HEADER PROTEIN BINDING 10-MAY-19 6OWR TITLE NMR SOLUTION STRUCTURE OF YFID COMPND MOL_ID: 1; COMPND 2 MOLECULE: AUTONOMOUS GLYCYL RADICAL COFACTOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: YFID; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: T7 EXPRESS; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P-CAL-N-EK KEYWDS GLYCYL RADICAL ENZYME, COFACTOR REPAIR, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR S.E.J.BOWMAN,C.L.DRENNAN REVDAT 4 14-JUN-23 6OWR 1 REMARK REVDAT 3 20-NOV-19 6OWR 1 REMARK REVDAT 2 02-OCT-19 6OWR 1 JRNL REVDAT 1 10-JUL-19 6OWR 0 JRNL AUTH S.E.J.BOWMAN,L.R.F.BACKMAN,R.E.BJORK,M.C.ANDORFER,S.YORI, JRNL AUTH 2 A.CARUSO,C.M.STULTZ,C.L.DRENNAN JRNL TITL SOLUTION STRUCTURE AND BIOCHEMICAL CHARACTERIZATION OF A JRNL TITL 2 SPARE PART PROTEIN THAT RESTORES ACTIVITY TO AN JRNL TITL 3 OXYGEN-DAMAGED GLYCYL RADICAL ENZYME. JRNL REF J.BIOL.INORG.CHEM. V. 24 817 2019 JRNL REFN ESSN 1432-1327 JRNL PMID 31250200 JRNL DOI 10.1007/S00775-019-01681-2 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6OWR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1000241220. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 2.7 REMARK 210 PRESSURE : 760 MMHG REMARK 210 SAMPLE CONTENTS : 0.7 MM [U-15N] YFID, 18 MM REMARK 210 HEPES, 2.7 MM AMMONIUM SULFATE, REMARK 210 10 % V/V D2O, 90% H2O/10% D2O; REMARK 210 1.3 MM [U-100% 13C; U-100% 15N] REMARK 210 YFID, 18 MM HEPES, 2.7 MM REMARK 210 AMMONIUM SULFATE, 10 % V/V D2O, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY; 3D HNCA; 3D REMARK 210 HNCACB; 3D HBHA(CO)NH REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; CMR 600 E REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; FBML REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR, NMRPIPE, SPARKY, CYANA, X REMARK 210 -PLOR NIH REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 THR A 3 REMARK 465 GLY A 4 REMARK 465 ILE A 5 REMARK 465 GLN A 6 REMARK 465 ILE A 7 REMARK 465 THR A 8 REMARK 465 LYS A 9 REMARK 465 ALA A 10 REMARK 465 ALA A 11 REMARK 465 ASN A 12 REMARK 465 ASP A 13 REMARK 465 ASP A 14 REMARK 465 LEU A 15 REMARK 465 LEU A 16 REMARK 465 ASN A 17 REMARK 465 SER A 18 REMARK 465 PHE A 19 REMARK 465 TRP A 20 REMARK 465 LEU A 21 REMARK 465 LEU A 22 REMARK 465 ASP A 23 REMARK 465 SER A 24 REMARK 465 GLU A 25 REMARK 465 LYS A 26 REMARK 465 GLY A 27 REMARK 465 GLU A 28 REMARK 465 ALA A 29 REMARK 465 ARG A 30 REMARK 465 CYS A 31 REMARK 465 ILE A 32 REMARK 465 VAL A 33 REMARK 465 ALA A 34 REMARK 465 LYS A 35 REMARK 465 ALA A 36 REMARK 465 GLY A 37 REMARK 465 PHE A 38 REMARK 465 ALA A 39 REMARK 465 GLU A 40 REMARK 465 ASP A 41 REMARK 465 GLU A 42 