HEADER VIRUS 25-MAR-25 9NXP TITLE PSEUDOMONAS PHAGE PA223 TAIL NEEDLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CONSTITUENT PROTEIN; COMPND 3 CHAIN: A, B, C SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS VIRUS PA223; SOURCE 3 ORGANISM_TAXID: 2590840 KEYWDS CONSTITUENT PROTEIN, STRUCTURAL PROTEIN, PHAGE TAIL COMPONENT, VIRUS EXPDTA ELECTRON MICROSCOPY AUTHOR C.F.D.HOU,G.CINGOLANI,K.R.LOKAREDDY REVDAT 3 10-SEP-25 9NXP 1 JRNL REVDAT 2 27-AUG-25 9NXP 1 JRNL REVDAT 1 06-AUG-25 9NXP 0 JRNL AUTH C.D.HOU,N.BELLIS,R.K.LOKAREDDY,S.BRANSTON,J.REID,R.GEIER, JRNL AUTH 2 A.SORIAGA,L.SIM,P.KYME,D.L.BIRX,S.LEMIRE,G.CINGOLANI JRNL TITL HIGH-RESOLUTION CRYO-EM ANALYSIS OF THE THERAPEUTIC JRNL TITL 2 PSEUDOMONAS PHAGE PA223. JRNL REF J.MOL.BIOL. V. 437 69386 2025 JRNL REFN ESSN 1089-8638 JRNL PMID 40812680 JRNL DOI 10.1016/J.JMB.2025.169386 REMARK 2 REMARK 2 RESOLUTION. 4.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, CTFFIND, COOT, PHENIX, RELION, REMARK 3 RELION, RELION 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) : 4.500 REMARK 3 NUMBER OF PARTICLES : 14000 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 9NXP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-25. REMARK 100 THE DEPOSITION ID IS D_1000294449. 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 VIRUS PA223 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 : 7.50 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 IV (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1600.00 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) : 5000.00 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 MET B 1 REMARK 465 MET C 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O GLY B 41 OH TYR B 57 2.09 REMARK 500 O GLY A 41 OH TYR A 57 2.09 REMARK 500 O GLY C 41 OH TYR C 57 2.10 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 LYS A 48 -167.92 -113.92 REMARK 500 LYS A 49 129.41 -35.43 REMARK 500 LYS A 86 174.94 178.64 REMARK 500 LEU A 123 111.17 -160.04 REMARK 500 LYS B 48 -167.93 -113.97 REMARK 500 LYS B 49 129.49 -35.46 REMARK 500 LYS B 86 174.92 178.64 REMARK 500 LEU B 123 111.16 -160.12 REMARK 500 LYS C 48 -167.88 -113.98 REMARK 500 LYS C 49 129.45 -35.46 REMARK 500 LYS C 86 174.94 178.69 REMARK 500 LEU C 123 111.15 -160.