HEADER GENE REGULATION 15-SEP-22 8B2X TITLE STRUCTURE OF THE TYPE I-G CRISPR EFFECTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE I-G CRISPR CASCADE LARGE SUBUNIT CSX17; COMPND 3 CHAIN: M; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THIOALKALIVIBRIO SULFIDIPHILUS HL-EBGR7; SOURCE 3 ORGANISM_TAXID: 396588; SOURCE 4 STRAIN: HL-EBGR7; SOURCE 5 GENE: TGR7_2441; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: C43 KEYWDS CRISPR, EFFECTOR, IMMUNE SYSTEM, GENE REGULATION EXPDTA ELECTRON MICROSCOPY AUTHOR Q.SHANGGUAN,S.GRAHAM,R.SUNDARAMOORTHY,M.F.WHITE REVDAT 3 24-JUL-24 8B2X 1 REMARK REVDAT 2 16-NOV-22 8B2X 1 JRNL REVDAT 1 09-NOV-22 8B2X 0 JRNL AUTH Q.SHANGGUAN,S.GRAHAM,R.SUNDARAMOORTHY,M.F.WHITE JRNL TITL STRUCTURE AND MECHANISM OF THE TYPE I-G CRISPR EFFECTOR. JRNL REF NUCLEIC ACIDS RES. V. 50 11214 2022 JRNL REFN ESSN 1362-4962 JRNL PMID 36305833 JRNL DOI 10.1093/NAR/GKAC925 REMARK 2 REMARK 2 RESOLUTION. 8.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : EPU, CTFFIND, FLEX-EM, ISOLDE, UCSF REMARK 3 CHIMERAX, PHENIX, RELION, RELION, REMARK 3 RELION, RELION REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : 188.000 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) : 8.000 REMARK 3 NUMBER OF PARTICLES : 415000 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING ONLY REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: MULTI-BODY REFINEMENT. REMARK 4 REMARK 4 8B2X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1292125594. 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 : TYPE I-G CASCADE COMPLEX LARGE REMARK 245 SUBUNIT CSX17 PROTEIN REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.00 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : BLOT TIME 3.5, BLOT FORCE 4 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 : 15710 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1600.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2800.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.00 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5000.00 REMARK 245 ILLUMINATION MODE : OTHER REMARK 245 NOMINAL MAGNIFICATION : 105000 REMARK 245 CALIBRATED MAGNIFICATION : 105000 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: M 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 M 1 REMARK 465 ASP M 2 REMARK 465 LYS M 3 REMARK 465 ASP M 4 REMARK 465 MET M 5 REMARK 465 HIS M 6 REMARK 465 ILE M 7 REMARK 465 ASN M 8 REMARK 465 PHE M 194 REMARK 465 ASP M 195 REMARK 465 PRO M 196 REMARK 465 VAL M 197 REMARK 465 THR M 198 REMARK 465 GLY M 199 REMARK 