HEADER VIRAL PROTEIN 27-APR-26 26DE TITLE CRYO-EM STRUCTURE OF BACTERIOPHAGE A1002 MATURE HEAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: STRUCTURAL PROTEIN; COMPND 3 CHAIN: W; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: MAJOR CAPSID PROTEIN; COMPND 6 CHAIN: S; COMPND 7 SYNONYM: MAJOR STRUCTURAL PROTEIN,MAJOR VIRION PROTEIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PHAGE KPP25; SOURCE 3 ORGANISM_COMMON: BACTERIOPHAGE KPP25; SOURCE 4 ORGANISM_TAXID: 1462608; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: PSEUDOMONAS PHAGE KPP25; SOURCE 7 ORGANISM_COMMON: BACTERIOPHAGE KPP25; SOURCE 8 ORGANISM_TAXID: 1462608 KEYWDS HEAD, PHAGE, VIRAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR Y.CHEN,H.R.LIU REVDAT 1 26-AUG-26 26DE 0 JRNL AUTH Y.CHEN,H.R.LIU JRNL TITL THE IN STIU STRUCTURE OF THE MATURE HEAD OF BACTERIOPHAGE JRNL TITL 2 A1002 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, PHENIX, 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) : 2.730 REMARK 3 NUMBER OF PARTICLES : 115720 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 26DE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 03-MAY-26. REMARK 100 THE DEPOSITION ID IS D_1300073625. 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 : PSEUDOMONAS AERUGINOSA PHAGE REMARK 245 A1002 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 : 7.40 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 : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2200.00 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) : 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: W, S 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 W 1 REMARK 465 ALA W 2 REMARK 465 THR W 3 REMARK 465 ASN W 143 REMARK 465 MET S 1 REMARK 465 PRO S 2 REMARK 465 TYR S 253 REMARK 465 ILE S 254 REMARK 465 ALA S 255 REMARK 465 ASN S 256 REMARK 465 LEU S 257 REMARK 465 ARG S 258 REMARK 465 ARG S 263 REMARK 465 GLY S 264 REMARK 465 ASN S 265 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 ALA W 81 -166.77 -105.79 REMARK 500 ASP W 82 95.10 -69.97 REMARK 500 ASN S 46 57.61 -93.06 REMARK 500 ASN S 86 63.95 -101.61 REMARK 500 PRO S 165 -8.16 -58.31 REMARK 500 ASN S 267 70.93 56.59 REMARK 500 LYS S 271 42.54 70.