HEADER PROTEIN FIBRIL 02-FEB-24 8RVT TITLE STRUCTURE OF FULL-LENGTH HUMAN INSULIN FIBRILS COMPND MOL_ID: 1; COMPND 2 MOLECULE: INSULIN A CHAIN; COMPND 3 CHAIN: A, C, E, G, I; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: INSULIN B CHAIN; COMPND 7 CHAIN: B, D, F, H, J; 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: INS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: INS; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIABETES, AMYLOID-LIKE FIBRIL, PROTEIN FIBRIL EXPDTA SOLID-STATE NMR NUMMDL 10 AUTHOR B.BARDIAUX,S.SULADZE,B.REIF REVDAT 3 13-NOV-24 8RVT 1 REMARK REVDAT 2 12-JUN-24 8RVT 1 JRNL REVDAT 1 29-MAY-24 8RVT 0 JRNL AUTH S.SULADZE,R.SARKAR,N.RODINA,K.BOKVIST,M.KREWINKEL,D.SCHEPS, JRNL AUTH 2 N.NAGEL,B.BARDIAUX,B.REIF JRNL TITL ATOMIC RESOLUTION STRUCTURE OF FULL-LENGTH HUMAN INSULIN JRNL TITL 2 FIBRILS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 121 58121 2024 JRNL REFN ESSN 1091-6490 JRNL PMID 38809711 JRNL DOI 10.1073/PNAS.2401458121 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA, CNS REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8RVT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-FEB-24. REMARK 100 THE DEPOSITION ID IS D_1292136240. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 1.9 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10 MG/L [U-100% 13C; U-100% 15N] REMARK 210 INSULIN CHAIN A, 10 MG/ML [U-100% REMARK 210 13C; U-100% 15N] INSULIN CHAIN REMARK 210 B, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 13C-13C DARR; 3D NCACX; 3D REMARK 210 NCOCX; 3D CONCA; 3D CANCO; 2D REMARK 210 13C-13C PAR; 2D 15N-15N PAR REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS 2.4 REMARK 210 METHOD USED : SIMULATED ANNEALING 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: DECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H, I, J 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 1-10 REMARK 465 RES C SSSEQI REMARK 465 ARG B 22 REMARK 465 GLY B 23 REMARK 465 PHE B 24 REMARK 465 PHE B 25 REMARK 465 TYR B 26 REMARK 465 THR B 27 REMARK 465 PRO B 28 REMARK 465 LYS B 29 REMARK 465 THR B 30 REMARK 465 ARG D 22 REMARK 465 GLY D 23 REMARK 465 PHE D 24 REMARK 465 PHE D 25 REMARK 465 TYR D 26 REMARK 465 THR D 27 REMARK 465 PRO D 28 REMARK 465 LYS D 29 REMARK 465 THR D 30 REMARK 465 ARG F 22 REMARK 465 GLY F 23 REMARK 465 PHE F 24 REMARK 465 PHE F 25 REMARK 465 TYR F 26 REMARK 465 THR F 27 REMARK 465 PRO F 28 REMARK 465 LYS F 29 REMARK 465 THR F 30 REMARK 465 ARG H 22 REMARK 465 GLY H 23 REMARK 465 PHE H 24 REMARK 465 PHE H 25 REMARK 465 TYR H 26 REMARK 465 THR H 27 REMARK 465 PRO H 28 REMARK 465 LYS H 29 REMARK 465 THR H 30 REMARK 465 ARG J 22 REMARK 465 GLY J 23 REMARK 465 PHE J 24 REMARK 465 PHE J 25 REMARK 465 TYR J 26 REMARK 465 THR J 27 REMARK 465 PRO J 28 REMARK 465 LYS J 29 REMARK 465 THR J 30 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 7 -102.72 -92.96 REMARK 500 1 CYS A 20 -70.82 -52.19 REMARK 500 1 CYS B 7 45.10 -144.04 REMARK 500 1 HIS B 10 74.46 71.60 REMARK 500 1 CYS C 7 -102.93 -92.86 REMARK 500 1 CYS C 20 -70.66 -52.39 REMARK 500 1 CYS D 7 44.75 -143.66 REMARK 500 1 HIS D 10 74.96 72.28 REMARK 500 1 CYS E 7 -103.02 -93.36 REMARK 500 1 CYS E 20 -70.91 -52.51 REMARK 500 1 CYS F 7 44.55 -143.56 REMARK 500 1 HIS F 10 75.24 72.57 REMARK 500 1 CYS G 7 -102.82 -93.15 REMARK 500 1 CYS G 20 -71.36 -51.71 REMARK 500 1 CYS H 7 44.09 -143.16 REMARK 500 1 HIS H 10 74.88 72.58 REMARK 500 1 CYS I 7 -101.45 -93.34 REMARK 500 1 CYS J 7 44.29 -143.02 REMARK 500 1 HIS J 10 75.40 72.54 REMARK 500 2 CYS A 11 71.43 44.50 REMARK 500 2 SER B 9 -145.22 -121.77 REMARK 500 2 CYS C 11 71.68 44.81 REMARK 500 2 SER D 9 -145.29 -120.81 REMARK 500 2 CYS E 11 71.86 44.63 REMARK 500 2 SER F 9 -146.12 -121.37 REMARK 500 2 CYS G 11 71.28 44.65 REMARK 500 2 SER H 9 -145.59 -120.93 REMARK 500 2 SER J 9 -145.77 -120.54 REMARK 500 3 CYS A 11 81.02 46.78 REMARK 500 3 SER B 9 -89.49 -128.13 REMARK 500 3 CYS C 11 81.05 46.93 REMARK 500 3 SER D 9 -89.84 -126.53 REMARK 500 3 CYS E 11 81.12 46.86 REMARK 500 3 SER F 9 -89.91 -126.55 REMARK 500 3 CYS G 11 80.94 46.85 REMARK 500 3 SER H 9 -89.73 -126.87 REMARK 500 3 CYS I 11 