465 LYS M 200 REMARK 465 ALA M 201 REMARK 465 GLN M 202 REMARK 465 GLY M 203 REMARK 465 ASP M 204 REMARK 465 VAL M 205 REMARK 465 GLY M 206 REMARK 465 ASN M 207 REMARK 465 LYS M 208 REMARK 465 LEU M 209 REMARK 465 GLU M 210 REMARK 465 SER M 211 REMARK 465 ALA M 212 REMARK 465 LEU M 213 REMARK 465 PHE M 214 REMARK 465 ALA M 215 REMARK 465 ARG M 216 REMARK 465 PRO M 217 REMARK 465 VAL M 218 REMARK 465 PRO M 219 REMARK 465 GLY M 220 REMARK 465 MET M 221 REMARK 465 THR M 222 REMARK 465 ALA M 223 REMARK 465 LEU M 224 REMARK 465 ALA M 225 REMARK 465 ILE M 226 REMARK 465 SER M 667 REMARK 465 GLY M 668 REMARK 465 LEU M 669 REMARK 465 ALA M 670 REMARK 465 ASP M 671 REMARK 465 ALA M 672 REMARK 465 GLY M 673 REMARK 465 TRP M 674 REMARK 465 ARG M 675 REMARK 465 LEU M 676 REMARK 465 THR M 677 REMARK 465 PRO M 678 REMARK 465 PRO M 679 REMARK 465 TYR M 680 REMARK 465 PRO M 681 REMARK 465 LEU M 706 REMARK 465 ALA M 707 REMARK 465 ASP M 708 REMARK 465 HIS M 709 REMARK 465 LYS M 710 REMARK 465 SER M 711 REMARK 465 ASP M 712 REMARK 465 GLU M 713 REMARK 465 PRO M 714 REMARK 465 ALA M 715 REMARK 465 THR M 716 REMARK 465 GLN M 717 REMARK 465 ASP M 718 REMARK 465 ALA M 719 REMARK 465 SER M 720 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 M 38 64.53 -100.21 REMARK 500 PRO M 73 76.66 -67.57 REMARK 500 GLN M 228 29.49 -141.04 REMARK 500 PRO M 237 109.74 -53.22 REMARK 500 LEU M 272 88.43 -64.67 REMARK 500 SER M 274 -130.72 59.25 REMARK 500 ALA M 275 11.52 -154.90 REMARK 500 ARG M 330 32.05 -89.15 REMARK 500 THR M 332 11.75 -146.42 REMARK 500 ASN M 334 37.90 76.50 REMARK 500 PRO M 414 -177.91 -62.28 REMARK 500 ASP M 481 31.42 -159.61 REMARK 500 PRO M 517 -179.00 -63.29 REMARK 500 ARG M 593 147.87 -174.88 REMARK 500 GLU M 603 115.06 -162.99 REMARK 500 VAL M 629 131.93 -16.20 REMARK 500 LEU M 638 137.88 -38.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-15540 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE TYPE I-G CRISPR CASCADE REMARK 900 RELATED ID: EMD-15820 RELATED DB: EMDB REMARK 900 STRUCTURE OF THE TYPE I-G CRISPR EFFECTOR DBREF 8B2X M 1 720 UNP B8GLG4 B8GLG4_THISH 1 720 SEQADV 8B2X ALA M 628 UNP B8GLG4 GLY 628 CONFLICT SEQRES 1 M 720 MET ASP LYS ASP MET HIS ILE ASN GLU ILE VAL LEU ARG SEQRES 2 M 720 GLY CYS ALA PRO THR PRO LEU ALA ALA TYR LEU LYS ALA SEQRES 3 M 720 LEU GLY VAL LEU ARG LEU VAL CYS GLU GLN VAL ASP ALA SEQRES 4 M 720 THR ALA LYS GLY TRP TRP GLN ASP GLU CYS PHE MET LEU SEQRES 5 M 720 ARG THR ARG LEU ASP ASP ASN ASP LEU ARG ARG PHE PHE SEQRES 6 M 720 ILE GLU ASP TYR ARG PRO THR PRO MET LEU SER PRO