HEADER PROTEIN FIBRIL 19-NOV-22 8HIA TITLE STRUCTURE OF TRANSFORMING GROWTH FACTOR BETA INDUCED PROTEIN (TGFBIP) TITLE 2 G623R FIBRIL COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSFORMING GROWTH FACTOR-BETA-INDUCED PROTEIN IG-H3; COMPND 3 CHAIN: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T; COMPND 4 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: TGFBI; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PATHOLOGICAL FIBRILS, TGFBI RELATED CORNEAL DYSTROPHY, PROTEIN FIBRIL EXPDTA ELECTRON MICROSCOPY AUTHOR J.Y.K.LOW,K.PERVUSHIN REVDAT 2 21-FEB-24 8HIA 1 REMARK REVDAT 1 26-JUL-23 8HIA 0 JRNL AUTH J.Y.K.LOW,X.SHI,V.ANANDALAKSHMI,D.NEO,G.S.L.PEH,S.K.KOH, JRNL AUTH 2 L.ZHOU,M.K.ABDUL RAHIM,K.BOO,J.LEE,H.MOHANRAM,R.ALAG,Y.MU, JRNL AUTH 3 J.S.MEHTA,K.PERVUSHIN JRNL TITL RELEASE OF FRUSTRATION DRIVES CORNEAL AMYLOID DISAGGREGATION JRNL TITL 2 BY BRAIN CHAPERONE. JRNL REF COMMUN BIOL V. 6 348 2023 JRNL REFN ESSN 2399-3642 JRNL PMID 36997596 JRNL DOI 10.1038/S42003-023-04725-1 REMARK 2 REMARK 2 RESOLUTION. 4.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL 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) : 4.900 REMARK 3 NUMBER OF PARTICLES : 48522 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8HIA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1300033555. 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 : MUTANT OF TGFBIP PEPTIDE REMARK 245 DERIVED FROM TGFBIP REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 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 K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 3000.00 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) : 800.00 REMARK 245 ILLUMINATION MODE : OTHER REMARK 245 NOMINAL MAGNIFICATION : NULL 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: EICOSAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H, I, J, REMARK 350 AND CHAINS: K, L, M, N, O, P, Q, R, S, T 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 23 O REMARK 470 GLN B 23 O REMARK 470 GLN C 23 O REMARK 470 GLN D 23 O REMARK 470 GLN E 23 O REMARK 470 GLN F 23 O REMARK 470 GLN G 23 O REMARK 470 GLN H 23 O REMARK 470 GLN I 23 O REMARK 470 GLN J 23 O REMARK 470 GLN K 23 O REMARK 470 GLN L 23 O REMARK 470 GLN M 23 O REMARK 470 GLN N 23 O REMARK 470 GLN O 23 O REMARK 470 GLN P 23 O REMARK 470 GLN Q 23 O REMARK 470 GLN R 23 O REMARK 470 GLN S 23 O REMARK 470 GLN T 23 O 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 ALA A 4 111.54 -166.13 REMARK 500 ALA C 4 -165.36 -171.06 REMARK 500 PRO D 6 106.00 -46.00 REMARK 500 ALA E 4 109.36 -168.26 REMARK 500 ALA E 10 118.75 -165.01 REMARK 500 ALA G 4 -167.26 -175.25 REMARK 500 MET G 9 135.53 -172.57 REMARK 500 LEU G 22 43.88 -102.66 REMARK 500 ALA H 4 -159.30 -157.45 REMARK 500 LEU H 22 -24.86 -143.48 REMARK 500 ALA J 4 112.06 -160.07 REMARK 500 ALA L 4 -163.93 -168.75 REMARK 500 ALA O 4 -167.34 -172.35 REMARK 500 ALA Q 10 78.04 -102.79 REMARK 500 ASN Q 20 -159.55 -79.91 REMARK 500 VAL Q 21 141.03 -172.53 REMARK 500 ALA S 4 -165.16 -170.85 REMARK 500 PRO S 6 94.00 -63.53 REMARK 500 ASP S 7 -156.32 -90.13 REMARK 500 ALA T 4 -158.88 -93.22 REMARK 500 PRO T 6 92.80 -68.83 REMARK 500 MET T 9 147.01 -174.02 REMARK 500 LEU T 22 -48.94 -146.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8HGA RELATED DB: PDB REMARK 900 RELATED ID: EMD-34813 RELATED DB: EMDB REMARK 900 STRUCTURE OF TRANSFORMING GROWTH FACTOR BETA INDUCED PROTEIN REMARK 900 (TGFBIP) G623R FIBRIL DBREF 8HIA A 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA B 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA C 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA D 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA E 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA F 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA G 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA H 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA I 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA J 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA K 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA L 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA M 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA N 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA O 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA P 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA Q 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA R 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA S 1 23 UNP Q15582 BGH3_HUMAN 611 633 DBREF 8HIA T 1 23 UNP Q15582 BGH3_HUMAN 611 633 SEQADV 8HIA ARG A 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG B 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG C 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG D 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG E 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG F 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG G 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG H 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG I 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG J 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG K 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG L 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG M 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG N 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG O 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG P 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG Q 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG R 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG S 13 UNP Q15582 GLY 623 VARIANT SEQADV 8HIA ARG T 13 UNP Q15582 GLY 623 VARIANT SEQRES 1 A 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 A 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 B 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 B 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 C 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 C 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 D 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 D 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 E 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 E 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 F 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 F 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 G 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 G 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 H 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 H 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 I 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 I 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 J 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 J 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 K 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 K 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 L 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 L 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 M 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 M 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 N 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 N 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 O 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 O 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 P 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 P 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 Q 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 Q 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 R 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 R 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 S 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 S 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SEQRES 1 T 23 GLU PRO VAL ALA GLU PRO ASP ILE MET ALA THR ASN ARG SEQRES 2 T 23 VAL VAL HIS VAL ILE THR ASN VAL LEU GLN SHEET 1 1 1 ALA A 10 THR A 19 0 SHEET 1 2 1 ALA B 10 THR B 19 0 SHEET 1 3 1 VAL C 14 THR C 19 0 SHEET 1 4 1 VAL D 14 THR D 19 0 SHEET 1 5 1 ALA E 10 THR E 19 0 SHEET 1 6 1 ALA F 10 THR F 19 0 SHEET 1 7 1 VAL G 14 THR G 19 0 SHEET 1 8 1 VAL H 14 THR H 19 0 SHEET 1 9 1 ALA I 10 THR I 19 0 SHEET 1 10 1 ALA J 10 THR J 19 0 SHEET 1 11 1 VAL K 14 THR K 19 0 SHEET 1 12 1 VAL L 14 THR L 19 0 SHEET 1 13 1 ALA M 10 THR M 19 0 SHEET 1 14 1 VAL N 14 THR N 19 0 SHEET 1 15 1 VAL O 14 THR O 19 0 SHEET 1 16 1 VAL P 14 THR P 19 0 SHEET 1 17 1 ALA Q 10 THR Q 19 0 SHEET 1 18 1 ALA R 10 THR R 19 0 SHEET 1 19 1 VAL S 14 THR S 19 0 SHEET 1 20 1 VAL T 14 THR T 19 0 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