HOH B 419 O 129.0 71.3 87.7 REMARK 620 N 1 2 3 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 SAM A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2K8 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2K8 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4NJG RELATED DB: PDB REMARK 900 QUEE FROM BURKHOLDERIA MULTIVORANS IN COMPLEX WITH ADOMET AND 6- REMARK 900 CARBOXYPTERIN REMARK 900 RELATED ID: 4NJH RELATED DB: PDB REMARK 900 QUEE FROM BURKHOLDERIA MULTIVORANS IN COMPLEX WITH ADOMET AND 6- REMARK 900 CARBOXY-5,6,7,8-TETRAHYDROPTERIN REMARK 900 RELATED ID: 4NJI RELATED DB: PDB REMARK 900 QUEE FROM BURKHOLDERIA MULTIVORANS IN COMPLEX WITH ADOMET, 6- REMARK 900 CARBOXY-5,6,7,8-TETRAHYDROPTERIN, AND MG2+ REMARK 900 RELATED ID: 4NJK RELATED DB: PDB REMARK 900 QUEE FROM BURKHOLDERIA MULTIVORANS IN COMPLEX WITH ADOMET, 7- REMARK 900 CARBOXY-7-DEAZAGUANINE, AND MG2+ DBREF 4NJJ A 1 210 UNP A9AC61 A9AC61_BURM1 1 210 DBREF 4NJJ B 1 210 UNP A9AC61 A9AC61_BURM1 1 210 SEQADV 4NJJ MET A -19 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY A -18 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER A -17 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER A -16 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -15 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -14 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -13 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -12 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -11 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A -10 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER A -9 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER A -8 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY A -7 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ LEU A -6 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ VAL A -5 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ PRO A -4 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ ARG A -3 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY A -2 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER A -1 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS A 0 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ MET B -19 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY B -18 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER B -17 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER B -16 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -15 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -14 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -13 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -12 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -11 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B -10 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER B -9 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER B -8 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY B -7 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ LEU B -6 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ VAL B -5 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ PRO B -4 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ ARG B -3 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ GLY B -2 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ SER B -1 UNP A9AC61 EXPRESSION TAG SEQADV 4NJJ HIS B 0 UNP A9AC61 EXPRESSION TAG SEQRES 1 A 230 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 