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-49910 RELATED DB: EMDB REMARK 900 PSEUDOMONAS PHAGE PA223 TAIL NEEDLE DBREF1 9NXP A 1 229 UNP A0A5P1L2S7_9CAUD DBREF2 9NXP A A0A5P1L2S7 1 229 DBREF1 9NXP B 1 229 UNP A0A5P1L2S7_9CAUD DBREF2 9NXP B A0A5P1L2S7 1 229 DBREF1 9NXP C 1 229 UNP A0A5P1L2S7_9CAUD DBREF2 9NXP C A0A5P1L2S7 1 229 SEQRES 1 A 229 MET SER GLN LYS TYR SER PRO SER ILE PRO PRO GLN GLU SEQRES 2 A 229 GLU GLU GLU LEU LEU PRO PHE LEU ASN GLU GLU PHE VAL SEQRES 3 A 229 ARG VAL GLY GLN THR LEU ASN ASP LEU ALA ASP GLY TYR SEQRES 4 A 229 TRP GLY VAL SER MET GLU PRO PRO LYS LYS LEU LYS PRO SEQRES 5 A 229 GLY THR VAL LYS TYR PHE ALA PRO GLY VAL VAL GLY PRO SEQRES 6 A 229 VAL SER GLY ILE TYR HIS TYR ASP LEU ASP ASN GLN TRP SEQRES 7 A 229 ARG LEU ALA GLY THR LYS PRO LYS ASP LEU PRO GLY ASP SEQRES 8 A 229 PHE ILE LEU PHE THR PRO GLN ASN ASN HIS GLN PRO MET SEQRES 9 A 229 GLY THR CYS ALA TYR ARG MET ASN THR ALA LYS ASP GLU SEQRES 10 A 229 VAL TRP ILE THR MET LEU MET SER GLY GLY ASN TYR THR SEQRES 11 A 229 ASN GLY ALA THR VAL LEU ASP LEU PRO GLN ALA TYR TRP SEQRES 12 A 229 PRO PRO ALA GLU LEU PHE ILE PRO ALA TYR SER SER ILE SEQRES 13 A 229 ILE PRO ALA GLN SER THR ILE THR TYR PRO PRO PRO SER SEQRES 14 A 229 ASP PRO ASN ALA PRO PRO LEU ASP GLN VAL PHE ASP VAL SEQRES 15 A 229 LEU ASN ARG ALA THR ILE GLN THR GLY VAL VAL ASN GLN SEQRES 16 A 229 ALA MET PHE LYS ILE THR ALA ASN GLY ARG VAL LEU ILE SEQRES 17 A 229 GLN GLY ILE PRO GLN GLY ALA VAL PHE GLY GLY THR PHE SEQRES 18 A 229 THR PHE PRO LEU VAL VAL THR PRO SEQRES 1 B 229 MET SER GLN LYS TYR SER PRO SER ILE PRO PRO GLN GLU SEQRES 2 B 229 GLU GLU GLU LEU LEU PRO PHE LEU ASN GLU GLU PHE VAL SEQRES 3 B 229 ARG VAL GLY GLN THR LEU ASN ASP LEU ALA ASP GLY TYR SEQRES 4 B 229 TRP GLY VAL SER MET GLU PRO PRO LYS LYS LEU LYS PRO SEQRES 5 B 229 GLY THR VAL LYS TYR PHE ALA PRO GLY VAL VAL GLY PRO SEQRES 6 B 229 VAL SER GLY ILE TYR HIS TYR ASP LEU ASP ASN GLN TRP SEQRES 7 B 229 ARG LEU ALA GLY THR LYS PRO LYS ASP LEU PRO GLY ASP SEQRES 8 B 229 PHE ILE LEU PHE THR PRO GLN ASN ASN HIS GLN PRO MET SEQRES 9 B 229 GLY THR CYS ALA TYR ARG MET ASN THR ALA LYS ASP GLU SEQRES 10 B 229 VAL TRP ILE THR MET LEU MET SER GLY GLY ASN TYR THR SEQRES 11 B 229 ASN GLY ALA THR VAL LEU ASP LEU PRO GLN ALA TYR TRP SEQRES 12 B 229 PRO PRO ALA