HEADER PLANT PROTEIN 12-AUG-25 9SCZ TITLE CRYSTAL STRUCTURE OF MPTACO1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATORY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MARCHANTIA POLYMORPHA; SOURCE 3 ORGANISM_COMMON: LIVERWORT; SOURCE 4 ORGANISM_TAXID: 3197; SOURCE 5 GENE: MP_1G23800; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MITOCHONDRIA, PLASTID, PLANT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.KOS THALER,T.KAJANDER,B.J.BATTERSBY,S.J.BUTCHER REVDAT 1 26-AUG-26 9SCZ 0 JRNL AUTH N.KOS THALER,T.KAJANDER,S.B.GOULD,B.J.BATTERSBY,S.J.BUTCHER JRNL TITL STRUCTURE OF MARCHANTIA POLYMORPHA TACO1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21.2_5419 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 10404 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.281 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 510 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 45.1800 - 3.7100 1.00 2590 142 0.1858 0.2418 REMARK 3 2 3.7100 - 2.9500 0.94 2341 128 0.2497 0.2749 REMARK 3 3 2.9500 - 2.5700 0.99 2498 123 0.3021 0.3579 REMARK 3 4 2.5700 - 2.3400 0.98 2465 117 0.3276 0.4002 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.411 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.952 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 1844 REMARK 3 ANGLE : 0.666 2484 REMARK 3 CHIRALITY : 0.043 287 REMARK 3 PLANARITY : 0.006 325 REMARK 3 DIHEDRAL : 15.470 704 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9SCZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-AUG-25. REMARK 100 THE DEPOSITION ID IS D_1292148477. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JAN-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER R 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10404 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.340 REMARK 200 RESOLUTION RANGE LOW (A) : 70.490 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 7.070 REMARK 200 R MERGE (I) : 0.15700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH 6, 30% (V/V) POLYETHYLENE REMARK 280 GLYCOL 200, 5% (W/V) POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 45.83650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.23300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.83650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 19.23300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 ASP A 167 REMARK 465 GLU A 168 REMARK 465 ASP A 169 REMARK 465 GLU A 170 REMARK 465 ASP A 171 REMARK 465 ASP A 172 REMARK 465 GLU A 173 REMARK 465 GLU A 174 DBREF1 9SCZ A 1 247 UNP A0AAF6ATL4_MARPO DBREF2 9SCZ A A0AAF6ATL4 127 373 SEQRES 1 A 247 MET GLY ARG ARG SER ALA LYS ILE ALA THR ARG LYS GLY SEQRES 2 A 247 ALA GLN ASN ARG LYS LYS ALA LYS LEU TYR GLY LYS ILE SEQRES 3 A 247 GLY LYS GLN ILE ALA ALA VAL VAL LYS GLU GLY GLY PRO SEQRES 4 A 247 ASN PRO THR GLY ASN ALA ALA LEU ALA VAL LEU LEU GLN SEQRES 5 A 247 THR ALA LYS GLN TYR ASP VAL PRO LYS GLU ILE ILE ASP SEQRES 6 A 247 ARG ASN ILE LYS LYS ALA SER ASP LYS SER GLN ALA ASP SEQRES 7 A 247 PHE VAL ASP MET THR TYR GLU VAL TYR GLY LEU GLY GLY SEQRES 8 A 247 VAL GLY LEU VAL LEU GLU VAL LEU THR ASP ASN ASN ASN SEQRES 9 A 247 ARG ALA ALA ALA ASN ILE ARG ASP VAL VAL LYS LYS GLY SEQRES 10 A 247 GLY GLY LYS MET ALA ASP PRO GLY SER VAL LEU PHE ASN SEQRES 11 A 247 PHE LYS ARG THR GLY VAL VAL TYR VAL LYS THR GLY ASP SEQRES 12 A 247 ILE SER SER ASP ASP LEU LEU LEU ALA ALA MET ASP ALA SEQRES 13 A 247 GLY ALA GLU ASP VAL LEU GLU PRO GLU VAL ASP GLU ASP SEQRES 14 A 247 GLU ASP ASP GLU GLU THR ARG TYR TYR LYS VAL LEU THR SEQRES 15 A 247 PRO VAL GLU GLN PHE PHE THR VAL SER GLN GLN LEU LYS SEQRES 16 A 247 GLU ALA GLY ILE LYS ILE ASP THR ASP ASN SER GLY LEU SEQRES 17 A 247 GLU LEU PHE PRO VAL VAL SER VAL GLU PRO ASP ASP GLU SEQRES 18 A 247 ALA LEU GLU MET ASN LYS GLN ILE MET GLU LYS LEU LEU SEQRES 19 A 247 ASP LEU ASP ASP VAL ASP ALA VAL TYR CYS ASN GLN LYS FORMUL 2 HOH *31(H2 O) HELIX 1 AA1 GLY A 2 GLY A 38 1 37 HELIX 2 AA2 ASN A 44 TYR A 57 1 14 HELIX 3 AA3 PRO A 60 ALA A 71 1 12 HELIX 4 AA4 LEU A 89 GLY A 91 5 3 HELIX 5 AA5 ASN A 102 GLY A 118 1 17 HELIX 6 AA6 VAL A 127 PHE A 129 5 3 HELIX 7 AA7 SER A 145 GLY A 157 1 13 HELIX 8 AA8 PRO A 183 GLU A 185 5 3 HELIX 9 AA9 GLN A 186 ALA A 197 1 12 HELIX 10 AB1 ASP A 219 ASP A 235 1 17 SHEET 1 AA1 4 LYS A 120 MET A 121 0 SHEET 2 AA1 4 VAL A 80 TYR A 87 -1 N TYR A 87 O LYS A 120 SHEET 3 AA1 4 GLY A 93 THR A 100 -1 O THR A 100 N VAL A 80 SHEET 4 AA1 4 VAL A 239 CYS A 244 -1 O ASP A 240 N GLU A 97 SHEET 1 AA2 4 ASP A 160 LEU A 162 0 SHEET 2 AA2 4 TYR A 177 THR A 182 -1 O LYS A 179 N LEU A 162 SHEET 3 AA2 4 PHE A 131 LYS A 140 -1 N VAL A 137 O VAL A 180 SHEET 4 AA2 4 ASP A 202 PRO A 212 -1 O PHE A 211 N LYS A 132 CRYST1 91.673 38.466 78.143 90.00 115.58 90.00 C 1 2 1 4 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 0.010908 0.000000 0.005221 0.00000 SCALE2 0.000000 0.025997 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014187 0.00000 MASTER 206 0 0 10 8 0 0 6 1855 1 0 19 END