230 LEU VAL PRO ARG GLY SER HIS MET THR TYR ALA VAL LYS SEQRES 3 A 230 GLU ILE PHE TYR THR LEU GLN GLY GLU GLY ALA ASN ALA SEQRES 4 A 230 GLY ARG PRO ALA VAL PHE CYS ARG PHE ALA GLY CYS ASN SEQRES 5 A 230 LEU TRP SER GLY ARG GLU GLU ASP ARG ALA GLN ALA VAL SEQRES 6 A 230 CYS ARG PHE CYS ASP THR ASP PHE VAL GLY THR ASP GLY SEQRES 7 A 230 GLU ASN GLY GLY LYS PHE LYS ASP ALA ASP ALA LEU VAL SEQRES 8 A 230 ALA THR ILE ALA GLY LEU TRP PRO ALA GLY GLU ALA HIS SEQRES 9 A 230 ARG PHE VAL VAL CYS THR GLY GLY GLU PRO MET LEU GLN SEQRES 10 A 230 LEU ASP GLN PRO LEU VAL ASP ALA LEU HIS ALA ALA GLY SEQRES 11 A 230 PHE GLY ILE ALA ILE GLU THR ASN GLY SER LEU PRO VAL SEQRES 12 A 230 LEU GLU SER ILE ASP TRP ILE CYS VAL SER PRO LYS ALA SEQRES 13 A 230 ASP ALA PRO LEU VAL VAL THR LYS GLY ASN GLU LEU LYS SEQRES 14 A 230 VAL VAL ILE PRO GLN ASP ASN GLN ARG LEU ALA ASP TYR SEQRES 15 A 230 ALA LYS LEU ASP PHE GLU TYR PHE LEU VAL GLN PRO MET SEQRES 16 A 230 ASP GLY PRO SER ARG ASP LEU ASN THR LYS LEU ALA ILE SEQRES 17 A 230 ASP TRP CYS LYS ARG HIS PRO GLN TRP ARG LEU SER MET SEQRES 18 A 230 GLN THR HIS LYS TYR LEU ASN ILE PRO SEQRES 1 B 230 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 230 LEU VAL PRO ARG GLY SER HIS MET THR TYR ALA VAL LYS SEQRES 3 B 230 GLU ILE PHE TYR THR LEU GLN GLY GLU GLY ALA ASN ALA SEQRES 4 B 230 GLY ARG PRO ALA VAL PHE CYS ARG PHE ALA GLY CYS ASN SEQRES 5 B 230 LEU TRP SER GLY ARG GLU GLU ASP ARG ALA GLN ALA VAL SEQRES 6 B 230 CYS ARG PHE CYS ASP THR ASP PHE VAL GLY THR ASP GLY SEQRES 7 B 230 GLU ASN GLY GLY LYS PHE LYS ASP ALA ASP ALA LEU VAL SEQRES 8 B 230 ALA THR ILE ALA GLY LEU TRP PRO ALA GLY GLU ALA HIS SEQRES 9 B 230 ARG PHE VAL VAL CYS THR GLY GLY GLU PRO MET LEU GLN SEQRES 10 B 230 LEU ASP GLN PRO LEU VAL ASP ALA LEU HIS ALA ALA GLY SEQRES 11 B 230 PHE GLY ILE ALA ILE GLU THR ASN GLY SER LEU PRO VAL SEQRES 12 B 230 LEU GLU SER ILE ASP TRP ILE CYS VAL SER PRO LYS ALA SEQRES 13 B 230 ASP ALA PRO LEU VAL VAL THR LYS GLY ASN GLU LEU LYS SEQRES 14 B 230 VAL VAL ILE PRO GLN ASP ASN GLN ARG LEU ALA ASP TYR SEQRES 15 B 230 ALA LYS LEU ASP PHE GLU TYR PHE LEU VAL GLN PRO MET SEQRES 16 B 230 ASP GLY PRO SER ARG ASP LEU ASN THR LYS LEU ALA ILE SEQRES 17 B 230 ASP TRP CYS LYS ARG HIS PRO GLN TRP ARG LEU SER MET SEQRES 18 B 230 GLN THR HIS LYS TYR LEU ASN ILE PRO HET SF4 A 301 8 HET SAM A 302 27 HET 2K8 A 303 15 HET MN A 304 1 HET MN A 305 1 HET SF4 B 301 8 HET SAM B 302 27 HET 2K8 B 303 15 HET MN B 304 1 HET MN B 305 1 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SAM S-ADENOSYLMETHIONINE HETNAM 2K8 (6R)-2-AMINO-4-OXO-3,4,5,6,7,8-HEXAHYDROPTERIDINE-6- HETNAM 2 2K8 CARBOXYLIC ACID HETNAM MN MANGANESE (II) ION HETSYN 2K8 6-CARBOXY-5,6,7,8-TETRAHYDROPTERIN FORMUL 3 SF4 2(FE4 S4) FORMUL 4 SAM 2(C15 H22 N6 O5 S) FORMUL 5 2K8 2(C7 H9 N5 O3) FORMUL 6 MN 4(MN 2+) FORMUL 13 HOH *69(H2 O) HELIX 1 1 ASP A 40 ALA A 44 5 5 HELIX 2 2 ASP A 66 GLY A 76 1 11 HELIX 3 3 GLU A 93 GLN A 97 5 5 HELIX 4 4 ASP A 99 ALA A 109 1 11 HELIX 5 5 ARG A 158 ALA A 163 1 6 HELIX 6 6 SER A 179 HIS A 194 1 16 HELIX 7 7 THR A 203 ASN A 208 1 6 HELIX 8 8 ARG B 37 ALA B 42 1 6 HELIX 9 9 ASP B 66 GLY B 76 1 11 HELIX 10 10 GLU B 93 GLN B 97 5 5 HELIX 11 11 ASP B 99 ALA B 109 1 11 HELIX 12 12 ARG B 158 ALA B 163 1 6 HELIX 13 13 SER B 179 HIS B 194 1 16 HELIX 14 14 GLN B 202 ASN B 208 1 7 SHEET 1 A 9 GLY A 62 PHE A 64 0 SHEET 2 A 9 TYR A 3 LEU A 12 -1 N TYR A 3 O PHE A 64 