HEADER RNA BINDING PROTEIN/RNA 28-MAY-25 9V7X TITLE TYPEIII TOXIN-ANTITOXIN COMPLEX TENPIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TENPN PROTEIN; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: TENPI RNA (53-MER); COMPND 7 CHAIN: B, D; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: ETEC1722; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 9 ORGANISM_TAXID: 562; SOURCE 10 STRAIN: ETEC1722; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TYPE III TA SYSTEM, CRYO-EM SPA, TENPIN, RIBONUCLEOPROTEIN (RNP) KEYWDS 2 COMPLEX, RNA BINDING PROTEIN, RNA BINDING PROTEIN-RNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR K.NADIG,S.PADMANABHAN,S.DUTTA,M.SINGH REVDAT 1 16-SEP-26 9V7X 0 JRNL AUTH K.NADIG,S.PADMANABHAN,S.DUTTA,M.SINGH JRNL TITL TYPEIII TOXIN-ANTITOXIN COMPLEX TENPIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 4.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : 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) : 4.000 REMARK 3 NUMBER OF PARTICLES : 327240 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 9V7X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1300059867. 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 : TENPIN TOXIN-ANTITOXIN COMPLEX REMARK 245 FROM ESCHERICHIA COLI 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 : FEI TALOS ARCTICA REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1200.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2700.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : OTHER REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4500.00 REMARK 245 ILLUMINATION MODE : OTHER REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 A B 1 REMARK 465 G B 2 REMARK 465 A B 3 REMARK 465 A B 4 REMARK 465 C B 9 REMARK 465 U B 12 REMARK 465 A B 13 REMARK 465 U B 18 REMARK 465 A B 20 REMARK 465 G B 21 REMARK 465 G B 41 REMARK 465 A B 47 REMARK 465 A B 48 REMARK 465 A B 49 REMARK 465 G B 50 REMARK 465 A B 51 REMARK 465 A B 52 REMARK 465 A B 53 REMARK 465 A D 1 REMARK 465 G D 2 REMARK 465 A D 3 REMARK 465 A D 4 REMARK 465 C D 9 REMARK 465 U D 12 REMARK 465 A D 13 REMARK 465 U D 18 REMARK 465 A D 20 REMARK 465 G D 21 REMARK 465 G D 41 REMARK 465 A D 47 REMARK 465 A D 48 REMARK 465 A D 49 REMARK 465 G D 50 REMARK 465 A D 51 REMARK 465 A D 52 REMARK 465 A D 53 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 G B 14 P OP1 OP2 REMARK 470 C B 22 O2' REMARK 470 C B 23 O2' REMARK 470 C B 24 O2' REMARK 470 C B 25 O2' REMARK 470 A B 26 O2' REMARK 470 C B 27 O2' REMARK 470 C B 42 P OP1 OP2 REMARK 470 G D 14 P OP1 OP2 REMARK 470 C D 22 O2' REMARK 470 C D 23 O2' REMARK 470 C D 24 O2' REMARK 470 C D 25 O2' REMARK 470 A D 26 O2' REMARK 470 C D 27 O2' REMARK 470 C D 42 P OP1 OP2 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 O2' G D 11 OP2 A D 40 2.03 REMARK 500 O2' G B 11 OP2 A B 40 2.04 REMARK 500 O2' G B 8 N4 C B 38 2.09 REMARK 500 O2' G D 8 N4 C D 38 2.09 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 ASP A 32 51.56 -92.58 REMARK 500 LYS A 34 -173.70 -172.15 REMARK 500 LEU A 45 114.35 -164.08 REMARK 500 LYS A 80 31.05 -95.14 REMARK 500 TYR A 139 30.65 -91.11 REMARK 500 TYR A 145 33.36 -98.18 REMARK 500 ASP C 32 51.47 -92.54 REMARK 500 LYS C 34 -174.13 -172.33 REMARK 500 LEU C 45 114.99 -163.77 REMARK 500 LYS C 80 30.37 -96.34 REMARK 500 TYR C 139 30.02 -91.