REMARK 465 VAL A 43 REMARK 465 VAL A 44 REMARK 465 ALA A 45 REMARK 465 VAL A 46 REMARK 465 SER A 47 REMARK 465 LYS A 48 REMARK 465 LEU A 49 REMARK 465 GLY A 50 REMARK 465 ASP A 51 REMARK 465 ILE A 52 REMARK 465 GLU A 53 REMARK 465 TYR A 54 REMARK 465 ARG A 55 REMARK 465 GLU A 56 REMARK 465 VAL A 57 REMARK 465 PRO A 58 REMARK 465 VAL A 59 REMARK 465 GLU A 60 REMARK 465 VAL A 61 REMARK 465 LYS A 62 REMARK 465 PRO A 63 REMARK 465 GLU A 64 REMARK 465 VAL A 65 REMARK 465 ARG A 66 REMARK 465 VAL A 67 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 1 HIS A 72 134.43 62.59 REMARK 500 1 SER A 101 42.47 -169.89 REMARK 500 2 HIS A 72 150.58 176.57 REMARK 500 2 TYR A 93 77.92 -116.30 REMARK 500 2 SER A 101 52.21 -171.52 REMARK 500 3 GLN A 71 -157.72 -86.38 REMARK 500 3 TYR A 93 79.38 -118.71 REMARK 500 3 SER A 101 50.23 -171.20 REMARK 500 4 TYR A 93 77.66 -115.26 REMARK 500 4 SER A 101 49.06 -167.46 REMARK 500 5 GLN A 71 -68.86 -106.10 REMARK 500 5 GLN A 95 8.48 59.32 REMARK 500 5 SER A 101 50.37 -172.86 REMARK 500 6 TYR A 93 79.24 -117.21 REMARK 500 6 SER A 101 47.79 -169.47 REMARK 500 7 TYR A 93 79.15 -116.62 REMARK 500 7 SER A 101 52.37 -176.60 REMARK 500 7 SER A 126 -164.37 -100.65 REMARK 500 8 LEU A 73 -102.73 -127.81 REMARK 500 8 ASN A 74 86.87 52.17 REMARK 500 8 TYR A 93 77.50 -117.48 REMARK 500 8 SER A 101 45.78 -168.12 REMARK 500 9 VAL A 75 115.73 59.64 REMARK 500 9 TYR A 93 79.00 -115.81 REMARK 500 9 SER A 101 49.18 -171.82 REMARK 500 10 TYR A 93 79.39 -119.84 REMARK 500 10 SER A 101 51.46 -171.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30611 RELATED DB: BMRB REMARK 900 NMR SOLUTION STRUCTURE OF YFID DBREF 6OWR A 1 127 UNP E2QQ39 E2QQ39_ECOLX 1 127 SEQRES 1 A 127 MET ILE THR GLY ILE GLN ILE THR LYS ALA ALA ASN ASP SEQRES 2 A 127 ASP LEU LEU ASN SER PHE TRP LEU LEU ASP SER GLU LYS SEQRES 3 A 127 GLY GLU ALA ARG CYS ILE VAL ALA LYS ALA GLY PHE ALA SEQRES 4 A 127 GLU ASP GLU VAL VAL ALA VAL SER LYS LEU GLY ASP ILE SEQRES 5 A 127 GLU TYR ARG GLU VAL PRO VAL GLU VAL LYS PRO GLU VAL SEQRES 6 A 127 ARG VAL GLU GLY GLY GLN HIS LEU ASN VAL ASN VAL LEU SEQRES 7 A 127 ARG ARG GLU THR LEU GLU ASP ALA VAL LYS HIS PRO GLU SEQRES 8 A 127 LYS TYR PRO GLN LEU THR ILE ARG VAL SER GLY TYR ALA SEQRES 9 A 127 VAL ARG PHE ASN SER LEU THR PRO GLU GLN GLN ARG ASP SEQRES 10 A 127 VAL ILE ALA ARG THR PHE THR GLU SER LEU HELIX 1 AA1 ARG A 79 HIS A 89 1 11 HELIX 2 AA2 PRO A 90 TYR A 93 5 4 HELIX 3 AA3 ASN A 108 LEU A 110 5 3 HELIX 4 AA4 THR A 111 ARG A 121 1 11 SHEET 1 AA1 2 THR A 97 ARG A 99 0 SHEET 2 AA1 2 ALA A 104 ARG A 106 -1 O VAL A 105 N ILE A 98 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1