HEADER PROTEIN BINDING 08-JUN-24 8ZU6 TITLE SOLUTION NMR STRUCTURE OF PACT D3 HOMODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON-INDUCIBLE DOUBLE-STRANDED RNA-DEPENDENT PROTEIN COMPND 3 KINASE ACTIVATOR A; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: PKR-ASSOCIATED PROTEIN X,PKR-ASSOCIATING PROTEIN X,PROTEIN COMPND 6 ACTIVATOR OF THE INTERFERON-INDUCED PROTEIN KINASE,PROTEIN KINASE, COMPND 7 INTERFERON-INDUCIBLE DOUBLE-STRANDED RNA-DEPENDENT ACTIVATOR; COMPND 8 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: PRKRA, PACT, RAX, HSD-14, HSD14; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DSRNA-BINDING PROTEIN, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR L.ZHAO,S.AHMAD,S.HUR,J.CHOU REVDAT 1 16-APR-25 8ZU6 0 JRNL AUTH S.AHMAD,T.ZOU,J.HWANG,L.ZHAO,X.WANG,A.DAVYDENKO, JRNL AUTH 2 I.BUCHUMENSKI,P.ZHUANG,A.R.FISHBEIN,D.CAPCHA-RODRIGUEZ, JRNL AUTH 3 A.ORGEL,E.Y.LEVANON,S.MYONG,J.CHOU,M.MEYERSON,S.HUR JRNL TITL PACT PREVENTS ABERRANT ACTIVATION OF PKR BY ENDOGENOUS DSRNA JRNL TITL 2 WITHOUT SEQUESTRATION. JRNL REF NAT COMMUN V. 16 3325 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 40199855 JRNL DOI 10.1038/S41467-025-58433-X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XEASY, CCPNMR ANALYSIS REMARK 3 AUTHORS : BARTELS ET AL. (XEASY), CCPN (CCPNMR ANALYSIS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8ZU6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 11-JUN-24. REMARK 100 THE DEPOSITION ID IS D_1300048483. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 PA REMARK 210 SAMPLE CONTENTS : 0.7 MM [U-13C; U-15N] PACT D3, REMARK 210 90% H2O/10% D2O; 0.7 MM [U-15N] REMARK 210 PACT D3, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-1H NOESY; REMARK 210 3D HNCA; 3D HN(CO)CA; 3D CBCA(CO) REMARK 210 NH REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, X-PLOR NIH REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-15 REMARK 465 RES C SSSEQI REMARK 465 MET A 6 REMARK 465 ALA A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 SER A 14 REMARK 465 ALA A 15 REMARK 465 ALA A 16 REMARK 465 LEU A 17 REMARK 465 GLU A 18 REMARK 465 VAL A 19 REMARK 465 LEU A 20 REMARK 465 PHE A 21 REMARK 465 GLN A 22 REMARK 465 GLY A 23 REMARK 465 PRO A 24 REMARK 465 GLY A 25 REMARK 465 TYR A 26 REMARK 465 GLN A 27 REMARK 465 ASP A 28 REMARK 465 PRO A 29 REMARK 465 MET B 6 REMARK 465 ALA B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 HIS B 11 REMARK 465 HIS B 12 REMARK 465 HIS B 13 REMARK 465 SER B 14 REMARK 465 ALA B 15 REMARK 465 ALA B 16 REMARK 465 LEU B 17 REMARK 465 GLU B 18 REMARK 465 VAL B 19 REMARK 465 LEU B 20 REMARK 465 PHE B 21 REMARK 465 GLN B 22 REMARK 465 GLY B 23 REMARK 465 PRO B 24 REMARK 465 GLY B 25 REMARK 465 TYR B 26 REMARK 465 GLN B 27 REMARK 465 ASP B 28 REMARK 465 PRO B 29 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 1 GLU A 53 -178.99 -54.27 REMARK 500 1 LEU A 54 179.11 57.90 REMARK 500 1 GLN A 59 141.33 -175.41 REMARK 500 1 CYS A 81 108.66 -54.79 REMARK 500 1 ILE B 51 145.39 63.00 REMARK 500 1 GLU B 53 -30.21 -173.74 REMARK 500 2 ASN A 57 -87.54 -100.72 REMARK 500 2 GLN A 59 137.03 169.22 REMARK 500 2 ILE B 51 129.06 64.02 REMARK 500 2 GLU B 53 -60.04 -162.98 REMARK 500 2 TYR B 60 50.02 71.47 REMARK 500 3 GLU A 53 171.42 -50.13 REMARK 500 3 LEU A 54 178.30 60.43 REMARK 500 3 SER A 80 -65.80 -137.25 REMARK 500 3 CYS A 81 97.34 -179.58 REMARK 500 3 ASP B 50 63.82 -102.91 REMARK 500 3 ILE B 51 133.69 -173.81 REMARK 500 3 GLU B 53 -59.58 -175.75 REMARK 500 3 TYR B 60 69.28 62.50 REMARK 500 3 SER B 80 -73.91 -105.57 REMARK 500 3 CYS B 81 106.89 -178.60 REMARK 500 4 ILE B 51 51.74 39.29 REMARK 500 4 TYR B 60 79.61 50.08 REMARK 500 4 SER B 80 -62.64 -103.94 REMARK 500 4 CYS B 81 -57.15 -170.50 REMARK 500 5 ASP A 52 32.54 -91.74 REMARK 500 5 LEU A 54 179.28 59.10 REMARK 500 5 ILE B 51 178.10 46.82 REMARK 500 5 GLU B 53 -53.54 -179.69 REMARK 500 5 TYR B 60 70.80 64.76 REMARK 500 5 SER B 69 -164.97 -166.00 REMARK 500 5 SER B 80 -66.81 -120.53 REMARK 500 5 CYS B 81 118.76 -174.75 REMARK 500 6 ASP A 52 23.87 44.54 REMARK 500 6 GLU A 53 90.75 49.57 REMARK 500 6 SER A 80 -56.35 -168.48 REMARK 500 6 CYS A 81 -162.04 -78.44 REMARK 500 6 GLU B 53 -43.91 -167.22 REMARK 500 7 ASP A 52 22.08 -79.49 REMARK 500 7 LEU A 54 169.93 58.09 REMARK 500 7 SER A 80 156.80 175.98 REMARK 500 7 CYS A 81 -87.03 55.99 REMARK 500 7 ILE B 51 71.73 45.18 REMARK 500 7 LEU B 54 96.06 46.81 REMARK 500 7 SER B 69 -166.95 -163.85 REMARK 500 7 CYS B 81 111.83 59.96 REMARK 500 8 GLU A 53 94.54 -55.38 REMARK 500 8 SER A 55 -48.34 75.17 REMARK 500 8 ILE B 51 108.32 60.62 REMARK 500 8 GLU B 53 -64.78 -176.36 REMARK 500 REMARK 500 THIS ENTRY HAS 99 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36671 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF PACT D3 HOMODIMER DBREF 8ZU6 A 30 99 UNP O75569 PRKRA_HUMAN 240 309 DBREF 8ZU6 B 30 99 UNP O75569 PRKRA_HUMAN 240 309 SEQADV 8ZU6 MET A 6 UNP O75569 INITIATING METHIONINE SEQADV 8ZU6 ALA A 7 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 8 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 