HEADER PROTEIN BINDING 23-SEP-25 9YDY TITLE CONTEXT-DEPENDENT VARIABILITY OF HIF HETERODIMERS INFLUENCES TITLE 2 INTERACTIONS WITH MACROMOLECULAR AND SMALL MOLECULE PARTNERS COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSFORMING ACIDIC COILED-COIL-CONTAINING PROTEIN 3; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ERIC-1; COMPND 5 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: TACC3, ERIC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COILED-COILED, COACTIVATOR, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR E.A.ISIORHO,X.XU,K.H.GARDNER REVDAT 1 11-MAR-26 9YDY 0 SPRSDE 11-MAR-26 9YDY 9OPF JRNL AUTH J.D.CLOSSON,X.XU,M.ZHANG,T.T.TIYANI,L.P.MARCELINO, JRNL AUTH 2 E.A.ISIORHO,J.S.NAGATI,J.A.GARCIA,K.H.GARDNER JRNL TITL CONTEXT-DEPENDENT VARIABILITY OF HIF HETERODIMERS INFLUENCES JRNL TITL 2 INTERACTIONS WITH MACROMOLECULAR AND SMALL MOLECULE JRNL TITL 3 PARTNERS. JRNL REF BIORXIV 2025 JRNL REFN ISSN 2692-8205 JRNL PMID 40502054 JRNL DOI 10.1101/2025.05.29.656908 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 8608 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.251 REMARK 3 R VALUE (WORKING SET) : 0.250 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.060 REMARK 3 FREE R VALUE TEST SET COUNT : 866 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 32.8700 - 4.1800 0.95 1385 159 0.3006 0.2784 REMARK 3 2 4.1800 - 3.3200 0.97 1320 153 0.2187 0.2571 REMARK 3 3 3.3200 - 2.9000 0.98 1342 147 0.2421 0.2542 REMARK 3 4 2.9000 - 2.6300 0.98 1339 146 0.2278 0.2694 REMARK 3 5 2.6300 - 2.4400 0.95 1293 144 0.2222 0.2211 REMARK 3 6 2.4400 - 2.3000 0.78 1063 117 0.2253 0.2920 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) : 0.242 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.743 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.00 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 : 0.013 800 REMARK 3 ANGLE : 1.413 1062 REMARK 3 CHIRALITY : 0.057 127 REMARK 3 PLANARITY : 0.013 137 REMARK 3 DIHEDRAL : 19.458 335 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 : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : chain "A" REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and resid 788 through 835) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9YDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-SEP-25. REMARK 100 THE DEPOSITION ID IS D_1000300361. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-APR-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS-II REMARK 200 BEAMLINE : 17-ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9201 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9098 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.178 REMARK 200 RESOLUTION RANGE LOW (A) : 131.474 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 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 (%): 53.