SHEET 3 A 9 PRO A 22 PHE A 28 -1 O PHE A 25 N PHE A 9 SHEET 4 A 9 PHE A 86 THR A 90 1 O VAL A 88 N VAL A 24 SHEET 5 A 9 GLY A 112 THR A 117 1 O ALA A 114 N CYS A 89 SHEET 6 A 9 TRP A 129 VAL A 132 1 O CYS A 131 N THR A 117 SHEET 7 A 9 LYS A 144 ILE A 152 1 O GLU A 147 N VAL A 132 SHEET 8 A 9 ASP A 166 PRO A 174 1 O LEU A 171 N VAL A 150 SHEET 9 A 9 ARG A 198 LEU A 199 1 O ARG A 198 N VAL A 172 SHEET 1 B 9 GLY B 62 PHE B 64 0 SHEET 2 B 9 TYR B 3 LEU B 12 -1 N TYR B 3 O PHE B 64 SHEET 3 B 9 PRO B 22 PHE B 28 -1 O PHE B 25 N PHE B 9 SHEET 4 B 9 PHE B 86 THR B 90 1 O VAL B 88 N VAL B 24 SHEET 5 B 9 GLY B 112 THR B 117 1 O ALA B 114 N CYS B 89 SHEET 6 B 9 TRP B 129 VAL B 132 1 O CYS B 131 N THR B 117 SHEET 7 B 9 GLU B 147 ILE B 152 1 O GLU B 147 N VAL B 132 SHEET 8 B 9 TYR B 169 PRO B 174 1 O TYR B 169 N LEU B 148 SHEET 9 B 9 TRP B 197 LEU B 199 1 O ARG B 198 N PHE B 170 LINK SG CYS A 31 FE4 SF4 A 301 1555 1555 2.29 LINK SG CYS A 46 FE1 SF4 A 301 1555 1555 2.28 LINK SG CYS A 49 FE2 SF4 A 301 1555 1555 2.29 LINK OD2 ASP A 52 MN MN A 305 1555 1555 2.51 LINK FE3 SF4 A 301 N SAM A 302 1555 1555 2.09 LINK FE3 SF4 A 301 O SAM A 302 1555 1555 2.40 LINK N5 2K8 A 303 MN MN A 304 1555 1555 2.01 LINK O4 2K8 A 303 MN MN A 304 1555 1555 2.69 LINK MN MN A 304 O HOH A 416 1555 1555 2.34 LINK SG CYS B 31 FE4 SF4 B 301 1555 1555 2.29 LINK SG CYS B 46 FE1 SF4 B 301 1555 1555 2.28 LINK SG CYS B 49 FE2 SF4 B 301 1555 1555 2.28 LINK OD2 ASP B 52 MN MN B 305 1555 1555 2.59 LINK FE3 SF4 B 301 N SAM B 302 1555 1555 2.07 LINK FE3 SF4 B 301 O SAM B 302 1555 1555 2.28 LINK N5 2K8 B 303 MN MN B 304 1555 1555 2.00 LINK O4 2K8 B 303 MN MN B 304 1555 1555 2.78 LINK MN MN B 304 O HOH B 418 1555 1555 2.48 LINK MN MN B 304 O HOH B 419 1555 1555 2.48 CISPEP 1 GLY A 91 GLY A 92 0 -0.01 CISPEP 2 ILE A 152 PRO A 153 0 -2.93 CISPEP 3 GLY B 91 GLY B 92 0 2.74 CISPEP 4 ILE B 152 PRO B 153 0 -4.76 SITE 1 AC1 7 CYS A 31 CYS A 46 CYS A 49 GLY A 92 SITE 2 AC1 7 ASN A 118 LYS A 135 SAM A 302 SITE 1 AC2 22 PHE A 48 CYS A 49 ASP A 50 THR A 51 SITE 2 AC2 22 THR A 90 GLY A 92 GLU A 93 GLU A 116 SITE 3 AC2 22 THR A 117 ASN A 118 SER A 133 LYS A 135 SITE 4 AC2 22 LYS A 149 VAL A 151 GLN A 173 PRO A 174 SITE 5 AC2 22 MET A 175 ASP A 176 GLN A 202 SF4 A 301 SITE 6 AC2 22 2K8 A 303 HOH A 434 SITE 1 AC3 14 LEU A 12 GLN A 13 GLY A 14 GLU A 15 SITE 2 AC3 14 PHE A 25 ARG A 27 THR A 90 GLU A 116 SITE 3 AC3 14 HIS A 204 PRO A 210 SAM A 302 MN A 304 SITE 4 AC3 14 HOH A 416 HOH A 417 SITE 1 AC4 4 THR A 51 2K8 A 303 HOH A 416 HOH A 417 SITE 1 AC5 1 ASP A 52 SITE 1 AC6 7 CYS B 31 CYS B 46 CYS B 49 GLY B 92 SITE 2 AC6 7 ASN B 118 LYS B 135 SAM B 302 SITE 1 AC7 22 PHE B 48 CYS B 49 ASP B 50 THR B 51 SITE 2 AC7 22 THR B 90 GLY B 92 GLU B 93 GLU B 116 SITE 3 AC7 22 THR B 117 ASN B 118 SER B 133 LYS B 135 SITE 4 AC7 22 LYS B 149 VAL B 151 GLN B 173 PRO B 174 SITE 5 AC7 22 MET B 175 ASP B 176 GLN B 202 SF4 B 301 SITE 6 AC7 22 2K8 B 303 HOH B 430 SITE 1 AC8 13 LEU B 12 GLN B 13 GLY B 14 GLU B 15 SITE 2 AC8 13 PHE B 25 ARG B 27 THR B 90 GLU B 116 SITE 3 AC8 13 HIS B 204 PRO B 210 SAM B 302 MN B 304 SITE 4 AC8 13 HOH B 419 SITE 1 AC9 4 THR B 51 2K8 B 303 HOH B 418 HOH B 419 SITE 1 BC1 1 ASP B 52 CRYST1 119.174 119.174 105.310 90.00 90.00 90.00 P 43 21 2 16 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 0.008391 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008391 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009496 0.00000