HEADER GENE REGULATION 03-JUN-24 9C4B TITLE SECOND BAF53A OF THE HUMAN TIP60 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACTIN-LIKE PROTEIN 6A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 53 KDA BRG1-ASSOCIATED FACTOR A,ACTIN-RELATED PROTEIN COMPND 5 BAF53A,ARPNBETA,BRG1-ASSOCIATED FACTOR 53A,BAF53A,INO80 COMPLEX COMPND 6 SUBUNIT K; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ACTL6A, BAF53, BAF53A, INO80K; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS CHROMATIN MODIFICATION, GENE REGULATION EXPDTA ELECTRON MICROSCOPY AUTHOR Z.YANG,A.MAMERI,A.J.FLOREZ ARIZA,J.COTE,E.NOGALES REVDAT 3 11-SEP-24 9C4B 1 REMARK REVDAT 2 04-SEP-24 9C4B 1 JRNL REVDAT 1 14-AUG-24 9C4B 0 JRNL AUTH Z.YANG,A.MAMERI,C.CATTOGLIO,C.LACHANCE,A.J.FLOREZ ARIZA, JRNL AUTH 2 J.LUO,J.HUMBERT,D.SUDARSHAN,A.BANERJEA,M.GALLOY, JRNL AUTH 3 A.FRADET-TURCOTTE,J.P.LAMBERT,J.A.RANISH,J.COTE,E.NOGALES JRNL TITL STRUCTURAL INSIGHTS INTO THE HUMAN NUA4/TIP60 JRNL TITL 2 ACETYLTRANSFERASE AND CHROMATIN REMODELING COMPLEX. JRNL REF SCIENCE V. 385 L5816 2024 JRNL REFN ESSN 1095-9203 JRNL PMID 39088653 JRNL DOI 10.1126/SCIENCE.ADL5816 REMARK 2 REMARK 2 RESOLUTION. 3.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX 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) : 3.400 REMARK 3 NUMBER OF PARTICLES : 96931 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 9C4B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1000284683. 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 : SECOND BAF53A OF THE HUMAN REMARK 245 TIP60 COMPLEX 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 TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : 4D-STEM REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5000.00 REMARK 245 ILLUMINATION MODE : SPOT SCAN 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 SER A 2 REMARK 465 GLY A 3 REMARK 465 GLY A 4 REMARK 465 VAL A 5 REMARK 465 TYR A 6 REMARK 465 GLY A 7 REMARK 465 GLY A 8 REMARK 465 ASP A 9 REMARK 465 GLU A 10 REMARK 465 ASP A 48 REMARK 465 ASP A 49 REMARK 465 GLY A 50 REMARK 465 SER A 51 REMARK 465 THR A 52 REMARK 465 LEU A 53 REMARK 465 MET A 54 REMARK 465 GLU A 55 REMARK 465 ILE A 56 REMARK 465 ASP A 57 REMARK 465 GLY A 58 REMARK 465 ASP A 59 REMARK 465 LYS A 60 REMARK 465 GLY A 61 REMARK 465 LYS A 62 REMARK 465 GLN A 63 REMARK 465 GLY A 64 REMARK 465 SER A 312 REMARK 465 ASN A 313 REMARK 465 VAL A 314 REMARK 465 LYS A 315 REMARK 465 GLY A 316 REMARK 465 LEU A 317 REMARK 465 SER A 318 REMARK 465 GLY A 319 REMARK 465 ASN A 320 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 ALA A 74 HH22 ARG A 79 1.59 REMARK 500 O GLY A 191 OG SER A 332 1.83 REMARK 500 O GLY A 352 OG1 THR A 355 2.13 REMARK 500 N ALA A 125 OD1 ASN A 128 2.16 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 PRO A 66 2.79 -65.41 REMARK 500 ASP A 71 156.40 67.78 REMARK 500 LYS A 112 122.14 -39.26 REMARK 500 THR A 175 -5.65 73.20 REMARK 500 SER A 225 142.53 -175.38 REMARK 500 GLU A 276 70.24 59.44 REMARK 500 VAL A 278 -88.25 -19.57 REMARK 500 ALA A 280 -56.81 171.21 REMARK 500 GLN A 281 13.46 -154.55 REMARK 500 MET A 282 174.69 61.86 REMARK 500 PRO A 283 153.17 -48.