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-80553 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF BACTERIOPHAGE A1002 MATURE HEAD DBREF 26DE W 1 143 UNP X5I365 X5I365_BPKP2 1 143 DBREF 26DE S 1 376 UNP C0HJH8 CAPSD_BPKP2 1 376 SEQRES 1 W 143 MET ALA THR LEU GLU ASN THR ALA ARG GLN TYR PRO LEU SEQRES 2 W 143 PHE ILE GLU GLN THR LEU ASP PHE SER ASP LEU VAL ASP SEQRES 3 W 143 GLY GLN ALA ALA THR LEU THR LEU GLU LEU GLN ASN GLY SEQRES 4 W 143 ALA ILE LEU VAL PRO GLU ILE SER LYS LEU LEU VAL THR SEQRES 5 W 143 THR ALA SER ASN ALA ALA GLY ALA ALA THR LEU ASP ILE SEQRES 6 W 143 GLY VAL ILE GLU PRO GLY LEU ALA ALA ASP PRO ASP GLY SEQRES 7 W 143 ILE ALA ALA ASP LEU ASP LEU LYS THR THR GLY ALA LYS SEQRES 8 W 143 VAL LEU ALA PRO ALA LYS LEU THR TYR PRO ASN GLY ALA SEQRES 9 W 143 VAL ILE THR PHE THR ALA THR ALA SER THR GLY GLY THR SEQRES 10 W 143 ALA GLY LYS PHE LYS PHE LEU LEU ALA TYR ILE VAL GLU SEQRES 11 W 143 GLY ARG GLY ASN GLU THR TYR GLY SER PRO ALA TYR ASN SEQRES 1 S 376 MET PRO LEU PRO VAL GLN GLY ASN TYR THR ASN PHE ALA SEQRES 2 S 376 ARG LEU THR ASN GLU GLN LYS THR VAL TRP SER LEU GLN SEQRES 3 S 376 PHE TRP ARG GLN ALA ARG ASN ALA ALA PHE ILE ASN MET SEQRES 4 S 376 PHE LEU GLY THR ASP ALA ASN SER MET ILE GLN GLN ILE SEQRES 5 S 376 THR GLU LEU ARG ARG ASP GLU LYS GLY ALA ARG ALA VAL SEQRES 6 S 376 ILE THR LEU ILE ALA ASP MET VAL GLY ASP GLY VAL VAL SEQRES 7 S 376 GLY ASP ASN GLN LEU GLU GLY ASN GLU GLU ALA LEU THR SEQRES 8 S 376 ALA PHE ASP THR VAL ILE GLN LEU ASP GLN MET ARG ALA SEQRES 9 S 376 ALA ASN VAL HIS GLU GLY ARG MET ALA ASP GLN ARG SER SEQRES 10 S 376 ILE VAL ASN PHE ARG THR THR SER ARG ASP MET LEU ALA SEQRES 11 S 376 TYR TRP LEU ALA ASP ARG MET ASP GLN LEU ALA PHE LEU SEQRES 12 S 376 SER LEU ALA GLY VAL SER TYR ALA TYR ARG THR ASN GLY SEQRES 13 S 376 ALA LEU ARG GLY SER SER PRO PHE PRO ASN LEU THR PHE SEQRES 14 S 376 ALA ALA ASP VAL THR PRO PRO SER ALA ASN ARG ARG LEU SEQRES 15 S 376 ARG TRP ASP GLY THR ASN LYS VAL LEU VAL PRO ASN ALA SEQRES 16 S 376 ALA THR SER ASP VAL THR ALA ALA ASP THR PRO SER TYR SEQRES 17 S 376 ALA LEU LEU VAL ASN LEU LYS ALA TYR ALA LYS THR LYS SEQRES 18 S 376 TYR ILE ARG GLY LEU ARG GLY ASP GLY GLY GLU GLU MET SEQRES 19 S 376 TYR HIS VAL PHE LEU ASP PRO LEU ALA MET ALA LYS LEU SEQRES 20 S 376 LYS LEU ASP PRO ASP TYR ILE ALA ASN LEU ARG SER GLY SEQRES 21 S 376 TYR THR ARG GLY ASN VAL ASN PRO LEU PHE LYS GLY GLY SEQRES 22 S 376 ILE VAL THR VAL ASP GLY LEU VAL ILE HIS GLU PHE ARG SEQRES 23 S 376 HIS VAL TYR ASN THR ARG GLY MET ALA PRO GLY ALA LYS SEQRES 24 S 376 TRP GLY ALA SER GLY ASN VAL ASP GLY CYS SER MET LEU SEQRES 25 S 376 PHE CYS GLY ALA GLN ALA LEU GLY PHE ALA ASP ILE GLY SEQRES 26 S 376 ASN PRO ARG TRP VAL GLU LYS GLU PHE ASP TYR ASP ASN SEQRES 27 S 376 LYS HIS GLY ILE SER VAL ALA LYS ILE LEU GLY PHE LEU SEQRES 28 S 376 LYS PRO GLN PHE PRO SER ILE TYR GLU ASP GLY ASN THR SEQRES 29 S 376 GLU ASP PHE GLY VAL ILE ASN VAL TYR VAL ALA ALA HELIX 1 AA1 