HEADER DNA BINDING PROTEIN 07-JUL-22 8ACZ TITLE SOLID-STATE NMR ATOMIC-RESOLUTION STRUCTURE OF THE PROTEIN ENCODED BY TITLE 2 GENE V OF FD BACTERIOPHAGE IN COMPLEX WITH VIRAL SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-BINDING PROTEIN G5P; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: G5P,SINGLE-STRANDED DNA-BINDING PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: ISOTOPICALLY LABELED GVP IN COMPLEX WITH NATURAL COMPND 7 ABUNDANCE VIRAL SSDNA OF FD BACTERIOPHAGE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INOVIRIDAE; SOURCE 3 ORGANISM_TAXID: 10860; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS NUCLEOPROTEIN COMPLEX, SSDNA BINDING, DNA BINDING PROTEIN EXPDTA SOLID-STATE NMR NUMMDL 11 AUTHOR Y.SHAMIR,A.GOLDBOURT REVDAT 2 25-JAN-23 8ACZ 1 JRNL REVDAT 1 18-JAN-23 8ACZ 0 JRNL AUTH Y.SHAMIR,A.GOLDBOURT JRNL TITL ATOMIC-RESOLUTION STRUCTURE OF THE PROTEIN ENCODED BY GENE V JRNL TITL 2 OF FD BACTERIOPHAGE IN COMPLEX WITH VIRAL SSDNA DETERMINED JRNL TITL 3 BY MAGIC-ANGLE SPINNING SOLID-STATE NMR. JRNL REF J.AM.CHEM.SOC. V. 145 300 2023 JRNL REFN ESSN 1520-5126 JRNL PMID 36542094 JRNL DOI 10.1021/JACS.2C09957 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 8ACZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1292123741. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 263 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 200MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 200 G/L [U-100% 13C; U-100% 15N] REMARK 210 GVP OF FD BACTERIOPHAGE IN REMARK 210 COMPLEX WITH THE VIRAL SSDNA, 22 REMARK 210 G/L SSDNA OF FD PHAGE, 200MM REMARK 210 NACL, 1MM EDTA AND 10MM TRIS-HCL; REMARK 210 200 G/L [1,3-13C]-GLYCEROL GVP REMARK 210 OF FD BACTERIOPHAGE IN COMPLEX REMARK 210 WITH THE VIRAL SSDNA, 22 G/L REMARK 210 SSDNA OF FD PHAGE, 200MM NACL, REMARK 210 1MM EDTA AND 10MM TRIS-HCL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DARR15MS; 2D DARR100MS; 2D REMARK 210 DARR50MS; 2D DARR150MS; 2D REMARK 210 CORD150MS; 2D DARR300MS; 2D REMARK 210 CORD300MS; 2D DARR300MS #2; 2D REMARK 210 CHHC150U; 2D CHHC300U; 2D REMARK 210 DARR5MS; 2D DARR250MS; 2D RFDR6; REMARK 210 2D INADEQUATE; 3D NCOCX25; 3D REMARK 210 NCACX25; 2D NCA; 2D NCO; 3D REMARK 210 NCOCX100; 3D NCACX100 REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH, NMRFAM-SPARKY 1.470, REMARK 210 NMRPIPE, TOPSPIN REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11 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 217 REMARK 217 SOLID STATE NMR STUDY REMARK 217 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID REMARK 217 STATE NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 217 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 217 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 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 1-11 REMARK 465 RES C SSSEQI REMARK 465 LEU A 88 REMARK 465 ALA A 89 REMARK 465 ALA A 90 REMARK 465 ALA A 91 REMARK 465 LEU A 92 REMARK 465 GLU A 93 REMARK 465 HIS A 94 REMARK 465 HIS A 95 REMARK 465 HIS A 96 REMARK 465 HIS A 97 REMARK 465 HIS A 98 REMARK 465 HIS A 99 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 GLN A 31 -88.74 -116.53 REMARK 500 1 LEU A 37 130.09 161.92 REMARK 