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-45180 RELATED DB: EMDB REMARK 900 SECOND BAF53A OF THE HUMAN TIP60 COMPLEX DBREF 9C4B A 1 429 UNP O96019 ACL6A_HUMAN 1 429 SEQRES 1 A 429 MET SER GLY GLY VAL TYR GLY GLY ASP GLU VAL GLY ALA SEQRES 2 A 429 LEU VAL PHE ASP ILE GLY SER TYR THR VAL ARG ALA GLY SEQRES 3 A 429 TYR ALA GLY GLU ASP CYS PRO LYS VAL ASP PHE PRO THR SEQRES 4 A 429 ALA ILE GLY MET VAL VAL GLU ARG ASP ASP GLY SER THR SEQRES 5 A 429 LEU MET GLU ILE ASP GLY ASP LYS GLY LYS GLN GLY GLY SEQRES 6 A 429 PRO THR TYR TYR ILE ASP THR ASN ALA LEU ARG VAL PRO SEQRES 7 A 429 ARG GLU ASN MET GLU ALA ILE SER PRO LEU LYS ASN GLY SEQRES 8 A 429 MET VAL GLU ASP TRP ASP SER PHE GLN ALA ILE LEU ASP SEQRES 9 A 429 HIS THR TYR LYS MET HIS VAL LYS SER GLU ALA SER LEU SEQRES 10 A 429 HIS PRO VAL LEU MET SER GLU ALA PRO TRP ASN THR ARG SEQRES 11 A 429 ALA LYS ARG GLU LYS LEU THR GLU LEU MET PHE GLU HIS SEQRES 12 A 429 TYR ASN ILE PRO ALA PHE PHE LEU CYS LYS THR ALA VAL SEQRES 13 A 429 LEU THR ALA PHE ALA ASN GLY ARG SER THR GLY LEU ILE SEQRES 14 A 429 LEU ASP SER GLY ALA THR HIS THR THR ALA ILE PRO VAL SEQRES 15 A 429 HIS ASP GLY TYR VAL LEU GLN GLN GLY ILE VAL LYS SER SEQRES 16 A 429 PRO LEU ALA GLY ASP PHE ILE THR MET GLN CYS ARG GLU SEQRES 17 A 429 LEU PHE GLN GLU MET ASN ILE GLU LEU VAL PRO PRO TYR SEQRES 18 A 429 MET ILE ALA SER LYS GLU ALA VAL ARG GLU GLY SER PRO SEQRES 19 A 429 ALA ASN TRP LYS ARG LYS GLU LYS LEU PRO GLN VAL THR SEQRES 20 A 429 ARG SER TRP HIS ASN TYR MET CYS ASN CYS VAL ILE GLN SEQRES 21 A 429 ASP PHE GLN ALA SER VAL LEU GLN VAL SER ASP SER THR SEQRES 22 A 429 TYR ASP GLU GLN VAL ALA ALA GLN MET PRO THR VAL HIS SEQRES 23 A 429 TYR GLU PHE PRO ASN GLY TYR ASN CYS ASP PHE GLY ALA SEQRES 24 A 429 GLU ARG LEU LYS ILE PRO GLU GLY LEU PHE ASP PRO SER SEQRES 25 A 429 ASN VAL LYS GLY LEU SER GLY ASN THR MET LEU GLY VAL SEQRES 26 A 429 SER HIS VAL VAL THR THR SER VAL GLY MET CYS ASP ILE SEQRES 27 A 429 ASP ILE ARG PRO GLY LEU TYR GLY SER VAL ILE VAL ALA SEQRES 28 A 429 GLY GLY ASN THR LEU ILE GLN SER PHE THR ASP ARG LEU SEQRES 29 A 429 ASN ARG GLU LEU SER GLN LYS THR PRO PRO SER MET ARG SEQRES 30 A 429 LEU LYS LEU ILE ALA ASN ASN THR THR VAL GLU ARG ARG SEQRES 31 A 429 PHE SER SER TRP ILE GLY GLY SER ILE LEU ALA SER LEU SEQRES 32 A 429 GLY THR PHE GLN GLN MET TRP ILE SER LYS GLN GLU TYR SEQRES 33 A 429 GLU GLU GLY GLY LYS GLN CYS VAL GLU ARG LYS CYS PRO HELIX 1 AA1 ILE A 70 VAL A 77 1 8 HELIX 2 AA2 ASP A 95 MET A 109 1 15 HELIX 3 AA3 THR A 129 HIS A 143 1 15 HELIX 4 AA4 THR A 154 GLY A 163 1 10 HELIX 5 AA5 GLN A 189 ILE A 192 5 4 HELIX 6 AA6 ALA A 198 PHE A 210 1 13 HELIX 7 AA7 THR A 247 LEU A 267 1 21 HELIX 8 AA8 ALA A 299 ILE A 304 1 6 HELIX 9 AA9 PRO A 305 PHE A 309 5 5 HELIX 10 AB1 GLY A 324 CYS A 336 1 13 HELIX 11 AB2 ILE A 340 TYR A 345 1 6 HELIX 12 AB3 GLY A 352 LEU A 356 5 5 HELIX 13 AB4 SER A 359 THR A 372 1 14 HELIX 14 AB5 THR A 385 PHE A 391 1 7 HELIX 15 AB6 PHE A 391 LEU A 403 1 13 HELIX 16 AB7 THR A 405 TRP A 410 1 6 HELIX 17 AB8 LYS A 413 GLY A 419 1 7 HELIX 18 AB9 GLN A 422 CYS A 428 1 7 SHEET 1 AA1 6 VAL A 35 PRO A 38 0 SHEET 2 AA1 6 THR A 22 TYR A 27 -1 N ALA A 25 O VAL A 35 SHEET 3 AA1 6 LEU A 14 ILE A 18 -1 N ASP A 17 O ARG A 24 SHEET 4 AA1 6 VAL A 120 GLU A 124 1 O LEU A 121 N PHE A 16 SHEET 5 AA1 6 ALA A 148 LYS A 153 1 O CYS A 152 N GLU A 124 SHEET 6 AA1 6 ILE A 411 SER A 412 -1 O ILE A 411 N PHE A 149 SHEET 1 AA2 3 TYR A 186 VAL A 187 0 SHEET 2 AA2 3 THR A 177 HIS A 183 -1 N HIS A 183 O TYR A 186 SHEET 3 AA2 3 VAL A 193 SER A 195 -1 O SER A 195 N THR A 177 SHEET 1 AA3 4 TYR A 186 VAL A 187 0 SHEET 2 AA3 4 THR A 177 HIS A 183 -1 N HIS A 183 O TYR A 186 SHEET 3 AA3 4 GLY A 167 SER A 172 -1 N GLY A 167 O VAL A 182 SHEET 4 AA3 4 VAL A 348 VAL A 350 1 O ILE A 349 N LEU A 168 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