HEADER PROTEIN FIBRIL 02-NOV-23 8R1S TITLE CRYO-EM STRUCTURE OF HUMAN ISLET AMYLOID POLYPEPTIDE (HIAPP) MUTANT TITLE 2 A25P, POLYMORPH 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISLET AMYLOID POLYPEPTIDE; COMPND 3 CHAIN: A, B, C, D, E, F, G, H, I, J; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS AMYLOID, PROTEIN FIBRIL EXPDTA ELECTRON MICROSCOPY AUTHOR S.A.OOI,D.VALLI,M.MAJ REVDAT 1 21-MAY-25 8R1S 0 JRNL AUTH S.A.OOI,D.VALLI,M.MAJ JRNL TITL CRYO-EM STRUCTURE OF HUMAN ISLET AMYLOID POLYPEPTIDE (HIAPP) JRNL TITL 2 MUTANT A25P, POLYMORPH 2 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 4.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : EPU, CTFFIND, COOT, PHENIX, RELION REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 4.110 REMARK 3 NUMBER OF PARTICLES : 14912 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8R1S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-NOV-23. REMARK 100 THE DEPOSITION ID IS D_1292134446. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : FILAMENT REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : HUMAN ISLET AMYLOID POLYPEPTIDE REMARK 245 (HIAPP) REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.40 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 600.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 3984.90 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 105000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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. (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 LYS A 1 REMARK 465 CYS A 2 REMARK 465 ASN A 3 REMARK 465 THR A 4 REMARK 465 ALA A 5 REMARK 465 THR A 6 REMARK 465 CYS A 7 REMARK 465 ALA A 8 REMARK 465 THR A 9 REMARK 465 GLN A 10 REMARK 465 ARG A 11 REMARK 465 LEU A 12 REMARK 465 ALA A 13 REMARK 465 ASN A 14 REMARK 465 PHE A 15 REMARK 465 SER A 34 REMARK 465 ASN A 35 REMARK 465 THR A 36 REMARK 465 TYR A 37 REMARK 465 NH2 A 38 REMARK 465 LYS B 1 REMARK 465 CYS B 2 REMARK 465 ASN B 3 REMARK 465 THR B 4 REMARK 465 ALA B 5 REMARK 465 THR B 6 REMARK 465 CYS B 7 REMARK 465 ALA B 8 REMARK 465 THR B 9 REMARK 465 GLN B 10 REMARK 465 ARG B 11 REMARK 465 LEU B 12 REMARK 465 ALA B 13 REMARK 465 SER B 34 REMARK 465 ASN B 35 REMARK 465 THR B 36 REMARK 465 TYR B 37 REMARK 465 NH2 B 38 REMARK 465 LYS C 1 REMARK 465 CYS C 2 REMARK 465 ASN C 3 REMARK 465 THR C 4 REMARK 465 ALA C 5 REMARK 465 THR C 6 REMARK 465 CYS C 7 REMARK 465 ALA C 8 REMARK 465 THR C 9 REMARK 465 GLN C 10 REMARK 465 ARG C 11 REMARK 465 LEU C 12 REMARK 465 ALA C 13 REMARK 465 ASN C 14 REMARK 465 PHE C 15 REMARK 465 SER C 34 REMARK 465 ASN C 35 REMARK 465 THR C 36 REMARK 465 TYR C 37 REMARK 465 NH2 C 38 REMARK 465 LYS D 1 REMARK 465 CYS D 2 REMARK 465 ASN D 3 REMARK 465 THR D 4 REMARK 465 ALA D 5 REMARK 465 THR D 6 REMARK 465 CYS D 7 REMARK 465 ALA D 8 REMARK 465 THR D 9 REMARK 465 GLN D 10 REMARK 465 ARG D 11 REMARK 465 LEU D 12 REMARK 465 ALA D 13 REMARK 465 SER D 34 REMARK 465 ASN D 35 REMARK 465 THR D 36 REMARK 465 TYR D 37 REMARK 465 NH2 D 38 REMARK 465 LYS E 1 REMARK 465 CYS E 2 REMARK 465 ASN E 3 REMARK 465 THR E 4 REMARK 465 ALA E 5 REMARK 465 THR E 6 REMARK 465 CYS E 7 REMARK 465 ALA E 8 REMARK 465 THR E 9 REMARK 465 GLN E 10 REMARK 465 ARG E 11 REMARK 465 LEU E 12 REMARK 465 ALA E 13 REMARK 465 ASN E 14 REMARK 465 