HEADER PROTEIN FIBRIL 28-JUN-16 5KNZ TITLE HUMAN ISLET AMYLOID POLYPEPTIDE SEGMENT 19-SGNNFGAILSS-29 WITH EARLY TITLE 2 ONSET S20G MUTATION DETERMINED BY MICROED COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIAPP(RESIDUES 19-29)S20G; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AMYLIN, DIABETES-ASSOCIATED PEPTIDE, DAP, INSULINOMA AMYLOID COMPND 5 PEPTIDE; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: ISLET AMYLOID 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, ISLET AMYLOID POLYPEPTIDE, TYPE II DIABETES, TOXIC SPINE, KEYWDS 2 MICROED, PROTEIN FIBRIL EXPDTA ELECTRON CRYSTALLOGRAPHY AUTHOR P.A.L.KROTEE,J.A.RODRIGUEZ,M.R.SAWAYA,D.CASCIO,D.SHI,B.L.NANNENGA, AUTHOR 2 J.HATTNE,F.E.REYES,T.GONEN,D.S.EISENBERG REVDAT 8 06-MAR-24 5KNZ 1 REMARK REVDAT 7 30-JUN-21 5KNZ 1 REMARK REVDAT 6 20-NOV-19 5KNZ 1 REMARK REVDAT 5 04-SEP-19 5KNZ 1 JRNL REVDAT 4 06-JUN-18 5KNZ 1 REMARK REVDAT 3 25-APR-18 5KNZ 1 REMARK REVDAT 2 13-SEP-17 5KNZ 1 REMARK REVDAT 1 21-DEC-16 5KNZ 0 JRNL AUTH P.KROTEE,J.A.RODRIGUEZ,M.R.SAWAYA,D.CASCIO,F.E.REYES,D.SHI, JRNL AUTH 2 J.HATTNE,B.L.NANNENGA,M.E.OSKARSSON,S.PHILIPP,S.GRINER, JRNL AUTH 3 L.JIANG,C.G.GLABE,G.T.WESTERMARK,T.GONEN,D.S.EISENBERG JRNL TITL ATOMIC STRUCTURES OF FIBRILLAR SEGMENTS OF HIAPP SUGGEST JRNL TITL 2 TIGHTLY MATED BETA-SHEETS ARE IMPORTANT FOR CYTOTOXICITY. JRNL REF ELIFE V. 6 2017 JRNL REFN ESSN 2050-084X JRNL PMID 28045370 JRNL DOI 10.7554/ELIFE.19273 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 1.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.490 REMARK 3 COMPLETENESS FOR RANGE (%) : 83.0 REMARK 3 NUMBER OF REFLECTIONS : 546 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.275 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.710 REMARK 3 FREE R VALUE TEST SET COUNT : 53 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 14.6087 - 1.9016 0.83 493 53 0.2275 0.2749 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.570 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.55 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 75 REMARK 3 ANGLE : 1.233 100 REMARK 3 CHIRALITY : 0.037 11 REMARK 3 PLANARITY : 0.004 14 REMARK 3 DIHEDRAL : 10.079 24 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5KNZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222490. REMARK 240 REMARK 240 EXPERIMENTAL DETAILS REMARK 240 RECONSTRUCTION METHOD : CRYSTALLOGRAPHY REMARK 240 SAMPLE TYPE : 3D ARRAY REMARK 240 SPECIMEN TYPE : NULL REMARK 240 DATA ACQUISITION REMARK 240 DATE OF DATA COLLECTION : 11-NOV-14 REMARK 240 TEMPERATURE (KELVIN) : 100.0 REMARK 240 PH : 7.40 REMARK 240 NUMBER OF CRYSTALS USED : NULL REMARK 240 MICROSCOPE MODEL : FEI TECNAI 20 REMARK 240 DETECTOR TYPE : TVIPS TEMCAM-F416 (4K X 4K) REMARK 240 ACCELERATION VOLTAGE (KV) : 200 REMARK 240 NUMBER OF UNIQUE REFLECTIONS : 548 REMARK 240 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 240 RESOLUTION RANGE LOW (A) : 35.400 REMARK 240 DATA SCALING SOFTWARE : XSCALE REMARK 240 COMPLETENESS FOR RANGE (%) : 82.9 REMARK 240 DATA REDUNDANCY : NULL REMARK 240 IN THE HIGHEST RESOLUTION SHELL REMARK 240 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) :1.90 REMARK 240 HIGHEST RESOLUTION SHELL, RANGE LOW (A) :2.13 REMARK 240 COMPLETENESS FOR SHELL (%) : 64.6 REMARK 240 DATA REDUNDANCY IN SHELL : NULL REMARK 240 R MERGE FOR SHELL (I) : 0.15000 REMARK 240 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 240 SOFTWARE USED : PHASER 2.5.6 REMARK 240 STARTING MODEL : NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 2.39000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.40000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 9.30000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 35.40000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 2.39000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 9.30000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 300 REMARK: THE BIOLOGICAL UNIT IS AN EXTENDED PAIR OF BETA SHEETS REMARK 300 COMPRISING PEPTIDES AT POSITIONS X,Y,Z AND 1/2+X,-1/2-Y,-Z REPEATED REMARK 300 AD INFINITUM ALONG THE A CRYSTAL AXIS. 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: OCTADECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -19.12000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 -14.34000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 -9.56000 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 -4.78000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 4.78000 REMARK 350 BIOMT2 6 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 7 1.000000 0.000000 0.000000 9.56000 REMARK 350 BIOMT2 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 8 1.000000 0.000000 0.000000 14.34000 REMARK 350 BIOMT2 8 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 9 1.000000 0.000000 0.000000 19.12000 REMARK 350 BIOMT2 9 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 10 1.000000 0.000000 0.000000 -16.73000 REMARK 350 BIOMT2 10 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 11 1.000000 0.000000 0.000000 -11.95000 REMARK 350 BIOMT2 11 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 12 1.000000 0.000000 0.000000 -7.17000 REMARK 350 BIOMT2 12 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 12 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 13 1.000000 0.000000 0.000000 -2.39000 REMARK 350 BIOMT2 13 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 13 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 14 1.000000 0.000000 0.000000 2.39000 REMARK 350 BIOMT2 14 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 14 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 15 1.000000 0.000000 0.000000 7.17000 REMARK 350 BIOMT2 15 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 16 1.000000 0.000000 0.000000 11.95000 REMARK 350 BIOMT2 16 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 16 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 17 1.000000 0.000000 0.000000 16.73000 REMARK 350 BIOMT2 17 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 17 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 18 1.000000 0.000000 0.000000 21.51000 REMARK 350 BIOMT2 18 0.000000 -1.000000 0.000000 9.30000 REMARK 350 BIOMT3 18 0.000000 0.000000 -1.000000 0.00000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-8272 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-8273 RELATED DB: EMDB REMARK 900 RELATED ID: 5KO0 RELATED DB: PDB DBREF 5KNZ A 19 29 UNP P10997 IAPP_HUMAN 52 62 SEQADV 5KNZ GLY A 20 UNP P10997 SER 53 ENGINEERED MUTATION SEQRES 1 A 11 SER GLY ASN ASN PHE GLY ALA ILE LEU SER SER FORMUL 2 HOH *(H2 O) CRYST1 4.780 18.600 70.800 90.00 90.00 90.00 P 21 21 21 4 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 0.209205 0.000000 0.000000 0.00000 SCALE2 0.000000 0.053763 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014124 0.00000