HEADER SIGNALING PROTEIN 21-MAR-17 5V7Z TITLE SSNMR STRUCTURE OF THE HUMAN RIP1/RIP3 NECROSOME COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRO-LEU-VAL-ASN-ILE-TYR-ASN-CYS-SER-GLY-VAL-GLN-VAL-GLY- COMPND 3 ASP; COMPND 4 CHAIN: A, C, E, G; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: THR-ILE-TYR-ASN-SER-THR-GLY-ILE-GLN-ILE-GLY-ALA-TYR-ASN- COMPND 8 TYR-MET-GLU-ILE; COMPND 9 CHAIN: B, D, F, H; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SIGNALING COMPLEX, HUMAN FUNCTIONAL AMYLOID, SIGNALING PROTEIN EXPDTA SOLID-STATE NMR NUMMDL 10 AUTHOR M.MOMPEAN,W.LI,J.LI,S.LAAGE,A.B.SIEMER,H.WU,A.E.MCDERMOTT REVDAT 3 01-MAY-24 5V7Z 1 REMARK REVDAT 2 10-APR-19 5V7Z 1 JRNL REVDAT 1 28-MAR-18 5V7Z 0 JRNL AUTH M.MOMPEAN,W.LI,J.LI,S.LAAGE,A.B.SIEMER,G.BOZKURT,H.WU, JRNL AUTH 2 A.E.MCDERMOTT JRNL TITL THE STRUCTURE OF THE NECROSOME RIPK1-RIPK3 CORE, A HUMAN JRNL TITL 2 HETERO-AMYLOID SIGNALING COMPLEX. JRNL REF CELL V. 173 1244 2018 JRNL REFN ISSN 1097-4172 JRNL PMID 29681455 JRNL DOI 10.1016/J.CELL.2018.03.032 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.97, AMBER REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), CASE, REMARK 3 DARDEN, CHEATHAM III, SIMMERLING, WANG, DUKE, LUO, REMARK 3 ... AND KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5V7Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000220420. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 15 MG/ML [U-100% 13C; U-100% REMARK 210 15N] RIP1/RIP3, 100% H2O; 15 MG/ REMARK 210 ML [U-100% 15N; 2-13C-GLYCEROL] REMARK 210 RIP1/RIP3, 100% H2O; 15 MG/ML [U- REMARK 210 100% 15N; 1,3-13C-GLYCEROL] RIP1/ REMARK 210 RIP3, 100% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DARR 250 MS; CHHC 500 US; PAR 15 REMARK 210 MS; PAIN 6 MS; TEDOR 8 MS; NCOCX; REMARK 210 NCOCA; NCACX; DARR 50 MS; DARR REMARK 210 20 MS; DARR 100 MS; DARR 500 MS REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE II REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 217 REMARK 217 SOLID STATE NMR STUDY REMARK 217 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID REMARK 217 STATE NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 217 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 217 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H 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 LEU E 449 -73.86 -102.91 REMARK 500 1 LEU G 449 -71.93 -119.38 REMARK 500 2 LEU A 449 -73.96 -149.06 REMARK 500 2 ASN A 454 62.21 39.61 REMARK 500 2 ASN B 535 75.81 54.16 REMARK 500 2 ASN D 535 74.42 48.15 REMARK 500 2 LEU G 449 -70.86 -109.78 REMARK 500 2 VAL G 450 98.21 -69.46 REMARK 500 3 ALA D 543 119.00 -165.31 REMARK 500 5 ASN E 454 74.70 50.17 REMARK 500 5 ASN F 535 53.26 39.99 REMARK 500 5 ASN G 454 75.00 