GLU LEU PHE ILE PRO ALA TYR SER SER ILE SEQRES 13 B 229 ILE PRO ALA GLN SER THR ILE THR TYR PRO PRO PRO SER SEQRES 14 B 229 ASP PRO ASN ALA PRO PRO LEU ASP GLN VAL PHE ASP VAL SEQRES 15 B 229 LEU ASN ARG ALA THR ILE GLN THR GLY VAL VAL ASN GLN SEQRES 16 B 229 ALA MET PHE LYS ILE THR ALA ASN GLY ARG VAL LEU ILE SEQRES 17 B 229 GLN GLY ILE PRO GLN GLY ALA VAL PHE GLY GLY THR PHE SEQRES 18 B 229 THR PHE PRO LEU VAL VAL THR PRO SEQRES 1 C 229 MET SER GLN LYS TYR SER PRO SER ILE PRO PRO GLN GLU SEQRES 2 C 229 GLU GLU GLU LEU LEU PRO PHE LEU ASN GLU GLU PHE VAL SEQRES 3 C 229 ARG VAL GLY GLN THR LEU ASN ASP LEU ALA ASP GLY TYR SEQRES 4 C 229 TRP GLY VAL SER MET GLU PRO PRO LYS LYS LEU LYS PRO SEQRES 5 C 229 GLY THR VAL LYS TYR PHE ALA PRO GLY VAL VAL GLY PRO SEQRES 6 C 229 VAL SER GLY ILE TYR HIS TYR ASP LEU ASP ASN GLN TRP SEQRES 7 C 229 ARG LEU ALA GLY THR LYS PRO LYS ASP LEU PRO GLY ASP SEQRES 8 C 229 PHE ILE LEU PHE THR PRO GLN ASN ASN HIS GLN PRO MET SEQRES 9 C 229 GLY THR CYS ALA TYR ARG MET ASN THR ALA LYS ASP GLU SEQRES 10 C 229 VAL TRP ILE THR MET LEU MET SER GLY GLY ASN TYR THR SEQRES 11 C 229 ASN GLY ALA THR VAL LEU ASP LEU PRO GLN ALA TYR TRP SEQRES 12 C 229 PRO PRO ALA GLU LEU PHE ILE PRO ALA TYR SER SER ILE SEQRES 13 C 229 ILE PRO ALA GLN SER THR ILE THR TYR PRO PRO PRO SER SEQRES 14 C 229 ASP PRO ASN ALA PRO PRO LEU ASP GLN VAL PHE ASP VAL SEQRES 15 C 229 LEU ASN ARG ALA THR ILE GLN THR GLY VAL VAL ASN GLN SEQRES 16 C 229 ALA MET PHE LYS ILE THR ALA ASN GLY ARG VAL LEU ILE SEQRES 17 C 229 GLN GLY ILE PRO GLN GLY ALA VAL PHE GLY GLY THR PHE SEQRES 18 C 229 THR PHE PRO LEU VAL VAL THR PRO HELIX 1 AA1 GLU A 13 GLU A 15 5 3 HELIX 2 AA2 GLU A 16 ASP A 37 1 22 HELIX 3 AA3 PRO A 139 TRP A 143 5 5 HELIX 4 AA4 PRO A 174 ARG A 185 1 12 HELIX 5 AA5 GLU B 13 GLU B 15 5 3 HELIX 6 AA6 GLU B 16 ASP B 37 1 22 HELIX 7 AA7 PRO B 139 TRP B 143 5 5 HELIX 8 AA8 PRO B 174 ARG B 185 1 12 HELIX 9 AA9 GLU C 13 GLU C 15 5 3 HELIX 10 AB1 GLU C 16 ASP C 37 1 22 HELIX 11 AB2 PRO C 139 TRP C 143 5 5 HELIX 12 AB3 PRO C 174 ARG C 185 1 12 SHEET 1 AA1 4 ILE A 93 LEU A 94 0 SHEET 2 AA1 4 ALA A 108 ASN A 112 -1 O TYR A 109 N ILE A 93 SHEET 3 AA1 4 GLU A 117 SER A 125 -1 O THR A 121 N ALA A 108 SHEET 4 AA1 4 GLN A 102 PRO A 103 -1 N GLN A 102 O SER A 125 SHEET 1 AA2 5 ILE