TRP SEQRES 7 M 720 ASN GLY GLY SER GLY PHE TYR ARG LYS GLY ASN GLU THR SEQRES 8 M 720 ALA TRP SER THR LEU GLU LYS ILE ILE THR THR GLN ALA SEQRES 9 M 720 GLU ARG TRP ARG PRO PHE ARG ASP THR ALA GLU VAL MET SEQRES 10 M 720 ALA ASP ALA LEU GLU HIS LEU LYS LEU THR GLU LYS PRO SEQRES 11 M 720 ALA GLU LEU ASP LYS ARG ALA LEU LEU ALA ARG LEU ARG SEQRES 12 M 720 ALA THR LEU ASP ASP GLU PHE LEU PRO TRP LEU ASP ALA SEQRES 13 M 720 ALA VAL LEU LEU THR ASP ASP LYS PRO ASP TYR PRO PRO SEQRES 14 M 720 LEU LEU GLY THR GLY GLY ASN ASP GLY ARG LEU ASP PHE SEQRES 15 M 720 THR SER ASN TYR MET GLN ARG LEU LEU GLU MET PHE ASP SEQRES 16 M 720 PRO VAL THR GLY LYS ALA GLN GLY ASP VAL GLY ASN LYS SEQRES 17 M 720 LEU GLU SER ALA LEU PHE ALA ARG PRO VAL PRO GLY MET SEQRES 18 M 720 THR ALA LEU ALA ILE GLY GLN PHE SER PRO GLY ALA ALA SEQRES 19 M 720 GLY GLY PRO ASN SER SER THR GLY PHE ASP SER GLY ALA SEQRES 20 M 720 GLN VAL ASN ILE TRP ASP TYR VAL LEU MET LEU GLU GLY SEQRES 21 M 720 ALA LEU LEU PHE ALA ALA THR ALA THR ARG ARG LEU GLU SEQRES 22 M 720 SER ALA ASP PRO SER ALA LEU SER TYR PRO PHE THR VAL SEQRES 23 M 720 ARG PRO SER GLY GLY GLY SER GLY ALA VAL ALA LEU GLY SEQRES 24 M 720 ASP GLU ARG PRO ALA ARG ALA GLU ILE TRP MET PRO LEU SEQRES 25 M 720 TRP GLU ARG PRO ALA SER LEU PRO GLU LEU ARG VAL LEU SEQRES 26 M 720 LEU GLY GLU GLY ARG VAL THR LEU ASN GLY ARG LEU PRO SEQRES 27 M 720 ARG ASP GLY LEU ASP PHE ALA ARG ALA VAL ALA LYS LEU SEQRES 28 M 720 GLY THR ASP ARG GLY VAL ARG ALA PHE GLN ARG TYR ALA SEQRES 29 M 720 PHE MET MET ARG SER GLY LYS ALA TYR LEU ALA THR PRO SEQRES 30 M 720 LEU ASN ARG PHE HIS VAL HIS ARG ASN PRO LYS ALA ASP SEQRES 31 M 720 LEU ILE ASP GLN LEU GLU ARG GLY ASP TRP LEU ARG ARG SEQRES 32 M 720 PHE ARG ARG ALA ALA ARG SER THR HIS ALA PRO ALA ARG SEQRES 33 M 720 LEU GLN GLY LEU ALA HIS ARG LEU ASP ASP ALA LEU PHE SEQRES 34 M 720 ASP LEU VAL ARG VAL ALA ASP PRO ARG ARG VAL GLN GLU SEQRES 35 M 720 VAL LEU LYS VAL LEU GLY GLU VAL GLN PHE TYR LEU ALA SEQRES 36 M 720 LEU SER PRO SER LEU ARG GLU GLN VAL ARG PRO VAL PRO SEQRES 37 M 720 ARG LEU ASP ALA HIS TRP VAL GLU ALA ALA ARG ASP ASP SEQRES 38 M 720 SER HIS GLU PHE ARG VAL ALA ALA ALA LEU ALA GLY LEU SEQRES 39 M 720 ASP ASP GLY LEU PRO MET GLY VAL HIS LEU ALA PRO ILE SEQRES 40 M 720 ASP PRO VAL LYS ARG ASN VAL TRP ALA PRO GLU SER ARG SEQRES 41 M 720 LEU ALA VAL TRP GLY GLN GLY ASN LEU SER ASP ASN LEU SEQRES 42 M 720 ALA GLN VAL LEU GLN ARG ARG LEU LEU THR ALA SER ARG SEQRES 43 M 720 THR ASP LEU ASN ASP LYS PRO LEU SER GLY ARG CYS PRO SEQRES 44 M 720 ALA ASP GLU GLY ALA