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-64795 RELATED DB: EMDB DBREF 9V7X A 1 153 PDB 9V7X 9V7X 1 153 DBREF 9V7X B 1 53 PDB 9V7X 9V7X 1 53 DBREF 9V7X C 1 153 PDB 9V7X 9V7X 1 153 DBREF 9V7X D 1 53 PDB 9V7X 9V7X 1 53 SEQRES 1 A 153 MET SER LYS GLN ASP TYR ILE GLN LEU ARG THR LEU THR SEQRES 2 A 153 ASP GLN PHE TYR ALA ASP ASN LYS GLY LEU GLN GLU ALA SEQRES 3 A 153 LEU ASP GLY SER ASN ASP GLY LYS VAL ARG GLY TYR GLY SEQRES 4 A 153 ILE VAL VAL ILE ASP LEU ASN GLY LEU VAL PHE GLY ILE SEQRES 5 A 153 PRO LEU ARG SER HIS LEU ASN HIS LYS PHE GLY PHE VAL SEQRES 6 A 153 SER GLU ARG SER GLU GLY VAL LYS LYS GLY LEU ASP TYR SEQRES 7 A 153 THR LYS ALA LEU LEU ILE LYS LYS GLU GLU TYR VAL SER SEQRES 8 A 153 ARG ALA TYR LYS ILE PRO THR PRO GLU PHE THR HIS ILE SEQRES 9 A 153 ASN ASP ASN LYS GLU LYS ILE GLN GLU ASP PHE ASN LYS SEQRES 10 A 153 PHE VAL ASN ARG TYR ILE GLU ALA ASN VAL LYS LYS ASP SEQRES 11 A 153 GLU ASN ILE LEU ARG ASN TYR ARG TYR SER THR LEU LYS SEQRES 12 A 153 ASN TYR HIS LYS GLU LEU GLY LEU GLU ASP SEQRES 1 B 53 A G A A G U G G C G G U A SEQRES 2 B 53 G G A A U G A G C C C C A SEQRES 3 B 53 C G U U A A A C A A A C A SEQRES 4 B 53 A G C U U C C A A A G A A SEQRES 5 B 53 A SEQRES 1 C 153 MET SER LYS GLN ASP TYR ILE GLN LEU ARG THR LEU THR SEQRES 2 C 153 ASP GLN PHE TYR ALA ASP ASN LYS GLY LEU GLN GLU ALA SEQRES 3 C 153 LEU ASP GLY SER ASN ASP GLY LYS VAL ARG GLY TYR GLY SEQRES 4 C 153 ILE VAL VAL ILE ASP LEU ASN GLY LEU VAL PHE GLY ILE SEQRES 5 C 153 PRO LEU ARG SER HIS LEU ASN HIS LYS PHE GLY PHE VAL SEQRES 6 C 153 SER GLU ARG SER GLU GLY VAL LYS LYS GLY LEU ASP TYR SEQRES 7 C 153 THR LYS ALA LEU LEU ILE LYS LYS GLU GLU TYR VAL SER SEQRES 8 C 153 ARG ALA TYR LYS ILE PRO THR PRO GLU PHE THR HIS ILE SEQRES 9 C 153 ASN ASP ASN LYS GLU LYS ILE GLN GLU ASP PHE ASN LYS SEQRES 10 C 153 PHE VAL ASN ARG TYR ILE GLU ALA ASN VAL LYS LYS ASP SEQRES 11 C 153 GLU ASN ILE LEU ARG ASN TYR ARG TYR SER THR LEU LYS SEQRES 12 C 153 ASN TYR HIS LYS GLU LEU GLY LEU GLU ASP SEQRES 1 D 53 A G A A G U G G C G G U A SEQRES 2 D 53 G G A A U G A G C C C C A SEQRES 3 D 53 C G U U A A A C A A A C A SEQRES 4 D 53 A G C U U C C A A A G A A SEQRES 5 D 53 A HELIX 1 AA1 THR A 13 ASN A 20 1 8 HELIX 2 AA2 LYS A 86 GLU A 88 5 3 HELIX 3 AA3 PRO A 97 ASN A 107 1 11 HELIX 4 AA4 ASN A 107 LYS A 129 1 23 HELIX 5 AA5 ASP A 130 TYR A 137 1 8 HELIX 6 AA6 SER A 140 ASN A 144 5 5 HELIX 7 AA7 THR C 13 ASN C 20 1 8 HELIX 8 AA8 LYS C 86 GLU C 88 5 3 HELIX 9 AA9 PRO C 97 ASN C 107 1 11 HELIX 10 AB1 ASN C 107 LYS C 129 1 23 HELIX 11 AB2 ASP C 130 TYR C 137 1 8 HELIX 12 AB3 SER C 140 ASN C 144 5 5 SHEET 1 AA1 5 LEU A 82 ILE A 84 0 SHEET 2 AA1 5 LEU A 48 ILE A 52 -1 N GLY A 51 O LEU A 82 SHEET 3 AA1 5 ILE A 40 LEU A 45 -1 N VAL A 41 O ILE A 52 SHEET 4 AA1 5 LEU A 9 LEU A 12 -1 N ARG A 10 O ILE A 40 SHEET 5 AA1 5 VAL A 90 ALA A 93 -1 O SER A 91 N THR A 11 SHEET 1 AA2 2 LEU A 54 ARG A 55 0 SHEET 2 AA2 2 GLY A 75 LEU A 76 -1 O GLY A 75 N ARG A 55 SHEET 1 AA3 5 LEU C 82 ILE C 84 0 SHEET 2 AA3 5 LEU C 48 ILE C 52 -1 N GLY C 51 O LEU C 82 SHEET 3 AA3 5 ILE C 40 LEU C 45 -1 N VAL C 41 O ILE C 52 SHEET 4 AA3 5 LEU C 9 LEU C 12 -1 N ARG C 10 O ILE C 40 SHEET 5 AA3 5 VAL C 90 ALA C 93 -1 O SER C 91 N THR C 11 SHEET 1 AA4 2 LEU C 54 ARG C 55 0 SHEET 2 AA4 2 GLY C 75 LEU C 76 -1 O GLY C 75 N ARG C 55 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 MASTER 203 0 0 12 14 0 0 6 3994 4 0 34 END