9 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 10 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 11 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 12 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS A 13 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 SER A 14 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ALA A 15 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ALA A 16 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 LEU A 17 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLU A 18 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 VAL A 19 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 LEU A 20 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PHE A 21 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLN A 22 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLY A 23 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PRO A 24 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLY A 25 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 TYR A 26 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLN A 27 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ASP A 28 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PRO A 29 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 MET B 6 UNP O75569 INITIATING METHIONINE SEQADV 8ZU6 ALA B 7 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 8 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 9 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 10 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 11 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 12 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 HIS B 13 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 SER B 14 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ALA B 15 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ALA B 16 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 LEU B 17 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLU B 18 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 VAL B 19 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 LEU B 20 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PHE B 21 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLN B 22 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLY B 23 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PRO B 24 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLY B 25 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 TYR B 26 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 GLN B 27 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 ASP B 28 UNP O75569 EXPRESSION TAG SEQADV 8ZU6 PRO B 29 UNP O75569 EXPRESSION TAG SEQRES 1 A 94 MET ALA HIS HIS HIS HIS HIS HIS SER ALA ALA LEU GLU SEQRES 2 A 94 VAL LEU PHE GLN GLY PRO GLY TYR GLN ASP PRO ASP TYR SEQRES 3 A 94 ILE GLN LEU LEU SER GLU ILE ALA LYS GLU GLN GLY PHE SEQRES 4 A 94 ASN ILE THR TYR LEU ASP ILE ASP GLU LEU SER ALA ASN SEQRES 5 A 94 GLY GLN TYR GLN CYS LEU ALA GLU LEU SER THR SER PRO SEQRES 6 A 94 ILE THR VAL CYS HIS GLY SER GLY ILE SER CYS GLY ASN SEQRES 7 A 94 ALA GLN SER ASP ALA ALA HIS ASN ALA LEU GLN TYR LEU SEQRES 8 A 94 LYS ILE ILE SEQRES 1 B 94 MET ALA HIS HIS HIS HIS HIS HIS SER ALA ALA LEU GLU SEQRES 2 B 94 VAL LEU PHE GLN GLY PRO GLY TYR GLN ASP PRO ASP TYR SEQRES 3 B 94 ILE GLN LEU LEU SER GLU ILE ALA LYS GLU GLN GLY PHE SEQRES 4 B 94 ASN ILE THR TYR LEU ASP ILE ASP GLU LEU SER ALA ASN SEQRES 5 B 94 GLY GLN TYR GLN CYS LEU ALA GLU LEU SER THR SER PRO SEQRES 6 B 94 ILE THR VAL CYS HIS GLY SER GLY ILE SER CYS GLY ASN SEQRES 7 B 94 ALA GLN SER ASP ALA ALA HIS ASN ALA LEU GLN TYR LEU SEQRES 8 B 94 LYS ILE ILE HELIX 1 AA1 ASP A 30 GLY A 43 1 14 HELIX 2 AA2 GLY A 82 ILE A 99 1 18 HELIX 3 AA3 TYR B 31 GLY B 43 1 13 HELIX 4 AA4 GLY B 82 ILE B 99 1 18 SHEET 1 AA1 6 ILE A 46 ASP A 50 0 SHEET 2 AA1 6 TYR A 60 LEU A 66 -1 O LEU A 63 N LEU A 49 SHEET 3 AA1 6 VAL A 73 GLY A 78 -1 O CYS A 74 N ALA A 64 SHEET 4 AA1 6 VAL B 73 GLY B 76 1 O VAL B 73 N HIS A 75 SHEET 5 AA1 6 CYS B 62 LEU B 66 -1 N CYS B 62 O GLY B 76 SHEET 6 AA1 6 ILE B 46 ASP B 50 -1 N LEU B 49 O LEU B 63 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 MODEL 1 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 2 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 3 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 4 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 5 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 6 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 7 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 8 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 9 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 10 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 11 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 12 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 13 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 14 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MODEL 15 TER 1043 ILE A 99 TER 2086 ILE B 99 ENDMDL MASTER 199 0 0 4 6 0 0 6 1060 2 0 16 END