PHE E 15 REMARK 465 SER E 34 REMARK 465 ASN E 35 REMARK 465 THR E 36 REMARK 465 TYR E 37 REMARK 465 NH2 E 38 REMARK 465 LYS F 1 REMARK 465 CYS F 2 REMARK 465 ASN F 3 REMARK 465 THR F 4 REMARK 465 ALA F 5 REMARK 465 THR F 6 REMARK 465 CYS F 7 REMARK 465 ALA F 8 REMARK 465 THR F 9 REMARK 465 GLN F 10 REMARK 465 ARG F 11 REMARK 465 LEU F 12 REMARK 465 ALA F 13 REMARK 465 SER F 34 REMARK 465 ASN F 35 REMARK 465 THR F 36 REMARK 465 TYR F 37 REMARK 465 NH2 F 38 REMARK 465 LYS G 1 REMARK 465 CYS G 2 REMARK 465 ASN G 3 REMARK 465 THR G 4 REMARK 465 ALA G 5 REMARK 465 THR G 6 REMARK 465 CYS G 7 REMARK 465 ALA G 8 REMARK 465 THR G 9 REMARK 465 GLN G 10 REMARK 465 ARG G 11 REMARK 465 LEU G 12 REMARK 465 ALA G 13 REMARK 465 ASN G 14 REMARK 465 PHE G 15 REMARK 465 SER G 34 REMARK 465 ASN G 35 REMARK 465 THR G 36 REMARK 465 TYR G 37 REMARK 465 NH2 G 38 REMARK 465 LYS H 1 REMARK 465 CYS H 2 REMARK 465 ASN H 3 REMARK 465 THR H 4 REMARK 465 ALA H 5 REMARK 465 THR H 6 REMARK 465 CYS H 7 REMARK 465 ALA H 8 REMARK 465 THR H 9 REMARK 465 GLN H 10 REMARK 465 ARG H 11 REMARK 465 LEU H 12 REMARK 465 ALA H 13 REMARK 465 SER H 34 REMARK 465 ASN H 35 REMARK 465 THR H 36 REMARK 465 TYR H 37 REMARK 465 NH2 H 38 REMARK 465 LYS I 1 REMARK 465 CYS I 2 REMARK 465 ASN I 3 REMARK 465 THR I 4 REMARK 465 ALA I 5 REMARK 465 THR I 6 REMARK 465 CYS I 7 REMARK 465 ALA I 8 REMARK 465 THR I 9 REMARK 465 GLN I 10 REMARK 465 ARG I 11 REMARK 465 LEU I 12 REMARK 465 ALA I 13 REMARK 465 ASN I 14 REMARK 465 PHE I 15 REMARK 465 SER I 34 REMARK 465 ASN I 35 REMARK 465 THR I 36 REMARK 465 TYR I 37 REMARK 465 NH2 I 38 REMARK 465 LYS J 1 REMARK 465 CYS J 2 REMARK 465 ASN J 3 REMARK 465 THR J 4 REMARK 465 ALA J 5 REMARK 465 THR J 6 REMARK 465 CYS J 7 REMARK 465 ALA J 8 REMARK 465 THR J 9 REMARK 465 GLN J 10 REMARK 465 ARG J 11 REMARK 465 LEU J 12 REMARK 465 ALA J 13 REMARK 465 SER J 34 REMARK 465 ASN J 35 REMARK 465 THR J 36 REMARK 465 TYR J 37 REMARK 465 NH2 J 38 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 ILE A 26 -65.74 -122.31 REMARK 500 THR A 30 91.91 -68.34 REMARK 500 PHE B 15 -62.74 -96.61 REMARK 500 ASN B 22 -137.55 53.41 REMARK 500 ILE C 26 -65.80 -122.27 REMARK 500 THR C 30 91.86 -68.32 REMARK 500 PHE D 15 -62.76 -96.63 REMARK 500 ASN D 22 -137.50 53.32 REMARK 500 ILE E 26 -65.78 -122.29 REMARK 500 THR E 30 91.91 -68.33 REMARK 500 PHE F 15 -62.80 -96.64 REMARK 500 ASN F 22 -137.52 53.37 REMARK 500 ILE G 26 -65.82 -122.34 REMARK 500 THR G 30 91.91 -68.36 REMARK 500 PHE H 15 -62.75 -96.62 REMARK 500 ASN H 22 -137.52 53.36 REMARK 500 ILE I 26 -65.80 -122.35 REMARK 500 THR I 30 91.88 -68.34 REMARK 500 PHE J 15 -62.80 -96.65 REMARK 500 ASN J 22 -137.48 53.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8QJ1 RELATED DB: PDB REMARK 900 RELATED ID: 8QVP RELATED DB: PDB REMARK 900 RELATED ID: 8QVQ RELATED DB: PDB REMARK 900 RELATED ID: 8QVR RELATED DB: PDB REMARK 900 RELATED ID: EMD-18827 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF HUMAN ISLET AMYLOID POLYPEPTIDE (HIAPP) MUTANT REMARK 900 A25P, POLYMORPH 2 DBREF 8R1S A 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S B 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S C 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S D 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S E 