HEADER VIRAL PROTEIN 03-JUL-26 43JH TITLE CRYO-EM STRUCTURE OF BACTERIOPHAGE AVS-1 INSERT PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: INSERT PROTEIN; COMPND 3 CHAIN: A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEROMONAS VERONII; SOURCE 3 ORGANISM_TAXID: 654 KEYWDS INSERT PROTEIN, PHAGE, VIRAL GENE PRODUCT, VIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR J.Y.LIU,H.R.LIU REVDAT 1 23-SEP-26 43JH 0 JRNL AUTH J.LIU,C.LI,X.YANG,F.YANG,H.LIU JRNL TITL CRYO-EM STRUCTURE OF SIPHOPHAGE AVS-1 REVEALS A CONSERVED JRNL TITL 2 VIRION ARCHITECTURE WITH A SPECIALIZED TRIPOD-LIKE TAIL TIP JRNL TITL 3 FOR HOST RECOGNITION JRNL REF VIRUSES V. 18 1011 2026 JRNL REFN ESSN 1999-4915 JRNL DOI 10.3390/V18091011 REMARK 2 REMARK 2 RESOLUTION. 3.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, CRYOSPARC 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) : 3.620 REMARK 3 NUMBER OF PARTICLES : 22480 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 43JH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 13-JUL-26. REMARK 100 THE DEPOSITION ID IS D_1300076126. 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 : AEROMONAS VERONII 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 : 7.60 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 : SHUIMU TOTEM 300S REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : DARK FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 3200.00 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: 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. (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 1 REMARK 465 THR A 2 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 TYR A 99 -61.24 -99.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-67166 RELATED DB: EMDB DBREF 43JH A 1 171 PDB 43JH 43JH 1 171 SEQRES 1 A 171 MET THR ASP GLU GLU ILE ARG GLU ILE TYR ALA SER ALA SEQRES 2 A 171 PRO VAL SER LYS THR VAL ILE GLU VAL VAL GLU LEU SER SEQRES 3 A 171 ALA PRO TRP PHE SER LYS THR TYR TYR LEU GLN ARG GLN SEQRES 4 A 171 MET THR ASP SER ILE GLU VAL THR LEU GLU THR GLY GLU SEQRES 5 A 171 THR VAL VAL ALA GLU TYR VAL PRO MET SER ILE ASP GLN SEQRES 6 A 171 SER SER SER ASN ALA ASP LEU ASN TYR GLU ARG ASN ILE SEQRES 7 A 171 VAL ILE GLN GLN VAL ASN ASP ILE ILE ALA SER GLU GLN SEQRES 8 A 171 THR ASN TYR ASP PRO ASP VAL TYR GLY ASP GLN LEU PRO SEQRES 9 A 171 GLN PHE THR SER ARG GLY TYR ILE LEU TYR ARG ASP GLY SEQRES 10 A 171 SER VAL SER GLN ILE LYS GLN SER PRO ILE ARG LEU PRO SEQRES 11 A 171 ILE ARG LYS MET ARG ARG ASP GLU ARG GLY ALA LEU PHE SEQRES 12 A 171 ASN VAL THR THR LYS PRO ALA ASN GLN TRP ALA THR GLY SEQRES 13 A 171 GLU VAL ALA THR THR THR ARG VAL PRO MET LEU LYS GLY SEQRES 14 A 171 PHE LEU HELIX 1 AA1 ASP A 3 SER A 12 1 10 HELIX 2 AA2 ASP A 85 THR A 92 1 8 HELIX 3 AA3 VAL A 164 PHE A 170 5 7 SHEET 1 AA1 8 GLU A 57 TYR A 58 0 SHEET 2 AA1 8 TYR A 34 GLN A 37 1 N TYR A 35 O GLU A 57 SHEET 3 AA1 8 LYS A 17 SER A 26 -1 N VAL A 23 O LEU A 36 SHEET 4 AA1 8 GLN A 105 TYR A 114 -1 O TYR A 111 N ILE A 20 SHEET 5 AA1 8 GLN A 124 ASP A 137 -1 O LEU A 129 N PHE A 106 SHEET 6 AA1 8 GLY A 140 THR A 146 -1 O GLY A 140 N ASP A 137 SHEET 7 AA1 8 GLU A 75 ILE A 80 -1 N ILE A 80 O ALA A 141 SHEET 8 AA1 8 MET A 61 ILE A 63 -1 N SER A 62 O VAL A 79 SHEET 1 AA2 2 GLU A 45 THR A 47 0 SHEET 2 AA2 2 THR A 53 VAL A 55 -1 O VAL A 54 N VAL A 46 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 MASTER 122 0 0 3 10 0 0 6 1351 1 0 14 END