50.44 REMARK 500 5 ASN H 535 55.81 37.05 REMARK 500 6 ASN D 535 72.96 48.07 REMARK 500 7 ASN A 454 71.63 47.46 REMARK 500 7 ASN C 451 -168.04 -120.80 REMARK 500 7 LEU E 449 80.43 -65.35 REMARK 500 7 VAL E 450 77.02 42.72 REMARK 500 7 ASN E 454 75.69 54.01 REMARK 500 7 ASN G 454 74.12 54.15 REMARK 500 8 ASN D 535 73.44 53.79 REMARK 500 8 ASN F 535 74.79 37.28 REMARK 500 8 SER F 536 78.17 -119.30 REMARK 500 8 ASN H 535 77.96 46.91 REMARK 500 9 ALA B 543 117.80 -167.61 REMARK 500 9 ALA D 543 110.57 -164.80 REMARK 500 10 LEU A 449 -85.17 -143.28 REMARK 500 10 ASN A 451 -148.41 -153.88 REMARK 500 10 TYR A 453 -80.80 -74.98 REMARK 500 10 TYR C 453 -81.16 -74.22 REMARK 500 10 TYR E 453 -91.70 -74.93 REMARK 500 10 TYR G 453 -92.16 -77.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY G 461 ASP G 462 9 149.09 REMARK 500 GLY E 461 ASP E 462 10 149.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30273 RELATED DB: BMRB REMARK 900 SSNMR STRUCTURE OF THE HUMAN RIP1/RIP3 NECROSOME DBREF 5V7Z A 448 462 PDB 5V7Z 5V7Z 448 462 DBREF 5V7Z B 532 549 PDB 5V7Z 5V7Z 532 549 DBREF 5V7Z C 448 462 PDB 5V7Z 5V7Z 448 462 DBREF 5V7Z D 532 549 PDB 5V7Z 5V7Z 532 549 DBREF 5V7Z E 448 462 PDB 5V7Z 5V7Z 448 462 DBREF 5V7Z F 532 549 PDB 5V7Z 5V7Z 532 549 DBREF 5V7Z G 448 462 PDB 5V7Z 5V7Z 448 462 DBREF 5V7Z H 532 549 PDB 5V7Z 5V7Z 532 549 SEQRES 1 A 15 PRO LEU VAL ASN ILE TYR ASN CYS SER GLY VAL GLN VAL SEQRES 2 A 15 GLY ASP SEQRES 1 B 18 THR ILE TYR ASN SER THR GLY ILE GLN ILE GLY ALA TYR SEQRES 2 B 18 ASN TYR MET GLU ILE SEQRES 1 C 15 PRO LEU VAL ASN ILE TYR ASN CYS SER GLY VAL GLN VAL SEQRES 2 C 15 GLY ASP SEQRES 1 D 18 THR ILE TYR ASN SER THR GLY ILE GLN ILE GLY ALA TYR SEQRES 2 D 18 ASN TYR MET GLU ILE SEQRES 1 E 15 PRO LEU VAL ASN ILE TYR ASN CYS SER GLY VAL GLN VAL SEQRES 2 E 15 GLY ASP SEQRES 1 F 18 THR ILE TYR ASN SER THR GLY ILE GLN ILE GLY ALA TYR SEQRES 2 F 18 ASN TYR MET GLU ILE SEQRES 1 G 15 PRO LEU VAL ASN ILE TYR ASN CYS SER GLY VAL GLN VAL SEQRES 2 G 15 GLY ASP SEQRES 1 H 18 THR ILE TYR ASN SER THR GLY ILE GLN ILE GLY ALA TYR SEQRES 2 H 18 ASN TYR MET GLU ILE SHEET 1 AA1 4 ILE A 452 GLY A 461 0 SHEET 2 AA1 4 ILE B 533 GLY B 542 1 O ILE B 541 N GLY A 461 SHEET 3 AA1 4 ILE E 452 GLY E 461 1 O VAL E 460 N GLY B 542 SHEET 4 AA1 4 SER F 536 GLY F 542 1 O ILE F 541 N GLY E 461 SHEET 1 AA2 3 ILE C 452 TYR C 453 0 SHEET 2 AA2 3 ILE D 533 GLY D 542 1 O ILE D 533 N TYR C 453 SHEET 3 AA2 3 SER C 456 GLY C 461 1 N GLY C 461 O ILE D 541 SHEET 1 AA3 4 ILE C 452 TYR C 453 0 SHEET 2 AA3 4 ILE D 533 GLY D 542 1 O ILE D 533 N TYR C 453 SHEET 3 AA3 4 ILE G 452 GLY G 461 1 O VAL G 460 N GLY D 542 SHEET 4 AA3 4 SER H 536 GLY H 542 1 O ILE H 541 N GLY G 461 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