VAL ALA ALA PHE LEU ALA GLY ASP SEQRES 45 M 720 ALA ASP GLU ARG ARG ILE ALA GLU LEU MET ALA GLY LEU SEQRES 46 M 720 ALA CYS ALA ARG LEU PRO ALA ARG LEU PRO LEU ARG GLN SEQRES 47 M 720 ARG GLY ALA SER GLU ALA SER SER LEU PRO MET ILE TYR SEQRES 48 M 720 ALA LEU LEU LYS PRO LEU PHE VAL PRO ASP ALA GLN LEU SEQRES 49 M 720 ARG GLU ALA ALA VAL LEU THR PRO ASP GLY CYS LEU PRO SEQRES 50 M 720 LEU PRO PRO ALA LEU PRO ARG LEU LEU ARG ALA GLY PRO SEQRES 51 M 720 ALA GLY VAL GLY ARG ALA VAL ASP LEU ALA ARG ARG ARG SEQRES 52 M 720 ARG ARG ALA SER GLY LEU ALA ASP ALA GLY TRP ARG LEU SEQRES 53 M 720 THR PRO PRO TYR PRO ASP GLY GLY ARG LEU LEU ALA ALA SEQRES 54 M 720 LEU MET ILE PRO VAL GLU ILE ARG VAL ILE LYS GLY PHE SEQRES 55 M 720 ILE LYS ARG LEU ALA ASP HIS LYS SER ASP GLU PRO ALA SEQRES 56 M 720 THR GLN ASP ALA SER HELIX 1 AA1 PRO M 19 VAL M 37 1 19 HELIX 2 AA2 ASP M 57 ASP M 68 1 12 HELIX 3 AA3 ASN M 89 THR M 101 1 13 HELIX 4 AA4 TRP M 107 LYS M 125 1 19 HELIX 5 AA5 ALA M 131 LEU M 146 1 16 HELIX 6 AA6 PHE M 150 VAL M 158 1 9 HELIX 7 AA7 PRO M 168 GLY M 172 5 5 HELIX 8 AA8 PHE M 182 MET M 193 1 12 HELIX 9 AA9 SER M 230 GLY M 235 1 6 HELIX 10 AB1 ASN M 250 LEU M 262 1 13 HELIX 11 AB2 ALA M 297 ARG M 302 1 6 HELIX 12 AB3 SER M 318 GLY M 329 1 12 HELIX 13 AB4 ASP M 340 LYS M 350 1 11 HELIX 14 AB5 PRO M 387 ALA M 389 5 3 HELIX 15 AB6 ASP M 390 GLU M 396 1 7 HELIX 16 AB7 ASP M 399 ARG M 409 1 11 HELIX 17 AB8 PRO M 414 VAL M 434 1 21 HELIX 18 AB9 ASP M 436 LEU M 456 1 21 HELIX 19 AC1 SER M 457 VAL M 464 1 8 HELIX 20 AC2 ALA M 472 ALA M 478 1 7 HELIX 21 AC3 SER M 482 GLY M 493 1 12 HELIX 22 AC4 MET M 500 ALA M 505 1 6 HELIX 23 AC5 ASN M 528 ASP M 548 1 21 HELIX 24 AC6 ASP M 561 ALA M 570 1 10 HELIX 25 AC7 ASP M 574 ALA M 586 1 13 HELIX 26 AC8 MET M 609 LYS M 615 1 7 HELIX 27 AC9 PRO M 616 PHE M 618 5 3 HELIX 28 AD1 PRO M 620 ALA M 627 1 8 HELIX 29 AD2 ALA M 641 ALA M 648 1 8 HELIX 30 AD3 ALA M 648 ALA M 666 1 19 HELIX 31 AD4 GLY M 683 ILE M 692 1 10 HELIX 32 AD5 GLU M 695 ARG M 705 1 11 SHEET 1 AA1 3 ILE M 10 LEU M 12 0 SHEET 2 AA1 3 CYS M 49 ARG M 53 -1 O PHE M 50 N LEU M 12 SHEET 3 AA1 3 LYS M 42 GLN M 46 -1 N LYS M 42 O ARG M 53 SHEET 1 AA2 2 ASN M 176 ASP M 177 0 SHEET 2 AA2 2 LEU M 180 ASP M 181 -1 O LEU M 180 N ASP M 177 SHEET 1 AA3 4 THR M 285 VAL M 286 0 SHEET 2 AA3 4 GLU M 307 TRP M 313 -1 O GLU M 307 N VAL M 286 SHEET 3 AA3 4 VAL M 357 MET M 367 -1 O ALA M 359 N LEU M 312 SHEET 4 AA3 4 TYR M 373 PRO M 377 -1 O THR M 376 N ALA M 364 CISPEP 1 THR M 18 PRO M 19 0 -0.36 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