SER W 22 LEU W 24 5 3 HELIX 2 AA2 THR S 53 ARG S 57 5 5 HELIX 3 AA3 GLY S 110 ARG S 116 1 7 HELIX 4 AA4 ASN S 120 GLY S 147 1 28 HELIX 5 AA5 PRO S 163 VAL S 173 5 11 HELIX 6 AA6 ALA S 196 VAL S 200 5 5 HELIX 7 AA7 SER S 207 LYS S 221 1 15 HELIX 8 AA8 ASP S 240 LEU S 249 1 10 HELIX 9 AA9 ILE S 358 ASP S 361 5 4 SHEET 1 AA1 2 ALA W 8 ARG W 9 0 SHEET 2 AA1 2 GLU W 135 THR W 136 -1 O GLU W 135 N ARG W 9 SHEET 1 AA2 4 LEU W 13 ASP W 20 0 SHEET 2 AA2 4 LYS W 120 VAL W 129 -1 O PHE W 121 N LEU W 19 SHEET 3 AA2 4 ALA W 40 THR W 53 -1 N ILE W 41 O ILE W 128 SHEET 4 AA2 4 GLY W 89 VAL W 92 -1 O GLY W 89 N VAL W 51 SHEET 1 AA3 4 LEU W 13 ASP W 20 0 SHEET 2 AA3 4 LYS W 120 VAL W 129 -1 O PHE W 121 N LEU W 19 SHEET 3 AA3 4 ALA W 40 THR W 53 -1 N ILE W 41 O ILE W 128 SHEET 4 AA3 4 THR W 99 TYR W 100 -1 O TYR W 100 N ALA W 40 SHEET 1 AA4 4 LEU W 34 LEU W 36 0 SHEET 2 AA4 4 ALA W 104 THR W 111 -1 O ILE W 106 N LEU W 34 SHEET 3 AA4 4 THR W 62 ILE W 68 -1 N ASP W 64 O THR W 109 SHEET 4 AA4 4 LEU W 83 ASP W 84 -1 O LEU W 83 N LEU W 63 SHEET 1 AA5 5 LEU S 41 GLY S 42 0 SHEET 2 AA5 5 ILE S 49 ILE S 52 1 O GLN S 51 N GLY S 42 SHEET 3 AA5 5 LEU S 319 ASP S 323 1 O PHE S 321 N GLN S 50 SHEET 4 AA5 5 LYS S 339 LEU S 351 -1 O LEU S 351 N GLY S 320 SHEET 5 AA5 5 ASP S 100 VAL S 107 -1 N ASP S 100 O LEU S 348 SHEET 1 AA6 5 LEU S 41 GLY S 42 0 SHEET 2 AA6 5 ILE S 49 ILE S 52 1 O GLN S 51 N GLY S 42 SHEET 3 AA6 5 LEU S 319 ASP S 323 1 O PHE S 321 N GLN S 50 SHEET 4 AA6 5 LYS S 339 LEU S 351 -1 O LEU S 351 N GLY S 320 SHEET 5 AA6 5 ARG S 328 PHE S 334 -1 N LYS S 332 O GLY S 341 SHEET 1 AA7 2 ARG S 63 ILE S 69 0 SHEET 2 AA7 2 ALA S 92 GLN S 98 -1 O ILE S 97 N ALA S 64 SHEET 1 AA8 6 VAL S 190 PRO S 193 0 SHEET 2 AA8 6 ARG S 181 ASP S 185 -1 N ARG S 183 O VAL S 192 SHEET 3 AA8 6 VAL S 369 ALA S 375 1 O ASN S 371 N LEU S 182 SHEET 4 AA8 6 GLY S 308 CYS S 314 -1 N CYS S 309 O VAL S 374 SHEET 5 AA8 6 GLU S 233 LEU S 239 -1 N HIS S 236 O CYS S 314 SHEET 6 AA8 6 LEU S 226 ARG S 227 -1 N LEU S 226 O MET S 234 SHEET 1 AA9 7 VAL S 190 PRO S 193 0 SHEET 2 AA9 7 ARG S 181 ASP S 185 -1 N ARG S 183 O VAL S 192 SHEET 3 AA9 7 VAL S 369 ALA S 375 1 O ASN S 371 N LEU S 182 SHEET 4 AA9 7 GLY S 308 CYS S 314 -1 N CYS S 309 O VAL S 374 SHEET 5 AA9 7 GLU S 233 LEU S 239 -1 N HIS S 236 O CYS S 314 SHEET 6 AA9 7 LEU S 280 GLU S 284 1 O HIS S 283 N VAL S 237 SHEET 7 AA9 7 ILE S 274 VAL S 275 -1 N ILE S 274 O ILE S 282 SHEET 1 AB1 2 GLN S 354 PRO S 356 0 SHEET 2 AB1 2 THR S 364 ASP S 366 -1 O GLU S 365 N PHE S 355 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 143 0 0 9 41 0 0 6 3840 2 0 40 END