80.58 46.86 REMARK 500 3 SER J 9 -89.58 -126.53 REMARK 500 4 CYS A 11 -96.79 54.12 REMARK 500 4 SER A 12 82.22 69.90 REMARK 500 4 CYS A 20 -80.73 -29.72 REMARK 500 4 SER B 9 -124.56 -113.04 REMARK 500 4 CYS C 11 -96.99 54.32 REMARK 500 4 SER C 12 81.94 70.44 REMARK 500 4 CYS C 20 -80.04 -29.69 REMARK 500 4 SER D 9 -124.38 -111.84 REMARK 500 4 CYS E 11 -97.09 55.34 REMARK 500 4 SER E 12 82.23 70.27 REMARK 500 4 CYS E 20 -80.53 -29.58 REMARK 500 4 SER F 9 -124.05 -111.92 REMARK 500 REMARK 500 THIS ENTRY HAS 174 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 51867 RELATED DB: BMRB DBREF 8RVT A 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 8RVT B 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 8RVT C 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 8RVT D 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 8RVT E 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 8RVT F 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 8RVT G 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 8RVT H 1 30 UNP P01308 INS_HUMAN 25 54 DBREF 8RVT I 1 21 UNP P01308 INS_HUMAN 90 110 DBREF 8RVT J 1 30 UNP P01308 INS_HUMAN 25 54 SEQRES 1 A 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 A 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 B 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 B 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 B 30 THR PRO LYS THR SEQRES 1 C 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 C 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 D 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 D 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 D 30 THR PRO LYS THR SEQRES 1 E 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 E 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 F 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 F 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 F 30 THR PRO LYS THR SEQRES 1 G 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 G 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 H 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 H 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 H 30 THR PRO LYS THR SEQRES 1 I 21 GLY ILE VAL GLU GLN CYS CYS THR SER ILE CYS SER LEU SEQRES 2 I 21 TYR GLN LEU GLU ASN TYR CYS ASN SEQRES 1 J 30 PHE VAL ASN GLN HIS LEU CYS GLY SER HIS LEU VAL GLU SEQRES 2 J 30 ALA LEU TYR LEU VAL CYS GLY GLU ARG GLY PHE PHE TYR SEQRES 3 J 30 THR PRO LYS THR SHEET 1 AA110 VAL B 2 LEU B 6 0 SHEET 2 AA110 ILE A 2 CYS A 6 1 N GLN A 5 O LEU B 6 SHEET 3 AA110 VAL D 2 LEU D 6 1 O HIS D 5 N GLU A 4 SHEET 4 AA110 ILE C 2 CYS C 6 1 N VAL C 3 O GLN D 4 SHEET 5 AA110 VAL F 2 LEU F 6 1 O HIS F 5 N GLU C 4 SHEET 6 AA110 ILE E 2 CYS E 6 1 N VAL E 3 O GLN F 4 SHEET 7 AA110 VAL H 2 LEU H 6 1 O HIS H 5 N GLU E 4 SHEET 8 AA110 ILE G 2 CYS G 6 1 N VAL G 3 O GLN H 4 SHEET 9 AA110 VAL J 2 LEU J 6 1 O HIS J 5 N GLU G 4 SHEET 10 AA110 ILE I 2 CYS I 6 1 N VAL I 3 O GLN J 4 SHEET 1 AA210 SER B 9 VAL B 18 0 SHEET 2 AA210 ILE A 10 TYR A 19 1 N ASN A 18 O LEU B 17 SHEET 3 AA210 SER D 9 CYS D 19 1 O VAL D 12 N CYS A 11 SHEET 4 AA210 ILE C 10 TYR C 19 1 N ASN C 18 O LEU D 17 SHEET 5 AA210 SER F 9 CYS F 19 1 O VAL F 12 N CYS C 11 SHEET 6 AA210 ILE E 10 TYR E 19 1 N ASN E 18 O LEU F 17 SHEET 7 AA210 SER H 9 CYS H 19 1 O VAL H 12 N CYS E 11 SHEET 8 AA210 ILE G 10 TYR G 19 1 N ASN G 18 O LEU H 17 SHEET 9 AA210 SER J 9 CYS J 19 1 O VAL J 12 N CYS G 11 SHEET 10 AA210 ILE I 10 ASN I 18 1 N ASN I 18 O LEU J 17 SSBOND 1 CYS A 6 CYS A 11 1555 1555 2.03 SSBOND 2 CYS A 7 CYS B 7 1555 1555 2.03 SSBOND 3 CYS A 20 CYS B 19 1555 1555 2.04 SSBOND 4 CYS C 6 CYS C 11 1555 1555 2.03 SSBOND 5 CYS C 7 CYS D 7 1555 1555 2.03 SSBOND 6 CYS C 20 CYS D 19 1555 1555 2.04 SSBOND 7 CYS E 6 CYS E 11 1555 1555 2.03 SSBOND 8 CYS E 7 CYS F 7 1555 1555 2.03 SSBOND 9 CYS E 20 CYS F 19 1555 1555 2.04 SSBOND 10 CYS G 6 CYS G 11 1555 1555 2.03 SSBOND 11 CYS G 7 CYS H 7 1555 1555 2.03 SSBOND 12 CYS G 20 CYS H 19 1555 1555 2.04 SSBOND 13 CYS I 6 CYS I 11 1555 1555 2.03 SSBOND 14 CYS I 7 CYS J 7 1555 1555 2.03 SSBOND 15 CYS I 20 CYS J 19 1555 1555 2.04 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