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M IMIDAZOLE, 50% (+/-)-2-METHYL REMARK 280 -2,4-PENTANEDIOL (MPD), PH 7, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 131.53950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 11.91350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 131.53950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 11.91350 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 904 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 904 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 909 LIES ON A SPECIAL POSITION. 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 THR A 758 REMARK 465 GLN A 759 REMARK 465 GLU A 760 REMARK 465 GLY A 761 REMARK 465 GLN A 762 REMARK 465 ARG A 763 REMARK 465 TYR A 764 REMARK 465 GLN A 765 REMARK 465 ALA A 766 REMARK 465 LEU A 767 REMARK 465 LYS A 768 REMARK 465 ALA A 769 REMARK 465 HIS A 770 REMARK 465 ALA A 771 REMARK 465 GLU A 772 REMARK 465 GLU A 773 REMARK 465 LYS A 774 REMARK 465 LEU A 775 REMARK 465 GLN A 776 REMARK 465 LEU A 777 REMARK 465 ALA A 778 REMARK 465 ASN A 779 REMARK 465 GLU A 780 REMARK 465 GLU A 781 REMARK 465 ILE A 782 REMARK 465 ALA A 783 REMARK 465 GLN A 784 REMARK 465 VAL A 785 REMARK 465 ARG A 786 REMARK 465 SER A 787 REMARK 465 GLU A 836 REMARK 465 LYS A 837 REMARK 465 ILE A 838 REMARK 465 THR B 758 REMARK 465 GLN B 759 REMARK 465 GLU B 760 REMARK 465 GLY B 761 REMARK 465 GLN B 762 REMARK 465 ARG B 763 REMARK 465 TYR B 764 REMARK 465 GLN B 765 REMARK 465 ALA B 766 REMARK 465 LEU B 767 REMARK 465 LYS B 768 REMARK 465 ALA B 769 REMARK 465 HIS B 770 REMARK 465 ALA B 771 REMARK 465 GLU B 772 REMARK 465 GLU B 773 REMARK 465 LYS B 774 REMARK 465 LEU B 775 REMARK 465 GLN B 776 REMARK 465 LEU B 777 REMARK 465 ALA B 778 REMARK 465 ASN B 779 REMARK 465 GLU B 780 REMARK 465 GLU B 781 REMARK 465 ILE B 782 REMARK 465 ALA B 783 REMARK 465 GLN B 784 REMARK 465 LYS B 837 REMARK 465 ILE B 838 DBREF 9YDY A 758 838 UNP Q9Y6A5 TACC3_HUMAN 758 838 DBREF 9YDY B 758 838 UNP Q9Y6A5 TACC3_HUMAN 758 838 SEQRES 1 A 81 THR GLN GLU GLY GLN ARG TYR GLN ALA LEU LYS ALA HIS SEQRES 2 A 81 ALA GLU GLU LYS LEU GLN LEU ALA ASN GLU GLU ILE ALA SEQRES 3 A 81 GLN VAL ARG SER LYS ALA GLN ALA GLU ALA LEU ALA LEU SEQRES 4 A 81 GLN ALA SER LEU ARG LYS GLU GLN MET ARG ILE GLN SER SEQRES 5 A 81 LEU GLU LYS THR VAL GLU GLN LYS THR LYS GLU ASN GLU SEQRES 6 A 81 GLU LEU THR ARG ILE CYS ASP ASP LEU ILE SER LYS MET SEQRES 7 A 81 GLU LYS ILE SEQRES 1 B 81 THR GLN GLU GLY GLN ARG TYR GLN ALA LEU LYS ALA HIS SEQRES 2 B 81 ALA GLU GLU LYS LEU GLN LEU ALA ASN GLU GLU ILE ALA SEQRES 3 B 81 GLN VAL ARG SER LYS ALA GLN ALA GLU ALA LEU ALA LEU SEQRES 4 B 81 GLN ALA SER LEU ARG LYS GLU GLN MET ARG ILE GLN SER SEQRES 5 B 81 LEU GLU LYS THR VAL GLU GLN LYS THR LYS GLU ASN GLU SEQRES 6 B 81 GLU LEU THR ARG ILE CYS ASP ASP LEU ILE SER LYS MET SEQRES 7 B 81 GLU LYS ILE FORMUL 3 HOH *23(H2 O) HELIX 1 AA1 LYS A 788 LYS A 834 1 47 HELIX 2 AA2 ARG B 786 LYS B 834 1 49 CRYST1 263.079 23.827 31.856 90.00 91.81 90.00 C 1 2 1 8 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 0.003801 0.000000 0.000120 0.00000 SCALE2 0.000000 0.041969 0.000000 0.00000 SCALE3 0.000000 0.000000 0.031407 0.00000 MTRIX1 1 0.993647 0.102270 0.046983 -1.41996 1 MTRIX2 1 0.102217 -0.994756 0.003529 13.69076 1 MTRIX3 1 0.047098 0.001296 -0.998889 14.61952 1 MASTER 288 0 0 2 0 0 0 9 824 2 0 14 END