A 93 LEU A 94 0 SHEET 2 AA2 5 ALA A 108 ASN A 112 -1 O TYR A 109 N ILE A 93 SHEET 3 AA2 5 GLU A 117 SER A 125 -1 O THR A 121 N ALA A 108 SHEET 4 AA2 5 PHE A 217 PRO A 224 -1 O PHE A 217 N MET A 124 SHEET 5 AA2 5 TYR A 153 SER A 154 -1 N TYR A 153 O GLY A 218 SHEET 1 AA3 4 ALA A 133 ASP A 137 0 SHEET 2 AA3 4 ARG A 205 GLN A 209 -1 O VAL A 206 N LEU A 136 SHEET 3 AA3 4 MET A 197 ILE A 200 -1 N LYS A 199 O LEU A 207 SHEET 4 AA3 4 LEU A 148 PRO A 151 -1 N ILE A 150 O PHE A 198 SHEET 1 AA4 2 SER A 161 THR A 164 0 SHEET 2 AA4 2 THR A 187 THR A 190 -1 O GLN A 189 N THR A 162 SHEET 1 AA5 4 ILE B 93 LEU B 94 0 SHEET 2 AA5 4 ALA B 108 ASN B 112 -1 O TYR B 109 N ILE B 93 SHEET 3 AA5 4 GLU B 117 SER B 125 -1 O THR B 121 N ALA B 108 SHEET 4 AA5 4 GLN B 102 PRO B 103 -1 N GLN B 102 O SER B 125 SHEET 1 AA6 5 ILE B 93 LEU B 94 0 SHEET 2 AA6 5 ALA B 108 ASN B 112 -1 O TYR B 109 N ILE B 93 SHEET 3 AA6 5 GLU B 117 SER B 125 -1 O THR B 121 N ALA B 108 SHEET 4 AA6 5 PHE B 217 PRO B 224 -1 O PHE B 217 N MET B 124 SHEET 5 AA6 5 TYR B 153 SER B 154 -1 N TYR B 153 O GLY B 218 SHEET 1 AA7 4 ALA B 133 ASP B 137 0 SHEET 2 AA7 4 ARG B 205 GLN B 209 -1 O VAL B 206 N LEU B 136 SHEET 3 AA7 4 MET B 197 ILE B 200 -1 N LYS B 199 O LEU B 207 SHEET 4 AA7 4 LEU B 148 PRO B 151 -1 N ILE B 150 O PHE B 198 SHEET 1 AA8 2 SER B 161 THR B 164 0 SHEET 2 AA8 2 THR B 187 THR B 190 -1 O GLN B 189 N THR B 162 SHEET 1 AA9 4 ILE C 93 LEU C 94 0 SHEET 2 AA9 4 ALA C 108 ASN C 112 -1 O TYR C 109 N ILE C 93 SHEET 3 AA9 4 GLU C 117 SER C 125 -1 O THR C 121 N ALA C 108 SHEET 4 AA9 4 GLN C 102 PRO C 103 -1 N GLN C 102 O SER C 125 SHEET 1 AB1 5 ILE C 93 LEU C 94 0 SHEET 2 AB1 5 ALA C 108 ASN C 112 -1 O TYR C 109 N ILE C 93 SHEET 3 AB1 5 GLU C 117 SER C 125 -1 O THR C 121 N ALA C 108 SHEET 4 AB1 5 PHE C 217 PRO C 224 -1 O PHE C 217 N MET C 124 SHEET 5 AB1 5 TYR C 153 SER C 154 -1 N TYR C 153 O GLY C 218 SHEET 1 AB2 4 ALA C 133 ASP C 137 0 SHEET 2 AB2 4 ARG C 205 GLN C 209 -1 O VAL C 206 N LEU C 136 SHEET 3 AB2 4 MET C 197 ILE C 200 -1 N LYS C 199 O LEU C 207 SHEET 4 AB2 4 LEU C 148 PRO C 151 -1 N ILE C 150 O PHE C 198 SHEET 1 AB3 2 SER C 161 THR C 164 0 SHEET 2 AB3 2 THR C 187 THR C 190 -1 O GLN C 189 N THR C 162 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 151 0 0 12 45 0 0 6 5304 3 0 54 END