HEADER APOPTOSIS 20-JUN-25 9VJL TITLE PHOSPHORYLATION DEPENDENT RECOGNITION OF RIPK1 BY PHOSPHATIDYLINOSITOL TITLE 2 3,4,5-TRISPHOSPHATE 5-PHOSPHATASE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 3,4,5-TRISPHOSPHATE 5-PHOSPHATASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: INOSITOL POLYPHOSPHATE-5-PHOSPHATASE D,INOSITOL COMPND 5 POLYPHOSPHATE-5-PHOSPHATASE OF 145 KDA,SIP-145,PHOSPHATIDYLINOSITOL- COMPND 6 4,5-BISPHOSPHATE 5-PHOSPHATASE,SH2 DOMAIN-CONTAINING INOSITOL 5'- COMPND 7 PHOSPHATASE 1,SH2 DOMAIN-CONTAINING INOSITOL PHOSPHATASE 1,SHIP-1, COMPND 8 P150SHIP; COMPND 9 EC: 3.1.3.86,3.1.3.56,3.1.3.36; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: RECEPTOR-INTERACTING SERINE/THREONINE-PROTEIN KINASE 1; COMPND 13 CHAIN: B; COMPND 14 SYNONYM: CELL DEATH PROTEIN RIP,RECEPTOR-INTERACTING PROTEIN 1,RIP-1; COMPND 15 EC: 2.7.11.1; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: INPP5D, 7A33, SHIP, SHIP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 12 ORGANISM_TAXID: 10090 KEYWDS SH2 DOMAIN, PHOSPHORYLATION, KINASE, PHOSPHOTASE, APOPTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.LIU,Z.LIU,H.XUE,X.XIE,W.SUN,J.CHOU REVDAT 1 25-MAR-26 9VJL 0 JRNL AUTH X.XIE,J.LIU,W.LIANG,Y.ZHANG,X.GONG,S.YUAN,C.QI,M.HUANG, JRNL AUTH 2 L.SHI,M.HOU,M.ZHANG,W.LIU,W.SUN,Y.WU,C.LI,Z.CAO,H.JING, JRNL AUTH 3 L.QIAN,J.LIU,S.YUAN,Q.WANG,Y.SHEN,Z.LIU,Y.LI,H.PAN,B.ZHU, JRNL AUTH 4 B.SHAN,K.HE,W.WANG,C.ZOU,Y.LI,J.J.CHOU,J.YUAN JRNL TITL REPRESSION OF RIPK1 KINASE BY INPP5D INHIBITS EXPRESSION OF JRNL TITL 2 DIVERSE PROINFLAMMATORY MEDIATORS AND LATE-ONSET ALZHEIMER'S JRNL TITL 3 DISEASE RISK FACTORS. JRNL REF IMMUNITY V. 59 419 2026 JRNL REFN ISSN 1074-7613 JRNL PMID 41633359 JRNL DOI 10.1016/J.IMMUNI.2026.01.014 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9VJL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 24-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1300060820. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 70 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 20 MM NA2HPO4-NAH2PO4, 50 MM REMARK 210 SODIUM CHLORIDE, 1 MM EDTA, 1 MM REMARK 210 DTT, H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D C(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D H(CCO)NH; 3D HNCO; REMARK 210 3D 1H-13C NOESY; 3D 1H-15N REMARK 210 NOESY; 3D HCACO; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DIRECT DRIVE REMARK 210 SPECTROMETER MANUFACTURER : AGILENT REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRPIPE REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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 LYS A 27 -65.85 75.02 REMARK 500 1 GLN A 101 -69.47 -102.36 REMARK 500 1 ILE B 388 85.52 38.67 REMARK 500 1 PHE B 389 22.14 -155.65 REMARK 500 2 LYS A 27 -72.97 68.79 REMARK 500 2 SER A 71 146.94 69.28 REMARK 500 2 GLN A 101 -82.05 -111.28 REMARK 500 2 GLU B 391 -173.76 -69.93 REMARK 500 2 LYS B 392 -4.20 79.95 REMARK 500 3 ASP A 28 60.84 82.38 REMARK 500 3 SER A 71 102.81 56.80 REMARK 500 3 GLN A 101 -73.32 -92.87 REMARK 500 3 LYS B 392 76.76 51.42 REMARK 500 4 ASP A 28 -77.57 178.98 REMARK 500 4 GLN A 101 -78.71 -98.58 REMARK 500 4 HIS B 384 -161.43 -121.15 REMARK 500 4 ALA B 385 -164.20 -59.67 REMARK 500 5 ASP A 28 84.76 78.12 REMARK 500 5 GLN A 101 -77.24 -103.76 REMARK 500 5 ALA B 381 149.29 177.31 REMARK 500 5 PTR B 383 80.81 48.40 REMARK 500 6 ASP A 28 48.42 76.94 REMARK 500 6 GLN A 101 -82.46 -100.34 REMARK 500 6 PHE B 386 -58.02 78.02 REMARK 500 6 PHE B 389 