500 1 GLU A 40 -87.64 178.63 REMARK 500 1 GLU A 51 6.36 53.09 REMARK 500 1 SER A 66 38.48 -90.67 REMARK 500 1 ILE A 78 -39.91 -145.12 REMARK 500 1 ARG A 80 -154.97 -149.41 REMARK 500 2 GLN A 31 -88.16 -99.80 REMARK 500 2 LEU A 37 103.78 165.11 REMARK 500 2 GLU A 40 -86.86 -172.42 REMARK 500 2 GLU A 51 13.15 50.58 REMARK 500 2 TYR A 56 -68.94 -121.84 REMARK 500 2 SER A 66 30.92 -90.60 REMARK 500 2 ILE A 78 -40.20 -167.22 REMARK 500 2 ARG A 80 -73.47 -144.45 REMARK 500 3 LYS A 24 109.28 74.55 REMARK 500 3 TYR A 26 -168.81 73.67 REMARK 500 3 LEU A 37 102.79 164.73 REMARK 500 3 GLU A 40 -87.08 -171.80 REMARK 500 3 GLU A 51 -36.42 72.34 REMARK 500 3 TYR A 56 -68.89 -124.04 REMARK 500 3 SER A 66 -103.04 -85.28 REMARK 500 3 SER A 67 -57.56 75.69 REMARK 500 3 ASP A 79 -66.23 -140.95 REMARK 500 3 ARG A 80 -168.05 -118.37 REMARK 500 4 GLN A 22 -100.02 64.19 REMARK 500 4 LEU A 37 -171.28 171.88 REMARK 500 4 GLU A 40 -82.76 173.21 REMARK 500 4 ILE A 47 78.92 -102.42 REMARK 500 4 TYR A 56 -68.99 -125.87 REMARK 500 4 SER A 66 -105.18 -85.39 REMARK 500 4 SER A 67 -56.65 75.05 REMARK 500 4 LEU A 76 30.84 -95.48 REMARK 500 4 ILE A 78 -34.74 -152.74 REMARK 500 4 ARG A 80 -57.06 -159.53 REMARK 500 5 SER A 20 -50.08 -142.93 REMARK 500 5 GLN A 22 -135.20 69.19 REMARK 500 5 PRO A 25 53.69 -93.48 REMARK 500 5 GLN A 31 -85.52 -98.87 REMARK 500 5 GLU A 40 -69.12 86.75 REMARK 500 5 GLU A 51 -36.51 72.02 REMARK 500 5 TYR A 56 -69.10 -123.07 REMARK 500 5 ASP A 79 -56.35 -143.99 REMARK 500 5 ARG A 80 -156.01 -119.91 REMARK 500 6 ILE A 2 -58.11 74.40 REMARK 500 6 SER A 20 -55.26 -141.78 REMARK 500 6 GLN A 22 -55.38 -172.09 REMARK 500 6 TYR A 26 107.21 69.34 REMARK 500 6 GLN A 31 -166.07 -128.33 REMARK 500 6 GLU A 40 -113.98 89.96 REMARK 500 REMARK 500 THIS ENTRY HAS 104 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 51391 RELATED DB: BMRB DBREF 8ACZ A 1 87 UNP P69544 G5P_BPM13 1 87 SEQADV 8ACZ LEU A 88 UNP P69544 EXPRESSION TAG SEQADV 8ACZ ALA A 89 UNP P69544 EXPRESSION TAG SEQADV 8ACZ ALA A 90 UNP P69544 EXPRESSION TAG SEQADV 8ACZ ALA A 91 UNP P69544 EXPRESSION TAG SEQADV 8ACZ LEU A 92 UNP P69544 EXPRESSION TAG SEQADV 8ACZ GLU A 93 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 94 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 95 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 96 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 97 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 98 UNP P69544 EXPRESSION TAG SEQADV 8ACZ HIS A 99 UNP P69544 EXPRESSION TAG SEQRES 1 A 99 MET ILE LYS VAL GLU ILE LYS PRO SER GLN ALA GLN PHE SEQRES 2 A 99 THR THR ARG SER GLY VAL SER ARG GLN GLY LYS PRO TYR SEQRES 3 A 99 SER LEU ASN GLU GLN LEU CYS TYR VAL ASP LEU GLY ASN SEQRES 4 A 99 GLU TYR PRO VAL LEU VAL LYS ILE THR LEU ASP GLU GLY SEQRES 5 A 99 GLN PRO ALA TYR ALA PRO GLY LEU TYR THR VAL HIS LEU SEQRES 6 A 99 SER SER PHE LYS VAL GLY GLN PHE GLY SER LEU MET ILE SEQRES 7 A 99 ASP ARG LEU ARG LEU VAL PRO ALA LYS LEU ALA ALA ALA SEQRES 8 A 99 LEU GLU HIS HIS HIS HIS HIS HIS SHEET 1 AA1 4 ILE A 2 VAL A 4 0 SHEET 2 AA1 4 CYS A 33 VAL A 35 0 SHEET 3 AA1 4 VAL A 43 LYS A 46 0 SHEET 4 AA1 4 TYR A 61 VAL A 63 0 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