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S F 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S G 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S H 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S I 1 37 UNP P10997 IAPP_HUMAN 34 70 DBREF 8R1S J 1 37 UNP P10997 IAPP_HUMAN 34 70 SEQADV 8R1S PRO A 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 A 38 UNP P10997 AMIDATION SEQADV 8R1S PRO B 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 B 38 UNP P10997 AMIDATION SEQADV 8R1S PRO C 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 C 38 UNP P10997 AMIDATION SEQADV 8R1S PRO D 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 D 38 UNP P10997 AMIDATION SEQADV 8R1S PRO E 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 E 38 UNP P10997 AMIDATION SEQADV 8R1S PRO F 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 F 38 UNP P10997 AMIDATION SEQADV 8R1S PRO G 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 G 38 UNP P10997 AMIDATION SEQADV 8R1S PRO H 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 H 38 UNP P10997 AMIDATION SEQADV 8R1S PRO I 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 I 38 UNP P10997 AMIDATION SEQADV 8R1S PRO J 25 UNP P10997 ALA 58 ENGINEERED MUTATION SEQADV 8R1S NH2 J 38 UNP P10997 AMIDATION SEQRES 1 A 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 A 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 A 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 B 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 B 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 B 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 C 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 C 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 C 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 D 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 D 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 D 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 E 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 E 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 E 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 F 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 F 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 F 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 G 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 G 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 G 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 H 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 H 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 H 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 I 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 I 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 I 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 SEQRES 1 J 38 LYS CYS ASN THR ALA THR CYS ALA THR GLN ARG LEU ALA SEQRES 2 J 38 ASN PHE LEU VAL HIS SER SER ASN ASN PHE GLY PRO ILE SEQRES 3 J 38 LEU SER SER THR ASN VAL GLY SER ASN THR TYR NH2 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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 TER 130 GLY A 33 TER 279 GLY B 33 TER 409 GLY C 33 TER 558 GLY D 33 TER 688 GLY E 33 TER 837 GLY F 33 TER 967 GLY G 33 TER 1116 GLY H 33 TER 1246 GLY I 33 TER 1395 GLY J 33 MASTER 340 0 0 0 0 0 0 6 1385 10 0 30 END