HEADER VIRUS 20-DEC-24 9HTW TITLE MINOR PROTEIN P7 DIMER FROM TRANSCRIBING PARTICLES OF BACTERIOPHAGE TITLE 2 PHI6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOCAPSID PROTEIN; COMPND 3 CHAIN: G, H; COMPND 4 SYNONYM: PROCAPSID ASSEMBLY PROTEIN,P7 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CYSTOVIRUS PHI6; SOURCE 3 ORGANISM_TAXID: 10879 KEYWDS CYSTOVIRUS, PHI6, SEMI-CONSERVATIVE TRANSCRIPTION, CRYO-EM, CRYOGENIC KEYWDS 2 ELECTRON MICROSCOPY, LOCALIZED RECONSTRUCTION, SYMMETRY RELAXATION, KEYWDS 3 VIRUS, DSRNA VIRUS, BACTERIOPHAGE EXPDTA ELECTRON MICROSCOPY AUTHOR E.-P.KUMPULA,J.T.HUISKONEN REVDAT 1 14-JAN-26 9HTW 0 JRNL AUTH S.L.ILCA,X.SUN,E.-P.KUMPULA,K.ESKELIN,M.M.PORANEN, JRNL AUTH 2 J.T.HUISKONEN JRNL TITL RESTRUCTURING OF BACTERIOPHAGE PHI6 VIRAL PARTICLE ACTIVATES JRNL TITL 2 SEMI-CONSERVATIVE TRANSCRIPTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 4.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 4.100 REMARK 3 NUMBER OF PARTICLES : 114297 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9HTW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1292143813. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : CYSTOVIRUS PHI6 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : FEI FALCON III (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 41000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4200.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 APPLY THE FOLLOWING TO CHAINS: G, H 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 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 PRO H 7 170.70 -59.59 REMARK 500 SER H 11 85.68 -69.12 REMARK 500 ALA H 91 38.31 71.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-52385 RELATED DB: EMDB REMARK 900 MINOR PROTEIN P7 DIMER FROM TRANSCRIBING PARTICLES OF BACTERIOPHAGE REMARK 900 PHI6 DBREF 9HTW G 2 112 UNP Q283U0 Q283U0_9VIRU 2 112 DBREF 9HTW H 2 112 UNP Q283U0 Q283U0_9VIRU 2 112 SEQRES 1 G 111 THR LEU TYR LEU VAL PRO PRO LEU ASP SER ALA ASP LYS SEQRES 2 G 111 GLU LEU PRO ALA LEU ALA SER LYS ALA GLY VAL THR LEU SEQRES 3 G 111 LEU GLU ILE GLU PHE LEU HIS GLU LEU TRP PRO HIS LEU SEQRES 4 G 111 SER GLY GLY GLN ILE VAL ILE ALA ALA LEU ASN ALA ASN SEQRES 5 G 111 ASN LEU ALA ILE LEU ASN ARG HIS MET SER THR LEU LEU SEQRES 6 G 111 VAL GLU LEU PRO VAL ALA VAL MET ALA VAL PRO GLY ALA SEQRES 7 G 111 SER TYR ARG SER ASP TRP ASN MET ILE ALA HIS ALA LEU SEQRES 8 G 111 PRO SER GLU ASP TRP ILE THR LEU SER ASN LYS MET LEU SEQRES 9 G 111 LYS SER GLY LEU LEU ALA ASN SEQRES 1 H 111 THR LEU TYR LEU VAL PRO PRO LEU ASP SER ALA ASP LYS SEQRES 2 H 111 GLU LEU PRO ALA LEU ALA SER LYS ALA GLY VAL THR LEU SEQRES 3 H 111 LEU GLU ILE GLU PHE LEU HIS GLU LEU TRP PRO HIS LEU SEQRES 4 H 111 SER GLY GLY GLN ILE VAL ILE ALA ALA LEU ASN ALA ASN SEQRES 5 H 111 ASN LEU ALA ILE LEU ASN ARG HIS MET SER THR LEU LEU SEQRES 6 H 111 VAL GLU LEU PRO VAL ALA VAL MET ALA VAL PRO GLY ALA SEQRES 7 H 111 SER TYR ARG SER ASP TRP ASN MET ILE ALA HIS ALA LEU SEQRES 8 H 111 PRO SER GLU ASP TRP ILE THR LEU SER ASN LYS MET LEU SEQRES 9 H 111 LYS SER GLY LEU LEU ALA ASN HELIX 1 AA1 LYS G 14 GLY G 24 1 11 HELIX 2 AA2 PHE G 32 GLU G 35 5 4 HELIX 3 AA3 LEU G 36 SER G 41 1 6 HELIX 4 AA4 ASN G 51 HIS G 61 1 11 HELIX 5 AA5 HIS G 61 LEU G 66 1 6 HELIX 6 AA6 ARG G 82 HIS G 90 1 9 HELIX 7 AA7 TRP G 97 ALA G 111 1 15 HELIX 8 AA8 LYS H 14 GLY H 24 1 11 HELIX 9 AA9 PHE H 32 GLU H 35 5 4 HELIX 10 AB1 LEU H 36 SER H 41 1 6 HELIX 11 AB2 ASN H 51 HIS H 61 1 11 HELIX 12 AB3 HIS H 61 LEU H 66 1 6 HELIX 13 AB4 ARG H 82 HIS H 90 1 9 HELIX 14 AB5 TRP H 97 GLY H 108 1 12 SHEET 1 AA1 5 THR G 26 GLU G 29 0 SHEET 2 AA1 5 VAL G 46 ALA G 49 1 O ILE G 47 N THR G 26 SHEET 3 AA1 5 LEU G 3 VAL G 6 1 N TYR G 4 O VAL G 46 SHEET 4 AA1 5 VAL G 71 MET G 74 1 O VAL G 71 N LEU G 5 SHEET 5 AA1 5 SER G 94 ASP G 96 1 O GLU G 95 N ALA G 72 SHEET 1 AA2 5 LEU H 27 GLU H 29 0 SHEET 2 AA2 5 VAL H 46 ALA H 49 1 O ALA H 49 N LEU H 28 SHEET 3 AA2 5 LEU H 3 VAL H 6 1 N TYR H 4 O VAL H 46 SHEET 4 AA2 5 VAL H 71 MET H 74 1 O VAL H 71 N LEU H 5 SHEET 5 AA2 5 SER H 94 ASP H 96 1 O GLU H 95 N MET H 74 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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 TER 846 ASN G 112 TER 1692 ASN H 112 MASTER 120 0 0 14 10 0 0 6 1690 2 0 18 END