158.44 60.17 REMARK 500 7 LYS A 27 -57.30 78.05 REMARK 500 7 GLN A 101 -78.94 -95.43 REMARK 500 7 SER B 382 142.49 72.04 REMARK 500 7 PTR B 383 71.99 60.77 REMARK 500 7 HIS B 384 -75.67 -115.93 REMARK 500 7 ILE B 388 40.80 72.78 REMARK 500 8 LYS A 27 -60.97 75.14 REMARK 500 8 ALA A 70 -80.30 -122.20 REMARK 500 8 GLN A 101 -68.30 -102.23 REMARK 500 8 ALA B 381 27.62 49.97 REMARK 500 8 PTR B 383 79.27 40.95 REMARK 500 8 ALA B 385 -166.46 75.96 REMARK 500 8 PHE B 386 85.31 55.50 REMARK 500 8 ILE B 388 161.04 60.07 REMARK 500 8 PHE B 389 -168.97 61.98 REMARK 500 9 ASP A 28 -57.70 167.61 REMARK 500 9 GLN A 101 -81.60 -114.98 REMARK 500 9 PTR B 383 88.29 61.05 REMARK 500 9 ILE B 388 97.00 68.17 REMARK 500 10 ASP A 28 46.98 74.77 REMARK 500 10 GLN A 101 -71.92 -91.90 REMARK 500 10 PHE B 386 -88.37 59.68 REMARK 500 11 LYS A 27 -60.47 75.53 REMARK 500 11 SER A 71 76.56 51.38 REMARK 500 11 GLU A 72 143.51 -37.41 REMARK 500 REMARK 500 THIS ENTRY HAS 102 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36768 RELATED DB: BMRB REMARK 900 PHOSPHORYLATION DEPENDENT RECOGNITION OF RIPK1 BY REMARK 900 PHOSPHATIDYLINOSITOL 3,4,5-TRISPHOSPHATE 5-PHOSPHATASE 1 DBREF 9VJL A 6 107 UNP Q9ES52 SHIP1_MOUSE 6 107 DBREF 9VJL B 378 393 UNP Q60855 RIPK1_MOUSE 378 393 SEQADV 9VJL GLY A 2 UNP Q9ES52 EXPRESSION TAG SEQADV 9VJL PRO A 3 UNP Q9ES52 EXPRESSION TAG SEQADV 9VJL GLY A 4 UNP Q9ES52 EXPRESSION TAG SEQADV 9VJL SER A 5 UNP Q9ES52 EXPRESSION TAG SEQRES 1 A 106 GLY PRO GLY SER PRO GLY TRP ASN HIS GLY ASN ILE THR SEQRES 2 A 106 ARG SER LYS ALA GLU GLU LEU LEU SER ARG ALA GLY LYS SEQRES 3 A 106 ASP GLY SER PHE LEU VAL ARG ALA SER GLU SER ILE PRO SEQRES 4 A 106 ARG ALA TYR ALA LEU CYS VAL LEU PHE ARG ASN CYS VAL SEQRES 5 A 106 TYR THR TYR ARG ILE LEU PRO ASN GLU ASP ASP LYS PHE SEQRES 6 A 106 THR VAL GLN ALA SER GLU GLY VAL PRO MET ARG PHE PHE SEQRES 7 A 106 THR LYS LEU ASP GLN LEU ILE ASP PHE TYR LYS LYS GLU SEQRES 8 A 106 ASN MET GLY LEU VAL THR HIS LEU GLN TYR PRO VAL PRO SEQRES 9 A 106 LEU GLU SEQRES 1 B 16 GLN GLU GLU ALA SER PTR HIS ALA PHE GLY ILE PHE ALA SEQRES 2 B 16 GLU LYS GLN MODRES 9VJL PTR B 383 TYR MODIFIED RESIDUE HET PTR B 383 24 HETNAM PTR O-PHOSPHOTYROSINE HETSYN PTR PHOSPHONOTYROSINE FORMUL 2 PTR C9 H12 N O6 P HELIX 1 AA1 THR A 14 LYS A 27 1 14 HELIX 2 AA2 LYS A 81 LYS A 91 1 11 SHEET 1 AA1 4 CYS A 52 ILE A 58 0 SHEET 2 AA1 4 TYR A 43 PHE A 49 -1 N LEU A 45 O TYR A 56 SHEET 3 AA1 4 SER A 30 ALA A 35 -1 N SER A 30 O LEU A 48 SHEET 4 AA1 4 TYR A 102 PRO A 103 1 O TYR A 102 N PHE A 31 LINK C SER B 382 N PTR B 383 1555 1555 1.33 LINK C PTR B 383 N HIS B 384 1555 1555 1.33 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 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MODEL 11 ENDMDL MODEL 12 ENDMDL MODEL 13 ENDMDL MODEL 14 ENDMDL MODEL 15 ENDMDL MODEL 16 ENDMDL MODEL 17 ENDMDL MODEL 18 ENDMDL MODEL 19 ENDMDL MODEL 20 ENDMDL CONECT 1751 1760 CONECT 1760 1751 1761 1776 CONECT 1761 1760 1762 1764 1777 CONECT 1762 1761 1763 1784 CONECT 1763 1762 CONECT 1764 1761 1765 1778 1779 CONECT 1765 1764 1766 1767 CONECT 1766 1765 1768 1780 CONECT 1767 1765 1769 1781 CONECT 1768 1766 1770 1782 CONECT 1769 1767 1770 1783 CONECT 1770 1768 1769 1771 CONECT 1771 1770 1772 CONECT 1772 1771 1773 1774 1775 CONECT 1773 1772 CONECT 1774 1772 CONECT 1775 1772 CONECT 1776 1760 CONECT 1777 1761 CONECT 1778 1764 CONECT 1779 1764 CONECT 1780 1766 CONECT 1781 1767 CONECT 1782 1768 CONECT 1783 1769 CONECT 1784 1762 MASTER 147 0 1 2 4 0 0 6 983 2 26 11 END